System OS: Windows 10, Architecture: AMD64 Java Info: 11.0.9.1, OpenJDK 64-Bit Server VM, AdoptOpenJDK .NET Core Info: N/A Version info: FragPipe version 19.1 MSFragger version 3.7 IonQuant version 1.8.10 Philosopher version 4.8.1 LCMS files: Experiment/Group: S22049_Arjun_1 - D:\JAM\Sylvain\S22049-Arjun-1.raw DDA Experiment/Group: S22049_Arjun_10 - D:\JAM\Sylvain\S22049-Arjun-10.raw DDA Experiment/Group: S22049_Arjun_100 - D:\JAM\Sylvain\S22049-Arjun-100.raw DDA Experiment/Group: S22049_Arjun_101 - D:\JAM\Sylvain\S22049-Arjun-101.raw DDA Experiment/Group: S22049_Arjun_102 - D:\JAM\Sylvain\S22049-Arjun-102.raw DDA Experiment/Group: S22049_Arjun_103 - D:\JAM\Sylvain\S22049-Arjun-103.raw DDA Experiment/Group: S22049_Arjun_104 - D:\JAM\Sylvain\S22049-Arjun-104.raw DDA Experiment/Group: S22049_Arjun_105 - D:\JAM\Sylvain\S22049-Arjun-105.raw DDA Experiment/Group: S22049_Arjun_106 - D:\JAM\Sylvain\S22049-Arjun-106.raw DDA Experiment/Group: S22049_Arjun_107 - 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D:\JAM\Sylvain\S22049-Arjun-96.raw DDA Experiment/Group: S22049_Arjun_97 - D:\JAM\Sylvain\S22049-Arjun-97.raw DDA Experiment/Group: S22049_Arjun_98 - D:\JAM\Sylvain\S22049-Arjun-98.raw DDA Experiment/Group: S22049_Arjun_99 - D:\JAM\Sylvain\S22049-Arjun-99.raw DDA 1725 commands to execute: CheckCentroid D:\JAM\fragpipe\jre\bin\java.exe -Xmx29G -cp "D:\JAM\fragpipe\lib\fragpipe-19.1.jar;D:\JAM\fragpipe\tools\batmass-io-1.28.9.jar" com.dmtavt.fragpipe.util.CheckCentroid D:\JAM\Sylvain\S22049-Arjun-1.raw 7 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\19707feb-7ce6-4114-a238-da32e009a282 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\fbf41a1c-ed48-4ee1-8cd3-a95ec0e9117f WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\454202d9-d73f-4665-afc6-929e1eb7da91 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\615c5b0f-fcec-417a-8ec5-7bd6c094bea2 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\292c3570-d8b9-4537-83ca-d040fb8dba3c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0ce6022f-dd24-4f9b-8552-826f761da624 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\98fc1c75-603b-470a-b89c-ef6f7705df4d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b1ee3291-b17c-4922-9642-e572fd007126 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9d02f5b4-6c8c-421a-9ee5-21e06b60a4ab WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f5b3cd9e-206a-489b-aa50-4c11e362bfa6 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9f5c5f64-de50-43d5-844c-210a35c765ed WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8b70b83f-f8dc-4424-a965-693f45bdb071 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b9917fee-d36d-470e-b94a-57a0282b8462 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cb61f992-967b-4d4f-af9a-7d89bb3ee8ea WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b2abd91d-0e36-4e19-a1a5-58ac18178a0a WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1dfd7cd0-2c61-4d6a-a05d-4564fe8ba3e3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e0f9e604-f6a2-44b4-b634-4136132592bf WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7ff1cb1b-adde-4493-9c3f-8d841eb72172 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c60d86e7-c5ab-412c-9cbb-30e74952560b WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\736d7c32-9fe7-480e-b4da-b7ab1b0dab7e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\21a69494-5d06-4eaa-9514-5860b44838d0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0d61f8f6-99e6-4529-800b-16c252b18900 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\65a1fe04-3b86-4bc7-952e-4fabfd0be1a9 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9df6d36a-92b1-4c5b-b87e-6945b813955c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1e6b91a1-c031-4f4d-84a9-5518bca0bb68 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2b138415-3d4d-4e6a-893c-19641e89cd37 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1b57debd-6c4b-46c4-8798-63c986021cfd WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\85c7f6a8-88b8-4ce8-9b60-748ad32bbaed WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\16471849-7a46-4cd4-8551-0b91ccb3e62e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6937c70e-6caf-4656-b2cc-98d35c6d71ca WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3d2427ec-17d7-43ff-8684-69efff202bb4 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cfd8e8ce-907e-4ef9-bb43-f31a06280c31 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\29237612-5b13-4eb1-bba5-3d1efe5c35f0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\89e7b657-1700-4a7b-87c6-148436a8957d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\44edd1ad-b361-48bd-b82b-5af1cb8c3f24 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\57cb1bdc-b536-46e7-aab6-4ed5d67f6236 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1aaf8433-fb7b-4af9-99b0-2ef3fd6b3f61 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e93792ac-1cb5-4c38-8c94-c73bf45b857e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\33af0a91-9779-4b8a-a7e4-c65308b85949 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e6e84546-2662-469f-8685-67b91aadd72c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\98742b24-0222-4e68-a0d8-04b86ef40a73 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\475ff177-0d04-4e48-8ad1-9a5f6780901f WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\160de8d4-42c7-4197-8cdd-bade5bf6ba58 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f1890dbb-4817-4cad-90e6-63be6facd416 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\266f6490-cd3b-4e2b-8ee5-82713eaf45b5 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\35006b67-4340-42fa-9648-f561e063ab9e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7dc7937f-d40b-4fcf-bf58-bce9ca6890d2 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\990aab30-e0f7-4a62-9cc5-8a1b9290dc27 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\941488b7-bd53-4143-883e-5bf7f130d665 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8d58c9dd-682a-4e1a-95f9-0e4fb4b47950 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\dba380cd-bd85-4adf-9f2b-1f4ebfeba21e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\51e31516-8c97-4540-bba7-04b3bbce97af WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f753232d-6b94-4097-8154-63ffae22dbaf WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a9c4dd51-808b-439d-8f96-a292e8635f5c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e3303df6-217b-48ed-ae0c-cea775704938 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e30ba8f2-b8b4-444f-bc2b-6fde5997d67d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a73f9037-4701-44b7-8c93-d97a63add80e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a07b7edf-5957-4a7f-8db2-c73455933603 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1dbfea6e-38a2-45f1-88aa-75f79bb8c411 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7774be73-4038-469d-b8af-7ad7b4aea027 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b8af1eb1-5a15-43e6-93fd-98fdfa45237c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b11a327e-e3da-47bf-bb36-d26f6de11bd2 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\179d068c-6d12-435f-80c4-c074ffd226bd WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b6b2e6a6-1b3d-4b8a-a8dd-7a437b011d07 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2be8aba5-6ded-4eb3-ba7d-c4f065d576d3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f995771f-4d0d-4dad-b4f8-e90d7572632b WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\db7a143a-9467-4119-bee6-6f76a5122726 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\ab6f90e8-da46-47f1-9649-9c9eb80bd90d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2b8c5a77-af73-4a89-ae2a-c3095e5adfb6 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\30f2057c-d9fd-4497-bab4-bd819893a1e9 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3ce6342c-94d2-43dc-8451-1e68c4257175 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3b426ff7-73d7-4dce-8e01-342df30f1336 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\705f690b-7edb-45e0-a7ca-ac5c3a8baba0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\39280931-bc05-4f4a-9691-3d098a250539 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\356d392e-8918-4ee7-81c4-7623dab9a05c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3e329f14-27bf-40d4-83cc-83c627af495b WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3e768c56-ffa7-4c16-a004-5dd3373dc0ff WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\fa6dbb6b-56f4-4546-a71c-afd37e93bd42 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1b3ef401-e662-4d2d-8dcf-3dec395d1e3f WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1a84fbdb-8c33-47be-9483-7aaf1d55ecc3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2ed52f15-ee08-4ac5-acbf-f6569a1974ab WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7ee56650-2bca-42bf-8f7c-5b7741cf8337 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a2f25355-173b-49e4-99f4-0ab64bdf3528 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\670d8c50-5caf-4f0f-bd87-41f9f79bcd44 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a0df5bed-2464-47cc-a40e-063ed64f17c3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\bb9820f7-01f5-400d-b419-8f017684b08c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\062e0aa9-9294-4689-8432-a7e78d4baf9b WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\da49369f-edff-4475-8db4-2b7a5355b9cb WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a784605f-eb5d-4585-b099-8e1dcebcfe5f WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e8bf6011-98dd-4dbb-9125-af0c81f18d28 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\06ba013b-2817-4c61-b8b7-8ce9f1a15bfc WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\4ed0b675-7112-42fd-b56b-8270a8ab1c62 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d3941310-4813-48a0-87d5-18ebbf2b83ea WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c155c709-9cd8-4e0d-ae80-6b7f1f11acb4 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8c79a841-73f0-4629-a8bf-a3fefe647416 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6f1a211a-ba57-431c-89f0-a3109057a49d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cbebd83c-06da-4ee3-bb75-2fbe06d92ece WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6aff37d9-7adb-48b3-ac9e-befc54d9180e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\083fbb54-ab79-46f4-b4ac-24daaf08f9f3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6d785547-67f4-4b60-bed9-065bf62bc980 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\80d6ffb1-09a7-48a6-992d-516e633ff880 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6b56c885-3270-40f7-88d7-e735122aa966 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2fd68538-842e-459b-b5fb-b960614b168d WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b35f4ecb-2b22-4ef7-bd1d-69c9d44de67b WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2fb27d87-5b4a-4ed7-8357-e8f70ff9b999 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\85df6f00-eff7-4969-9e56-bf3d6e138add WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\135db5df-b66e-4869-9788-eb4018a9231e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d785209f-d9b7-4893-9ed4-dc5f4e6fecb2 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f39ff15c-01a1-4227-8db3-45cdade30f39 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\540197ff-a64e-442e-8292-324e602860f3 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6ffa9d44-b0b3-4a75-b6fd-59b09e82ba46 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\86c771b8-8394-49fd-af1a-181933690d19 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\26042537-177a-4b27-9291-e82a3ea1b7a6 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0268b5cf-288e-4675-9b83-454108e59a40 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b854b141-b097-49ca-b7c1-d5e2bc926816 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\25d08d8d-5409-41bc-92c7-3d73f39bdb36 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9a9ee518-77e2-4576-b6bb-799cda942da8 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\79934329-73ba-4e54-810c-ec2392ab0644 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\844c048b-0b30-4572-9443-497e1f69579c WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2d41cf75-0adc-47eb-9b8d-a2ef473ed870 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\856d7711-a261-4147-9f75-435d060508ad WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6fab0a9f-7fc1-4d51-bdff-9d31b7d2222e WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\efba1605-3a74-4c3e-afe1-eb89341c1bcb 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D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8c204e58-5af9-4bd4-9d33-9c70275e849a WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b62466fa-6bc9-4d13-a9ac-f08ebdc6bee2 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace 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D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-120.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-120.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-121.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-121.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-122.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-122.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-123.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-123.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-125.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-125.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-126.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-126.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-127.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-127.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-128.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-128.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-129.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-129.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-13.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-13.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-130.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-130.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-131.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-131.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-132.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-132.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-133.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-133.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-134.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-134.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-135.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-135.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-136.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-136.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-137.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-137.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-138.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-138.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-139.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-139.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-14.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-14.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-140.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-140.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-141.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-141.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-142.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-142.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-143.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-143.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-144.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-144.pin 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D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-16.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-17.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-17.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-18.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-18.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-19.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-19.pin 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D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-20.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-21.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-21.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-22.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-22.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-23.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-23.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-24.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-24.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-25.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-25.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-26.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-26.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-27.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-27.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-28.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-28.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-29.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-29.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-3.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-3.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-30.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-30.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-31.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-31.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-32.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-32.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-33.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-33.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-34.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-34.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-35.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-35.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-36.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-36.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-37.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-37.pin 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D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-39.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-4.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-4.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-40.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-40.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-41.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-41.pin 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D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-43.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-44.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-44.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-45.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-45.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-46.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-46.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-47.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-47.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-48.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-48.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-49.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-49.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-5.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-5.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-50.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-50.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-51.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-51.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-52.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-52.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-53.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-53.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-54.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-54.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-55.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-55.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-56.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-56.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-57.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-57.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-58-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-58-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-59-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-59-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-6.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-6.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-60-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-60-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-61-2nd.pepXML 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D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-63-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-63-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-64-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-64-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-65-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-65-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-66-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-66-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-67.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-67.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-68.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-68.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-69.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-69.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-7.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-7.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-70.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-70.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-71.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-71.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-72.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-72.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-73.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-73.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-74.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-74.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-75.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-75.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-76.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-76.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-77.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-77.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-78.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-78.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-79.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-79.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-8.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-8.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-80.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-80.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-81.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-81.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-82.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-82.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-83.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-83.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-84-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-84-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-85.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-85.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-86.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-86.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-87.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-87.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-88.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-88.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-89.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-89.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-9.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-9.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-90.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-90.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-91.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-91.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-92.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-92.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-93.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-93.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-94.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-94.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-95.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-95.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-96.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-96.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-97.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-97.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-98.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-98.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98.pin MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-99.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99.pepXML MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-99.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99.pin MSBooster [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\jre\bin\java.exe -Xmx29G -cp "D:\JAM\fragpipe\tools\msbooster-1.1.11.jar;D:\JAM\fragpipe\tools\batmass-io-1.28.9.jar" Features.MainClass --paramsList D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\msbooster_params.txt Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-21_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-21_percolator_decoy_psms.tsv S22049-Arjun-21_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-120_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-120_percolator_decoy_psms.tsv S22049-Arjun-120_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-34_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-34_percolator_decoy_psms.tsv S22049-Arjun-34_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-75_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-75_percolator_decoy_psms.tsv S22049-Arjun-75_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-116_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-116_percolator_decoy_psms.tsv S22049-Arjun-116_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-47_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-47_percolator_decoy_psms.tsv S22049-Arjun-47_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-90_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-90_percolator_decoy_psms.tsv S22049-Arjun-90_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-135_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-135_percolator_decoy_psms.tsv S22049-Arjun-135_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-131_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-131_percolator_decoy_psms.tsv S22049-Arjun-131_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-108_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-108_percolator_decoy_psms.tsv S22049-Arjun-108_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-66-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-66-2nd_percolator_decoy_psms.tsv S22049-Arjun-66-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-127_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-127_percolator_decoy_psms.tsv S22049-Arjun-127_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-58-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-58-2nd_percolator_decoy_psms.tsv S22049-Arjun-58-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-53_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-53_percolator_decoy_psms.tsv S22049-Arjun-53_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-7_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-7_percolator_decoy_psms.tsv S22049-Arjun-7_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-101_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-101_percolator_decoy_psms.tsv S22049-Arjun-101_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-56_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-56_percolator_decoy_psms.tsv S22049-Arjun-56_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-119_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-119_percolator_decoy_psms.tsv S22049-Arjun-119_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-29_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-29_percolator_decoy_psms.tsv S22049-Arjun-29_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-143_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-143_percolator_decoy_psms.tsv S22049-Arjun-143_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-43_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-43_percolator_decoy_psms.tsv S22049-Arjun-43_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-12_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-12_percolator_decoy_psms.tsv S22049-Arjun-12_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-97_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-97_percolator_decoy_psms.tsv S22049-Arjun-97_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-16_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-16_percolator_decoy_psms.tsv S22049-Arjun-16_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-93_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-93_percolator_decoy_psms.tsv S22049-Arjun-93_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-71_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-71_percolator_decoy_psms.tsv S22049-Arjun-71_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-25_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-25_percolator_decoy_psms.tsv S22049-Arjun-25_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-104_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-104_percolator_decoy_psms.tsv S22049-Arjun-104_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-30_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-30_percolator_decoy_psms.tsv S22049-Arjun-30_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-65-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-65-2nd_percolator_decoy_psms.tsv S22049-Arjun-65-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-79_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-79_percolator_decoy_psms.tsv S22049-Arjun-79_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-38_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-38_percolator_decoy_psms.tsv S22049-Arjun-38_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-88_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-88_percolator_decoy_psms.tsv S22049-Arjun-88_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-142_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-142_percolator_decoy_psms.tsv S22049-Arjun-142_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-80_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-80_percolator_decoy_psms.tsv S22049-Arjun-80_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-105_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-105_percolator_decoy_psms.tsv S22049-Arjun-105_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-1_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-1_percolator_decoy_psms.tsv S22049-Arjun-1_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-22_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-22_percolator_decoy_psms.tsv S22049-Arjun-22_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-89_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-89_percolator_decoy_psms.tsv S22049-Arjun-89_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-37_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-37_percolator_decoy_psms.tsv S22049-Arjun-37_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-134_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-134_percolator_decoy_psms.tsv S22049-Arjun-134_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-74_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-74_percolator_decoy_psms.tsv S22049-Arjun-74_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-48_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-48_percolator_decoy_psms.tsv S22049-Arjun-48_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-121_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-121_percolator_decoy_psms.tsv S22049-Arjun-121_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-6_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-6_percolator_decoy_psms.tsv S22049-Arjun-6_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-140_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-140_percolator_decoy_psms.tsv S22049-Arjun-140_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-11_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-11_percolator_decoy_psms.tsv S22049-Arjun-11_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-84-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-84-2nd_percolator_decoy_psms.tsv S22049-Arjun-84-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-132_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-132_percolator_decoy_psms.tsv S22049-Arjun-132_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-52_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-52_percolator_decoy_psms.tsv S22049-Arjun-52_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-15_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-15_percolator_decoy_psms.tsv S22049-Arjun-15_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-81_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-81_percolator_decoy_psms.tsv S22049-Arjun-81_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-138_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-138_percolator_decoy_psms.tsv S22049-Arjun-138_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-125_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-125_percolator_decoy_psms.tsv S22049-Arjun-125_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-67_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-67_percolator_decoy_psms.tsv S22049-Arjun-67_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-44_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-44_percolator_decoy_psms.tsv S22049-Arjun-44_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-4_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-4_percolator_decoy_psms.tsv S22049-Arjun-4_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-112_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-112_percolator_decoy_psms.tsv S22049-Arjun-112_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-40_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-40_percolator_decoy_psms.tsv S22049-Arjun-40_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-19_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-19_percolator_decoy_psms.tsv S22049-Arjun-19_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-96_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-96_percolator_decoy_psms.tsv S22049-Arjun-96_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-92_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-92_percolator_decoy_psms.tsv S22049-Arjun-92_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-85_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-85_percolator_decoy_psms.tsv S22049-Arjun-85_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-26_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-26_percolator_decoy_psms.tsv S22049-Arjun-26_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-136_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-136_percolator_decoy_psms.tsv S22049-Arjun-136_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-70_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-70_percolator_decoy_psms.tsv S22049-Arjun-70_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-123_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-123_percolator_decoy_psms.tsv S22049-Arjun-123_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-33_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-33_percolator_decoy_psms.tsv S22049-Arjun-33_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-78_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-78_percolator_decoy_psms.tsv S22049-Arjun-78_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-110_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-110_percolator_decoy_psms.tsv S22049-Arjun-110_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-49_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-49_percolator_decoy_psms.tsv S22049-Arjun-49_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-129_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-129_percolator_decoy_psms.tsv S22049-Arjun-129_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-77_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-77_percolator_decoy_psms.tsv S22049-Arjun-77_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-36_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-36_percolator_decoy_psms.tsv S22049-Arjun-36_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-103_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-103_percolator_decoy_psms.tsv S22049-Arjun-103_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-2_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-2_percolator_decoy_psms.tsv S22049-Arjun-2_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-51_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-51_percolator_decoy_psms.tsv S22049-Arjun-51_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-60-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-60-2nd_percolator_decoy_psms.tsv S22049-Arjun-60-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-10_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-10_percolator_decoy_psms.tsv S22049-Arjun-10_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-45_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-45_percolator_decoy_psms.tsv S22049-Arjun-45_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-114_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-114_percolator_decoy_psms.tsv S22049-Arjun-114_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-133_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-133_percolator_decoy_psms.tsv S22049-Arjun-133_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-55_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-55_percolator_decoy_psms.tsv S22049-Arjun-55_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-41_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-41_percolator_decoy_psms.tsv S22049-Arjun-41_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-106_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-106_percolator_decoy_psms.tsv S22049-Arjun-106_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-62-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-62-2nd_percolator_decoy_psms.tsv S22049-Arjun-62-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-130_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-130_percolator_decoy_psms.tsv S22049-Arjun-130_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-107_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-107_percolator_decoy_psms.tsv S22049-Arjun-107_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-68_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-68_percolator_decoy_psms.tsv S22049-Arjun-68_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-14_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-14_percolator_decoy_psms.tsv S22049-Arjun-14_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-144_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-144_percolator_decoy_psms.tsv S22049-Arjun-144_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-8_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-8_percolator_decoy_psms.tsv S22049-Arjun-8_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-99_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-99_percolator_decoy_psms.tsv S22049-Arjun-99_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-18_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-18_percolator_decoy_psms.tsv S22049-Arjun-18_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-95_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-95_percolator_decoy_psms.tsv S22049-Arjun-95_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-117_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-117_percolator_decoy_psms.tsv S22049-Arjun-117_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-91_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-91_percolator_decoy_psms.tsv S22049-Arjun-91_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-86_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-86_percolator_decoy_psms.tsv S22049-Arjun-86_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-32_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-32_percolator_decoy_psms.tsv S22049-Arjun-32_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-141_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-141_percolator_decoy_psms.tsv S22049-Arjun-141_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-73_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-73_percolator_decoy_psms.tsv S22049-Arjun-73_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-23_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-23_percolator_decoy_psms.tsv S22049-Arjun-23_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-118_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-118_percolator_decoy_psms.tsv S22049-Arjun-118_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-61-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-61-2nd_percolator_decoy_psms.tsv S22049-Arjun-61-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-9_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-9_percolator_decoy_psms.tsv S22049-Arjun-9_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-27_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-27_percolator_decoy_psms.tsv S22049-Arjun-27_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-82_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-82_percolator_decoy_psms.tsv S22049-Arjun-82_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-63-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-63-2nd_percolator_decoy_psms.tsv S22049-Arjun-63-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-115_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-115_percolator_decoy_psms.tsv S22049-Arjun-115_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-20_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-20_percolator_decoy_psms.tsv S22049-Arjun-20_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-76_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-76_percolator_decoy_psms.tsv S22049-Arjun-76_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-102_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-102_percolator_decoy_psms.tsv S22049-Arjun-102_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-35_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-35_percolator_decoy_psms.tsv S22049-Arjun-35_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-113_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-113_percolator_decoy_psms.tsv S22049-Arjun-113_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-46_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-46_percolator_decoy_psms.tsv S22049-Arjun-46_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-100_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-100_percolator_decoy_psms.tsv S22049-Arjun-100_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-109_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-109_percolator_decoy_psms.tsv S22049-Arjun-109_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-3_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-3_percolator_decoy_psms.tsv S22049-Arjun-3_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-50_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-50_percolator_decoy_psms.tsv S22049-Arjun-50_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-57_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-57_percolator_decoy_psms.tsv S22049-Arjun-57_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-128_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-128_percolator_decoy_psms.tsv S22049-Arjun-128_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-54_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-54_percolator_decoy_psms.tsv S22049-Arjun-54_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-111_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-111_percolator_decoy_psms.tsv S22049-Arjun-111_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-64-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-64-2nd_percolator_decoy_psms.tsv S22049-Arjun-64-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-13_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-13_percolator_decoy_psms.tsv S22049-Arjun-13_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-98_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-98_percolator_decoy_psms.tsv S22049-Arjun-98_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-139_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-139_percolator_decoy_psms.tsv S22049-Arjun-139_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-42_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-42_percolator_decoy_psms.tsv S22049-Arjun-42_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-69_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-69_percolator_decoy_psms.tsv S22049-Arjun-69_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-126_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-126_percolator_decoy_psms.tsv S22049-Arjun-126_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-17_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-17_percolator_decoy_psms.tsv S22049-Arjun-17_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-94_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-94_percolator_decoy_psms.tsv S22049-Arjun-94_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-59-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-59-2nd_percolator_decoy_psms.tsv S22049-Arjun-59-2nd_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-31_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-31_percolator_decoy_psms.tsv S22049-Arjun-31_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-122_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-122_percolator_decoy_psms.tsv S22049-Arjun-122_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-24_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-24_percolator_decoy_psms.tsv S22049-Arjun-24_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-72_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-72_percolator_decoy_psms.tsv S22049-Arjun-72_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-39_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-39_percolator_decoy_psms.tsv S22049-Arjun-39_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-28_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-28_percolator_decoy_psms.tsv S22049-Arjun-28_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-87_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-87_percolator_decoy_psms.tsv S22049-Arjun-87_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-83_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-83_percolator_decoy_psms.tsv S22049-Arjun-83_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-137_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-137_percolator_decoy_psms.tsv S22049-Arjun-137_edited.pin Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-5_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-5_percolator_decoy_psms.tsv S22049-Arjun-5_edited.pin Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-21.pin S22049-Arjun-21 S22049-Arjun-21_percolator_target_psms.tsv S22049-Arjun-21_percolator_decoy_psms.tsv interact-S22049-Arjun-21 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-120.pin S22049-Arjun-120 S22049-Arjun-120_percolator_target_psms.tsv S22049-Arjun-120_percolator_decoy_psms.tsv interact-S22049-Arjun-120 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-34.pin S22049-Arjun-34 S22049-Arjun-34_percolator_target_psms.tsv S22049-Arjun-34_percolator_decoy_psms.tsv interact-S22049-Arjun-34 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-75.pin S22049-Arjun-75 S22049-Arjun-75_percolator_target_psms.tsv S22049-Arjun-75_percolator_decoy_psms.tsv interact-S22049-Arjun-75 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-116.pin S22049-Arjun-116 S22049-Arjun-116_percolator_target_psms.tsv S22049-Arjun-116_percolator_decoy_psms.tsv interact-S22049-Arjun-116 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-47.pin S22049-Arjun-47 S22049-Arjun-47_percolator_target_psms.tsv S22049-Arjun-47_percolator_decoy_psms.tsv interact-S22049-Arjun-47 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-90.pin S22049-Arjun-90 S22049-Arjun-90_percolator_target_psms.tsv S22049-Arjun-90_percolator_decoy_psms.tsv interact-S22049-Arjun-90 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-135.pin S22049-Arjun-135 S22049-Arjun-135_percolator_target_psms.tsv S22049-Arjun-135_percolator_decoy_psms.tsv interact-S22049-Arjun-135 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-131.pin S22049-Arjun-131 S22049-Arjun-131_percolator_target_psms.tsv S22049-Arjun-131_percolator_decoy_psms.tsv interact-S22049-Arjun-131 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-108.pin S22049-Arjun-108 S22049-Arjun-108_percolator_target_psms.tsv S22049-Arjun-108_percolator_decoy_psms.tsv interact-S22049-Arjun-108 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-66-2nd.pin S22049-Arjun-66-2nd S22049-Arjun-66-2nd_percolator_target_psms.tsv S22049-Arjun-66-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-66-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-127.pin S22049-Arjun-127 S22049-Arjun-127_percolator_target_psms.tsv S22049-Arjun-127_percolator_decoy_psms.tsv interact-S22049-Arjun-127 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-58-2nd.pin S22049-Arjun-58-2nd S22049-Arjun-58-2nd_percolator_target_psms.tsv S22049-Arjun-58-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-58-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-53.pin S22049-Arjun-53 S22049-Arjun-53_percolator_target_psms.tsv S22049-Arjun-53_percolator_decoy_psms.tsv interact-S22049-Arjun-53 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-7.pin S22049-Arjun-7 S22049-Arjun-7_percolator_target_psms.tsv S22049-Arjun-7_percolator_decoy_psms.tsv interact-S22049-Arjun-7 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-101.pin S22049-Arjun-101 S22049-Arjun-101_percolator_target_psms.tsv S22049-Arjun-101_percolator_decoy_psms.tsv interact-S22049-Arjun-101 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-56.pin S22049-Arjun-56 S22049-Arjun-56_percolator_target_psms.tsv S22049-Arjun-56_percolator_decoy_psms.tsv interact-S22049-Arjun-56 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-119.pin S22049-Arjun-119 S22049-Arjun-119_percolator_target_psms.tsv S22049-Arjun-119_percolator_decoy_psms.tsv interact-S22049-Arjun-119 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-29.pin S22049-Arjun-29 S22049-Arjun-29_percolator_target_psms.tsv S22049-Arjun-29_percolator_decoy_psms.tsv interact-S22049-Arjun-29 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-143.pin S22049-Arjun-143 S22049-Arjun-143_percolator_target_psms.tsv S22049-Arjun-143_percolator_decoy_psms.tsv interact-S22049-Arjun-143 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-43.pin S22049-Arjun-43 S22049-Arjun-43_percolator_target_psms.tsv S22049-Arjun-43_percolator_decoy_psms.tsv interact-S22049-Arjun-43 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-12.pin S22049-Arjun-12 S22049-Arjun-12_percolator_target_psms.tsv S22049-Arjun-12_percolator_decoy_psms.tsv interact-S22049-Arjun-12 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-97.pin S22049-Arjun-97 S22049-Arjun-97_percolator_target_psms.tsv S22049-Arjun-97_percolator_decoy_psms.tsv interact-S22049-Arjun-97 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-16.pin S22049-Arjun-16 S22049-Arjun-16_percolator_target_psms.tsv S22049-Arjun-16_percolator_decoy_psms.tsv interact-S22049-Arjun-16 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-93.pin S22049-Arjun-93 S22049-Arjun-93_percolator_target_psms.tsv S22049-Arjun-93_percolator_decoy_psms.tsv interact-S22049-Arjun-93 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-71.pin S22049-Arjun-71 S22049-Arjun-71_percolator_target_psms.tsv S22049-Arjun-71_percolator_decoy_psms.tsv interact-S22049-Arjun-71 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-25.pin S22049-Arjun-25 S22049-Arjun-25_percolator_target_psms.tsv S22049-Arjun-25_percolator_decoy_psms.tsv interact-S22049-Arjun-25 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-104.pin S22049-Arjun-104 S22049-Arjun-104_percolator_target_psms.tsv S22049-Arjun-104_percolator_decoy_psms.tsv interact-S22049-Arjun-104 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-30.pin S22049-Arjun-30 S22049-Arjun-30_percolator_target_psms.tsv S22049-Arjun-30_percolator_decoy_psms.tsv interact-S22049-Arjun-30 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-65-2nd.pin S22049-Arjun-65-2nd S22049-Arjun-65-2nd_percolator_target_psms.tsv S22049-Arjun-65-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-65-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-79.pin S22049-Arjun-79 S22049-Arjun-79_percolator_target_psms.tsv S22049-Arjun-79_percolator_decoy_psms.tsv interact-S22049-Arjun-79 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-38.pin S22049-Arjun-38 S22049-Arjun-38_percolator_target_psms.tsv S22049-Arjun-38_percolator_decoy_psms.tsv interact-S22049-Arjun-38 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-88.pin S22049-Arjun-88 S22049-Arjun-88_percolator_target_psms.tsv S22049-Arjun-88_percolator_decoy_psms.tsv interact-S22049-Arjun-88 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-142.pin S22049-Arjun-142 S22049-Arjun-142_percolator_target_psms.tsv S22049-Arjun-142_percolator_decoy_psms.tsv interact-S22049-Arjun-142 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-80.pin S22049-Arjun-80 S22049-Arjun-80_percolator_target_psms.tsv S22049-Arjun-80_percolator_decoy_psms.tsv interact-S22049-Arjun-80 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-105.pin S22049-Arjun-105 S22049-Arjun-105_percolator_target_psms.tsv S22049-Arjun-105_percolator_decoy_psms.tsv interact-S22049-Arjun-105 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-1.pin S22049-Arjun-1 S22049-Arjun-1_percolator_target_psms.tsv S22049-Arjun-1_percolator_decoy_psms.tsv interact-S22049-Arjun-1 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\S22049-Arjun-1_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\S22049-Arjun-1_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-22.pin S22049-Arjun-22 S22049-Arjun-22_percolator_target_psms.tsv S22049-Arjun-22_percolator_decoy_psms.tsv interact-S22049-Arjun-22 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-89.pin S22049-Arjun-89 S22049-Arjun-89_percolator_target_psms.tsv S22049-Arjun-89_percolator_decoy_psms.tsv interact-S22049-Arjun-89 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-37.pin S22049-Arjun-37 S22049-Arjun-37_percolator_target_psms.tsv S22049-Arjun-37_percolator_decoy_psms.tsv interact-S22049-Arjun-37 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-134.pin S22049-Arjun-134 S22049-Arjun-134_percolator_target_psms.tsv S22049-Arjun-134_percolator_decoy_psms.tsv interact-S22049-Arjun-134 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-74.pin S22049-Arjun-74 S22049-Arjun-74_percolator_target_psms.tsv S22049-Arjun-74_percolator_decoy_psms.tsv interact-S22049-Arjun-74 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-48.pin S22049-Arjun-48 S22049-Arjun-48_percolator_target_psms.tsv S22049-Arjun-48_percolator_decoy_psms.tsv interact-S22049-Arjun-48 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-121.pin S22049-Arjun-121 S22049-Arjun-121_percolator_target_psms.tsv S22049-Arjun-121_percolator_decoy_psms.tsv interact-S22049-Arjun-121 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-6.pin S22049-Arjun-6 S22049-Arjun-6_percolator_target_psms.tsv S22049-Arjun-6_percolator_decoy_psms.tsv interact-S22049-Arjun-6 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-140.pin S22049-Arjun-140 S22049-Arjun-140_percolator_target_psms.tsv S22049-Arjun-140_percolator_decoy_psms.tsv interact-S22049-Arjun-140 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-11.pin S22049-Arjun-11 S22049-Arjun-11_percolator_target_psms.tsv S22049-Arjun-11_percolator_decoy_psms.tsv interact-S22049-Arjun-11 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-84-2nd.pin S22049-Arjun-84-2nd S22049-Arjun-84-2nd_percolator_target_psms.tsv S22049-Arjun-84-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-84-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-132.pin S22049-Arjun-132 S22049-Arjun-132_percolator_target_psms.tsv S22049-Arjun-132_percolator_decoy_psms.tsv interact-S22049-Arjun-132 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-52.pin S22049-Arjun-52 S22049-Arjun-52_percolator_target_psms.tsv S22049-Arjun-52_percolator_decoy_psms.tsv interact-S22049-Arjun-52 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-15.pin S22049-Arjun-15 S22049-Arjun-15_percolator_target_psms.tsv S22049-Arjun-15_percolator_decoy_psms.tsv interact-S22049-Arjun-15 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-81.pin S22049-Arjun-81 S22049-Arjun-81_percolator_target_psms.tsv S22049-Arjun-81_percolator_decoy_psms.tsv interact-S22049-Arjun-81 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-138.pin S22049-Arjun-138 S22049-Arjun-138_percolator_target_psms.tsv S22049-Arjun-138_percolator_decoy_psms.tsv interact-S22049-Arjun-138 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-125.pin S22049-Arjun-125 S22049-Arjun-125_percolator_target_psms.tsv S22049-Arjun-125_percolator_decoy_psms.tsv interact-S22049-Arjun-125 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-67.pin S22049-Arjun-67 S22049-Arjun-67_percolator_target_psms.tsv S22049-Arjun-67_percolator_decoy_psms.tsv interact-S22049-Arjun-67 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-44.pin S22049-Arjun-44 S22049-Arjun-44_percolator_target_psms.tsv S22049-Arjun-44_percolator_decoy_psms.tsv interact-S22049-Arjun-44 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-4.pin S22049-Arjun-4 S22049-Arjun-4_percolator_target_psms.tsv S22049-Arjun-4_percolator_decoy_psms.tsv interact-S22049-Arjun-4 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-112.pin S22049-Arjun-112 S22049-Arjun-112_percolator_target_psms.tsv S22049-Arjun-112_percolator_decoy_psms.tsv interact-S22049-Arjun-112 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-40.pin S22049-Arjun-40 S22049-Arjun-40_percolator_target_psms.tsv S22049-Arjun-40_percolator_decoy_psms.tsv interact-S22049-Arjun-40 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-19.pin S22049-Arjun-19 S22049-Arjun-19_percolator_target_psms.tsv S22049-Arjun-19_percolator_decoy_psms.tsv interact-S22049-Arjun-19 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-96.pin S22049-Arjun-96 S22049-Arjun-96_percolator_target_psms.tsv S22049-Arjun-96_percolator_decoy_psms.tsv interact-S22049-Arjun-96 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-92.pin S22049-Arjun-92 S22049-Arjun-92_percolator_target_psms.tsv S22049-Arjun-92_percolator_decoy_psms.tsv interact-S22049-Arjun-92 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-85.pin S22049-Arjun-85 S22049-Arjun-85_percolator_target_psms.tsv S22049-Arjun-85_percolator_decoy_psms.tsv interact-S22049-Arjun-85 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-26.pin S22049-Arjun-26 S22049-Arjun-26_percolator_target_psms.tsv S22049-Arjun-26_percolator_decoy_psms.tsv interact-S22049-Arjun-26 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-136.pin S22049-Arjun-136 S22049-Arjun-136_percolator_target_psms.tsv S22049-Arjun-136_percolator_decoy_psms.tsv interact-S22049-Arjun-136 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-70.pin S22049-Arjun-70 S22049-Arjun-70_percolator_target_psms.tsv S22049-Arjun-70_percolator_decoy_psms.tsv interact-S22049-Arjun-70 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-123.pin S22049-Arjun-123 S22049-Arjun-123_percolator_target_psms.tsv S22049-Arjun-123_percolator_decoy_psms.tsv interact-S22049-Arjun-123 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-33.pin S22049-Arjun-33 S22049-Arjun-33_percolator_target_psms.tsv S22049-Arjun-33_percolator_decoy_psms.tsv interact-S22049-Arjun-33 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-78.pin S22049-Arjun-78 S22049-Arjun-78_percolator_target_psms.tsv S22049-Arjun-78_percolator_decoy_psms.tsv interact-S22049-Arjun-78 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-110.pin S22049-Arjun-110 S22049-Arjun-110_percolator_target_psms.tsv S22049-Arjun-110_percolator_decoy_psms.tsv interact-S22049-Arjun-110 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-49.pin S22049-Arjun-49 S22049-Arjun-49_percolator_target_psms.tsv S22049-Arjun-49_percolator_decoy_psms.tsv interact-S22049-Arjun-49 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-129.pin S22049-Arjun-129 S22049-Arjun-129_percolator_target_psms.tsv S22049-Arjun-129_percolator_decoy_psms.tsv interact-S22049-Arjun-129 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-77.pin S22049-Arjun-77 S22049-Arjun-77_percolator_target_psms.tsv S22049-Arjun-77_percolator_decoy_psms.tsv interact-S22049-Arjun-77 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-36.pin S22049-Arjun-36 S22049-Arjun-36_percolator_target_psms.tsv S22049-Arjun-36_percolator_decoy_psms.tsv interact-S22049-Arjun-36 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-103.pin S22049-Arjun-103 S22049-Arjun-103_percolator_target_psms.tsv S22049-Arjun-103_percolator_decoy_psms.tsv interact-S22049-Arjun-103 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-2.pin S22049-Arjun-2 S22049-Arjun-2_percolator_target_psms.tsv S22049-Arjun-2_percolator_decoy_psms.tsv interact-S22049-Arjun-2 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-51.pin S22049-Arjun-51 S22049-Arjun-51_percolator_target_psms.tsv S22049-Arjun-51_percolator_decoy_psms.tsv interact-S22049-Arjun-51 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-60-2nd.pin S22049-Arjun-60-2nd S22049-Arjun-60-2nd_percolator_target_psms.tsv S22049-Arjun-60-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-60-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-10.pin S22049-Arjun-10 S22049-Arjun-10_percolator_target_psms.tsv S22049-Arjun-10_percolator_decoy_psms.tsv interact-S22049-Arjun-10 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\S22049-Arjun-10_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\S22049-Arjun-10_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-45.pin S22049-Arjun-45 S22049-Arjun-45_percolator_target_psms.tsv S22049-Arjun-45_percolator_decoy_psms.tsv interact-S22049-Arjun-45 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-114.pin S22049-Arjun-114 S22049-Arjun-114_percolator_target_psms.tsv S22049-Arjun-114_percolator_decoy_psms.tsv interact-S22049-Arjun-114 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-133.pin S22049-Arjun-133 S22049-Arjun-133_percolator_target_psms.tsv S22049-Arjun-133_percolator_decoy_psms.tsv interact-S22049-Arjun-133 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-55.pin S22049-Arjun-55 S22049-Arjun-55_percolator_target_psms.tsv S22049-Arjun-55_percolator_decoy_psms.tsv interact-S22049-Arjun-55 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-41.pin S22049-Arjun-41 S22049-Arjun-41_percolator_target_psms.tsv S22049-Arjun-41_percolator_decoy_psms.tsv interact-S22049-Arjun-41 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-106.pin S22049-Arjun-106 S22049-Arjun-106_percolator_target_psms.tsv S22049-Arjun-106_percolator_decoy_psms.tsv interact-S22049-Arjun-106 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-62-2nd.pin S22049-Arjun-62-2nd S22049-Arjun-62-2nd_percolator_target_psms.tsv S22049-Arjun-62-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-62-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-130.pin S22049-Arjun-130 S22049-Arjun-130_percolator_target_psms.tsv S22049-Arjun-130_percolator_decoy_psms.tsv interact-S22049-Arjun-130 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-107.pin S22049-Arjun-107 S22049-Arjun-107_percolator_target_psms.tsv S22049-Arjun-107_percolator_decoy_psms.tsv interact-S22049-Arjun-107 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-68.pin S22049-Arjun-68 S22049-Arjun-68_percolator_target_psms.tsv S22049-Arjun-68_percolator_decoy_psms.tsv interact-S22049-Arjun-68 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-14.pin S22049-Arjun-14 S22049-Arjun-14_percolator_target_psms.tsv S22049-Arjun-14_percolator_decoy_psms.tsv interact-S22049-Arjun-14 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-144.pin S22049-Arjun-144 S22049-Arjun-144_percolator_target_psms.tsv S22049-Arjun-144_percolator_decoy_psms.tsv interact-S22049-Arjun-144 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-8.pin S22049-Arjun-8 S22049-Arjun-8_percolator_target_psms.tsv S22049-Arjun-8_percolator_decoy_psms.tsv interact-S22049-Arjun-8 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-99.pin S22049-Arjun-99 S22049-Arjun-99_percolator_target_psms.tsv S22049-Arjun-99_percolator_decoy_psms.tsv interact-S22049-Arjun-99 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-18.pin S22049-Arjun-18 S22049-Arjun-18_percolator_target_psms.tsv S22049-Arjun-18_percolator_decoy_psms.tsv interact-S22049-Arjun-18 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-95.pin S22049-Arjun-95 S22049-Arjun-95_percolator_target_psms.tsv S22049-Arjun-95_percolator_decoy_psms.tsv interact-S22049-Arjun-95 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-117.pin S22049-Arjun-117 S22049-Arjun-117_percolator_target_psms.tsv S22049-Arjun-117_percolator_decoy_psms.tsv interact-S22049-Arjun-117 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-91.pin S22049-Arjun-91 S22049-Arjun-91_percolator_target_psms.tsv S22049-Arjun-91_percolator_decoy_psms.tsv interact-S22049-Arjun-91 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-86.pin S22049-Arjun-86 S22049-Arjun-86_percolator_target_psms.tsv S22049-Arjun-86_percolator_decoy_psms.tsv interact-S22049-Arjun-86 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-32.pin S22049-Arjun-32 S22049-Arjun-32_percolator_target_psms.tsv S22049-Arjun-32_percolator_decoy_psms.tsv interact-S22049-Arjun-32 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-141.pin S22049-Arjun-141 S22049-Arjun-141_percolator_target_psms.tsv S22049-Arjun-141_percolator_decoy_psms.tsv interact-S22049-Arjun-141 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-73.pin S22049-Arjun-73 S22049-Arjun-73_percolator_target_psms.tsv S22049-Arjun-73_percolator_decoy_psms.tsv interact-S22049-Arjun-73 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-23.pin S22049-Arjun-23 S22049-Arjun-23_percolator_target_psms.tsv S22049-Arjun-23_percolator_decoy_psms.tsv interact-S22049-Arjun-23 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-118.pin S22049-Arjun-118 S22049-Arjun-118_percolator_target_psms.tsv S22049-Arjun-118_percolator_decoy_psms.tsv interact-S22049-Arjun-118 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-61-2nd.pin S22049-Arjun-61-2nd S22049-Arjun-61-2nd_percolator_target_psms.tsv S22049-Arjun-61-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-61-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-9.pin S22049-Arjun-9 S22049-Arjun-9_percolator_target_psms.tsv S22049-Arjun-9_percolator_decoy_psms.tsv interact-S22049-Arjun-9 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-27.pin S22049-Arjun-27 S22049-Arjun-27_percolator_target_psms.tsv S22049-Arjun-27_percolator_decoy_psms.tsv interact-S22049-Arjun-27 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-82.pin S22049-Arjun-82 S22049-Arjun-82_percolator_target_psms.tsv S22049-Arjun-82_percolator_decoy_psms.tsv interact-S22049-Arjun-82 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-63-2nd.pin S22049-Arjun-63-2nd S22049-Arjun-63-2nd_percolator_target_psms.tsv S22049-Arjun-63-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-63-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-115.pin S22049-Arjun-115 S22049-Arjun-115_percolator_target_psms.tsv S22049-Arjun-115_percolator_decoy_psms.tsv interact-S22049-Arjun-115 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-20.pin S22049-Arjun-20 S22049-Arjun-20_percolator_target_psms.tsv S22049-Arjun-20_percolator_decoy_psms.tsv interact-S22049-Arjun-20 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-76.pin S22049-Arjun-76 S22049-Arjun-76_percolator_target_psms.tsv S22049-Arjun-76_percolator_decoy_psms.tsv interact-S22049-Arjun-76 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-102.pin S22049-Arjun-102 S22049-Arjun-102_percolator_target_psms.tsv S22049-Arjun-102_percolator_decoy_psms.tsv interact-S22049-Arjun-102 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-35.pin S22049-Arjun-35 S22049-Arjun-35_percolator_target_psms.tsv S22049-Arjun-35_percolator_decoy_psms.tsv interact-S22049-Arjun-35 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-113.pin S22049-Arjun-113 S22049-Arjun-113_percolator_target_psms.tsv S22049-Arjun-113_percolator_decoy_psms.tsv interact-S22049-Arjun-113 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-46.pin S22049-Arjun-46 S22049-Arjun-46_percolator_target_psms.tsv S22049-Arjun-46_percolator_decoy_psms.tsv interact-S22049-Arjun-46 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-100.pin S22049-Arjun-100 S22049-Arjun-100_percolator_target_psms.tsv S22049-Arjun-100_percolator_decoy_psms.tsv interact-S22049-Arjun-100 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-109.pin S22049-Arjun-109 S22049-Arjun-109_percolator_target_psms.tsv S22049-Arjun-109_percolator_decoy_psms.tsv interact-S22049-Arjun-109 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-3.pin S22049-Arjun-3 S22049-Arjun-3_percolator_target_psms.tsv S22049-Arjun-3_percolator_decoy_psms.tsv interact-S22049-Arjun-3 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-50.pin S22049-Arjun-50 S22049-Arjun-50_percolator_target_psms.tsv S22049-Arjun-50_percolator_decoy_psms.tsv interact-S22049-Arjun-50 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-57.pin S22049-Arjun-57 S22049-Arjun-57_percolator_target_psms.tsv S22049-Arjun-57_percolator_decoy_psms.tsv interact-S22049-Arjun-57 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-128.pin S22049-Arjun-128 S22049-Arjun-128_percolator_target_psms.tsv S22049-Arjun-128_percolator_decoy_psms.tsv interact-S22049-Arjun-128 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-54.pin S22049-Arjun-54 S22049-Arjun-54_percolator_target_psms.tsv S22049-Arjun-54_percolator_decoy_psms.tsv interact-S22049-Arjun-54 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-111.pin S22049-Arjun-111 S22049-Arjun-111_percolator_target_psms.tsv S22049-Arjun-111_percolator_decoy_psms.tsv interact-S22049-Arjun-111 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-64-2nd.pin S22049-Arjun-64-2nd S22049-Arjun-64-2nd_percolator_target_psms.tsv S22049-Arjun-64-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-64-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-13.pin S22049-Arjun-13 S22049-Arjun-13_percolator_target_psms.tsv S22049-Arjun-13_percolator_decoy_psms.tsv interact-S22049-Arjun-13 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-98.pin S22049-Arjun-98 S22049-Arjun-98_percolator_target_psms.tsv S22049-Arjun-98_percolator_decoy_psms.tsv interact-S22049-Arjun-98 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-139.pin S22049-Arjun-139 S22049-Arjun-139_percolator_target_psms.tsv S22049-Arjun-139_percolator_decoy_psms.tsv interact-S22049-Arjun-139 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-42.pin S22049-Arjun-42 S22049-Arjun-42_percolator_target_psms.tsv S22049-Arjun-42_percolator_decoy_psms.tsv interact-S22049-Arjun-42 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-69.pin S22049-Arjun-69 S22049-Arjun-69_percolator_target_psms.tsv S22049-Arjun-69_percolator_decoy_psms.tsv interact-S22049-Arjun-69 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-126.pin S22049-Arjun-126 S22049-Arjun-126_percolator_target_psms.tsv S22049-Arjun-126_percolator_decoy_psms.tsv interact-S22049-Arjun-126 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-17.pin S22049-Arjun-17 S22049-Arjun-17_percolator_target_psms.tsv S22049-Arjun-17_percolator_decoy_psms.tsv interact-S22049-Arjun-17 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-94.pin S22049-Arjun-94 S22049-Arjun-94_percolator_target_psms.tsv S22049-Arjun-94_percolator_decoy_psms.tsv interact-S22049-Arjun-94 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-59-2nd.pin S22049-Arjun-59-2nd S22049-Arjun-59-2nd_percolator_target_psms.tsv S22049-Arjun-59-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-59-2nd DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-31.pin S22049-Arjun-31 S22049-Arjun-31_percolator_target_psms.tsv S22049-Arjun-31_percolator_decoy_psms.tsv interact-S22049-Arjun-31 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-122.pin S22049-Arjun-122 S22049-Arjun-122_percolator_target_psms.tsv S22049-Arjun-122_percolator_decoy_psms.tsv interact-S22049-Arjun-122 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-24.pin S22049-Arjun-24 S22049-Arjun-24_percolator_target_psms.tsv S22049-Arjun-24_percolator_decoy_psms.tsv interact-S22049-Arjun-24 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-72.pin S22049-Arjun-72 S22049-Arjun-72_percolator_target_psms.tsv S22049-Arjun-72_percolator_decoy_psms.tsv interact-S22049-Arjun-72 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-39.pin S22049-Arjun-39 S22049-Arjun-39_percolator_target_psms.tsv S22049-Arjun-39_percolator_decoy_psms.tsv interact-S22049-Arjun-39 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-28.pin S22049-Arjun-28 S22049-Arjun-28_percolator_target_psms.tsv S22049-Arjun-28_percolator_decoy_psms.tsv interact-S22049-Arjun-28 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-87.pin S22049-Arjun-87 S22049-Arjun-87_percolator_target_psms.tsv S22049-Arjun-87_percolator_decoy_psms.tsv interact-S22049-Arjun-87 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-83.pin S22049-Arjun-83 S22049-Arjun-83_percolator_target_psms.tsv S22049-Arjun-83_percolator_decoy_psms.tsv interact-S22049-Arjun-83 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-137.pin S22049-Arjun-137 S22049-Arjun-137_percolator_target_psms.tsv S22049-Arjun-137_percolator_decoy_psms.tsv interact-S22049-Arjun-137 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137_percolator_decoy_psms.tsv Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-5.pin S22049-Arjun-5 S22049-Arjun-5_percolator_target_psms.tsv S22049-Arjun-5_percolator_decoy_psms.tsv interact-S22049-Arjun-5 DDA 0.5 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5_percolator_target_psms.tsv Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5_percolator_decoy_psms.tsv ProteinProphet [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe proteinprophet --maxppmdiff 2000000 --output combined D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\filelist_proteinprophet.txt PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razor PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherFilter [Work dir: 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--prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razorbin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\.meta\razor.bin PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: 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dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: 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D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: 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D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work 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D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report PhilosopherReport [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe report WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck WorkspaceClean [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck IonQuant [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\jre\bin\java.exe -Xmx29G -Dlibs.bruker.dir="D:\JAM\fragpipe\tools\MSFragger-3.7\ext\bruker" -Dlibs.thermo.dir="D:\JAM\fragpipe\tools\MSFragger-3.7\ext\thermo" -cp "D:\JAM\fragpipe\tools\jfreechart-1.5.3.jar;D:\JAM\fragpipe\tools\batmass-io-1.28.9.jar;D:\JAM\fragpipe\tools\IonQuant-1.8.10.jar" ionquant.IonQuant --threads 7 --ionmobility 0 --minexps 1 --mbr 1 --maxlfq 1 --requantify 1 --mztol 10 --imtol 0.05 --rttol 0.4 --mbrmincorr 0 --mbrrttol 1 --mbrimtol 0.05 --mbrtoprun 10 --ionfdr 0.01 --proteinfdr 1 --peptidefdr 1 --normalization 1 --minisotopes 2 --minscans 3 --writeindex 0 --tp 0 --minfreq 0 --minions 1 --locprob 0.75 --uniqueness 0 --multidir . --filelist D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\filelist_ionquant.txt --modlist D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\modmasses_ionquant.txt ~~~~~~~~~~~~~~~~~~~~~~ Execution order: Cmd: [START], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [CheckCentroid], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] Cmd: [WorkspaceCleanInit], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] Cmd: [MSFragger], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [MSBooster], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [Percolator], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [ProteinProphet], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [PhilosopherDbAnnotate], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [PhilosopherFilter], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [PhilosopherReport], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] Cmd: [WorkspaceClean], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] Cmd: [IonQuant], Work dir: [D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] ~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~Sample of D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas~~~~~~~ >rev_sp|A2RH74|DNAA_LACLM Chromosomal replication initiator protein DnaA OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=dnaA PE=3 SV=1 >rev_sp|A2RN94|SYD_LACLM Aspartate--tRNA ligase OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=aspS PE=3 SV=1 >rev_sp|Q9AEP7|CH60_LACLM Chaperonin GroEL OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=groEL PE=3 SV=1 >rev_tr|A2RHZ7|A2RHZ7_LACLM Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=nrdG PE=3 SV=1 >rev_tr|A2RIW9|A2RIW9_LACLM ATP-dependent Clp protease ATP-binding subunit OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=clpC PE=3 SV=1 >rev_tr|A2RJS4|A2RJS4_LACLM Putative lysophospholipase OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_0935 PE=4 SV=1 >rev_tr|A2RKN8|A2RKN8_LACLM DUF2273 domain-containing protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_1259 PE=4 SV=1 >rev_tr|A2RLL9|A2RLL9_LACLM Carbohydrate-binding protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_1614 PE=4 SV=1 >rev_tr|A2RMH9|A2RMH9_LACLM Glutamine ABC transporter ATP-binding protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=glnQ PE=4 SV=1 >rev_tr|A2RND3|A2RND3_LACLM Phage protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=ps513 PE=4 SV=1 >rev_tr|Q9AQE3|Q9AQE3_LACLM RrD OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=rrD PE=4 SV=1 >sp|A2RN83|HSLO_LACLM 33 kDa chaperonin OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=hslO PE=3 SV=1 >sp|Q92764|KRT35_HUMAN Keratin, type I cuticular Ha5 OS=Homo sapiens OX=9606 GN=KRT35 PE=1 SV=5 >tr|A2RHZ6|A2RHZ6_LACLM Anaerobic ribonucleoside-triphosphate reductase OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_0281 PE=4 SV=1 >tr|A2RIW8|A2RIW8_LACLM Transcriptional regulator CtsR OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=ctsR PE=3 SV=1 >tr|A2RJS2|A2RJS2_LACLM RNA-binding protein KhpA OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=khpA PE=3 SV=1 >tr|A2RKN7|A2RKN7_LACLM Alkaline shock response membrane anchor protein AmaP OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_1258 PE=4 SV=1 >tr|A2RLL8|A2RLL8_LACLM Putative secreted protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=llmg_1613 PE=4 SV=1 >tr|A2RMH8|A2RMH8_LACLM Glutamine ABC transporter permease and substrate binding protein OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=glnP PE=3 SV=1 >tr|A2RND2|A2RND2_LACLM Hypothetical phage protein predicted by Glimmer/Critica OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=ps514 PE=4 SV=1 >tr|Q7BPI7|Q7BPI7_LACLM Sensor histidine kinase OS=Lactococcus lactis subsp. cremoris (strain MG1363) OX=416870 GN=kinD PE=4 SV=1 ~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~ fragpipe.config ~~~~~~~~~ # FragPipe v19.1ui state cache # Please edit the following path to point to the correct location. # In Windows, please replace single '\' with '\\' database.db-path=D\:\\JAM\\Sylvain_fragpipe\\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas crystalc.run-crystalc=false database.decoy-tag=rev_ diann.fragpipe.cmd-opts= diann.library= diann.q-value=0.01 diann.quantification-strategy=3 diann.run-dia-nn=false diann.run-specific-protein-q-value=false diann.unrelated-runs=false diann.use-predicted-spectra=true diaumpire.AdjustFragIntensity=true diaumpire.BoostComplementaryIon=false diaumpire.CorrThreshold=0 diaumpire.DeltaApex=0.2 diaumpire.ExportPrecursorPeak=false diaumpire.Q1=true diaumpire.Q2=true diaumpire.Q3=true diaumpire.RFmax=500 diaumpire.RPmax=25 diaumpire.RTOverlap=0.3 diaumpire.SE.EstimateBG=false diaumpire.SE.IsoPattern=0.3 diaumpire.SE.MS1PPM=10 diaumpire.SE.MS2PPM=20 diaumpire.SE.MS2SN=1.1 diaumpire.SE.MassDefectFilter=true diaumpire.SE.MassDefectOffset=0.1 diaumpire.SE.NoMissedScan=1 diaumpire.SE.SN=1.1 diaumpire.run-diaumpire=false fragpipe-config.bin-ionquant=D\:\\JAM\\fragpipe\\tools\\IonQuant-1.8.10.jar fragpipe-config.bin-msfragger=D\:\\JAM\\fragpipe\\tools\\MSFragger-3.7\\MSFragger-3.7.jar fragpipe-config.bin-philosopher=D\:\\JAM\\fragpipe\\tools\\philosopher_v4.8.1_windows_amd64\\philosopher.exe fragpipe-config.bin-python= freequant.mz-tol=10 freequant.rt-tol=0.4 freequant.run-freequant=false ionquant.excludemods= ionquant.heavy= ionquant.imtol=0.05 ionquant.ionfdr=0.01 ionquant.light= ionquant.locprob=0.75 ionquant.maxlfq=1 ionquant.mbr=1 ionquant.mbrimtol=0.05 ionquant.mbrmincorr=0 ionquant.mbrrttol=1 ionquant.mbrtoprun=10 ionquant.medium= ionquant.minfreq=0 ionquant.minions=1 ionquant.minisotopes=2 ionquant.minscans=3 ionquant.mztol=10 ionquant.normalization=1 ionquant.peptidefdr=1 ionquant.proteinfdr=1 ionquant.requantify=1 ionquant.rttol=0.4 ionquant.run-ionquant=true ionquant.tp=0 ionquant.uniqueness=0 ionquant.use-labeling=false ionquant.use-lfq=true ionquant.writeindex=0 msbooster.predict-rt=true msbooster.predict-spectra=true msbooster.run-msbooster=true msbooster.use-correlated-features=false msfragger.Y_type_masses= msfragger.activation_types=all msfragger.add_topN_complementary=0 msfragger.allowed_missed_cleavage_1=2 msfragger.allowed_missed_cleavage_2=2 msfragger.calibrate_mass=2 msfragger.check_spectral_files=true msfragger.clip_nTerm_M=true msfragger.deisotope=1 msfragger.delta_mass_exclude_ranges=(-1.5,3.5) msfragger.deneutralloss=1 msfragger.diagnostic_fragments= msfragger.diagnostic_intensity_filter=0 msfragger.digest_max_length=50 msfragger.digest_min_length=7 msfragger.fragment_ion_series=b,y msfragger.fragment_mass_tolerance=20 msfragger.fragment_mass_units=1 msfragger.intensity_transform=0 msfragger.ion_series_definitions= msfragger.isotope_error=0/1/2 msfragger.labile_search_mode=off msfragger.localize_delta_mass=false msfragger.mass_diff_to_variable_mod=0 msfragger.mass_offsets=0 msfragger.max_fragment_charge=2 msfragger.max_variable_mods_combinations=5000 msfragger.max_variable_mods_per_peptide=3 msfragger.min_fragments_modelling=2 msfragger.min_matched_fragments=4 msfragger.min_sequence_matches=2 msfragger.minimum_peaks=15 msfragger.minimum_ratio=0.01 msfragger.misc.fragger.clear-mz-hi=0 msfragger.misc.fragger.clear-mz-lo=0 msfragger.misc.fragger.digest-mass-hi=5000 msfragger.misc.fragger.digest-mass-lo=500 msfragger.misc.fragger.enzyme-dropdown-1=stricttrypsin msfragger.misc.fragger.enzyme-dropdown-2=null msfragger.misc.fragger.precursor-charge-hi=4 msfragger.misc.fragger.precursor-charge-lo=1 msfragger.misc.fragger.remove-precursor-range-hi=1.5 msfragger.misc.fragger.remove-precursor-range-lo=-1.5 msfragger.misc.slice-db=1 msfragger.num_enzyme_termini=2 msfragger.output_format=pepXML_pin msfragger.output_max_expect=50 msfragger.output_report_topN=1 msfragger.override_charge=false msfragger.precursor_mass_lower=-20 msfragger.precursor_mass_mode=selected msfragger.precursor_mass_units=1 msfragger.precursor_mass_upper=20 msfragger.precursor_true_tolerance=20 msfragger.precursor_true_units=1 msfragger.remainder_fragment_masses= msfragger.remove_precursor_peak=1 msfragger.report_alternative_proteins=true msfragger.restrict_deltamass_to=all msfragger.run-msfragger=true msfragger.search_enzyme_cut_1=KR msfragger.search_enzyme_cut_2= msfragger.search_enzyme_name_1=stricttrypsin msfragger.search_enzyme_name_2=null msfragger.search_enzyme_nocut_1= msfragger.search_enzyme_nocut_2= msfragger.search_enzyme_sense_1=C msfragger.search_enzyme_sense_2=C msfragger.table.fix-mods=0.0,C-Term Peptide,true,-1; 0.0,N-Term Peptide,true,-1; 0.0,C-Term Protein,true,-1; 0.0,N-Term Protein,true,-1; 0.0,G (glycine),true,-1; 0.0,A (alanine),true,-1; 0.0,S (serine),true,-1; 0.0,P (proline),true,-1; 0.0,V (valine),true,-1; 0.0,T (threonine),true,-1; 57.02146,C (cysteine),true,-1; 0.0,L (leucine),true,-1; 0.0,I (isoleucine),true,-1; 0.0,N (asparagine),true,-1; 0.0,D (aspartic acid),true,-1; 0.0,Q (glutamine),true,-1; 0.0,K (lysine),true,-1; 0.0,E (glutamic acid),true,-1; 0.0,M (methionine),true,-1; 0.0,H (histidine),true,-1; 0.0,F (phenylalanine),true,-1; 0.0,R (arginine),true,-1; 0.0,Y (tyrosine),true,-1; 0.0,W (tryptophan),true,-1; 0.0,B ,true,-1; 0.0,J,true,-1; 0.0,O,true,-1; 0.0,U,true,-1; 0.0,X,true,-1; 0.0,Z,true,-1 msfragger.table.var-mods=15.9949,M,true,3; 42.0106,[^,true,1; 79.96633,STY,false,3; -17.0265,nQnC,false,1; -18.0106,nE,false,1; 4.025107,K,false,2; 6.020129,R,false,2; 8.014199,K,false,2; 10.008269,R,false,2; 0.0,site_10,false,1; 0.0,site_11,false,1; 0.0,site_12,false,1; 0.0,site_13,false,1; 0.0,site_14,false,1; 0.0,site_15,false,1; 0.0,site_16,false,1 msfragger.track_zero_topN=0 msfragger.use_all_mods_in_first_search=false msfragger.use_topN_peaks=150 msfragger.write_calibrated_mgf=false msfragger.write_calibrated_mzml=false msfragger.write_uncalibrated_mgf=false msfragger.zero_bin_accept_expect=0 msfragger.zero_bin_mult_expect=1 opair.activation1=HCD opair.activation2=ETD opair.glyco_db= opair.max_glycans=4 opair.max_isotope_error=2 opair.min_isotope_error=0 opair.ms1_tol=20 opair.ms2_tol=20 opair.reverse_scan_order=false opair.run-opair=false opair.single_scan_type=false peptide-prophet.cmd-opts=--decoyprobs --ppm --accmass --nonparam --expectscore peptide-prophet.combine-pepxml=false peptide-prophet.run-peptide-prophet=false percolator.cmd-opts=--only-psms --no-terminate --post-processing-tdc percolator.keep-tsv-files=false percolator.min-prob=0.5 percolator.run-percolator=true phi-report.dont-use-prot-proph-file=false phi-report.filter=--sequential --prot 0.01 phi-report.pep-level-summary=false phi-report.philosoher-msstats=false phi-report.print-decoys=false phi-report.prot-level-summary=false phi-report.remove-contaminants=false phi-report.run-report=true protein-prophet.cmd-opts=--maxppmdiff 2000000 protein-prophet.run-protein-prophet=true ptmprophet.cmdline=KEEPOLD STATIC EM\=1 NIONS\=b STY\:79.966331,M\:15.9949 MINPROB\=0.5 ptmprophet.run-ptmprophet=false ptmshepherd.adv_params=false ptmshepherd.annotation-common=false ptmshepherd.annotation-custom=false ptmshepherd.annotation-glyco=false ptmshepherd.annotation-unimod=true ptmshepherd.annotation_file= ptmshepherd.annotation_tol=0.01 ptmshepherd.cap_y_ions= ptmshepherd.decoy_type=1 ptmshepherd.diag_ions= ptmshepherd.diagextract_mode=false ptmshepherd.diagmine_diagMinFoldChange=3.0 ptmshepherd.diagmine_diagMinSpecDiff=00.2 ptmshepherd.diagmine_fragMinFoldChange=3.0 ptmshepherd.diagmine_fragMinPropensity=00.1 ptmshepherd.diagmine_fragMinSpecDiff=00.1 ptmshepherd.diagmine_minIons=25 ptmshepherd.diagmine_minIonsPerSpec=2 ptmshepherd.diagmine_minPeps=25 ptmshepherd.diagmine_mode=false ptmshepherd.diagmine_pepMinFoldChange=3.0 ptmshepherd.diagmine_pepMinSpecDiff=00.2 ptmshepherd.glyco_adducts= ptmshepherd.glyco_fdr=1.00 ptmshepherd.glyco_isotope_max=3 ptmshepherd.glyco_isotope_min=-1 ptmshepherd.glyco_mode=false ptmshepherd.glyco_ppm_tol=50 ptmshepherd.glycodatabase= ptmshepherd.histo_smoothbins=2 ptmshepherd.iontype_a=false ptmshepherd.iontype_b=true ptmshepherd.iontype_c=false ptmshepherd.iontype_x=false ptmshepherd.iontype_y=true ptmshepherd.iontype_z=false ptmshepherd.localization_allowed_res= ptmshepherd.localization_background=4 ptmshepherd.max_adducts=0 ptmshepherd.n_glyco=true ptmshepherd.normalization-psms=true ptmshepherd.normalization-scans=false ptmshepherd.output_extended=false ptmshepherd.peakpicking_mass_units=0 ptmshepherd.peakpicking_minPsm=10 ptmshepherd.peakpicking_promRatio=0.3 ptmshepherd.peakpicking_width=0.002 ptmshepherd.precursor_mass_units=0 ptmshepherd.precursor_tol=0.01 ptmshepherd.print_decoys=false ptmshepherd.prob_dhexOx=2,0.5,0.1 ptmshepherd.prob_dhexY=2,0.5 ptmshepherd.prob_neuacOx=2,0.05,0.2 ptmshepherd.prob_neugcOx=2,0.05,0.2 ptmshepherd.prob_phosphoOx=2,0.05,0.2 ptmshepherd.prob_regY=5,0.5 ptmshepherd.prob_sulfoOx=2,0.05,0.2 ptmshepherd.remainder_masses= ptmshepherd.remove_glycan_delta_mass=true ptmshepherd.run-shepherd=false ptmshepherd.spectra_maxfragcharge=2 ptmshepherd.spectra_ppmtol=20 ptmshepherd.varmod_masses= quantitation.run-label-free-quant=true run-psm-validation=true run-validation-tab=true saintexpress.fragpipe.cmd-opts= saintexpress.max-replicates=10 saintexpress.run-saint-express=false saintexpress.virtual-controls=100 speclibgen.easypqp.extras.max_delta_ppm=15 speclibgen.easypqp.extras.max_delta_unimod=0.02 speclibgen.easypqp.extras.rt_lowess_fraction=0 speclibgen.easypqp.fragment.a=false speclibgen.easypqp.fragment.b=true speclibgen.easypqp.fragment.c=false speclibgen.easypqp.fragment.x=false speclibgen.easypqp.fragment.y=true speclibgen.easypqp.fragment.z=false speclibgen.easypqp.im-cal=Automatic selection of a run as reference IM speclibgen.easypqp.neutral_loss=false speclibgen.easypqp.rt-cal=noiRT speclibgen.easypqp.select-file.text= speclibgen.easypqp.select-im-file.text= speclibgen.keep-intermediate-files=false speclibgen.run-speclibgen=false tab-run.delete_calibrated_mzml=false tab-run.delete_temp_files=false tmtintegrator.add_Ref=-1 tmtintegrator.aggregation_method=0 tmtintegrator.allow_overlabel=true tmtintegrator.allow_unlabeled=true tmtintegrator.best_psm=true tmtintegrator.channel_num=TMT-6 tmtintegrator.dont-run-fq-lq=false tmtintegrator.glyco_qval=-1 tmtintegrator.groupby=0 tmtintegrator.log2transformed=true tmtintegrator.max_pep_prob_thres=0 tmtintegrator.min_ntt=0 tmtintegrator.min_pep_prob=0.9 tmtintegrator.min_percent=0.05 tmtintegrator.min_purity=0.5 tmtintegrator.min_site_prob=-1 tmtintegrator.mod_tag=none tmtintegrator.ms1_int=true tmtintegrator.outlier_removal=true tmtintegrator.print_RefInt=false tmtintegrator.prot_exclude=none tmtintegrator.prot_norm=0 tmtintegrator.psm_norm=false tmtintegrator.quant_level=2 tmtintegrator.ref_tag=Bridge tmtintegrator.run-tmtintegrator=false tmtintegrator.tolerance=20 tmtintegrator.top3_pep=true tmtintegrator.unique_gene=0 tmtintegrator.unique_pep=false tmtintegrator.use_glycan_composition=false workdir=D\:\\JAM\\Sylvain_fragpipe\\Fragpipe_output_3 workflow.input.data-type.im-ms=false workflow.input.data-type.regular-ms=true workflow.ram=0 workflow.threads=7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CheckCentroid D:\JAM\fragpipe\jre\bin\java.exe -Xmx29G -cp "D:\JAM\fragpipe\lib\fragpipe-19.1.jar;D:\JAM\fragpipe\tools\batmass-io-1.28.9.jar" com.dmtavt.fragpipe.util.CheckCentroid D:\JAM\Sylvain\S22049-Arjun-1.raw 7 Done in 0 ms. Process 'CheckCentroid' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:24] Executing Workspace v4.8.1 INFO[08:34:24] Removing workspace WARN[08:34:24] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\19707feb-7ce6-4114-a238-da32e009a282 INFO[08:34:25] Executing Workspace v4.8.1 INFO[08:34:25] Creating workspace INFO[08:34:25] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:26] Executing Workspace v4.8.1 INFO[08:34:26] Removing workspace WARN[08:34:26] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:26] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\fbf41a1c-ed48-4ee1-8cd3-a95ec0e9117f INFO[08:34:27] Executing Workspace v4.8.1 INFO[08:34:27] Creating workspace INFO[08:34:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:28] Executing Workspace v4.8.1 INFO[08:34:28] Removing workspace WARN[08:34:28] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:28] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\454202d9-d73f-4665-afc6-929e1eb7da91 INFO[08:34:29] Executing Workspace v4.8.1 INFO[08:34:29] Creating workspace INFO[08:34:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:30] Executing Workspace v4.8.1 INFO[08:34:30] Removing workspace WARN[08:34:30] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\615c5b0f-fcec-417a-8ec5-7bd6c094bea2 INFO[08:34:31] Executing Workspace v4.8.1 INFO[08:34:31] Creating workspace INFO[08:34:31] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:31] Executing Workspace v4.8.1 INFO[08:34:32] Removing workspace WARN[08:34:32] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\292c3570-d8b9-4537-83ca-d040fb8dba3c INFO[08:34:32] Executing Workspace v4.8.1 INFO[08:34:32] Creating workspace INFO[08:34:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:33] Executing Workspace v4.8.1 INFO[08:34:33] Removing workspace WARN[08:34:33] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:33] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0ce6022f-dd24-4f9b-8552-826f761da624 INFO[08:34:34] Executing Workspace v4.8.1 INFO[08:34:34] Creating workspace INFO[08:34:34] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:35] Executing Workspace v4.8.1 INFO[08:34:35] Removing workspace WARN[08:34:35] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\98fc1c75-603b-470a-b89c-ef6f7705df4d INFO[08:34:36] Executing Workspace v4.8.1 INFO[08:34:36] Creating workspace INFO[08:34:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:37] Executing Workspace v4.8.1 INFO[08:34:37] Removing workspace WARN[08:34:37] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:37] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b1ee3291-b17c-4922-9642-e572fd007126 INFO[08:34:38] Executing Workspace v4.8.1 INFO[08:34:38] Creating workspace INFO[08:34:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:39] Executing Workspace v4.8.1 INFO[08:34:39] Removing workspace WARN[08:34:39] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:39] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9d02f5b4-6c8c-421a-9ee5-21e06b60a4ab INFO[08:34:40] Executing Workspace v4.8.1 INFO[08:34:40] Creating workspace INFO[08:34:40] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:41] Executing Workspace v4.8.1 INFO[08:34:41] Removing workspace WARN[08:34:41] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:41] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f5b3cd9e-206a-489b-aa50-4c11e362bfa6 INFO[08:34:42] Executing Workspace v4.8.1 INFO[08:34:42] Creating workspace INFO[08:34:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:42] Executing Workspace v4.8.1 INFO[08:34:42] Removing workspace WARN[08:34:42] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9f5c5f64-de50-43d5-844c-210a35c765ed INFO[08:34:43] Executing Workspace v4.8.1 INFO[08:34:43] Creating workspace INFO[08:34:43] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:44] Executing Workspace v4.8.1 INFO[08:34:44] Removing workspace WARN[08:34:44] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:44] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8b70b83f-f8dc-4424-a965-693f45bdb071 INFO[08:34:45] Executing Workspace v4.8.1 INFO[08:34:45] Creating workspace INFO[08:34:45] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:46] Executing Workspace v4.8.1 INFO[08:34:46] Removing workspace WARN[08:34:46] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:46] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b9917fee-d36d-470e-b94a-57a0282b8462 INFO[08:34:47] Executing Workspace v4.8.1 INFO[08:34:47] Creating workspace INFO[08:34:47] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:47] Executing Workspace v4.8.1 INFO[08:34:47] Removing workspace WARN[08:34:47] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:47] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cb61f992-967b-4d4f-af9a-7d89bb3ee8ea INFO[08:34:48] Executing Workspace v4.8.1 INFO[08:34:48] Creating workspace INFO[08:34:48] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:49] Executing Workspace v4.8.1 INFO[08:34:49] Removing workspace WARN[08:34:49] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:49] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b2abd91d-0e36-4e19-a1a5-58ac18178a0a INFO[08:34:50] Executing Workspace v4.8.1 INFO[08:34:50] Creating workspace INFO[08:34:50] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:51] Executing Workspace v4.8.1 INFO[08:34:51] Removing workspace WARN[08:34:51] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:51] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1dfd7cd0-2c61-4d6a-a05d-4564fe8ba3e3 INFO[08:34:52] Executing Workspace v4.8.1 INFO[08:34:52] Creating workspace INFO[08:34:52] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:53] Executing Workspace v4.8.1 INFO[08:34:53] Removing workspace WARN[08:34:53] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:53] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e0f9e604-f6a2-44b4-b634-4136132592bf INFO[08:34:54] Executing Workspace v4.8.1 INFO[08:34:54] Creating workspace INFO[08:34:54] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:55] Executing Workspace v4.8.1 INFO[08:34:55] Removing workspace WARN[08:34:55] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:55] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7ff1cb1b-adde-4493-9c3f-8d841eb72172 INFO[08:34:56] Executing Workspace v4.8.1 INFO[08:34:56] Creating workspace INFO[08:34:56] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:57] Executing Workspace v4.8.1 INFO[08:34:57] Removing workspace WARN[08:34:57] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:57] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c60d86e7-c5ab-412c-9cbb-30e74952560b INFO[08:34:58] Executing Workspace v4.8.1 INFO[08:34:58] Creating workspace INFO[08:34:58] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:34:59] Executing Workspace v4.8.1 INFO[08:34:59] Removing workspace WARN[08:34:59] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:34:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\736d7c32-9fe7-480e-b4da-b7ab1b0dab7e INFO[08:35:00] Executing Workspace v4.8.1 INFO[08:35:00] Creating workspace INFO[08:35:00] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:01] Executing Workspace v4.8.1 INFO[08:35:01] Removing workspace WARN[08:35:01] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:01] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\21a69494-5d06-4eaa-9514-5860b44838d0 INFO[08:35:01] Executing Workspace v4.8.1 INFO[08:35:01] Creating workspace INFO[08:35:01] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:02] Executing Workspace v4.8.1 INFO[08:35:02] Removing workspace WARN[08:35:02] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:02] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0d61f8f6-99e6-4529-800b-16c252b18900 INFO[08:35:03] Executing Workspace v4.8.1 INFO[08:35:03] Creating workspace INFO[08:35:03] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:04] Executing Workspace v4.8.1 INFO[08:35:04] Removing workspace WARN[08:35:04] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:04] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\65a1fe04-3b86-4bc7-952e-4fabfd0be1a9 INFO[08:35:05] Executing Workspace v4.8.1 INFO[08:35:05] Creating workspace INFO[08:35:05] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:06] Executing Workspace v4.8.1 INFO[08:35:06] Removing workspace WARN[08:35:06] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:06] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9df6d36a-92b1-4c5b-b87e-6945b813955c INFO[08:35:07] Executing Workspace v4.8.1 INFO[08:35:07] Creating workspace INFO[08:35:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:07] Executing Workspace v4.8.1 INFO[08:35:07] Removing workspace WARN[08:35:07] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1e6b91a1-c031-4f4d-84a9-5518bca0bb68 INFO[08:35:08] Executing Workspace v4.8.1 INFO[08:35:08] Creating workspace INFO[08:35:08] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:09] Executing Workspace v4.8.1 INFO[08:35:09] Removing workspace WARN[08:35:09] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:09] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2b138415-3d4d-4e6a-893c-19641e89cd37 INFO[08:35:10] Executing Workspace v4.8.1 INFO[08:35:10] Creating workspace INFO[08:35:10] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:11] Executing Workspace v4.8.1 INFO[08:35:11] Removing workspace WARN[08:35:11] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:11] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1b57debd-6c4b-46c4-8798-63c986021cfd INFO[08:35:12] Executing Workspace v4.8.1 INFO[08:35:12] Creating workspace INFO[08:35:12] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:13] Executing Workspace v4.8.1 INFO[08:35:13] Removing workspace WARN[08:35:13] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:13] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\85c7f6a8-88b8-4ce8-9b60-748ad32bbaed INFO[08:35:14] Executing Workspace v4.8.1 INFO[08:35:14] Creating workspace INFO[08:35:14] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:15] Executing Workspace v4.8.1 INFO[08:35:15] Removing workspace WARN[08:35:15] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:15] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\16471849-7a46-4cd4-8551-0b91ccb3e62e INFO[08:35:15] Executing Workspace v4.8.1 INFO[08:35:15] Creating workspace INFO[08:35:15] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:16] Executing Workspace v4.8.1 INFO[08:35:16] Removing workspace WARN[08:35:16] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:16] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6937c70e-6caf-4656-b2cc-98d35c6d71ca INFO[08:35:17] Executing Workspace v4.8.1 INFO[08:35:17] Creating workspace INFO[08:35:17] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:18] Executing Workspace v4.8.1 INFO[08:35:18] Removing workspace WARN[08:35:18] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:18] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3d2427ec-17d7-43ff-8684-69efff202bb4 INFO[08:35:18] Executing Workspace v4.8.1 INFO[08:35:18] Creating workspace INFO[08:35:18] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:19] Executing Workspace v4.8.1 INFO[08:35:19] Removing workspace WARN[08:35:19] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cfd8e8ce-907e-4ef9-bb43-f31a06280c31 INFO[08:35:20] Executing Workspace v4.8.1 INFO[08:35:20] Creating workspace INFO[08:35:20] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:21] Executing Workspace v4.8.1 INFO[08:35:21] Removing workspace WARN[08:35:21] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:21] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\29237612-5b13-4eb1-bba5-3d1efe5c35f0 INFO[08:35:22] Executing Workspace v4.8.1 INFO[08:35:22] Creating workspace INFO[08:35:22] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:23] Executing Workspace v4.8.1 INFO[08:35:23] Removing workspace WARN[08:35:23] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:23] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\89e7b657-1700-4a7b-87c6-148436a8957d INFO[08:35:24] Executing Workspace v4.8.1 INFO[08:35:24] Creating workspace INFO[08:35:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:24] Executing Workspace v4.8.1 INFO[08:35:24] Removing workspace WARN[08:35:24] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\44edd1ad-b361-48bd-b82b-5af1cb8c3f24 INFO[08:35:25] Executing Workspace v4.8.1 INFO[08:35:25] Creating workspace INFO[08:35:25] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:26] Executing Workspace v4.8.1 INFO[08:35:26] Removing workspace WARN[08:35:26] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:26] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\57cb1bdc-b536-46e7-aab6-4ed5d67f6236 INFO[08:35:27] Executing Workspace v4.8.1 INFO[08:35:27] Creating workspace INFO[08:35:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:28] Executing Workspace v4.8.1 INFO[08:35:28] Removing workspace WARN[08:35:28] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:28] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1aaf8433-fb7b-4af9-99b0-2ef3fd6b3f61 INFO[08:35:29] Executing Workspace v4.8.1 INFO[08:35:29] Creating workspace INFO[08:35:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:29] Executing Workspace v4.8.1 INFO[08:35:29] Removing workspace WARN[08:35:29] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e93792ac-1cb5-4c38-8c94-c73bf45b857e INFO[08:35:30] Executing Workspace v4.8.1 INFO[08:35:30] Creating workspace INFO[08:35:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:31] Executing Workspace v4.8.1 INFO[08:35:31] Removing workspace WARN[08:35:31] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:31] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\33af0a91-9779-4b8a-a7e4-c65308b85949 INFO[08:35:32] Executing Workspace v4.8.1 INFO[08:35:32] Creating workspace INFO[08:35:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:33] Executing Workspace v4.8.1 INFO[08:35:33] Removing workspace WARN[08:35:33] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:33] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e6e84546-2662-469f-8685-67b91aadd72c INFO[08:35:34] Executing Workspace v4.8.1 INFO[08:35:34] Creating workspace INFO[08:35:34] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:35] Executing Workspace v4.8.1 INFO[08:35:35] Removing workspace WARN[08:35:35] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\98742b24-0222-4e68-a0d8-04b86ef40a73 INFO[08:35:36] Executing Workspace v4.8.1 INFO[08:35:36] Creating workspace INFO[08:35:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:36] Executing Workspace v4.8.1 INFO[08:35:36] Removing workspace WARN[08:35:36] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\475ff177-0d04-4e48-8ad1-9a5f6780901f INFO[08:35:37] Executing Workspace v4.8.1 INFO[08:35:37] Creating workspace INFO[08:35:37] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:38] Executing Workspace v4.8.1 INFO[08:35:38] Removing workspace WARN[08:35:38] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\160de8d4-42c7-4197-8cdd-bade5bf6ba58 INFO[08:35:39] Executing Workspace v4.8.1 INFO[08:35:39] Creating workspace INFO[08:35:39] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:40] Executing Workspace v4.8.1 INFO[08:35:40] Removing workspace WARN[08:35:40] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:40] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f1890dbb-4817-4cad-90e6-63be6facd416 INFO[08:35:41] Executing Workspace v4.8.1 INFO[08:35:41] Creating workspace INFO[08:35:41] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:42] Executing Workspace v4.8.1 INFO[08:35:42] Removing workspace WARN[08:35:42] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\266f6490-cd3b-4e2b-8ee5-82713eaf45b5 INFO[08:35:43] Executing Workspace v4.8.1 INFO[08:35:43] Creating workspace INFO[08:35:43] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:44] Executing Workspace v4.8.1 INFO[08:35:44] Removing workspace WARN[08:35:44] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:44] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\35006b67-4340-42fa-9648-f561e063ab9e INFO[08:35:44] Executing Workspace v4.8.1 INFO[08:35:45] Creating workspace INFO[08:35:45] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:45] Executing Workspace v4.8.1 INFO[08:35:45] Removing workspace WARN[08:35:45] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:45] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7dc7937f-d40b-4fcf-bf58-bce9ca6890d2 INFO[08:35:46] Executing Workspace v4.8.1 INFO[08:35:46] Creating workspace INFO[08:35:46] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:47] Executing Workspace v4.8.1 INFO[08:35:47] Removing workspace WARN[08:35:47] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:47] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\990aab30-e0f7-4a62-9cc5-8a1b9290dc27 INFO[08:35:48] Executing Workspace v4.8.1 INFO[08:35:48] Creating workspace INFO[08:35:48] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:49] Executing Workspace v4.8.1 INFO[08:35:49] Removing workspace WARN[08:35:49] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:49] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\941488b7-bd53-4143-883e-5bf7f130d665 INFO[08:35:50] Executing Workspace v4.8.1 INFO[08:35:50] Creating workspace INFO[08:35:50] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:51] Executing Workspace v4.8.1 INFO[08:35:51] Removing workspace WARN[08:35:51] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:51] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8d58c9dd-682a-4e1a-95f9-0e4fb4b47950 INFO[08:35:52] Executing Workspace v4.8.1 INFO[08:35:52] Creating workspace INFO[08:35:52] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:53] Executing Workspace v4.8.1 INFO[08:35:53] Removing workspace WARN[08:35:53] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:53] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\dba380cd-bd85-4adf-9f2b-1f4ebfeba21e INFO[08:35:54] Executing Workspace v4.8.1 INFO[08:35:54] Creating workspace INFO[08:35:54] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:55] Executing Workspace v4.8.1 INFO[08:35:55] Removing workspace WARN[08:35:55] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:55] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\51e31516-8c97-4540-bba7-04b3bbce97af INFO[08:35:56] Executing Workspace v4.8.1 INFO[08:35:56] Creating workspace INFO[08:35:56] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:57] Executing Workspace v4.8.1 INFO[08:35:57] Removing workspace WARN[08:35:57] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:57] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f753232d-6b94-4097-8154-63ffae22dbaf INFO[08:35:58] Executing Workspace v4.8.1 INFO[08:35:58] Creating workspace INFO[08:35:58] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:35:58] Executing Workspace v4.8.1 INFO[08:35:58] Removing workspace WARN[08:35:58] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:35:58] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a9c4dd51-808b-439d-8f96-a292e8635f5c INFO[08:35:59] Executing Workspace v4.8.1 INFO[08:35:59] Creating workspace INFO[08:35:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:00] Executing Workspace v4.8.1 INFO[08:36:00] Removing workspace WARN[08:36:00] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:00] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e3303df6-217b-48ed-ae0c-cea775704938 INFO[08:36:01] Executing Workspace v4.8.1 INFO[08:36:01] Creating workspace INFO[08:36:01] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:02] Executing Workspace v4.8.1 INFO[08:36:02] Removing workspace WARN[08:36:02] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:02] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e30ba8f2-b8b4-444f-bc2b-6fde5997d67d INFO[08:36:03] Executing Workspace v4.8.1 INFO[08:36:03] Creating workspace INFO[08:36:03] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:04] Executing Workspace v4.8.1 INFO[08:36:04] Removing workspace WARN[08:36:04] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:04] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a73f9037-4701-44b7-8c93-d97a63add80e INFO[08:36:05] Executing Workspace v4.8.1 INFO[08:36:05] Creating workspace INFO[08:36:05] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:06] Executing Workspace v4.8.1 INFO[08:36:06] Removing workspace WARN[08:36:06] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:06] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a07b7edf-5957-4a7f-8db2-c73455933603 INFO[08:36:06] Executing Workspace v4.8.1 INFO[08:36:06] Creating workspace INFO[08:36:06] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:07] Executing Workspace v4.8.1 INFO[08:36:07] Removing workspace WARN[08:36:07] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1dbfea6e-38a2-45f1-88aa-75f79bb8c411 INFO[08:36:08] Executing Workspace v4.8.1 INFO[08:36:08] Creating workspace INFO[08:36:08] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:09] Executing Workspace v4.8.1 INFO[08:36:09] Removing workspace WARN[08:36:09] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:09] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7774be73-4038-469d-b8af-7ad7b4aea027 INFO[08:36:10] Executing Workspace v4.8.1 INFO[08:36:10] Creating workspace INFO[08:36:10] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:11] Executing Workspace v4.8.1 INFO[08:36:11] Removing workspace WARN[08:36:11] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:11] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b8af1eb1-5a15-43e6-93fd-98fdfa45237c INFO[08:36:12] Executing Workspace v4.8.1 INFO[08:36:12] Creating workspace INFO[08:36:12] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:13] Executing Workspace v4.8.1 INFO[08:36:13] Removing workspace WARN[08:36:13] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:13] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b11a327e-e3da-47bf-bb36-d26f6de11bd2 INFO[08:36:13] Executing Workspace v4.8.1 INFO[08:36:13] Creating workspace INFO[08:36:13] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:14] Executing Workspace v4.8.1 INFO[08:36:14] Removing workspace WARN[08:36:14] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:14] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\179d068c-6d12-435f-80c4-c074ffd226bd INFO[08:36:15] Executing Workspace v4.8.1 INFO[08:36:15] Creating workspace INFO[08:36:15] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:16] Executing Workspace v4.8.1 INFO[08:36:16] Removing workspace WARN[08:36:16] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:16] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b6b2e6a6-1b3d-4b8a-a8dd-7a437b011d07 INFO[08:36:17] Executing Workspace v4.8.1 INFO[08:36:17] Creating workspace INFO[08:36:17] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:18] Executing Workspace v4.8.1 INFO[08:36:18] Removing workspace WARN[08:36:18] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:18] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2be8aba5-6ded-4eb3-ba7d-c4f065d576d3 INFO[08:36:19] Executing Workspace v4.8.1 INFO[08:36:19] Creating workspace INFO[08:36:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:20] Executing Workspace v4.8.1 INFO[08:36:20] Removing workspace WARN[08:36:20] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:20] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f995771f-4d0d-4dad-b4f8-e90d7572632b INFO[08:36:20] Executing Workspace v4.8.1 INFO[08:36:20] Creating workspace INFO[08:36:20] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:21] Executing Workspace v4.8.1 INFO[08:36:21] Removing workspace WARN[08:36:21] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:21] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\db7a143a-9467-4119-bee6-6f76a5122726 INFO[08:36:22] Executing Workspace v4.8.1 INFO[08:36:22] Creating workspace INFO[08:36:22] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:23] Executing Workspace v4.8.1 INFO[08:36:23] Removing workspace WARN[08:36:23] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:23] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\ab6f90e8-da46-47f1-9649-9c9eb80bd90d INFO[08:36:24] Executing Workspace v4.8.1 INFO[08:36:24] Creating workspace INFO[08:36:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:25] Executing Workspace v4.8.1 INFO[08:36:25] Removing workspace WARN[08:36:25] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:25] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2b8c5a77-af73-4a89-ae2a-c3095e5adfb6 INFO[08:36:26] Executing Workspace v4.8.1 INFO[08:36:26] Creating workspace INFO[08:36:26] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:27] Executing Workspace v4.8.1 INFO[08:36:27] Removing workspace WARN[08:36:27] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\30f2057c-d9fd-4497-bab4-bd819893a1e9 INFO[08:36:27] Executing Workspace v4.8.1 INFO[08:36:27] Creating workspace INFO[08:36:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:28] Executing Workspace v4.8.1 INFO[08:36:28] Removing workspace WARN[08:36:28] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:28] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3ce6342c-94d2-43dc-8451-1e68c4257175 INFO[08:36:29] Executing Workspace v4.8.1 INFO[08:36:29] Creating workspace INFO[08:36:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:30] Executing Workspace v4.8.1 INFO[08:36:30] Removing workspace WARN[08:36:30] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3b426ff7-73d7-4dce-8e01-342df30f1336 INFO[08:36:31] Executing Workspace v4.8.1 INFO[08:36:31] Creating workspace INFO[08:36:31] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:32] Executing Workspace v4.8.1 INFO[08:36:32] Removing workspace WARN[08:36:32] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\705f690b-7edb-45e0-a7ca-ac5c3a8baba0 INFO[08:36:33] Executing Workspace v4.8.1 INFO[08:36:33] Creating workspace INFO[08:36:33] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:34] Executing Workspace v4.8.1 INFO[08:36:34] Removing workspace WARN[08:36:34] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:34] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\39280931-bc05-4f4a-9691-3d098a250539 INFO[08:36:35] Executing Workspace v4.8.1 INFO[08:36:35] Creating workspace INFO[08:36:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:36] Executing Workspace v4.8.1 INFO[08:36:36] Removing workspace WARN[08:36:36] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\356d392e-8918-4ee7-81c4-7623dab9a05c INFO[08:36:37] Executing Workspace v4.8.1 INFO[08:36:37] Creating workspace INFO[08:36:37] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:38] Executing Workspace v4.8.1 INFO[08:36:38] Removing workspace WARN[08:36:38] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3e329f14-27bf-40d4-83cc-83c627af495b INFO[08:36:38] Executing Workspace v4.8.1 INFO[08:36:38] Creating workspace INFO[08:36:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:39] Executing Workspace v4.8.1 INFO[08:36:39] Removing workspace WARN[08:36:39] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:39] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\3e768c56-ffa7-4c16-a004-5dd3373dc0ff INFO[08:36:40] Executing Workspace v4.8.1 INFO[08:36:40] Creating workspace INFO[08:36:40] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:41] Executing Workspace v4.8.1 INFO[08:36:41] Removing workspace WARN[08:36:41] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:41] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\fa6dbb6b-56f4-4546-a71c-afd37e93bd42 INFO[08:36:42] Executing Workspace v4.8.1 INFO[08:36:42] Creating workspace INFO[08:36:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:42] Executing Workspace v4.8.1 INFO[08:36:42] Removing workspace WARN[08:36:42] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1b3ef401-e662-4d2d-8dcf-3dec395d1e3f INFO[08:36:43] Executing Workspace v4.8.1 INFO[08:36:43] Creating workspace INFO[08:36:43] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:44] Executing Workspace v4.8.1 INFO[08:36:44] Removing workspace WARN[08:36:44] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:44] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1a84fbdb-8c33-47be-9483-7aaf1d55ecc3 INFO[08:36:45] Executing Workspace v4.8.1 INFO[08:36:45] Creating workspace INFO[08:36:45] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:46] Executing Workspace v4.8.1 INFO[08:36:46] Removing workspace WARN[08:36:46] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:46] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2ed52f15-ee08-4ac5-acbf-f6569a1974ab INFO[08:36:47] Executing Workspace v4.8.1 INFO[08:36:47] Creating workspace INFO[08:36:47] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:48] Executing Workspace v4.8.1 INFO[08:36:48] Removing workspace WARN[08:36:48] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:48] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7ee56650-2bca-42bf-8f7c-5b7741cf8337 INFO[08:36:49] Executing Workspace v4.8.1 INFO[08:36:49] Creating workspace INFO[08:36:49] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:50] Executing Workspace v4.8.1 INFO[08:36:50] Removing workspace WARN[08:36:50] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:50] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a2f25355-173b-49e4-99f4-0ab64bdf3528 INFO[08:36:50] Executing Workspace v4.8.1 INFO[08:36:50] Creating workspace INFO[08:36:50] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:51] Executing Workspace v4.8.1 INFO[08:36:51] Removing workspace WARN[08:36:51] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:51] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\670d8c50-5caf-4f0f-bd87-41f9f79bcd44 INFO[08:36:52] Executing Workspace v4.8.1 INFO[08:36:52] Creating workspace INFO[08:36:52] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:53] Executing Workspace v4.8.1 INFO[08:36:53] Removing workspace WARN[08:36:53] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:53] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a0df5bed-2464-47cc-a40e-063ed64f17c3 INFO[08:36:54] Executing Workspace v4.8.1 INFO[08:36:54] Creating workspace INFO[08:36:54] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:55] Executing Workspace v4.8.1 INFO[08:36:55] Removing workspace WARN[08:36:55] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:55] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\bb9820f7-01f5-400d-b419-8f017684b08c INFO[08:36:56] Executing Workspace v4.8.1 INFO[08:36:56] Creating workspace INFO[08:36:56] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:57] Executing Workspace v4.8.1 INFO[08:36:57] Removing workspace WARN[08:36:57] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:57] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\062e0aa9-9294-4689-8432-a7e78d4baf9b INFO[08:36:58] Executing Workspace v4.8.1 INFO[08:36:58] Creating workspace INFO[08:36:58] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:36:59] Executing Workspace v4.8.1 INFO[08:36:59] Removing workspace WARN[08:36:59] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:36:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\da49369f-edff-4475-8db4-2b7a5355b9cb INFO[08:36:59] Executing Workspace v4.8.1 INFO[08:36:59] Creating workspace INFO[08:36:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:00] Executing Workspace v4.8.1 INFO[08:37:00] Removing workspace WARN[08:37:00] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:00] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a784605f-eb5d-4585-b099-8e1dcebcfe5f INFO[08:37:01] Executing Workspace v4.8.1 INFO[08:37:01] Creating workspace INFO[08:37:01] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:02] Executing Workspace v4.8.1 INFO[08:37:02] Removing workspace WARN[08:37:02] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:02] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e8bf6011-98dd-4dbb-9125-af0c81f18d28 INFO[08:37:03] Executing Workspace v4.8.1 INFO[08:37:03] Creating workspace INFO[08:37:03] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:04] Executing Workspace v4.8.1 INFO[08:37:04] Removing workspace WARN[08:37:04] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:04] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\06ba013b-2817-4c61-b8b7-8ce9f1a15bfc INFO[08:37:05] Executing Workspace v4.8.1 INFO[08:37:05] Creating workspace INFO[08:37:05] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:06] Executing Workspace v4.8.1 INFO[08:37:06] Removing workspace WARN[08:37:06] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:06] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\4ed0b675-7112-42fd-b56b-8270a8ab1c62 INFO[08:37:07] Executing Workspace v4.8.1 INFO[08:37:07] Creating workspace INFO[08:37:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:08] Executing Workspace v4.8.1 INFO[08:37:08] Removing workspace WARN[08:37:08] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:08] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d3941310-4813-48a0-87d5-18ebbf2b83ea INFO[08:37:09] Executing Workspace v4.8.1 INFO[08:37:09] Creating workspace INFO[08:37:09] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:10] Executing Workspace v4.8.1 INFO[08:37:10] Removing workspace WARN[08:37:10] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:10] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c155c709-9cd8-4e0d-ae80-6b7f1f11acb4 INFO[08:37:10] Executing Workspace v4.8.1 INFO[08:37:10] Creating workspace INFO[08:37:10] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:11] Executing Workspace v4.8.1 INFO[08:37:11] Removing workspace WARN[08:37:11] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:11] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8c79a841-73f0-4629-a8bf-a3fefe647416 INFO[08:37:12] Executing Workspace v4.8.1 INFO[08:37:12] Creating workspace INFO[08:37:12] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:13] Executing Workspace v4.8.1 INFO[08:37:13] Removing workspace WARN[08:37:13] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:13] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6f1a211a-ba57-431c-89f0-a3109057a49d INFO[08:37:14] Executing Workspace v4.8.1 INFO[08:37:14] Creating workspace INFO[08:37:14] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:15] Executing Workspace v4.8.1 INFO[08:37:15] Removing workspace WARN[08:37:15] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:15] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\cbebd83c-06da-4ee3-bb75-2fbe06d92ece INFO[08:37:16] Executing Workspace v4.8.1 INFO[08:37:16] Creating workspace INFO[08:37:16] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:17] Executing Workspace v4.8.1 INFO[08:37:17] Removing workspace WARN[08:37:17] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:17] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6aff37d9-7adb-48b3-ac9e-befc54d9180e INFO[08:37:18] Executing Workspace v4.8.1 INFO[08:37:18] Creating workspace INFO[08:37:18] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:19] Executing Workspace v4.8.1 INFO[08:37:19] Removing workspace WARN[08:37:19] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\083fbb54-ab79-46f4-b4ac-24daaf08f9f3 INFO[08:37:19] Executing Workspace v4.8.1 INFO[08:37:19] Creating workspace INFO[08:37:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:20] Executing Workspace v4.8.1 INFO[08:37:20] Removing workspace WARN[08:37:20] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:20] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6d785547-67f4-4b60-bed9-065bf62bc980 INFO[08:37:21] Executing Workspace v4.8.1 INFO[08:37:21] Creating workspace INFO[08:37:21] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:22] Executing Workspace v4.8.1 INFO[08:37:22] Removing workspace WARN[08:37:22] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:22] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\80d6ffb1-09a7-48a6-992d-516e633ff880 INFO[08:37:23] Executing Workspace v4.8.1 INFO[08:37:23] Creating workspace INFO[08:37:23] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:24] Executing Workspace v4.8.1 INFO[08:37:24] Removing workspace WARN[08:37:24] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6b56c885-3270-40f7-88d7-e735122aa966 INFO[08:37:25] Executing Workspace v4.8.1 INFO[08:37:25] Creating workspace INFO[08:37:25] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:26] Executing Workspace v4.8.1 INFO[08:37:26] Removing workspace WARN[08:37:26] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:26] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2fd68538-842e-459b-b5fb-b960614b168d INFO[08:37:27] Executing Workspace v4.8.1 INFO[08:37:27] Creating workspace INFO[08:37:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:28] Executing Workspace v4.8.1 INFO[08:37:28] Removing workspace WARN[08:37:28] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:28] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b35f4ecb-2b22-4ef7-bd1d-69c9d44de67b INFO[08:37:29] Executing Workspace v4.8.1 INFO[08:37:29] Creating workspace INFO[08:37:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:30] Executing Workspace v4.8.1 INFO[08:37:30] Removing workspace WARN[08:37:30] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2fb27d87-5b4a-4ed7-8357-e8f70ff9b999 INFO[08:37:30] Executing Workspace v4.8.1 INFO[08:37:30] Creating workspace INFO[08:37:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:31] Executing Workspace v4.8.1 INFO[08:37:31] Removing workspace WARN[08:37:31] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:31] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\85df6f00-eff7-4969-9e56-bf3d6e138add INFO[08:37:32] Executing Workspace v4.8.1 INFO[08:37:32] Creating workspace INFO[08:37:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:33] Executing Workspace v4.8.1 INFO[08:37:33] Removing workspace WARN[08:37:33] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:33] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\135db5df-b66e-4869-9788-eb4018a9231e INFO[08:37:34] Executing Workspace v4.8.1 INFO[08:37:34] Creating workspace INFO[08:37:34] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:35] Executing Workspace v4.8.1 INFO[08:37:35] Removing workspace WARN[08:37:35] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d785209f-d9b7-4893-9ed4-dc5f4e6fecb2 INFO[08:37:35] Executing Workspace v4.8.1 INFO[08:37:35] Creating workspace INFO[08:37:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:36] Executing Workspace v4.8.1 INFO[08:37:36] Removing workspace WARN[08:37:36] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\f39ff15c-01a1-4227-8db3-45cdade30f39 INFO[08:37:37] Executing Workspace v4.8.1 INFO[08:37:37] Creating workspace INFO[08:37:37] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:38] Executing Workspace v4.8.1 INFO[08:37:38] Removing workspace WARN[08:37:38] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\540197ff-a64e-442e-8292-324e602860f3 INFO[08:37:39] Executing Workspace v4.8.1 INFO[08:37:39] Creating workspace INFO[08:37:39] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:40] Executing Workspace v4.8.1 INFO[08:37:40] Removing workspace WARN[08:37:40] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:40] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6ffa9d44-b0b3-4a75-b6fd-59b09e82ba46 INFO[08:37:41] Executing Workspace v4.8.1 INFO[08:37:41] Creating workspace INFO[08:37:41] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:42] Executing Workspace v4.8.1 INFO[08:37:42] Removing workspace WARN[08:37:42] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:42] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\86c771b8-8394-49fd-af1a-181933690d19 INFO[08:37:43] Executing Workspace v4.8.1 INFO[08:37:43] Creating workspace INFO[08:37:43] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:44] Executing Workspace v4.8.1 INFO[08:37:44] Removing workspace WARN[08:37:44] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:44] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\26042537-177a-4b27-9291-e82a3ea1b7a6 INFO[08:37:44] Executing Workspace v4.8.1 INFO[08:37:44] Creating workspace INFO[08:37:44] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:45] Executing Workspace v4.8.1 INFO[08:37:45] Removing workspace WARN[08:37:45] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:45] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0268b5cf-288e-4675-9b83-454108e59a40 INFO[08:37:46] Executing Workspace v4.8.1 INFO[08:37:46] Creating workspace INFO[08:37:46] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:47] Executing Workspace v4.8.1 INFO[08:37:47] Removing workspace WARN[08:37:47] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:47] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b854b141-b097-49ca-b7c1-d5e2bc926816 INFO[08:37:48] Executing Workspace v4.8.1 INFO[08:37:48] Creating workspace INFO[08:37:48] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:49] Executing Workspace v4.8.1 INFO[08:37:49] Removing workspace WARN[08:37:49] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:49] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\25d08d8d-5409-41bc-92c7-3d73f39bdb36 INFO[08:37:49] Executing Workspace v4.8.1 INFO[08:37:49] Creating workspace INFO[08:37:49] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:50] Executing Workspace v4.8.1 INFO[08:37:50] Removing workspace WARN[08:37:50] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:50] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\9a9ee518-77e2-4576-b6bb-799cda942da8 INFO[08:37:51] Executing Workspace v4.8.1 INFO[08:37:51] Creating workspace INFO[08:37:51] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:52] Executing Workspace v4.8.1 INFO[08:37:52] Removing workspace WARN[08:37:52] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:52] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\79934329-73ba-4e54-810c-ec2392ab0644 INFO[08:37:53] Executing Workspace v4.8.1 INFO[08:37:53] Creating workspace INFO[08:37:53] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:54] Executing Workspace v4.8.1 INFO[08:37:54] Removing workspace WARN[08:37:54] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:54] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\844c048b-0b30-4572-9443-497e1f69579c INFO[08:37:55] Executing Workspace v4.8.1 INFO[08:37:55] Creating workspace INFO[08:37:55] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:56] Executing Workspace v4.8.1 INFO[08:37:56] Removing workspace WARN[08:37:56] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:56] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2d41cf75-0adc-47eb-9b8d-a2ef473ed870 INFO[08:37:57] Executing Workspace v4.8.1 INFO[08:37:57] Creating workspace INFO[08:37:57] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:58] Executing Workspace v4.8.1 INFO[08:37:58] Removing workspace WARN[08:37:58] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:58] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\856d7711-a261-4147-9f75-435d060508ad INFO[08:37:59] Executing Workspace v4.8.1 INFO[08:37:59] Creating workspace INFO[08:37:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:37:59] Executing Workspace v4.8.1 INFO[08:37:59] Removing workspace WARN[08:37:59] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:37:59] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6fab0a9f-7fc1-4d51-bdff-9d31b7d2222e INFO[08:38:00] Executing Workspace v4.8.1 INFO[08:38:00] Creating workspace INFO[08:38:00] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:01] Executing Workspace v4.8.1 INFO[08:38:01] Removing workspace WARN[08:38:01] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:01] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\efba1605-3a74-4c3e-afe1-eb89341c1bcb INFO[08:38:02] Executing Workspace v4.8.1 INFO[08:38:02] Creating workspace INFO[08:38:02] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:03] Executing Workspace v4.8.1 INFO[08:38:03] Removing workspace WARN[08:38:03] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:03] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c7a17af3-8093-471b-ad05-4f042f7132da INFO[08:38:04] Executing Workspace v4.8.1 INFO[08:38:04] Creating workspace INFO[08:38:04] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:05] Executing Workspace v4.8.1 INFO[08:38:05] Removing workspace WARN[08:38:05] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:05] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\c3760abb-a96e-45bc-915b-979e760d7d60 INFO[08:38:06] Executing Workspace v4.8.1 INFO[08:38:06] Creating workspace INFO[08:38:06] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:07] Executing Workspace v4.8.1 INFO[08:38:07] Removing workspace WARN[08:38:07] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\15155311-ffc1-4eca-94cc-4c455f905b33 INFO[08:38:07] Executing Workspace v4.8.1 INFO[08:38:07] Creating workspace INFO[08:38:07] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:08] Executing Workspace v4.8.1 INFO[08:38:08] Removing workspace WARN[08:38:08] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:08] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\5fabf9d0-bb6e-4ee6-8c1b-b694e82d41ed INFO[08:38:09] Executing Workspace v4.8.1 INFO[08:38:09] Creating workspace INFO[08:38:09] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:10] Executing Workspace v4.8.1 INFO[08:38:10] Removing workspace WARN[08:38:10] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:10] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8c204e58-5af9-4bd4-9d33-9c70275e849a INFO[08:38:11] Executing Workspace v4.8.1 INFO[08:38:11] Creating workspace INFO[08:38:11] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:12] Executing Workspace v4.8.1 INFO[08:38:12] Removing workspace WARN[08:38:12] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:12] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\b62466fa-6bc9-4d13-a9ac-f08ebdc6bee2 INFO[08:38:13] Executing Workspace v4.8.1 INFO[08:38:13] Creating workspace INFO[08:38:13] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:14] Executing Workspace v4.8.1 INFO[08:38:14] Removing workspace WARN[08:38:14] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:14] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\6d268522-4948-4f69-a57e-0897ab2a820a INFO[08:38:15] Executing Workspace v4.8.1 INFO[08:38:15] Creating workspace INFO[08:38:15] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:16] Executing Workspace v4.8.1 INFO[08:38:16] Removing workspace WARN[08:38:16] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:16] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\2aff2204-8d92-4181-b916-f6ffadc63079 INFO[08:38:17] Executing Workspace v4.8.1 INFO[08:38:17] Creating workspace INFO[08:38:17] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:18] Executing Workspace v4.8.1 INFO[08:38:18] Removing workspace WARN[08:38:18] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:18] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\8245cdbd-3ab1-46aa-9300-3c8a4bd0aca0 INFO[08:38:19] Executing Workspace v4.8.1 INFO[08:38:19] Creating workspace INFO[08:38:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:19] Executing Workspace v4.8.1 INFO[08:38:19] Removing workspace WARN[08:38:19] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:19] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7610a607-6962-4903-935f-2acfa6a45403 INFO[08:38:20] Executing Workspace v4.8.1 INFO[08:38:20] Creating workspace INFO[08:38:20] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:21] Executing Workspace v4.8.1 INFO[08:38:21] Removing workspace WARN[08:38:21] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:21] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\86dc95b9-8ebd-4064-9b8e-38a05d4985d5 INFO[08:38:22] Executing Workspace v4.8.1 INFO[08:38:22] Creating workspace INFO[08:38:22] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:23] Executing Workspace v4.8.1 INFO[08:38:23] Removing workspace WARN[08:38:23] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:23] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d6880594-6248-4875-9ec8-8cd7fc73d6d6 INFO[08:38:24] Executing Workspace v4.8.1 INFO[08:38:24] Creating workspace INFO[08:38:24] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:25] Executing Workspace v4.8.1 INFO[08:38:25] Removing workspace WARN[08:38:25] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:25] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7842c0f5-abc1-41fd-8753-f85481cf0ec2 INFO[08:38:26] Executing Workspace v4.8.1 INFO[08:38:26] Creating workspace INFO[08:38:26] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:27] Executing Workspace v4.8.1 INFO[08:38:27] Removing workspace WARN[08:38:27] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:27] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\e128fba8-b355-404b-a695-cb6e63121ae1 INFO[08:38:28] Executing Workspace v4.8.1 INFO[08:38:28] Creating workspace INFO[08:38:28] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:29] Executing Workspace v4.8.1 INFO[08:38:29] Removing workspace WARN[08:38:29] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:29] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\1704279d-59a1-4c12-bfab-b3dc05ddbb73 INFO[08:38:29] Executing Workspace v4.8.1 INFO[08:38:29] Creating workspace INFO[08:38:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:30] Executing Workspace v4.8.1 INFO[08:38:30] Removing workspace WARN[08:38:30] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:30] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\aa44e1ca-242d-4740-9b74-2083d75e54fe INFO[08:38:31] Executing Workspace v4.8.1 INFO[08:38:31] Creating workspace INFO[08:38:31] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:32] Executing Workspace v4.8.1 INFO[08:38:32] Removing workspace WARN[08:38:32] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:32] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\5656cb14-784f-484e-9f15-e1b7319021c4 INFO[08:38:33] Executing Workspace v4.8.1 INFO[08:38:33] Creating workspace INFO[08:38:33] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:34] Executing Workspace v4.8.1 INFO[08:38:34] Removing workspace WARN[08:38:34] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:34] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\a7965b08-faac-477d-a3d7-534f284f66c2 INFO[08:38:35] Executing Workspace v4.8.1 INFO[08:38:35] Creating workspace INFO[08:38:35] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:36] Executing Workspace v4.8.1 INFO[08:38:36] Removing workspace WARN[08:38:36] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:36] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\0b3a2815-33d5-4521-b7c1-b16c15e28516 INFO[08:38:37] Executing Workspace v4.8.1 INFO[08:38:37] Creating workspace INFO[08:38:37] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:38] Executing Workspace v4.8.1 INFO[08:38:38] Removing workspace WARN[08:38:38] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:38] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\d74d248b-e1aa-417f-bfda-46e0beb99838 INFO[08:38:39] Executing Workspace v4.8.1 INFO[08:38:39] Creating workspace INFO[08:38:39] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --clean --nocheck INFO[08:38:40] Executing Workspace v4.8.1 INFO[08:38:40] Removing workspace WARN[08:38:40] Cannot read file. open .meta\meta.bin: The system cannot find the path specified. INFO[08:38:40] Done Process 'WorkspaceCleanInit' finished, exit code: 0 WorkspaceCleanInit [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe workspace --init --nocheck --temp C:\Users\jmcalist\AppData\Local\Temp\7fb75ef6-c112-459e-8da1-7003c37a2be4 INFO[08:38:41] Executing Workspace v4.8.1 INFO[08:38:41] Creating workspace INFO[08:38:41] Done Process 'WorkspaceCleanInit' finished, exit code: 0 MSFragger [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\jre\bin\java.exe -jar -Dfile.encoding=UTF-8 -Xmx29G D:\JAM\fragpipe\tools\MSFragger-3.7\MSFragger-3.7.jar D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\fragger.params D:\JAM\Sylvain\S22049-Arjun-1.raw D:\JAM\Sylvain\S22049-Arjun-10.raw D:\JAM\Sylvain\S22049-Arjun-100.raw D:\JAM\Sylvain\S22049-Arjun-101.raw D:\JAM\Sylvain\S22049-Arjun-102.raw D:\JAM\Sylvain\S22049-Arjun-103.raw D:\JAM\Sylvain\S22049-Arjun-104.raw D:\JAM\Sylvain\S22049-Arjun-105.raw D:\JAM\Sylvain\S22049-Arjun-106.raw D:\JAM\Sylvain\S22049-Arjun-107.raw D:\JAM\Sylvain\S22049-Arjun-108.raw D:\JAM\Sylvain\S22049-Arjun-109.raw D:\JAM\Sylvain\S22049-Arjun-11.raw D:\JAM\Sylvain\S22049-Arjun-110.raw D:\JAM\Sylvain\S22049-Arjun-111.raw D:\JAM\Sylvain\S22049-Arjun-112.raw D:\JAM\Sylvain\S22049-Arjun-113.raw D:\JAM\Sylvain\S22049-Arjun-114.raw D:\JAM\Sylvain\S22049-Arjun-115.raw D:\JAM\Sylvain\S22049-Arjun-116.raw D:\JAM\Sylvain\S22049-Arjun-117.raw D:\JAM\Sylvain\S22049-Arjun-118.raw D:\JAM\Sylvain\S22049-Arjun-119.raw D:\JAM\Sylvain\S22049-Arjun-12.raw D:\JAM\Sylvain\S22049-Arjun-120.raw D:\JAM\Sylvain\S22049-Arjun-121.raw D:\JAM\Sylvain\S22049-Arjun-122.raw D:\JAM\Sylvain\S22049-Arjun-123.raw D:\JAM\Sylvain\S22049-Arjun-125.raw D:\JAM\Sylvain\S22049-Arjun-126.raw D:\JAM\Sylvain\S22049-Arjun-127.raw D:\JAM\Sylvain\S22049-Arjun-128.raw D:\JAM\Sylvain\S22049-Arjun-129.raw D:\JAM\Sylvain\S22049-Arjun-13.raw D:\JAM\Sylvain\S22049-Arjun-130.raw D:\JAM\Sylvain\S22049-Arjun-131.raw D:\JAM\Sylvain\S22049-Arjun-132.raw D:\JAM\Sylvain\S22049-Arjun-133.raw D:\JAM\Sylvain\S22049-Arjun-134.raw D:\JAM\Sylvain\S22049-Arjun-135.raw D:\JAM\Sylvain\S22049-Arjun-136.raw D:\JAM\Sylvain\S22049-Arjun-137.raw D:\JAM\Sylvain\S22049-Arjun-138.raw D:\JAM\Sylvain\S22049-Arjun-139.raw D:\JAM\Sylvain\S22049-Arjun-14.raw D:\JAM\Sylvain\S22049-Arjun-140.raw D:\JAM\Sylvain\S22049-Arjun-141.raw D:\JAM\Sylvain\S22049-Arjun-142.raw D:\JAM\Sylvain\S22049-Arjun-143.raw D:\JAM\Sylvain\S22049-Arjun-144.raw D:\JAM\Sylvain\S22049-Arjun-15.raw D:\JAM\Sylvain\S22049-Arjun-16.raw D:\JAM\Sylvain\S22049-Arjun-17.raw D:\JAM\Sylvain\S22049-Arjun-18.raw D:\JAM\Sylvain\S22049-Arjun-19.raw D:\JAM\Sylvain\S22049-Arjun-2.raw D:\JAM\Sylvain\S22049-Arjun-20.raw D:\JAM\Sylvain\S22049-Arjun-21.raw D:\JAM\Sylvain\S22049-Arjun-22.raw D:\JAM\Sylvain\S22049-Arjun-23.raw D:\JAM\Sylvain\S22049-Arjun-24.raw D:\JAM\Sylvain\S22049-Arjun-25.raw D:\JAM\Sylvain\S22049-Arjun-26.raw D:\JAM\Sylvain\S22049-Arjun-27.raw D:\JAM\Sylvain\S22049-Arjun-28.raw D:\JAM\Sylvain\S22049-Arjun-29.raw D:\JAM\Sylvain\S22049-Arjun-3.raw D:\JAM\Sylvain\S22049-Arjun-30.raw D:\JAM\Sylvain\S22049-Arjun-31.raw D:\JAM\Sylvain\S22049-Arjun-32.raw D:\JAM\Sylvain\S22049-Arjun-33.raw D:\JAM\Sylvain\S22049-Arjun-34.raw D:\JAM\Sylvain\S22049-Arjun-35.raw D:\JAM\Sylvain\S22049-Arjun-36.raw D:\JAM\Sylvain\S22049-Arjun-37.raw D:\JAM\Sylvain\S22049-Arjun-38.raw D:\JAM\Sylvain\S22049-Arjun-39.raw D:\JAM\Sylvain\S22049-Arjun-4.raw D:\JAM\Sylvain\S22049-Arjun-40.raw D:\JAM\Sylvain\S22049-Arjun-41.raw D:\JAM\Sylvain\S22049-Arjun-42.raw D:\JAM\Sylvain\S22049-Arjun-43.raw D:\JAM\Sylvain\S22049-Arjun-44.raw D:\JAM\Sylvain\S22049-Arjun-45.raw D:\JAM\Sylvain\S22049-Arjun-46.raw D:\JAM\Sylvain\S22049-Arjun-47.raw D:\JAM\Sylvain\S22049-Arjun-48.raw D:\JAM\Sylvain\S22049-Arjun-49.raw D:\JAM\Sylvain\S22049-Arjun-5.raw D:\JAM\Sylvain\S22049-Arjun-50.raw D:\JAM\Sylvain\S22049-Arjun-51.raw D:\JAM\Sylvain\S22049-Arjun-52.raw D:\JAM\Sylvain\S22049-Arjun-53.raw D:\JAM\Sylvain\S22049-Arjun-54.raw D:\JAM\Sylvain\S22049-Arjun-55.raw D:\JAM\Sylvain\S22049-Arjun-56.raw D:\JAM\Sylvain\S22049-Arjun-57.raw D:\JAM\Sylvain\S22049-Arjun-58-2nd.raw D:\JAM\Sylvain\S22049-Arjun-59-2nd.raw D:\JAM\Sylvain\S22049-Arjun-6.raw D:\JAM\Sylvain\S22049-Arjun-60-2nd.raw D:\JAM\Sylvain\S22049-Arjun-61-2nd.raw D:\JAM\Sylvain\S22049-Arjun-62-2nd.raw D:\JAM\Sylvain\S22049-Arjun-63-2nd.raw D:\JAM\Sylvain\S22049-Arjun-64-2nd.raw D:\JAM\Sylvain\S22049-Arjun-65-2nd.raw D:\JAM\Sylvain\S22049-Arjun-66-2nd.raw D:\JAM\Sylvain\S22049-Arjun-67.raw D:\JAM\Sylvain\S22049-Arjun-68.raw D:\JAM\Sylvain\S22049-Arjun-69.raw D:\JAM\Sylvain\S22049-Arjun-7.raw D:\JAM\Sylvain\S22049-Arjun-70.raw D:\JAM\Sylvain\S22049-Arjun-71.raw D:\JAM\Sylvain\S22049-Arjun-72.raw D:\JAM\Sylvain\S22049-Arjun-73.raw D:\JAM\Sylvain\S22049-Arjun-74.raw D:\JAM\Sylvain\S22049-Arjun-75.raw D:\JAM\Sylvain\S22049-Arjun-76.raw D:\JAM\Sylvain\S22049-Arjun-77.raw D:\JAM\Sylvain\S22049-Arjun-78.raw D:\JAM\Sylvain\S22049-Arjun-79.raw D:\JAM\Sylvain\S22049-Arjun-8.raw D:\JAM\Sylvain\S22049-Arjun-80.raw D:\JAM\Sylvain\S22049-Arjun-81.raw D:\JAM\Sylvain\S22049-Arjun-82.raw D:\JAM\Sylvain\S22049-Arjun-83.raw D:\JAM\Sylvain\S22049-Arjun-84-2nd.raw D:\JAM\Sylvain\S22049-Arjun-85.raw D:\JAM\Sylvain\S22049-Arjun-86.raw D:\JAM\Sylvain\S22049-Arjun-87.raw D:\JAM\Sylvain\S22049-Arjun-88.raw D:\JAM\Sylvain\S22049-Arjun-89.raw D:\JAM\Sylvain\S22049-Arjun-9.raw D:\JAM\Sylvain\S22049-Arjun-90.raw D:\JAM\Sylvain\S22049-Arjun-91.raw D:\JAM\Sylvain\S22049-Arjun-92.raw D:\JAM\Sylvain\S22049-Arjun-93.raw D:\JAM\Sylvain\S22049-Arjun-94.raw D:\JAM\Sylvain\S22049-Arjun-95.raw D:\JAM\Sylvain\S22049-Arjun-96.raw D:\JAM\Sylvain\S22049-Arjun-97.raw D:\JAM\Sylvain\S22049-Arjun-98.raw D:\JAM\Sylvain\S22049-Arjun-99.raw MSFragger version MSFragger-3.7 Batmass-IO version 1.28.9 timsdata library version timsdata-2-21-0-4 (c) University of Michigan RawFileReader reading tool. Copyright (c) 2016 by Thermo Fisher Scientific, Inc. All rights reserved. timdTOF .d reading tool. Copyright (c) 2022 by Bruker Daltonics GmbH & Co. KG. All rights reserved. System OS: Windows 10, Architecture: AMD64 Java Info: 11.0.9.1, OpenJDK 64-Bit Server VM, AdoptOpenJDK JVM started with 29 GB memory Checking database... Checking spectral files... D:\JAM\Sylvain\S22049-Arjun-62-2nd.raw: Scans = 112225 D:\JAM\Sylvain\S22049-Arjun-136.raw: Scans = 108249 D:\JAM\Sylvain\S22049-Arjun-80.raw: Scans = 112403 D:\JAM\Sylvain\S22049-Arjun-117.raw: Scans = 114980 D:\JAM\Sylvain\S22049-Arjun-1.raw: Scans = 117479 [pool-1-thread-3] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-11-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-11-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - D:\JAM\Sylvain\S22049-Arjun-43.raw: Scans = 121878 D:\JAM\Sylvain\S22049-Arjun-25.raw: Scans = 118145 D:\JAM\Sylvain\S22049-Arjun-63-2nd.raw: Scans = 114252 D:\JAM\Sylvain\S22049-Arjun-10.raw: Scans = 121829 D:\JAM\Sylvain\S22049-Arjun-81.raw: Scans = 114539 D:\JAM\Sylvain\S22049-Arjun-137.raw: Scans = 108334 D:\JAM\Sylvain\S22049-Arjun-26.raw: Scans = 119030 D:\JAM\Sylvain\S22049-Arjun-44.raw: Scans = 122131 D:\JAM\Sylvain\S22049-Arjun-118.raw: Scans = 116224 D:\JAM\Sylvain\S22049-Arjun-64-2nd.raw: Scans = 112102 D:\JAM\Sylvain\S22049-Arjun-100.raw: Scans = 111408 D:\JAM\Sylvain\S22049-Arjun-82.raw: Scans = 114127 D:\JAM\Sylvain\S22049-Arjun-119.raw: Scans = 112860 D:\JAM\Sylvain\S22049-Arjun-138.raw: Scans = 110282 [pool-1-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-26-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-26-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan D:\JAM\Sylvain\S22049-Arjun-27.raw: Scans = 119842 D:\JAM\Sylvain\S22049-Arjun-45.raw: Scans = 121396 D:\JAM\Sylvain\S22049-Arjun-65-2nd.raw: Scans = 112339 D:\JAM\Sylvain\S22049-Arjun-83.raw: Scans = 115581 D:\JAM\Sylvain\S22049-Arjun-12.raw: Scans = 115842 [pool-1-thread-7] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-34-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-34-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - D:\JAM\Sylvain\S22049-Arjun-139.raw: Scans = 112646 D:\JAM\Sylvain\S22049-Arjun-101.raw: Scans = 112174 D:\JAM\Sylvain\S22049-Arjun-46.raw: Scans = 121147 D:\JAM\Sylvain\S22049-Arjun-28.raw: Scans = 123016 D:\JAM\Sylvain\S22049-Arjun-66-2nd.raw: Scans = 112355 D:\JAM\Sylvain\S22049-Arjun-84-2nd.raw: Scans = 115612 D:\JAM\Sylvain\S22049-Arjun-102.raw: Scans = 116027 D:\JAM\Sylvain\S22049-Arjun-120.raw: Scans = 112113 D:\JAM\Sylvain\S22049-Arjun-47.raw: Scans = 121597 D:\JAM\Sylvain\S22049-Arjun-14.raw: Scans = 111601 D:\JAM\Sylvain\S22049-Arjun-29.raw: Scans = 121234 D:\JAM\Sylvain\S22049-Arjun-67.raw: Scans = 111984 D:\JAM\Sylvain\S22049-Arjun-103.raw: Scans = 114205 D:\JAM\Sylvain\S22049-Arjun-121.raw: Scans = 111446 D:\JAM\Sylvain\S22049-Arjun-140.raw: Scans = 111506 D:\JAM\Sylvain\S22049-Arjun-85.raw: Scans = 118510 D:\JAM\Sylvain\S22049-Arjun-48.raw: Scans = 120130 D:\JAM\Sylvain\S22049-Arjun-3.raw: Scans = 121999 D:\JAM\Sylvain\S22049-Arjun-68.raw: Scans = 112356 D:\JAM\Sylvain\S22049-Arjun-30.raw: Scans = 119898 D:\JAM\Sylvain\S22049-Arjun-122.raw: Scans = 111174 D:\JAM\Sylvain\S22049-Arjun-86.raw: Scans = 118286 D:\JAM\Sylvain\S22049-Arjun-141.raw: Scans = 111592 D:\JAM\Sylvain\S22049-Arjun-104.raw: Scans = 111731 D:\JAM\Sylvain\S22049-Arjun-49.raw: Scans = 123117 D:\JAM\Sylvain\S22049-Arjun-69.raw: Scans = 112322 D:\JAM\Sylvain\S22049-Arjun-87.raw: Scans = 118817 D:\JAM\Sylvain\S22049-Arjun-123.raw: Scans = 112434 D:\JAM\Sylvain\S22049-Arjun-142.raw: Scans = 112252 D:\JAM\Sylvain\S22049-Arjun-105.raw: Scans = 113899 D:\JAM\Sylvain\S22049-Arjun-31.raw: Scans = 116880 D:\JAM\Sylvain\S22049-Arjun-5.raw: Scans = 118790 D:\JAM\Sylvain\S22049-Arjun-7.raw: Scans = 123764 D:\JAM\Sylvain\S22049-Arjun-88.raw: Scans = 117600 D:\JAM\Sylvain\S22049-Arjun-125.raw: Scans = 113607 D:\JAM\Sylvain\S22049-Arjun-106.raw: Scans = 113492 D:\JAM\Sylvain\S22049-Arjun-32.raw: Scans = 117250 D:\JAM\Sylvain\S22049-Arjun-143.raw: Scans = 111488 D:\JAM\Sylvain\S22049-Arjun-50.raw: Scans = 122324 D:\JAM\Sylvain\S22049-Arjun-70.raw: Scans = 116860 D:\JAM\Sylvain\S22049-Arjun-89.raw: Scans = 116997 [pool-1-thread-7] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-77-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-77-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - D:\JAM\Sylvain\S22049-Arjun-126.raw: Scans = 114320 [pool-1-thread-7] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-78-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-78-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan D:\JAM\Sylvain\S22049-Arjun-107.raw: Scans = 112621 D:\JAM\Sylvain\S22049-Arjun-33.raw: Scans = 116198 D:\JAM\Sylvain\S22049-Arjun-144.raw: Scans = 114200 D:\JAM\Sylvain\S22049-Arjun-51.raw: Scans = 124722 D:\JAM\Sylvain\S22049-Arjun-71.raw: Scans = 117153 D:\JAM\Sylvain\S22049-Arjun-108.raw: Scans = 111626 D:\JAM\Sylvain\S22049-Arjun-127.raw: Scans = 114079 D:\JAM\Sylvain\S22049-Arjun-15.raw: Scans = 112129 [pool-1-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-86-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-86-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan D:\JAM\Sylvain\S22049-Arjun-9.raw: Scans = 122798 D:\JAM\Sylvain\S22049-Arjun-34.raw: Scans = 116759 D:\JAM\Sylvain\S22049-Arjun-52.raw: Scans = 124032 D:\JAM\Sylvain\S22049-Arjun-72.raw: Scans = 113401 D:\JAM\Sylvain\S22049-Arjun-128.raw: Scans = 110452 D:\JAM\Sylvain\S22049-Arjun-109.raw: Scans = 112587 [pool-1-thread-2] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-94-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-94-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan D:\JAM\Sylvain\S22049-Arjun-73.raw: Scans = 111887 D:\JAM\Sylvain\S22049-Arjun-16.raw: Scans = 113307 D:\JAM\Sylvain\S22049-Arjun-35.raw: Scans = 116966 D:\JAM\Sylvain\S22049-Arjun-53.raw: Scans = 124535 D:\JAM\Sylvain\S22049-Arjun-90.raw: Scans = 114967 D:\JAM\Sylvain\S22049-Arjun-11.raw: Scans = 113678 D:\JAM\Sylvain\S22049-Arjun-129.raw: Scans = 109584 D:\JAM\Sylvain\S22049-Arjun-74.raw: Scans = 112773 D:\JAM\Sylvain\S22049-Arjun-91.raw: Scans = 115332 [pool-1-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-102-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-102-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan [pool-1-thread-2] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. D:\JAM\Sylvain\S22049-Arjun-17.raw: Scans = 115297 D:\JAM\Sylvain\S22049-Arjun-36.raw: Scans = 118105 D:\JAM\Sylvain\S22049-Arjun-54.raw: Scans = 124584 D:\JAM\Sylvain\S22049-Arjun-110.raw: Scans = 112683 D:\JAM\Sylvain\S22049-Arjun-18.raw: Scans = 112253 D:\JAM\Sylvain\S22049-Arjun-92.raw: Scans = 113640 [pool-1-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-112-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-112-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - D:\JAM\Sylvain\S22049-Arjun-75.raw: Scans = 112546 D:\JAM\Sylvain\S22049-Arjun-37.raw: Scans = 120075 D:\JAM\Sylvain\S22049-Arjun-55.raw: Scans = 123226 D:\JAM\Sylvain\S22049-Arjun-13.raw: Scans = 115853 D:\JAM\Sylvain\S22049-Arjun-38.raw: Scans = 120616 D:\JAM\Sylvain\S22049-Arjun-76.raw: Scans = 113036 [pool-1-thread-4] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-120-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-120-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Batmass-IO Thermo server (1.3.0.0) By Nesvizhskii Lab, University of Michigan D:\JAM\Sylvain\S22049-Arjun-111.raw: Scans = 112763 D:\JAM\Sylvain\S22049-Arjun-19.raw: Scans = 116972 D:\JAM\Sylvain\S22049-Arjun-93.raw: Scans = 113791 D:\JAM\Sylvain\S22049-Arjun-130.raw: Scans = 110808 D:\JAM\Sylvain\S22049-Arjun-56.raw: Scans = 124755 D:\JAM\Sylvain\S22049-Arjun-131.raw: Scans = 111919 D:\JAM\Sylvain\S22049-Arjun-57.raw: Scans = 122546 D:\JAM\Sylvain\S22049-Arjun-2.raw: Scans = 122572 D:\JAM\Sylvain\S22049-Arjun-112.raw: Scans = 108797 D:\JAM\Sylvain\S22049-Arjun-94.raw: Scans = 113429 D:\JAM\Sylvain\S22049-Arjun-77.raw: Scans = 115739 D:\JAM\Sylvain\S22049-Arjun-39.raw: Scans = 115915 D:\JAM\Sylvain\S22049-Arjun-4.raw: Scans = 121321 D:\JAM\Sylvain\S22049-Arjun-95.raw: Scans = 113750 D:\JAM\Sylvain\S22049-Arjun-132.raw: Scans = 111786 D:\JAM\Sylvain\S22049-Arjun-113.raw: Scans = 111952 D:\JAM\Sylvain\S22049-Arjun-78.raw: Scans = 113290 D:\JAM\Sylvain\S22049-Arjun-20.raw: Scans = 119465 D:\JAM\Sylvain\S22049-Arjun-58-2nd.raw: Scans = 111716 D:\JAM\Sylvain\S22049-Arjun-133.raw: Scans = 112911 D:\JAM\Sylvain\S22049-Arjun-96.raw: Scans = 113521 D:\JAM\Sylvain\S22049-Arjun-59-2nd.raw: Scans = 113831 D:\JAM\Sylvain\S22049-Arjun-79.raw: Scans = 113916 D:\JAM\Sylvain\S22049-Arjun-114.raw: Scans = 116803 D:\JAM\Sylvain\S22049-Arjun-40.raw: Scans = 119610 D:\JAM\Sylvain\S22049-Arjun-21.raw: Scans = 120455 D:\JAM\Sylvain\S22049-Arjun-115.raw: Scans = 115673 D:\JAM\Sylvain\S22049-Arjun-134.raw: Scans = 103649 [pool-1-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Did not get port information from server output within timeout. [pool-149-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - Error while scanning stream java.lang.InterruptedException: sleep interrupted at java.base/java.lang.Thread.sleep(Native Method) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.scanStreamForPattern(ThermoGrpcServerProcess.java:319) at com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess.lambda$start$7(ThermoGrpcServerProcess.java:261) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source) [pool-149-thread-1] ERROR com.dmtavt.batmass.io.thermo.ThermoGrpcServerProcess - D:\JAM\Sylvain\S22049-Arjun-97.raw: Scans = 113505 D:\JAM\Sylvain\S22049-Arjun-41.raw: Scans = 121302 D:\JAM\Sylvain\S22049-Arjun-8.raw: Scans = 123247 D:\JAM\Sylvain\S22049-Arjun-22.raw: Scans = 116460 D:\JAM\Sylvain\S22049-Arjun-6.raw: Scans = 120678 D:\JAM\Sylvain\S22049-Arjun-135.raw: Scans = 100502 D:\JAM\Sylvain\S22049-Arjun-23.raw: Scans = 117112 D:\JAM\Sylvain\S22049-Arjun-116.raw: Scans = 115616 D:\JAM\Sylvain\S22049-Arjun-42.raw: Scans = 120412 D:\JAM\Sylvain\S22049-Arjun-98.raw: Scans = 110829 D:\JAM\Sylvain\S22049-Arjun-60-2nd.raw: Scans = 110376 D:\JAM\Sylvain\S22049-Arjun-61-2nd.raw: Scans = 110663 D:\JAM\Sylvain\S22049-Arjun-99.raw: Scans = 112782 D:\JAM\Sylvain\S22049-Arjun-24.raw: Scans = 120117 ***********************************FIRST SEARCH************************************ Parameters: num_threads = 7 database_name = D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas decoy_prefix = rev_ precursor_mass_lower = -20.0 precursor_mass_upper = 20.0 precursor_mass_units = 1 data_type = 0 precursor_true_tolerance = 20.0 precursor_true_units = 1 fragment_mass_tolerance = 20.0 fragment_mass_units = 1 calibrate_mass = 2 use_all_mods_in_first_search = false write_calibrated_mzml = 0 write_uncalibrated_mgf = false isotope_error = 0/1 mass_offsets = 0 labile_search_mode = OFF restrict_deltamass_to = all precursor_mass_mode = SELECTED localize_delta_mass = false delta_mass_exclude_ranges = (-1.5,3.5) fragment_ion_series = b,y ion_series_definitions = search_enzyme_name = stricttrypsin search_enzyme_sense_1 = C search_enzyme_cut_1 = KR search_enzyme_nocut_1 = allowed_missed_cleavage_1 = 2 num_enzyme_termini = 2 clip_nTerm_M = true allow_multiple_variable_mods_on_residue = false max_variable_mods_per_peptide = 3 max_variable_mods_combinations = 5000 output_format = pepxml_pin output_report_topN = 1 output_max_expect = 50.0 report_alternative_proteins = false override_charge = false precursor_charge_low = 1 precursor_charge_high = 4 digest_min_length = 7 digest_max_length = 50 digest_mass_range_low = 500.0 digest_mass_range_high = 5000.0 max_fragment_charge = 1 deisotope = 1 deneutralloss = true track_zero_topN = 0 zero_bin_accept_expect = 0.0 zero_bin_mult_expect = 1.0 add_topN_complementary = 0 minimum_peaks = 15 use_topN_peaks = 150 minIonsScoring = 2 min_matched_fragments = 4 minimum_ratio = 0.01 intensity_transform = 0 activation_types = all remove_precursor_peak = 1 remove_precursor_range = -1.500000,1.500000 clear_mz_range_low = 0.0 clear_mz_range_high = 0.0 excluded_scan_list_file = mass_diff_to_variable_mod = 0 min_sequence_matches = 2 check_spectral_files = true variable_mod_01 = 15.9949 M 3 variable_mod_02 = 42.0106 [^ 1 add_A_alanine = 0.0 add_B_user_amino_acid = 0.0 add_C_cysteine = 57.02146 add_Cterm_peptide = 0.0 add_Cterm_protein = 0.0 add_D_aspartic_acid = 0.0 add_E_glutamic_acid = 0.0 add_F_phenylalanine = 0.0 add_G_glycine = 0.0 add_H_histidine = 0.0 add_I_isoleucine = 0.0 add_J_user_amino_acid = 0.0 add_K_lysine = 0.0 add_L_leucine = 0.0 add_M_methionine = 0.0 add_N_asparagine = 0.0 add_Nterm_peptide = 0.0 add_Nterm_protein = 0.0 add_O_user_amino_acid = 0.0 # O = pyrrolysine (237.14773 Da) add_P_proline = 0.0 add_Q_glutamine = 0.0 add_R_arginine = 0.0 add_S_serine = 0.0 add_T_threonine = 0.0 add_U_user_amino_acid = 0.0 # U = selenocysteine (150.95363 Da) add_V_valine = 0.0 add_W_tryptophan = 0.0 add_X_user_amino_acid = 0.0 add_Y_tyrosine = 0.0 add_Z_user_amino_acid = 0.0 Selected fragment index width 0.10 Da. 23312486 fragments to be searched in 1 slices (0.35 GB total) Operating on slice 1 of 1: Fragment index slice generated in 0.75 s 001. S22049-Arjun-1.raw 41.4 s | deisotoping 1.0 s [progress: 95238/95238 (100%) - 37868 spectra/s] 2.5s | postprocessing 0.4 s 002. S22049-Arjun-10.raw 36.8 s | deisotoping 0.1 s [progress: 91134/91134 (100%) - 79178 spectra/s] 1.2s | postprocessing 0.2 s 003. S22049-Arjun-100.raw 38.4 s | deisotoping 0.2 s [progress: 97978/97978 (100%) - 64886 spectra/s] 1.5s | postprocessing 0.1 s 004. S22049-Arjun-101.raw 38.4 s | deisotoping 0.2 s [progress: 99186/99186 (100%) - 57003 spectra/s] 1.7s | postprocessing 0.1 s 005. S22049-Arjun-102.raw 31.3 s | deisotoping 0.0 s [progress: 77569/77569 (100%) - 108488 spectra/s] 0.7s | postprocessing 0.1 s 006. S22049-Arjun-103.raw 37.7 s | deisotoping 0.2 s [progress: 99321/99321 (100%) - 64536 spectra/s] 1.5s | postprocessing 0.1 s 007. S22049-Arjun-104.raw 37.9 s | deisotoping 0.1 s [progress: 98190/98190 (100%) - 65988 spectra/s] 1.5s | postprocessing 0.2 s 008. S22049-Arjun-105.raw 37.8 s | deisotoping 0.2 s [progress: 100221/100221 (100%) - 62095 spectra/s] 1.6s | postprocessing 0.1 s 009. S22049-Arjun-106.raw 37.4 s | deisotoping 0.2 s [progress: 100812/100812 (100%) - 71701 spectra/s] 1.4s | postprocessing 0.1 s 010. S22049-Arjun-107.raw 35.4 s | deisotoping 0.1 s [progress: 88445/88445 (100%) - 76976 spectra/s] 1.1s | postprocessing 0.1 s 011. S22049-Arjun-108.raw 36.1 s | deisotoping 0.1 s [progress: 95962/95962 (100%) - 76221 spectra/s] 1.3s | postprocessing 0.1 s 012. S22049-Arjun-109.raw 36.3 s | deisotoping 0.1 s [progress: 94432/94432 (100%) - 70577 spectra/s] 1.3s | postprocessing 0.1 s 013. S22049-Arjun-11.raw 44.2 s | deisotoping 0.3 s [progress: 103360/103360 (100%) - 50395 spectra/s] 2.1s | postprocessing 0.2 s 014. S22049-Arjun-110.raw 33.5 s | deisotoping 0.1 s [progress: 85404/85404 (100%) - 81648 spectra/s] 1.0s | postprocessing 0.1 s 015. S22049-Arjun-111.raw 36.0 s | deisotoping 0.1 s [progress: 95375/95375 (100%) - 69012 spectra/s] 1.4s | postprocessing 0.1 s 016. S22049-Arjun-112.raw 33.7 s | deisotoping 0.1 s [progress: 84376/84376 (100%) - 83873 spectra/s] 1.0s | postprocessing 0.1 s 017. S22049-Arjun-113.raw 33.5 s | deisotoping 0.1 s [progress: 87732/87732 (100%) - 85843 spectra/s] 1.0s | postprocessing 0.1 s 018. S22049-Arjun-114.raw 33.5 s | deisotoping 0.1 s [progress: 86580/86580 (100%) - 84799 spectra/s] 1.0s | postprocessing 0.1 s 019. S22049-Arjun-115.raw 35.5 s | deisotoping 0.1 s [progress: 93527/93527 (100%) - 67822 spectra/s] 1.4s | postprocessing 0.1 s 020. S22049-Arjun-116.raw 34.6 s | deisotoping 0.1 s [progress: 88085/88085 (100%) - 76330 spectra/s] 1.2s | postprocessing 0.1 s 021. S22049-Arjun-117.raw 34.4 s | deisotoping 0.1 s [progress: 92119/92119 (100%) - 60645 spectra/s] 1.5s | postprocessing 0.1 s 022. S22049-Arjun-118.raw 34.4 s | deisotoping 0.1 s [progress: 88304/88304 (100%) - 77801 spectra/s] 1.1s | postprocessing 0.1 s 023. S22049-Arjun-119.raw 44.4 s | deisotoping 0.1 s [progress: 90926/90926 (100%) - 69675 spectra/s] 1.3s | postprocessing 0.1 s 024. S22049-Arjun-12.raw 77.4 s | deisotoping 0.2 s [progress: 102003/102003 (100%) - 56355 spectra/s] 1.8s | postprocessing 0.1 s 025. S22049-Arjun-120.raw 35.0 s | deisotoping 0.1 s [progress: 89566/89566 (100%) - 74514 spectra/s] 1.2s | postprocessing 0.1 s 026. S22049-Arjun-121.raw 35.9 s | deisotoping 0.1 s [progress: 92068/92068 (100%) - 74368 spectra/s] 1.2s | postprocessing 0.1 s 027. S22049-Arjun-122.raw 35.0 s | deisotoping 0.2 s [progress: 90361/90361 (100%) - 78438 spectra/s] 1.2s | postprocessing 0.1 s 028. S22049-Arjun-123.raw 37.3 s | deisotoping 0.2 s [progress: 94998/94998 (100%) - 62499 spectra/s] 1.5s | postprocessing 0.1 s 029. S22049-Arjun-125.raw 39.1 s | deisotoping 0.2 s [progress: 98417/98417 (100%) - 60305 spectra/s] 1.6s | postprocessing 0.1 s 030. S22049-Arjun-126.raw 35.9 s | deisotoping 0.1 s [progress: 89857/89857 (100%) - 71771 spectra/s] 1.3s | postprocessing 0.1 s 031. S22049-Arjun-127.raw 34.7 s | deisotoping 0.2 s [progress: 88885/88885 (100%) - 78659 spectra/s] 1.1s | postprocessing 0.1 s 032. S22049-Arjun-128.raw 64.9 s | deisotoping 0.1 s [progress: 89412/89412 (100%) - 73169 spectra/s] 1.2s | postprocessing 0.2 s 033. S22049-Arjun-129.raw 130.0 s | deisotoping 0.1 s [progress: 81201/81201 (100%) - 86109 spectra/s] 0.9s | postprocessing 0.1 s 034. S22049-Arjun-13.raw 37.9 s | deisotoping 0.1 s [progress: 96667/96667 (100%) - 69295 spectra/s] 1.4s | postprocessing 0.2 s 035. S22049-Arjun-130.raw 37.9 s | deisotoping 0.2 s [progress: 94610/94610 (100%) - 66486 spectra/s] 1.4s | postprocessing 0.1 s 036. S22049-Arjun-131.raw 36.1 s | deisotoping 0.2 s [progress: 92882/92882 (100%) - 67063 spectra/s] 1.4s | postprocessing 0.1 s 037. S22049-Arjun-132.raw 36.9 s | deisotoping 0.2 s [progress: 96808/96808 (100%) - 63398 spectra/s] 1.5s | postprocessing 0.1 s 038. S22049-Arjun-133.raw 36.5 s | deisotoping 0.2 s [progress: 94282/94282 (100%) - 66443 spectra/s] 1.4s | postprocessing 0.1 s 039. S22049-Arjun-134.raw 24.5 s | deisotoping 0.0 s [progress: 42397/42397 (100%) - 127318 spectra/s] 0.3s | postprocessing 0.0 s 040. S22049-Arjun-135.raw 25.0 s | deisotoping 0.0 s [progress: 41079/41079 (100%) - 125624 spectra/s] 0.3s | postprocessing 0.0 s 041. S22049-Arjun-136.raw 35.9 s | deisotoping 0.1 s [progress: 93385/93385 (100%) - 65533 spectra/s] 1.4s | postprocessing 0.1 s 042. S22049-Arjun-137.raw 33.6 s | deisotoping 0.1 s [progress: 83761/83761 (100%) - 84864 spectra/s] 1.0s | postprocessing 0.1 s 043. S22049-Arjun-138.raw 37.5 s | deisotoping 0.2 s [progress: 95558/95558 (100%) - 55719 spectra/s] 1.7s | postprocessing 0.1 s 044. S22049-Arjun-139.raw 100.1 s | deisotoping 0.1 s [progress: 89877/89877 (100%) - 74773 spectra/s] 1.2s | postprocessing 0.1 s 045. S22049-Arjun-14.raw 37.5 s | deisotoping 0.2 s [progress: 94195/94195 (100%) - 71850 spectra/s] 1.3s | postprocessing 0.1 s 046. S22049-Arjun-140.raw 37.3 s | deisotoping 0.2 s [progress: 94865/94865 (100%) - 61641 spectra/s] 1.5s | postprocessing 0.1 s 047. S22049-Arjun-141.raw 38.9 s | deisotoping 0.2 s [progress: 95856/95856 (100%) - 58771 spectra/s] 1.6s | postprocessing 0.1 s 048. S22049-Arjun-142.raw 36.9 s | deisotoping 0.2 s [progress: 94156/94156 (100%) - 58085 spectra/s] 1.6s | postprocessing 0.1 s 049. S22049-Arjun-143.raw 34.2 s | deisotoping 0.1 s [progress: 84161/84161 (100%) - 70076 spectra/s] 1.2s | postprocessing 0.1 s 050. 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S22049-Arjun-97.raw 33.4 s | deisotoping 0.1 s [progress: 89221/89221 (100%) - 75933 spectra/s] 1.2s | postprocessing 0.1 s 142. S22049-Arjun-98.raw 34.8 s | deisotoping 0.1 s [progress: 95307/95307 (100%) - 74575 spectra/s] 1.3s | postprocessing 0.1 s 143. S22049-Arjun-99.raw 33.2 s | deisotoping 0.1 s [progress: 93240/93240 (100%) - 77765 spectra/s] 1.2s | postprocessing 0.1 s ***************************FIRST SEARCH DONE IN 123.038 MIN************************** *********************MASS CALIBRATION AND PARAMETER OPTIMIZATION******************* -----|---------------|---------------|---------------|--------------- | MS1 (Old) | MS1 (New) | MS2 (Old) | MS2 (New) -----|---------------|---------------|---------------|--------------- Run | Median MAD | Median MAD | Median MAD | Median MAD 001 | 1.99 2.11 | -0.01 0.84 | 1.83 3.24 | -0.17 2.54 002 | 0.05 1.55 | -0.02 1.01 | -0.11 2.89 | -0.18 2.67 003 | -0.49 1.13 | -0.06 0.78 | -0.72 2.81 | -0.28 2.76 004 | -0.19 1.19 | -0.04 0.72 | -0.40 2.87 | -0.29 2.76 005 | 0.00 1.07 | -0.02 0.92 | -0.21 2.51 | -0.30 2.43 006 | 0.83 1.46 | -0.05 0.81 | 0.61 2.98 | -0.22 2.73 007 | 0.19 1.32 | -0.05 0.77 | 0.02 2.83 | -0.23 2.71 008 | -0.41 1.46 | -0.04 0.81 | -0.56 2.96 | -0.26 2.83 009 | 0.01 1.33 | -0.05 0.88 | -0.17 2.93 | -0.27 2.86 010 | 0.02 1.25 | -0.03 0.84 | -0.24 2.93 | -0.23 2.90 011 | -0.33 1.36 | -0.06 0.82 | -0.52 2.86 | -0.26 2.77 012 | 0.22 1.30 | -0.04 0.81 | -0.01 2.89 | -0.24 2.76 013 | 3.22 1.28 | -0.01 0.69 | 3.04 2.55 | -0.12 2.39 014 | 0.17 1.16 | -0.04 0.77 | -0.09 2.83 | -0.25 2.77 015 | 1.25 1.57 | -0.03 0.77 | 1.03 2.95 | -0.20 2.61 016 | -0.29 1.01 | -0.08 0.70 | -0.52 2.75 | -0.29 2.72 017 | 0.31 1.18 | -0.04 0.72 | 0.06 2.79 | -0.24 2.69 018 | 0.37 1.11 | -0.05 0.70 | 0.18 2.67 | -0.24 2.59 019 | -1.08 1.20 | -0.06 0.74 | -1.26 2.66 | -0.29 2.59 020 | 0.00 1.23 | -0.04 0.73 | -0.25 2.76 | -0.23 2.61 021 | -0.53 1.17 | -0.03 0.71 | -0.72 2.61 | -0.24 2.56 022 | 0.08 1.20 | -0.06 0.75 | -0.15 2.57 | -0.24 2.47 023 | -0.53 1.20 | -0.06 0.70 | -0.73 2.60 | -0.23 2.53 024 | 1.48 1.59 | -0.05 0.80 | 1.19 2.97 | -0.17 2.54 025 | 0.14 1.27 | -0.01 0.70 | -0.05 2.67 | -0.23 2.54 026 | 0.37 1.38 | -0.02 0.78 | 0.18 2.78 | -0.20 2.58 027 | -0.15 1.10 | -0.06 0.73 | -0.37 2.60 | -0.24 2.57 028 | -0.76 1.19 | -0.08 0.75 | -0.87 2.61 | -0.27 2.54 029 | -0.39 1.11 | -0.07 0.74 | -0.55 2.58 | -0.24 2.54 030 | 0.31 1.25 | -0.05 0.77 | 0.11 2.73 | -0.23 2.63 031 | 0.70 1.46 | -0.02 0.80 | 0.52 2.85 | -0.20 2.65 032 | -1.25 1.60 | -0.06 0.74 | -1.32 2.85 | -0.29 2.58 033 | -0.17 1.54 | -0.07 0.97 | -0.46 3.04 | -0.25 2.73 034 | 0.50 1.30 | -0.03 0.76 | 0.32 2.64 | -0.21 2.49 035 | -0.43 1.12 | -0.06 0.71 | -0.60 2.61 | -0.25 2.57 036 | 0.61 1.49 | -0.06 0.75 | 0.45 2.87 | -0.21 2.65 037 | -1.12 1.40 | -0.04 0.77 | -1.17 2.81 | -0.26 2.67 038 | -0.06 1.18 | -0.02 0.77 | -0.27 2.72 | -0.23 2.68 039 | -0.05 0.58 | -0.01 0.73 | -0.35 2.33 | -0.22 2.30 040 | -0.42 1.58 | 0.05 1.26 | -0.60 2.68 | -0.30 2.63 041 | 0.52 1.36 | -0.06 0.75 | 0.31 2.75 | -0.19 2.53 042 | -0.03 1.29 | -0.01 0.86 | -0.26 2.78 | -0.20 2.73 043 | -0.25 1.22 | -0.07 0.82 | -0.44 2.66 | -0.23 2.63 044 | 0.36 1.28 | -0.04 0.74 | 0.12 2.68 | -0.23 2.52 045 | -0.38 1.17 | -0.03 0.75 | -0.63 2.50 | -0.22 2.46 046 | -0.22 1.24 | -0.06 0.74 | -0.42 2.62 | -0.26 2.50 047 | 0.93 1.13 | -0.01 0.73 | 0.75 2.69 | -0.20 2.57 048 | -0.24 1.19 | -0.02 0.80 | -0.45 2.70 | -0.24 2.64 049 | -0.17 1.62 | 0.08 1.02 | -0.50 3.13 | -0.07 3.02 050 | -0.18 1.45 | 0.01 0.95 | -0.50 2.98 | -0.18 2.92 051 | 0.74 1.32 | -0.07 0.76 | 0.50 2.65 | -0.19 2.40 052 | -0.46 1.05 | -0.06 0.70 | -0.64 2.39 | -0.22 2.36 053 | -0.15 1.10 | -0.03 0.83 | -0.41 2.48 | -0.22 2.42 054 | 0.31 1.19 | -0.02 0.70 | 0.10 2.44 | -0.22 2.35 055 | 0.74 1.33 | -0.07 0.76 | 0.59 2.58 | -0.18 2.40 056 | 0.13 1.21 | -0.03 0.72 | -0.06 2.52 | -0.21 2.44 057 | -0.52 1.08 | -0.09 0.71 | -0.69 2.40 | -0.23 2.36 058 | -0.46 1.23 | -0.10 0.80 | -0.65 2.63 | -0.25 2.54 059 | 0.97 1.74 | -0.02 0.80 | 0.82 2.98 | -0.19 2.52 060 | 1.98 1.12 | -0.03 0.70 | 1.81 2.51 | -0.15 2.42 061 | 0.78 1.15 | -0.04 0.72 | 0.60 2.49 | -0.21 2.42 062 | 0.20 1.58 | -0.04 1.07 | 0.10 3.13 | -0.19 3.00 063 | 0.17 1.52 | -0.01 0.92 | 0.01 2.66 | -0.19 2.46 064 | -1.11 1.09 | -0.07 0.70 | -1.23 2.49 | -0.27 2.42 065 | 0.02 1.14 | -0.07 0.69 | -0.12 2.51 | -0.25 2.45 066 | 0.91 1.43 | -0.07 0.74 | 0.85 2.66 | -0.19 2.46 067 | 0.05 1.18 | -0.06 0.75 | -0.19 2.59 | -0.22 2.48 068 | 0.12 1.44 | -0.05 0.81 | -0.04 2.68 | -0.20 2.49 069 | -0.19 1.38 | -0.01 0.90 | -0.49 2.81 | -0.18 2.75 070 | -0.10 1.60 | -0.02 1.05 | -0.38 3.08 | -0.20 3.05 071 | -0.16 1.31 | -0.04 0.84 | -0.40 2.68 | -0.20 2.59 072 | -0.38 1.31 | -0.03 0.82 | -0.56 2.59 | -0.19 2.55 073 | -0.05 1.62 | -0.01 1.06 | -0.32 2.91 | -0.20 2.86 074 | -0.21 1.40 | -0.14 0.98 | -0.39 2.89 | -0.26 2.79 075 | 0.53 1.17 | -0.04 0.71 | 0.36 2.50 | -0.21 2.43 076 | 0.62 1.27 | -0.05 0.85 | 0.42 2.68 | -0.17 2.58 077 | 0.89 1.85 | -0.03 0.78 | 0.70 3.12 | -0.25 2.66 078 | 0.27 1.23 | -0.06 0.75 | 0.04 2.55 | -0.19 2.44 079 | -0.06 1.16 | -0.06 0.69 | -0.28 2.76 | -0.23 2.68 080 | 0.20 1.38 | -0.07 0.81 | -0.12 2.92 | -0.20 2.64 081 | -1.22 1.26 | -0.09 0.76 | -1.35 2.68 | -0.23 2.54 082 | 1.52 1.38 | -0.03 0.80 | 1.21 2.88 | -0.13 2.62 083 | 0.10 1.18 | -0.08 0.74 | -0.17 2.65 | -0.20 2.57 084 | -0.41 1.15 | -0.06 0.76 | -0.66 2.58 | -0.24 2.53 085 | 0.35 1.26 | -0.05 0.73 | 0.07 2.70 | -0.20 2.56 086 | -0.00 1.22 | -0.07 0.78 | -0.27 2.72 | -0.22 2.59 087 | 1.29 2.00 | -0.02 0.82 | 1.05 3.17 | -0.18 2.57 088 | 0.86 1.46 | -0.05 0.79 | 0.59 2.88 | -0.18 2.60 089 | 0.36 1.53 | -0.02 0.80 | 0.27 2.81 | -0.18 2.62 090 | -0.88 1.14 | -0.06 0.75 | -1.09 2.56 | -0.27 2.49 091 | -0.63 1.05 | -0.07 0.72 | -0.85 2.56 | -0.25 2.51 092 | 0.35 1.19 | -0.08 0.75 | 0.13 2.63 | -0.24 2.54 093 | 0.56 1.10 | -0.04 0.71 | 0.32 2.57 | -0.21 2.48 094 | 1.18 1.18 | -0.05 0.74 | 0.90 2.65 | -0.20 2.56 095 | 1.64 1.20 | -0.03 0.78 | 1.34 2.74 | -0.19 2.59 096 | 0.39 1.08 | -0.02 0.68 | 0.15 2.61 | -0.23 2.55 097 | 0.27 1.12 | -0.04 0.73 | 0.01 2.69 | -0.22 2.62 098 | 3.08 2.12 | -0.03 0.83 | 2.76 3.51 | -0.12 2.70 099 | -0.19 1.07 | -0.04 0.73 | -0.33 2.57 | -0.24 2.53 100 | 0.35 1.51 | 0.02 0.84 | 0.24 2.74 | -0.19 2.51 101 | 0.14 1.23 | -0.06 0.78 | 0.04 2.61 | -0.23 2.52 102 | 0.06 1.13 | -0.03 0.78 | -0.13 2.62 | -0.20 2.56 103 | -1.01 1.26 | -0.08 0.76 | -1.06 2.57 | -0.28 2.46 104 | -0.26 1.19 | -0.06 0.74 | -0.33 2.59 | -0.26 2.52 105 | 0.33 1.24 | -0.04 0.79 | 0.17 2.66 | -0.23 2.54 106 | 1.11 1.64 | -0.01 0.83 | 0.94 3.00 | -0.18 2.63 107 | -0.06 1.32 | -0.04 0.85 | -0.19 2.70 | -0.22 2.58 108 | 0.23 1.35 | -0.02 0.85 | 0.11 2.77 | -0.20 2.68 109 | -0.54 1.16 | -0.06 0.78 | -0.60 2.59 | -0.24 2.55 110 | 0.31 1.63 | -0.05 0.86 | 0.20 2.94 | -0.18 2.66 111 | 0.46 1.18 | -0.05 0.73 | 0.26 2.55 | -0.19 2.43 112 | 0.10 1.41 | -0.07 0.82 | -0.05 2.73 | -0.22 2.59 113 | 0.10 1.34 | -0.04 0.82 | -0.06 2.70 | -0.22 2.53 114 | 0.02 1.16 | -0.05 0.78 | -0.09 2.62 | -0.22 2.54 115 | 1.25 1.95 | -0.02 0.86 | 1.09 3.37 | -0.22 2.90 116 | -0.08 1.18 | -0.06 0.82 | -0.25 2.84 | -0.23 2.80 117 | 1.11 1.82 | -0.02 0.86 | 0.95 3.20 | -0.19 2.81 118 | 0.08 1.21 | -0.07 0.78 | -0.07 2.78 | -0.21 2.68 119 | -0.11 1.18 | -0.04 0.79 | -0.33 2.78 | -0.21 2.73 120 | 0.69 2.12 | -0.04 0.88 | 0.73 3.26 | -0.14 2.77 121 | -0.04 1.36 | -0.01 0.91 | -0.23 2.86 | -0.15 2.79 122 | -0.62 1.13 | -0.06 0.74 | -0.80 2.45 | -0.24 2.40 123 | -0.04 1.28 | -0.03 0.81 | -0.20 2.82 | -0.18 2.77 124 | -0.23 1.25 | 0.00 0.84 | -0.42 2.73 | -0.20 2.68 125 | 0.10 1.18 | -0.05 0.76 | -0.13 2.75 | -0.19 2.69 126 | 0.17 1.53 | -0.03 0.92 | 0.04 2.93 | -0.19 2.84 127 | -0.36 1.11 | -0.08 0.74 | -0.59 2.62 | -0.24 2.57 128 | -0.17 1.22 | -0.05 0.79 | -0.37 2.72 | -0.23 2.64 129 | -0.24 1.11 | -0.06 0.74 | -0.45 2.66 | -0.23 2.62 130 | -0.07 1.15 | -0.03 0.76 | -0.32 2.71 | -0.23 2.65 131 | 0.24 1.20 | -0.04 0.75 | 0.02 2.70 | -0.21 2.63 132 | -0.50 1.15 | -0.04 0.76 | -0.72 2.68 | -0.24 2.63 133 | 0.19 1.19 | -0.02 0.77 | -0.05 2.63 | -0.20 2.57 134 | 0.66 1.28 | -0.04 0.73 | 0.38 2.79 | -0.19 2.63 135 | -0.23 1.17 | -0.04 0.76 | -0.47 2.75 | -0.25 2.71 136 | 0.12 1.31 | -0.05 0.78 | -0.11 2.82 | -0.20 2.72 137 | -0.08 1.16 | -0.04 0.73 | -0.27 2.78 | -0.24 2.74 138 | 0.16 1.20 | -0.02 0.80 | -0.07 2.79 | -0.23 2.70 139 | -1.87 1.68 | -0.07 0.78 | -1.80 3.04 | -0.30 2.70 140 | -1.08 1.22 | -0.02 0.79 | -1.27 2.74 | -0.28 2.67 141 | -0.10 1.01 | -0.13 0.76 | -0.42 2.42 | -0.25 2.39 142 | -0.07 1.16 | -0.06 0.75 | -0.28 2.76 | -0.27 2.69 143 | 0.12 1.28 | -0.04 0.84 | -0.13 2.98 | -0.25 2.87 -----|---------------|---------------|---------------|--------------- Finding the optimal parameters: -------|-------|-------|-------|-------|-------|-------|-------|------- MS2 | 5 | 7 | 10 | 15 | 20 | 25 | 30 | 50 -------|-------|-------|-------|-------|-------|-------|-------|------- Count | 61514| 63401| 64652| 65211| 65109| skip rest -------|-------|-------|-------|-------|-------|-------|-------|------- -------|-------|-------|-------|-------|-------|------- Peaks | 300_0 | 200_0 | 175_0 | 150_1 | 125_1 | 100_1 -------|-------|-------|-------|-------|-------|------- Count | 65682| 65656| skip rest -------|-------|-------|-------|-------|-------|------- -------|------- Int. | 1 -------|------- Count | 66294 -------|------- -------|------- Rm P. | 0 -------|------- Count | 66280 -------|------- New fragment_mass_tolerance = 15 PPM New use_topN_peaks = 300 New minimum_ratio = 0.000000 New intensity_transform = 1 New remove_precursor_peak = 1 ************MASS CALIBRATION AND PARAMETER OPTIMIZATION DONE IN 66.902 MIN********* ************************************MAIN SEARCH************************************ Checking database... Parameters: num_threads = 7 database_name = D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas decoy_prefix = rev_ precursor_mass_lower = -20.0 precursor_mass_upper = 20.0 precursor_mass_units = 1 data_type = 0 precursor_true_tolerance = 20.0 precursor_true_units = 1 fragment_mass_tolerance = 15.0 fragment_mass_units = 1 calibrate_mass = 2 use_all_mods_in_first_search = false write_calibrated_mzml = 0 write_uncalibrated_mgf = false isotope_error = 0/1/2 mass_offsets = 0.0 labile_search_mode = OFF restrict_deltamass_to = all precursor_mass_mode = SELECTED localize_delta_mass = false delta_mass_exclude_ranges = (-1.5,3.5) fragment_ion_series = b,y ion_series_definitions = search_enzyme_name = stricttrypsin search_enzyme_sense_1 = C search_enzyme_cut_1 = KR search_enzyme_nocut_1 = allowed_missed_cleavage_1 = 2 num_enzyme_termini = 2 clip_nTerm_M = true allow_multiple_variable_mods_on_residue = false max_variable_mods_per_peptide = 3 max_variable_mods_combinations = 5000 output_format = pepxml_pin output_report_topN = 1 output_max_expect = 50.0 report_alternative_proteins = true override_charge = false precursor_charge_low = 1 precursor_charge_high = 4 digest_min_length = 7 digest_max_length = 50 digest_mass_range_low = 500.0 digest_mass_range_high = 5000.0 max_fragment_charge = 1 deisotope = 1 deneutralloss = true track_zero_topN = 0 zero_bin_accept_expect = 0.0 zero_bin_mult_expect = 1.0 add_topN_complementary = 0 minimum_peaks = 15 use_topN_peaks = 300 minIonsScoring = 2 min_matched_fragments = 4 minimum_ratio = 0.0 intensity_transform = 1 activation_types = all remove_precursor_peak = 1 remove_precursor_range = -1.500000,1.500000 clear_mz_range_low = 0.0 clear_mz_range_high = 0.0 excluded_scan_list_file = mass_diff_to_variable_mod = 0 min_sequence_matches = 2 check_spectral_files = true variable_mod_01 = 15.9949 M 3 variable_mod_02 = 42.0106 [^ 1 add_A_alanine = 0.0 add_B_user_amino_acid = 0.0 add_C_cysteine = 57.02146 add_Cterm_peptide = 0.0 add_Cterm_protein = 0.0 add_D_aspartic_acid = 0.0 add_E_glutamic_acid = 0.0 add_F_phenylalanine = 0.0 add_G_glycine = 0.0 add_H_histidine = 0.0 add_I_isoleucine = 0.0 add_J_user_amino_acid = 0.0 add_K_lysine = 0.0 add_L_leucine = 0.0 add_M_methionine = 0.0 add_N_asparagine = 0.0 add_Nterm_peptide = 0.0 add_Nterm_protein = 0.0 add_O_user_amino_acid = 0.0 # O = pyrrolysine (237.14773 Da) add_P_proline = 0.0 add_Q_glutamine = 0.0 add_R_arginine = 0.0 add_S_serine = 0.0 add_T_threonine = 0.0 add_U_user_amino_acid = 0.0 # U = selenocysteine (150.95363 Da) add_V_valine = 0.0 add_W_tryptophan = 0.0 add_X_user_amino_acid = 0.0 add_Y_tyrosine = 0.0 add_Z_user_amino_acid = 0.0 Number of unique peptides of length 7: 19209 of length 8: 18493 of length 9: 17256 of length 10: 16167 of length 11: 16113 of length 12: 15460 of length 13: 14351 of length 14: 14076 of length 15: 13111 of length 16: 12590 of length 17: 11872 of length 18: 11513 of length 19: 10828 of length 20: 10488 of length 21: 9832 of length 22: 9369 of length 23: 8946 of length 24: 8240 of length 25: 7902 of length 26: 7390 of length 27: 7080 of length 28: 6638 of length 29: 6130 of length 30: 5827 of length 31: 5638 of length 32: 5167 of length 33: 4674 of length 34: 4273 of length 35: 4227 of length 36: 3954 of length 37: 3469 of length 38: 3301 of length 39: 3091 of length 40: 2888 of length 41: 2642 of length 42: 2368 of length 43: 2000 of length 44: 1633 of length 45: 1089 of length 46: 726 of length 47: 457 of length 48: 233 of length 49: 132 of length 50: 44 In total 330887 peptides. Generated 555842 modified peptides. Number of peptides with more than 5000 modification patterns: 0 Selected fragment index width 0.08 Da. 23312486 fragments to be searched in 1 slices (0.35 GB total) Operating on slice 1 of 1: Fragment index slice generated in 0.26 s 001. S22049-Arjun-1.mzBIN_calibrated 2.9 s [progress: 92087/92087 (100%) - 52471 spectra/s] 1.8s | remapping alternative proteins and postprocessing 5.8 s 002. S22049-Arjun-10.mzBIN_calibrated 2.8 s [progress: 87950/87950 (100%) - 72387 spectra/s] 1.2s | remapping alternative proteins and postprocessing 3.4 s 003. S22049-Arjun-100.mzBIN_calibrated 2.6 s [progress: 95175/95175 (100%) - 57369 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.7 s 004. S22049-Arjun-101.mzBIN_calibrated 2.7 s [progress: 96554/96554 (100%) - 54643 spectra/s] 1.8s | remapping alternative proteins and postprocessing 4.3 s 005. S22049-Arjun-102.mzBIN_calibrated 1.9 s [progress: 73265/73265 (100%) - 95397 spectra/s] 0.8s | remapping alternative proteins and postprocessing 2.2 s 006. S22049-Arjun-103.mzBIN_calibrated 2.8 s [progress: 96829/96829 (100%) - 58863 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.5 s 007. S22049-Arjun-104.mzBIN_calibrated 2.5 s [progress: 95536/95536 (100%) - 54748 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.4 s 008. S22049-Arjun-105.mzBIN_calibrated 2.9 s [progress: 97824/97824 (100%) - 56027 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.5 s 009. S22049-Arjun-106.mzBIN_calibrated 2.6 s [progress: 98278/98278 (100%) - 59926 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.6 s 010. S22049-Arjun-107.mzBIN_calibrated 2.3 s [progress: 84537/84537 (100%) - 69635 spectra/s] 1.2s | remapping alternative proteins and postprocessing 2.8 s 011. S22049-Arjun-108.mzBIN_calibrated 2.5 s [progress: 92690/92690 (100%) - 58296 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.1 s 012. S22049-Arjun-109.mzBIN_calibrated 2.8 s [progress: 91094/91094 (100%) - 59037 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.5 s 013. S22049-Arjun-11.mzBIN_calibrated 3.1 s [progress: 102084/102084 (100%) - 40429 spectra/s] 2.5s | remapping alternative proteins and postprocessing 4.2 s 014. S22049-Arjun-110.mzBIN_calibrated 2.5 s [progress: 81514/81514 (100%) - 74852 spectra/s] 1.1s | remapping alternative proteins and postprocessing 2.7 s 015. S22049-Arjun-111.mzBIN_calibrated 2.5 s [progress: 92438/92438 (100%) - 60378 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.4 s 016. S22049-Arjun-112.mzBIN_calibrated 2.2 s [progress: 80301/80301 (100%) - 65127 spectra/s] 1.2s | remapping alternative proteins and postprocessing 2.7 s 017. S22049-Arjun-113.mzBIN_calibrated 2.3 s [progress: 83920/83920 (100%) - 70167 spectra/s] 1.2s | remapping alternative proteins and postprocessing 2.8 s 018. S22049-Arjun-114.mzBIN_calibrated 2.2 s [progress: 82826/82826 (100%) - 73754 spectra/s] 1.1s | remapping alternative proteins and postprocessing 2.9 s 019. S22049-Arjun-115.mzBIN_calibrated 2.4 s [progress: 90218/90218 (100%) - 52422 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.2 s 020. S22049-Arjun-116.mzBIN_calibrated 2.3 s [progress: 84088/84088 (100%) - 69899 spectra/s] 1.2s | remapping alternative proteins and postprocessing 2.9 s 021. S22049-Arjun-117.mzBIN_calibrated 2.5 s [progress: 88455/88455 (100%) - 62468 spectra/s] 1.4s | remapping alternative proteins and postprocessing 3.0 s 022. S22049-Arjun-118.mzBIN_calibrated 2.3 s [progress: 84686/84686 (100%) - 67211 spectra/s] 1.3s | remapping alternative proteins and postprocessing 2.9 s 023. S22049-Arjun-119.mzBIN_calibrated 2.4 s [progress: 87111/87111 (100%) - 66650 spectra/s] 1.3s | remapping alternative proteins and postprocessing 3.1 s 024. S22049-Arjun-12.mzBIN_calibrated 3.3 s [progress: 100173/100173 (100%) - 42089 spectra/s] 2.4s | remapping alternative proteins and postprocessing 4.1 s 025. S22049-Arjun-120.mzBIN_calibrated 2.5 s [progress: 85768/85768 (100%) - 71414 spectra/s] 1.2s | remapping alternative proteins and postprocessing 2.9 s 026. S22049-Arjun-121.mzBIN_calibrated 2.6 s [progress: 88592/88592 (100%) - 58208 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.1 s 027. S22049-Arjun-122.mzBIN_calibrated 2.3 s [progress: 86877/86877 (100%) - 58385 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.0 s 028. S22049-Arjun-123.mzBIN_calibrated 2.6 s [progress: 91967/91967 (100%) - 60306 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.3 s 029. S22049-Arjun-125.mzBIN_calibrated 2.9 s [progress: 95831/95831 (100%) - 57556 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.5 s 030. S22049-Arjun-126.mzBIN_calibrated 2.2 s [progress: 86410/86410 (100%) - 64630 spectra/s] 1.3s | remapping alternative proteins and postprocessing 2.9 s 031. S22049-Arjun-127.mzBIN_calibrated 2.3 s [progress: 85348/85348 (100%) - 64903 spectra/s] 1.3s | remapping alternative proteins and postprocessing 2.7 s 032. S22049-Arjun-128.mzBIN_calibrated 2.3 s [progress: 85997/85997 (100%) - 59349 spectra/s] 1.4s | remapping alternative proteins and postprocessing 3.0 s 033. S22049-Arjun-129.mzBIN_calibrated 1.9 s [progress: 77680/77680 (100%) - 78863 spectra/s] 1.0s | remapping alternative proteins and postprocessing 2.6 s 034. S22049-Arjun-13.mzBIN_calibrated 2.8 s [progress: 93810/93810 (100%) - 61555 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.5 s 035. S22049-Arjun-130.mzBIN_calibrated 2.6 s [progress: 91852/91852 (100%) - 59995 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.2 s 036. S22049-Arjun-131.mzBIN_calibrated 2.4 s [progress: 89511/89511 (100%) - 52934 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.2 s 037. S22049-Arjun-132.mzBIN_calibrated 2.6 s [progress: 94174/94174 (100%) - 54092 spectra/s] 1.7s | remapping alternative proteins and postprocessing 3.6 s 038. S22049-Arjun-133.mzBIN_calibrated 2.6 s [progress: 90977/90977 (100%) - 59540 spectra/s] 1.5s | remapping alternative proteins and postprocessing 3.1 s 039. S22049-Arjun-134.mzBIN_calibrated 1.0 s [progress: 36885/36885 (100%) - 114907 spectra/s] 0.3s | remapping alternative proteins and postprocessing 0.4 s 040. S22049-Arjun-135.mzBIN_calibrated 1.0 s [progress: 35958/35958 (100%) - 83818 spectra/s] 0.4s | remapping alternative proteins and postprocessing 0.4 s 041. S22049-Arjun-136.mzBIN_calibrated 2.7 s [progress: 90741/90741 (100%) - 58205 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.3 s 042. S22049-Arjun-137.mzBIN_calibrated 2.1 s [progress: 80198/80198 (100%) - 73915 spectra/s] 1.1s | remapping alternative proteins and postprocessing 2.8 s 043. S22049-Arjun-138.mzBIN_calibrated 2.8 s [progress: 92769/92769 (100%) - 56913 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.2 s 044. S22049-Arjun-139.mzBIN_calibrated 2.4 s [progress: 86512/86512 (100%) - 63941 spectra/s] 1.4s | remapping alternative proteins and postprocessing 2.9 s 045. S22049-Arjun-14.mzBIN_calibrated 2.6 s [progress: 91162/91162 (100%) - 58587 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.3 s 046. S22049-Arjun-140.mzBIN_calibrated 2.9 s [progress: 92283/92283 (100%) - 56442 spectra/s] 1.6s | remapping alternative proteins and postprocessing 3.4 s 047. 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--no-err D:\JAM\Sylvain\S22049-Arjun-100.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-100.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-101.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-101.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-102.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-102.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-103.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-103.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-104.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-104.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-105.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-105.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-106.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-106.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-107.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-107.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-108.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-108.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-109.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-109.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-11.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-11.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-110.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-110.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-111.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-111.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-112.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-112.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-113.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-113.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-114.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-114.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-115.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-115.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-116.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-116.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-117.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-117.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-118.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-118.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-119.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-119.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-12.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-12.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-120.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-120.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-121.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-121.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-122.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-122.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-123.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-123.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-125.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-125.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-126.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-126.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-127.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-127.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-128.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-128.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-129.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-129.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-13.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-13.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-130.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-130.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-131.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-131.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-132.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-132.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-133.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-133.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-134.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-134.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-135.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-135.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-136.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-136.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-137.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-137.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-138.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-138.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-139.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-139.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-14.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-14.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-140.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-140.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-141.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-141.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-142.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-142.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-143.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-143.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-144.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-144.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-15.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-15.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-16.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-16.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-17.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-17.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-18.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-18.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-19.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-19.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-2.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-2.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-20.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-20.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-21.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-21.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-22.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-22.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-23.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-23.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-24.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-24.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-25.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-25.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-26.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-26.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-27.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-27.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-28.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-28.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-29.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-29.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-3.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-3.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-30.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-30.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-31.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-31.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-32.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-32.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-33.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-33.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-34.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-34.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-35.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-35.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-36.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-36.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-37.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-37.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-38.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-38.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-39.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-39.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-4.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-4.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-40.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-40.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-41.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-41.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-42.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-42.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-43.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-43.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-44.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-44.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-45.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-45.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-46.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-46.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-47.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-47.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-48.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-48.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-49.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-49.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-5.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-5.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-50.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-50.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-51.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-51.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-52.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-52.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-53.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-53.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-54.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-54.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-55.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-55.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-56.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-56.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-57.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-57.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-58-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-58-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-59-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-59-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-6.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-6.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-60-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-60-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-61-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-61-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-62-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-62-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-63-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-63-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-64-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-64-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-65-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-65-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-66-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-66-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-67.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-67.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-68.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-68.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-69.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-69.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-7.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-7.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-70.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-70.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-71.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-71.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-72.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-72.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-73.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-73.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-74.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-74.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-75.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-75.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-76.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-76.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-77.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-77.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-78.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-78.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-79.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-79.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-8.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-8.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-80.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-80.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-81.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-81.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-82.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-82.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-83.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-83.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-84-2nd.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-84-2nd.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-85.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-85.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-86.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-86.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-87.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-87.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-88.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-88.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-89.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-89.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-9.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-9.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-90.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-90.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-91.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-91.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-92.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-92.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-93.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-93.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-94.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-94.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-95.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-95.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-96.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-96.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-97.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-97.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-98.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-98.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98.pin Process 'MSFragger move pin' finished, exit code: 0 MSFragger move pepxml D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-99.pepXML D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99.pepXML Process 'MSFragger move pepxml' finished, exit code: 0 MSFragger move pin D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar;/D:/JAM/fragpipe/lib/commons-io-2.11.0.jar com.github.chhh.utils.FileMove --no-err D:\JAM\Sylvain\S22049-Arjun-99.pin D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99.pin Process 'MSFragger move pin' finished, exit code: 0 MSBooster [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\jre\bin\java.exe -Xmx29G -cp "D:\JAM\fragpipe\tools\msbooster-1.1.11.jar;D:\JAM\fragpipe\tools\batmass-io-1.28.9.jar" Features.MainClass --paramsList D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\msbooster_params.txt MSBooster v1.1.11 Using 7 threads Generating input file for DIA-NN 174252 unique peptides from 9150242 PSMs Writing DIA-NN input file Diann input file generation took 35661 milliseconds Input file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\spectraRT.tsv 174252 unique peptides from 9150242 PSMs createFull input file generation took 33603 milliseconds Input file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\spectraRT_full.tsv Generating DIA-NN predictions D:\JAM\fragpipe\tools\diann\1.8.2_beta_8\win\DiaNN.exe --lib D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\spectraRT.tsv --predict --threads 7 --strip-unknown-mods --mod TMT,229.1629 --predict-n-frag 100 DIA-NN 1.8.2 beta 8 (Data-Independent Acquisition by Neural Networks) Compiled on Sep 15 2022 18:28:57 Current date and time: Sat Mar 4 12:12:40 2023 CPU: GenuineIntel Intel(R) Core(TM) i7-7700 CPU @ 3.60GHz SIMD instructions: AVX AVX2 FMA SSE4.1 SSE4.2 Logical CPU cores: 8 Predicted spectra will be saved in a binary format Thread number set to 7 DIA-NN will use deep learning to predict spectra/RTs/IMs even for peptides carrying modifications which are not recognised by the deep learning predictor. In this scenario, if also generating a spectral library from the DIA data or using the MBR mode, it might or might not be better (depends on the data) to also use the --out-measured-rt option - it's recommended to test it with and without this option Modification TMT with mass delta 229.163 added to the list of recognised modifications for spectral library-based search Deep learning predictor will predict 100 fragments Cannot find a UniMod modification match for TMT: 73.0618 minimal mass discrepancy; using the original modificaiton name 0 files will be processed [0:00] Loading spectral library D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\spectraRT.tsv [0:00] Finding proteotypic peptides (assuming that the list of UniProt ids provided for each peptide is complete) [0:00] Spectral library loaded: 0 protein isoforms, 0 protein groups and 174252 precursors in 143622 elution groups. [0:00] Encoding peptides for spectra and RTs prediction [0:01] Predicting spectra and IMs [1:11] Predicting RTs [1:28] Decoding predicted spectra and IMs [1:32] Decoding RTs [1:32] Saving the list of predictions to D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\spectraRT.predicted.bin Finished Done generating DIA-NN predictions Model running took 98359 milliseconds Generating edited pin with following features: [unweightedSpectralEntropy, deltaRTLOESS] Loading predicted spectra Processing S22049-Arjun-100_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100_edited.pin Processing S22049-Arjun-101_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101_edited.pin Processing S22049-Arjun-102_uncalibrated.mzML RT regression using 1721 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102_edited.pin Processing S22049-Arjun-103_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103_edited.pin Processing S22049-Arjun-104_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104_edited.pin Processing S22049-Arjun-105_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105_edited.pin Processing S22049-Arjun-106_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106_edited.pin Processing S22049-Arjun-107_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107_edited.pin Processing S22049-Arjun-108_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108_edited.pin Processing S22049-Arjun-109_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109_edited.pin Processing S22049-Arjun-10_uncalibrated.mzML RT regression using 3877 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\S22049-Arjun-10_edited.pin Processing S22049-Arjun-110_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110_edited.pin Processing S22049-Arjun-111_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111_edited.pin Processing S22049-Arjun-112_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112_edited.pin Processing S22049-Arjun-113_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113_edited.pin Processing S22049-Arjun-114_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114_edited.pin Processing S22049-Arjun-115_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115_edited.pin Processing S22049-Arjun-116_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116_edited.pin Processing S22049-Arjun-117_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117_edited.pin Processing S22049-Arjun-118_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118_edited.pin Processing S22049-Arjun-119_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119_edited.pin Processing S22049-Arjun-11_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11_edited.pin Processing S22049-Arjun-120_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120_edited.pin Processing S22049-Arjun-121_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121_edited.pin Processing S22049-Arjun-122_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122_edited.pin Processing S22049-Arjun-123_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123_edited.pin Processing S22049-Arjun-125_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125_edited.pin Processing S22049-Arjun-126_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126_edited.pin Processing S22049-Arjun-127_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127_edited.pin Processing S22049-Arjun-128_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128_edited.pin Processing S22049-Arjun-129_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129_edited.pin Processing S22049-Arjun-12_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12_edited.pin Processing S22049-Arjun-130_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130_edited.pin Processing S22049-Arjun-131_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131_edited.pin Processing S22049-Arjun-132_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132_edited.pin Processing S22049-Arjun-133_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133_edited.pin Processing S22049-Arjun-134_uncalibrated.mzML RT regression using 652 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134_edited.pin Processing S22049-Arjun-135_uncalibrated.mzML RT regression using 726 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135_edited.pin Processing S22049-Arjun-136_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136_edited.pin Processing S22049-Arjun-137_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137_edited.pin Processing S22049-Arjun-138_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138_edited.pin Processing S22049-Arjun-139_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139_edited.pin Processing S22049-Arjun-13_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13_edited.pin Processing S22049-Arjun-140_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140_edited.pin Processing S22049-Arjun-141_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141_edited.pin Processing S22049-Arjun-142_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142_edited.pin Processing S22049-Arjun-143_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143_edited.pin Processing S22049-Arjun-144_uncalibrated.mzML RT regression using 4875 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144_edited.pin Processing S22049-Arjun-14_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14_edited.pin Processing S22049-Arjun-15_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15_edited.pin Processing S22049-Arjun-16_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16_edited.pin Processing S22049-Arjun-17_uncalibrated.mzML RT regression using 4543 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17_edited.pin Processing S22049-Arjun-18_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18_edited.pin Processing S22049-Arjun-19_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19_edited.pin Processing S22049-Arjun-1_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\S22049-Arjun-1_edited.pin Processing S22049-Arjun-20_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20_edited.pin Processing S22049-Arjun-21_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21_edited.pin Processing S22049-Arjun-22_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22_edited.pin Processing S22049-Arjun-23_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23_edited.pin Processing S22049-Arjun-24_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24_edited.pin Processing S22049-Arjun-25_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25_edited.pin Processing S22049-Arjun-26_uncalibrated.mzML RT regression using 4722 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26_edited.pin Processing S22049-Arjun-27_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27_edited.pin Processing S22049-Arjun-28_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28_edited.pin Processing S22049-Arjun-29_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29_edited.pin Processing S22049-Arjun-2_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2_edited.pin Processing S22049-Arjun-30_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30_edited.pin Processing S22049-Arjun-31_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31_edited.pin Processing S22049-Arjun-32_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32_edited.pin Processing S22049-Arjun-33_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33_edited.pin Processing S22049-Arjun-34_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34_edited.pin Processing S22049-Arjun-35_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35_edited.pin Processing S22049-Arjun-36_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36_edited.pin Processing S22049-Arjun-37_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37_edited.pin Processing S22049-Arjun-38_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38_edited.pin Processing S22049-Arjun-39_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39_edited.pin Processing S22049-Arjun-3_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3_edited.pin Processing S22049-Arjun-40_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40_edited.pin Processing S22049-Arjun-41_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41_edited.pin Processing S22049-Arjun-42_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42_edited.pin Processing S22049-Arjun-43_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43_edited.pin Processing S22049-Arjun-44_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44_edited.pin Processing S22049-Arjun-45_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45_edited.pin Processing S22049-Arjun-46_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46_edited.pin Processing S22049-Arjun-47_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47_edited.pin Processing S22049-Arjun-48_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48_edited.pin Processing S22049-Arjun-49_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49_edited.pin Processing S22049-Arjun-4_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4_edited.pin Processing S22049-Arjun-50_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50_edited.pin Processing S22049-Arjun-51_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51_edited.pin Processing S22049-Arjun-52_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52_edited.pin Processing S22049-Arjun-53_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53_edited.pin Processing S22049-Arjun-54_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54_edited.pin Processing S22049-Arjun-55_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55_edited.pin Processing S22049-Arjun-56_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56_edited.pin Processing S22049-Arjun-57_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57_edited.pin Processing S22049-Arjun-58-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd_edited.pin Processing S22049-Arjun-59-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd_edited.pin Processing S22049-Arjun-5_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5_edited.pin Processing S22049-Arjun-60-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd_edited.pin Processing S22049-Arjun-61-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd_edited.pin Processing S22049-Arjun-62-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd_edited.pin Processing S22049-Arjun-63-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd_edited.pin Processing S22049-Arjun-64-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd_edited.pin Processing S22049-Arjun-65-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd_edited.pin Processing S22049-Arjun-66-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd_edited.pin Processing S22049-Arjun-67_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67_edited.pin Processing S22049-Arjun-68_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68_edited.pin Processing S22049-Arjun-69_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69_edited.pin Processing S22049-Arjun-6_uncalibrated.mzML RT regression using 4918 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6_edited.pin Processing S22049-Arjun-70_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70_edited.pin Processing S22049-Arjun-71_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71_edited.pin Processing S22049-Arjun-72_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72_edited.pin Processing S22049-Arjun-73_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73_edited.pin Processing S22049-Arjun-74_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74_edited.pin Processing S22049-Arjun-75_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75_edited.pin Processing S22049-Arjun-76_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76_edited.pin Processing S22049-Arjun-77_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77_edited.pin Processing S22049-Arjun-78_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78_edited.pin Processing S22049-Arjun-79_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79_edited.pin Processing S22049-Arjun-7_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7_edited.pin Processing S22049-Arjun-80_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80_edited.pin Processing S22049-Arjun-81_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81_edited.pin Processing S22049-Arjun-82_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82_edited.pin Processing S22049-Arjun-83_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83_edited.pin Processing S22049-Arjun-84-2nd_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd_edited.pin Processing S22049-Arjun-85_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85_edited.pin Processing S22049-Arjun-86_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86_edited.pin Processing S22049-Arjun-87_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87_edited.pin Processing S22049-Arjun-88_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88_edited.pin Processing S22049-Arjun-89_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89_edited.pin Processing S22049-Arjun-8_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8_edited.pin Processing S22049-Arjun-90_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90_edited.pin Processing S22049-Arjun-91_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91_edited.pin Processing S22049-Arjun-92_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92_edited.pin Processing S22049-Arjun-93_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93_edited.pin Processing S22049-Arjun-94_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94_edited.pin Processing S22049-Arjun-95_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95_edited.pin Processing S22049-Arjun-96_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96_edited.pin Processing S22049-Arjun-97_uncalibrated.mzML RT regression using 3809 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97_edited.pin Processing S22049-Arjun-98_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98_edited.pin Processing S22049-Arjun-99_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99_edited.pin Processing S22049-Arjun-9_uncalibrated.mzML RT regression using 5000 PSMs Edited pin file at D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9_edited.pin Done in 1035964 ms Process 'MSBooster' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-21_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-21_percolator_decoy_psms.tsv S22049-Arjun-21_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-21_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-21_percolator_decoy_psms.tsv S22049-Arjun-21_edited.pin Started Sat Mar 4 12:32:30 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-21_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64327 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60291 positives and 4036 negatives, size ratio=14.9383 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36937 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37083 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37033 training set positives with q<0.01 in that direction. Found 55532 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.192 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56316 PSMs with q<0.01 Iteration 2: Estimated 56546 PSMs with q<0.01 Iteration 3: Estimated 56641 PSMs with q<0.01 Iteration 4: Estimated 56672 PSMs with q<0.01 Iteration 5: Estimated 56682 PSMs with q<0.01 Iteration 6: Estimated 56684 PSMs with q<0.01 Iteration 7: Estimated 56682 PSMs with q<0.01 Iteration 8: Estimated 56683 PSMs with q<0.01 Iteration 9: Estimated 56683 PSMs with q<0.01 Iteration 10: Estimated 56682 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1095 0.0599 0.1395 retentiontime 0.0000 0.0000 0.0000 rank -0.2415 -0.2106 -0.2143 abs_ppm -0.0744 -0.1182 -0.1300 isotope_errors -0.6338 -0.5255 -0.6952 log10_evalue 0.4457 0.6079 0.4629 hyperscore 0.3860 0.4840 0.3521 delta_hyperscore 0.4962 0.3851 0.5578 matched_ion_num -0.3752 -0.5700 -0.5545 complementary_ions -0.1018 -0.1504 -0.2107 ion_series 0.0096 0.0078 0.0129 weighted_average_abs_fragment_ppm 0.1617 0.1155 0.1014 peptide_length 0.0000 0.0000 0.0000 ntt -0.1638 -0.1363 -0.1518 nmc 0.0000 0.0000 0.0000 charge_1 -0.0143 -0.0138 -0.0078 charge_2 0.0099 -0.0158 0.0039 charge_3 0.0374 0.2315 0.0325 charge_4 -0.0151 -0.0076 -0.0094 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0493 -0.0400 -0.0568 15.9949M 0.4495 0.4920 0.5291 unweighted_spectral_entropy -0.4801 -0.4279 -0.4683 delta_RT_loess 1.7088 2.1856 2.2881 m0 Found 56650 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60291 target PSMs and 4036 decoy PSMs. Calculating q values. Final list yields 56652 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.52 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-120_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-120_percolator_decoy_psms.tsv S22049-Arjun-120_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-120_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-120_percolator_decoy_psms.tsv S22049-Arjun-120_edited.pin Started Sat Mar 4 12:32:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-120_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 54391 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 50955 positives and 3436 negatives, size ratio=14.8297 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31211 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31170 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31288 training set positives with q<0.01 in that direction. Found 46815 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.875 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47549 PSMs with q<0.01 Iteration 2: Estimated 47688 PSMs with q<0.01 Iteration 3: Estimated 47813 PSMs with q<0.01 Iteration 4: Estimated 47873 PSMs with q<0.01 Iteration 5: Estimated 47896 PSMs with q<0.01 Iteration 6: Estimated 47904 PSMs with q<0.01 Iteration 7: Estimated 47908 PSMs with q<0.01 Iteration 8: Estimated 47909 PSMs with q<0.01 Iteration 9: Estimated 47909 PSMs with q<0.01 Iteration 10: Estimated 47908 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0488 -0.0869 -0.0757 retentiontime 0.0000 0.0000 0.0000 rank -0.1885 -0.1973 -0.1804 abs_ppm -0.0872 -0.0621 -0.0556 isotope_errors -0.4366 -0.6397 -0.5621 log10_evalue 0.4695 0.6995 0.6942 hyperscore 0.4483 0.3526 0.5126 delta_hyperscore 0.5989 0.6327 0.2951 matched_ion_num -0.4294 -0.6881 -0.4743 complementary_ions -0.0390 -0.0453 -0.1283 ion_series -0.0178 -0.0059 -0.0091 weighted_average_abs_fragment_ppm 0.1642 0.3153 0.2662 peptide_length 0.0000 0.0000 0.0000 ntt -0.1258 -0.1585 -0.1301 nmc 0.0000 0.0000 0.0000 charge_1 -0.0100 0.0162 0.0024 charge_2 0.0098 -0.0123 -0.0013 charge_3 -0.0007 -0.0206 -0.0086 charge_4 0.0332 -0.0152 0.0295 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0144 -0.0054 -0.0303 15.9949M 0.4485 0.4598 0.4987 unweighted_spectral_entropy -0.5121 -0.5376 -0.5454 delta_RT_loess 2.2536 2.5046 2.2682 m0 Found 47894 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 50955 target PSMs and 3436 decoy PSMs. Calculating q values. Final list yields 47894 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.25 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-34_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-34_percolator_decoy_psms.tsv S22049-Arjun-34_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-34_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-34_percolator_decoy_psms.tsv S22049-Arjun-34_edited.pin Started Sat Mar 4 12:33:06 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-34_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70632 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 65038 positives and 5594 negatives, size ratio=11.6264 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38782 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 38593 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38721 training set positives with q<0.01 in that direction. Found 58039 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.253 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59515 PSMs with q<0.01 Iteration 2: Estimated 59740 PSMs with q<0.01 Iteration 3: Estimated 59825 PSMs with q<0.01 Iteration 4: Estimated 59846 PSMs with q<0.01 Iteration 5: Estimated 59845 PSMs with q<0.01 Iteration 6: Estimated 59854 PSMs with q<0.01 Iteration 7: Estimated 59851 PSMs with q<0.01 Iteration 8: Estimated 59851 PSMs with q<0.01 Iteration 9: Estimated 59855 PSMs with q<0.01 Iteration 10: Estimated 59857 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1003 0.0719 0.0689 retentiontime 0.0000 0.0000 0.0000 rank -0.2239 -0.2489 -0.2394 abs_ppm -0.1567 -0.1317 -0.1267 isotope_errors -0.1885 -0.5659 -0.3070 log10_evalue 1.4579 0.6423 0.7954 hyperscore 0.6232 0.6728 0.6250 delta_hyperscore 0.0705 0.4538 0.6445 matched_ion_num -0.8460 -0.7733 -0.8433 complementary_ions 0.1614 0.1059 0.0588 ion_series -0.0493 -0.0151 -0.0144 weighted_average_abs_fragment_ppm 0.1368 0.1316 0.1106 peptide_length 0.0000 0.0000 0.0000 ntt -0.1751 -0.1587 -0.1646 nmc 0.0000 0.0000 0.0000 charge_1 -0.0058 -0.0102 -0.0170 charge_2 -0.0030 0.0120 0.0170 charge_3 0.0308 -0.0179 -0.0024 charge_4 0.0269 0.0637 0.0186 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0264 -0.0025 -0.0158 15.9949M 0.6025 0.6103 0.6024 unweighted_spectral_entropy -0.6294 -0.7194 -0.6724 delta_RT_loess 1.9359 2.5378 2.4722 m0 Found 59826 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 65038 target PSMs and 5594 decoy PSMs. Calculating q values. Final list yields 59826 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.26 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-75_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-75_percolator_decoy_psms.tsv S22049-Arjun-75_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-75_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-75_percolator_decoy_psms.tsv S22049-Arjun-75_edited.pin Started Sat Mar 4 12:33:23 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-75_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60079 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56717 positives and 3362 negatives, size ratio=16.87 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35154 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35162 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35273 training set positives with q<0.01 in that direction. Found 52789 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.156 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53385 PSMs with q<0.01 Iteration 2: Estimated 53533 PSMs with q<0.01 Iteration 3: Estimated 53611 PSMs with q<0.01 Iteration 4: Estimated 53643 PSMs with q<0.01 Iteration 5: Estimated 53653 PSMs with q<0.01 Iteration 6: Estimated 53660 PSMs with q<0.01 Iteration 7: Estimated 53660 PSMs with q<0.01 Iteration 8: Estimated 53663 PSMs with q<0.01 Iteration 9: Estimated 53663 PSMs with q<0.01 Iteration 10: Estimated 53663 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0249 0.0101 0.0071 retentiontime 0.0000 0.0000 0.0000 rank -0.1711 -0.1732 -0.1774 abs_ppm -0.1057 -0.1240 -0.0906 isotope_errors -0.5420 -0.5217 -0.4306 log10_evalue 0.2715 0.6773 0.7601 hyperscore 0.3701 0.3740 0.3919 delta_hyperscore 0.6461 0.5712 0.4152 matched_ion_num -0.7035 -0.8632 -0.7276 complementary_ions -0.0396 -0.0760 0.0413 ion_series 0.0065 -0.0217 0.0258 weighted_average_abs_fragment_ppm 0.1580 0.1784 0.2377 peptide_length 0.0000 0.0000 0.0000 ntt -0.0953 -0.1262 -0.1002 nmc 0.0000 0.0000 0.0000 charge_1 0.0294 0.0109 0.0526 charge_2 -0.0381 -0.0304 -0.0559 charge_3 0.0087 0.0219 -0.0071 charge_4 0.0425 0.1021 0.0377 charge_5 -0.0085 -0.0094 -0.0092 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0303 -0.0563 -0.0369 15.9949M 0.5398 0.5457 0.5260 unweighted_spectral_entropy -0.4971 -0.5407 -0.4882 delta_RT_loess 2.0912 2.3097 2.2640 m0 Found 53637 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56717 target PSMs and 3362 decoy PSMs. Calculating q values. Final list yields 53637 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.62 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-116_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-116_percolator_decoy_psms.tsv S22049-Arjun-116_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-116_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-116_percolator_decoy_psms.tsv S22049-Arjun-116_edited.pin Started Sat Mar 4 12:33:38 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-116_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 52608 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 49455 positives and 3153 negatives, size ratio=15.6851 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 30383 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 30402 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 30469 training set positives with q<0.01 in that direction. Found 45607 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.857 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 46338 PSMs with q<0.01 Iteration 2: Estimated 46490 PSMs with q<0.01 Iteration 3: Estimated 46558 PSMs with q<0.01 Iteration 4: Estimated 46588 PSMs with q<0.01 Iteration 5: Estimated 46591 PSMs with q<0.01 Iteration 6: Estimated 46590 PSMs with q<0.01 Iteration 7: Estimated 46596 PSMs with q<0.01 Iteration 8: Estimated 46593 PSMs with q<0.01 Iteration 9: Estimated 46594 PSMs with q<0.01 Iteration 10: Estimated 46591 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0279 0.0391 0.0033 retentiontime 0.0000 0.0000 0.0000 rank -0.1261 -0.1272 -0.1316 abs_ppm -0.0875 -0.0837 -0.0951 isotope_errors -0.8207 -0.6459 -0.5558 log10_evalue 0.7947 0.1908 0.5890 hyperscore 0.5275 0.5260 0.5024 delta_hyperscore -0.0615 0.5964 0.4679 matched_ion_num -0.5853 -0.4144 -0.6164 complementary_ions 0.1554 0.0660 -0.0395 ion_series -0.0294 -0.0382 -0.0163 weighted_average_abs_fragment_ppm 0.2213 0.2121 0.2047 peptide_length 0.0000 0.0000 0.0000 ntt -0.1023 -0.1113 -0.0999 nmc 0.0000 0.0000 0.0000 charge_1 -0.0367 0.0093 0.0142 charge_2 0.0151 -0.0034 -0.0106 charge_3 0.1147 -0.0312 -0.0194 charge_4 0.0000 0.0000 0.0000 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0305 -0.0923 -0.0696 15.9949M 0.5377 0.4427 0.4817 unweighted_spectral_entropy -0.5424 -0.6866 -0.5907 delta_RT_loess 1.9209 2.4254 2.3072 m0 Found 46591 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 49455 target PSMs and 3153 decoy PSMs. Calculating q values. Final list yields 46592 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.75 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-47_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-47_percolator_decoy_psms.tsv S22049-Arjun-47_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-47_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-47_percolator_decoy_psms.tsv S22049-Arjun-47_edited.pin Started Sat Mar 4 12:33:56 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-47_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70771 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66334 positives and 4437 negatives, size ratio=14.9502 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40819 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40896 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40817 training set positives with q<0.01 in that direction. Found 61241 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.176 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 62108 PSMs with q<0.01 Iteration 2: Estimated 62265 PSMs with q<0.01 Iteration 3: Estimated 62341 PSMs with q<0.01 Iteration 4: Estimated 62379 PSMs with q<0.01 Iteration 5: Estimated 62382 PSMs with q<0.01 Iteration 6: Estimated 62383 PSMs with q<0.01 Iteration 7: Estimated 62382 PSMs with q<0.01 Iteration 8: Estimated 62381 PSMs with q<0.01 Iteration 9: Estimated 62383 PSMs with q<0.01 Iteration 10: Estimated 62381 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0323 -0.0131 0.0942 retentiontime 0.0000 0.0000 0.0000 rank -0.1821 -0.1952 -0.2170 abs_ppm -0.1445 -0.1185 -0.0584 isotope_errors -0.5909 -0.8211 -1.0215 log10_evalue 0.6772 0.4465 0.4795 hyperscore 0.6140 0.5369 0.6101 delta_hyperscore 0.8114 0.4369 0.3896 matched_ion_num -0.8770 -0.6010 -0.5434 complementary_ions -0.0016 -0.0495 0.1518 ion_series 0.0330 -0.0388 -0.0141 weighted_average_abs_fragment_ppm 0.1817 0.2739 0.1413 peptide_length 0.0000 0.0000 0.0000 ntt -0.1451 -0.1388 -0.1643 nmc 0.0000 0.0000 0.0000 charge_1 0.0325 0.0286 0.0054 charge_2 -0.0372 -0.0294 -0.0083 charge_3 0.0102 0.0062 0.0084 charge_4 0.0113 -0.0206 0.0032 charge_5 -0.0084 -0.0086 -0.0087 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0295 -0.0660 -0.0391 15.9949M 0.5084 0.5507 0.5019 unweighted_spectral_entropy -0.4175 -0.3684 -0.4490 delta_RT_loess 2.2306 2.2980 2.4011 m0 Found 62374 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66334 target PSMs and 4437 decoy PSMs. Calculating q values. Final list yields 62374 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.95 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-90_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-90_percolator_decoy_psms.tsv S22049-Arjun-90_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-90_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-90_percolator_decoy_psms.tsv S22049-Arjun-90_edited.pin Started Sat Mar 4 12:34:14 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-90_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 65317 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 61053 positives and 4264 negatives, size ratio=14.3182 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37282 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37423 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37313 training set positives with q<0.01 in that direction. Found 56012 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.067 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56976 PSMs with q<0.01 Iteration 2: Estimated 57193 PSMs with q<0.01 Iteration 3: Estimated 57290 PSMs with q<0.01 Iteration 4: Estimated 57304 PSMs with q<0.01 Iteration 5: Estimated 57306 PSMs with q<0.01 Iteration 6: Estimated 57312 PSMs with q<0.01 Iteration 7: Estimated 57309 PSMs with q<0.01 Iteration 8: Estimated 57311 PSMs with q<0.01 Iteration 9: Estimated 57312 PSMs with q<0.01 Iteration 10: Estimated 57308 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0136 -0.0209 0.0026 retentiontime 0.0000 0.0000 0.0000 rank -0.2190 -0.2461 -0.2009 abs_ppm -0.0825 -0.0884 -0.0524 isotope_errors -0.2889 -0.6774 -0.4207 log10_evalue 0.4029 0.7010 1.0822 hyperscore 0.6025 0.4382 0.6152 delta_hyperscore 0.5899 0.3764 0.3394 matched_ion_num -0.6574 -0.7783 -0.8730 complementary_ions 0.0650 0.0607 0.0698 ion_series -0.0478 -0.0229 -0.0449 weighted_average_abs_fragment_ppm 0.2105 0.1901 0.1849 peptide_length 0.0000 0.0000 0.0000 ntt -0.1788 -0.1572 -0.1780 nmc 0.0000 0.0000 0.0000 charge_1 0.0416 0.0345 0.0192 charge_2 -0.0399 -0.0148 0.0013 charge_3 -0.0113 -0.0660 -0.0694 charge_4 0.0095 -0.0030 0.0039 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0241 -0.0235 -0.0285 15.9949M 0.5326 0.5335 0.5430 unweighted_spectral_entropy -0.5828 -0.5542 -0.4980 delta_RT_loess 2.2652 2.4909 2.3225 m0 Found 57305 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 61053 target PSMs and 4264 decoy PSMs. Calculating q values. Final list yields 57307 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.17 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-135_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-135_percolator_decoy_psms.tsv S22049-Arjun-135_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-135_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-135_percolator_decoy_psms.tsv S22049-Arjun-135_edited.pin Started Sat Mar 4 12:34:30 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-135_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 5465 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 4978 positives and 487 negatives, size ratio=10.2218 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 2983 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 2961 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 2965 training set positives with q<0.01 in that direction. Found 4429 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.138 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 4499 PSMs with q<0.01 Iteration 2: Estimated 4506 PSMs with q<0.01 Iteration 3: Estimated 4506 PSMs with q<0.01 Iteration 4: Estimated 4509 PSMs with q<0.01 Iteration 5: Estimated 4509 PSMs with q<0.01 Iteration 6: Estimated 4510 PSMs with q<0.01 Iteration 7: Estimated 4510 PSMs with q<0.01 Iteration 8: Estimated 4510 PSMs with q<0.01 Iteration 9: Estimated 4510 PSMs with q<0.01 Iteration 10: Estimated 4510 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0776 -0.0272 -0.0445 retentiontime 0.0000 0.0000 0.0000 rank -0.0050 -0.1371 -0.0865 abs_ppm -0.2559 -0.1405 -0.0643 isotope_errors -0.7478 -0.8203 -0.7718 log10_evalue 0.4071 0.2436 0.5117 hyperscore 0.4170 0.2262 0.2455 delta_hyperscore 0.4639 0.5467 0.2742 matched_ion_num -0.6562 -0.7105 -0.6882 complementary_ions -0.3138 -0.2602 -0.1832 ion_series 0.0405 0.0799 -0.0292 weighted_average_abs_fragment_ppm 0.0549 0.1934 0.2746 peptide_length 0.0000 0.0000 0.0000 ntt -0.1714 -0.0626 -0.1660 nmc 0.0000 0.0000 0.0000 charge_1 -0.0358 0.0015 0.0367 charge_2 0.0428 -0.0067 -0.0349 charge_3 -0.0170 0.0204 -0.0050 charge_4 -0.0041 -0.0177 -0.0213 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.1843 -0.2380 -0.1311 15.9949M 1.0202 1.1526 1.1455 unweighted_spectral_entropy 0.0620 -0.0916 -0.0294 delta_RT_loess 1.6240 1.5420 1.6171 m0 Found 4483 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 4978 target PSMs and 487 decoy PSMs. Calculating q values. Final list yields 4486 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 2.691 cpu seconds or 2 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-131_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-131_percolator_decoy_psms.tsv S22049-Arjun-131_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-131_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-131_percolator_decoy_psms.tsv S22049-Arjun-131_edited.pin Started Sat Mar 4 12:34:34 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-131_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 57680 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 53944 positives and 3736 negatives, size ratio=14.439 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33011 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33036 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33029 training set positives with q<0.01 in that direction. Found 49545 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.931 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50335 PSMs with q<0.01 Iteration 2: Estimated 50484 PSMs with q<0.01 Iteration 3: Estimated 50575 PSMs with q<0.01 Iteration 4: Estimated 50606 PSMs with q<0.01 Iteration 5: Estimated 50612 PSMs with q<0.01 Iteration 6: Estimated 50616 PSMs with q<0.01 Iteration 7: Estimated 50618 PSMs with q<0.01 Iteration 8: Estimated 50619 PSMs with q<0.01 Iteration 9: Estimated 50619 PSMs with q<0.01 Iteration 10: Estimated 50619 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0639 -0.0129 0.0142 retentiontime 0.0000 0.0000 0.0000 rank -0.2114 -0.1937 -0.2148 abs_ppm -0.1029 -0.0946 -0.1006 isotope_errors -0.5616 -0.6809 -0.7033 log10_evalue 0.4234 0.5748 0.4311 hyperscore 0.4533 0.4219 0.3763 delta_hyperscore 0.7377 0.7788 0.5450 matched_ion_num -0.7003 -0.7403 -0.6403 complementary_ions -0.1092 -0.1804 -0.1327 ion_series 0.0255 0.0234 0.0098 weighted_average_abs_fragment_ppm 0.2180 0.1755 0.1090 peptide_length 0.0000 0.0000 0.0000 ntt -0.2280 -0.1746 -0.1876 nmc 0.0000 0.0000 0.0000 charge_1 0.0139 0.0066 -0.0134 charge_2 -0.0437 -0.0369 -0.0252 charge_3 0.1447 0.1473 0.1883 charge_4 -0.0193 -0.0175 -0.0156 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0391 -0.0342 -0.0383 15.9949M 0.5072 0.5465 0.4887 unweighted_spectral_entropy -0.5549 -0.5426 -0.5535 delta_RT_loess 2.3129 2.2176 2.1886 m0 Found 50612 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 53944 target PSMs and 3736 decoy PSMs. Calculating q values. Final list yields 50613 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.8 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-108_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-108_percolator_decoy_psms.tsv S22049-Arjun-108_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-108_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-108_percolator_decoy_psms.tsv S22049-Arjun-108_edited.pin Started Sat Mar 4 12:34:50 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-108_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 58619 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54864 positives and 3755 negatives, size ratio=14.6109 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33763 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33750 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33672 training set positives with q<0.01 in that direction. Found 50547 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.313 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51259 PSMs with q<0.01 Iteration 2: Estimated 51432 PSMs with q<0.01 Iteration 3: Estimated 51491 PSMs with q<0.01 Iteration 4: Estimated 51499 PSMs with q<0.01 Iteration 5: Estimated 51504 PSMs with q<0.01 Iteration 6: Estimated 51507 PSMs with q<0.01 Iteration 7: Estimated 51509 PSMs with q<0.01 Iteration 8: Estimated 51511 PSMs with q<0.01 Iteration 9: Estimated 51512 PSMs with q<0.01 Iteration 10: Estimated 51512 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0545 -0.0758 -0.0123 retentiontime 0.0000 0.0000 0.0000 rank -0.2012 -0.1968 -0.2159 abs_ppm -0.0635 -0.1053 -0.0757 isotope_errors -0.2738 -0.3172 -0.2096 log10_evalue 0.8900 0.7345 1.0201 hyperscore 0.4880 0.5791 0.5953 delta_hyperscore 0.4694 0.3914 0.1974 matched_ion_num -0.7211 -0.5777 -0.5394 complementary_ions -0.0915 -0.0380 -0.0819 ion_series -0.0176 -0.0309 -0.0111 weighted_average_abs_fragment_ppm 0.2257 0.2813 0.2059 peptide_length 0.0000 0.0000 0.0000 ntt -0.1856 -0.1674 -0.1621 nmc 0.0000 0.0000 0.0000 charge_1 0.0097 0.0188 0.0098 charge_2 -0.0132 -0.0123 -0.0129 charge_3 0.0079 -0.0396 0.0060 charge_4 0.0120 0.0640 0.0131 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0120 -0.0171 0.0088 15.9949M 0.5305 0.5125 0.5167 unweighted_spectral_entropy -0.5582 -0.5404 -0.5353 delta_RT_loess 2.2292 2.2786 2.2179 m0 Found 51521 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54864 target PSMs and 3755 decoy PSMs. Calculating q values. Final list yields 51522 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 12.76 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-66-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-66-2nd_percolator_decoy_psms.tsv S22049-Arjun-66-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-66-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-66-2nd_percolator_decoy_psms.tsv S22049-Arjun-66-2nd_edited.pin Started Sat Mar 4 12:35:05 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-66-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73646 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68732 positives and 4914 negatives, size ratio=13.987 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41707 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41858 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42023 training set positives with q<0.01 in that direction. Found 62827 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.845 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64041 PSMs with q<0.01 Iteration 2: Estimated 64282 PSMs with q<0.01 Iteration 3: Estimated 64352 PSMs with q<0.01 Iteration 4: Estimated 64372 PSMs with q<0.01 Iteration 5: Estimated 64373 PSMs with q<0.01 Iteration 6: Estimated 64373 PSMs with q<0.01 Iteration 7: Estimated 64372 PSMs with q<0.01 Iteration 8: Estimated 64373 PSMs with q<0.01 Iteration 9: Estimated 64380 PSMs with q<0.01 Iteration 10: Estimated 64381 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0224 0.0193 0.0170 retentiontime 0.0000 0.0000 0.0000 rank -0.2325 -0.2363 -0.2465 abs_ppm -0.1192 -0.1257 -0.0864 isotope_errors -0.4377 -0.8520 -0.8584 log10_evalue 0.4276 0.2543 -0.0025 hyperscore 0.6569 0.5086 0.5143 delta_hyperscore 0.8635 0.7599 1.1658 matched_ion_num -0.8131 -0.8805 -0.9332 complementary_ions -0.0968 0.0311 -0.0886 ion_series 0.0038 -0.0197 -0.0212 weighted_average_abs_fragment_ppm 0.1639 0.1740 0.1019 peptide_length 0.0000 0.0000 0.0000 ntt -0.1827 -0.2025 -0.1758 nmc 0.0000 0.0000 0.0000 charge_1 0.0302 0.0042 0.0213 charge_2 -0.0378 -0.0115 -0.0283 charge_3 0.0264 0.0177 0.0248 charge_4 -0.0005 0.0388 -0.0011 charge_5 -0.0090 -0.0095 -0.0093 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0228 -0.0071 -0.0069 15.9949M 0.5180 0.5124 0.5054 unweighted_spectral_entropy -0.4406 -0.4952 -0.4893 delta_RT_loess 2.4477 2.5649 2.5221 m0 Found 64375 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68732 target PSMs and 4914 decoy PSMs. Calculating q values. Final list yields 64376 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 24.89 cpu seconds or 25 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-127_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-127_percolator_decoy_psms.tsv S22049-Arjun-127_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-127_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-127_percolator_decoy_psms.tsv S22049-Arjun-127_edited.pin Started Sat Mar 4 12:35:33 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-127_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 52267 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 48359 positives and 3908 negatives, size ratio=12.3744 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 28901 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 29087 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 28845 training set positives with q<0.01 in that direction. Found 43396 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.387 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 44313 PSMs with q<0.01 Iteration 2: Estimated 44463 PSMs with q<0.01 Iteration 3: Estimated 44555 PSMs with q<0.01 Iteration 4: Estimated 44603 PSMs with q<0.01 Iteration 5: Estimated 44617 PSMs with q<0.01 Iteration 6: Estimated 44627 PSMs with q<0.01 Iteration 7: Estimated 44627 PSMs with q<0.01 Iteration 8: Estimated 44631 PSMs with q<0.01 Iteration 9: Estimated 44635 PSMs with q<0.01 Iteration 10: Estimated 44634 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0982 0.0372 0.0810 retentiontime 0.0000 0.0000 0.0000 rank -0.1532 -0.1934 -0.1543 abs_ppm -0.1168 -0.1132 -0.1112 isotope_errors -0.5865 -0.7038 -0.6866 log10_evalue 0.5181 0.5277 0.2872 hyperscore 0.4195 0.5531 0.4549 delta_hyperscore 0.5195 0.1677 0.7434 matched_ion_num -0.6458 -0.4962 -0.5635 complementary_ions -0.1050 -0.0158 -0.1377 ion_series -0.0232 -0.0420 -0.0234 weighted_average_abs_fragment_ppm 0.1385 0.2552 0.1581 peptide_length 0.0000 0.0000 0.0000 ntt -0.1296 -0.1345 -0.1191 nmc 0.0000 0.0000 0.0000 charge_1 -0.0012 0.0224 -0.0018 charge_2 -0.0283 -0.0275 -0.0055 charge_3 0.1998 0.0339 0.0499 charge_4 0.0000 0.0000 0.0000 charge_5 -0.0093 -0.0099 -0.0096 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0135 0.0228 0.0162 15.9949M 0.5497 0.5650 0.5191 unweighted_spectral_entropy -0.5205 -0.5524 -0.5180 delta_RT_loess 2.1198 2.2536 2.1972 m0 Found 44627 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 48359 target PSMs and 3908 decoy PSMs. Calculating q values. Final list yields 44627 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.45 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-58-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-58-2nd_percolator_decoy_psms.tsv S22049-Arjun-58-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-58-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-58-2nd_percolator_decoy_psms.tsv S22049-Arjun-58-2nd_edited.pin Started Sat Mar 4 12:35:53 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-58-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 66075 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 62030 positives and 4045 negatives, size ratio=15.335 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38023 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 38213 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37936 training set positives with q<0.01 in that direction. Found 57103 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.352 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 58118 PSMs with q<0.01 Iteration 2: Estimated 58389 PSMs with q<0.01 Iteration 3: Estimated 58451 PSMs with q<0.01 Iteration 4: Estimated 58468 PSMs with q<0.01 Iteration 5: Estimated 58476 PSMs with q<0.01 Iteration 6: Estimated 58476 PSMs with q<0.01 Iteration 7: Estimated 58475 PSMs with q<0.01 Iteration 8: Estimated 58474 PSMs with q<0.01 Iteration 9: Estimated 58474 PSMs with q<0.01 Iteration 10: Estimated 58472 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0767 0.0942 0.0781 retentiontime 0.0000 0.0000 0.0000 rank -0.2067 -0.1904 -0.2054 abs_ppm -0.1260 -0.0860 -0.1232 isotope_errors -0.6244 -0.4978 -0.8419 log10_evalue 0.3743 1.3969 0.1006 hyperscore 0.4852 0.4716 0.4479 delta_hyperscore 0.6374 -0.1091 0.5227 matched_ion_num -0.7444 -0.9226 -0.7532 complementary_ions -0.0555 0.1163 0.1267 ion_series -0.0548 -0.0413 -0.0479 weighted_average_abs_fragment_ppm 0.0994 0.0919 0.1117 peptide_length 0.0000 0.0000 0.0000 ntt -0.1872 -0.1486 -0.1773 nmc 0.0000 0.0000 0.0000 charge_1 0.0057 0.0283 -0.0076 charge_2 -0.0202 -0.0414 -0.0145 charge_3 0.0539 0.0298 0.0790 charge_4 -0.0231 0.0514 -0.0182 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0025 0.0161 -0.0350 15.9949M 0.4840 0.5173 0.4965 unweighted_spectral_entropy -0.6095 -0.4212 -0.5764 delta_RT_loess 2.3416 1.8993 2.3555 m0 Found 58431 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 62030 target PSMs and 4045 decoy PSMs. Calculating q values. Final list yields 58435 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.06 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-53_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-53_percolator_decoy_psms.tsv S22049-Arjun-53_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-53_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-53_percolator_decoy_psms.tsv S22049-Arjun-53_edited.pin Started Sat Mar 4 12:36:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-53_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 76576 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 71459 positives and 5117 negatives, size ratio=13.965 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43459 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43707 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43680 training set positives with q<0.01 in that direction. Found 65418 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.252 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66529 PSMs with q<0.01 Iteration 2: Estimated 66767 PSMs with q<0.01 Iteration 3: Estimated 66853 PSMs with q<0.01 Iteration 4: Estimated 66873 PSMs with q<0.01 Iteration 5: Estimated 66886 PSMs with q<0.01 Iteration 6: Estimated 66886 PSMs with q<0.01 Iteration 7: Estimated 66882 PSMs with q<0.01 Iteration 8: Estimated 66881 PSMs with q<0.01 Iteration 9: Estimated 66886 PSMs with q<0.01 Iteration 10: Estimated 66881 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0675 0.1249 0.0964 retentiontime 0.0000 0.0000 0.0000 rank -0.2360 -0.2054 -0.1704 abs_ppm -0.1010 -0.1110 -0.1304 isotope_errors -0.7070 -0.8002 -0.9626 log10_evalue 0.5019 0.6827 0.9055 hyperscore 0.6648 0.6182 0.7210 delta_hyperscore 0.7174 0.2897 0.2822 matched_ion_num -0.7643 -0.7493 -0.7667 complementary_ions -0.3148 -0.0859 -0.0362 ion_series -0.0701 -0.0442 -0.0922 weighted_average_abs_fragment_ppm 0.1263 0.0600 0.1036 peptide_length 0.0000 0.0000 0.0000 ntt -0.2164 -0.2061 -0.2302 nmc 0.0000 0.0000 0.0000 charge_1 0.0252 -0.0040 0.0029 charge_2 -0.0260 -0.0007 -0.0161 charge_3 0.0001 0.0138 0.0471 charge_4 0.0077 0.0242 0.0248 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0183 0.0092 -0.0070 15.9949M 0.5704 0.5675 0.5206 unweighted_spectral_entropy -0.5430 -0.4855 -0.4037 delta_RT_loess 2.5076 2.1901 2.3720 m0 Found 66875 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 71459 target PSMs and 5117 decoy PSMs. Calculating q values. Final list yields 66882 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.5 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-7_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-7_percolator_decoy_psms.tsv S22049-Arjun-7_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-7_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-7_percolator_decoy_psms.tsv S22049-Arjun-7_edited.pin Started Sat Mar 4 12:36:35 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-7_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 76923 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 71712 positives and 5211 negatives, size ratio=13.7617 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43777 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43698 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43728 training set positives with q<0.01 in that direction. Found 65595 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.822 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66837 PSMs with q<0.01 Iteration 2: Estimated 67042 PSMs with q<0.01 Iteration 3: Estimated 67135 PSMs with q<0.01 Iteration 4: Estimated 67167 PSMs with q<0.01 Iteration 5: Estimated 67164 PSMs with q<0.01 Iteration 6: Estimated 67163 PSMs with q<0.01 Iteration 7: Estimated 67165 PSMs with q<0.01 Iteration 8: Estimated 67164 PSMs with q<0.01 Iteration 9: Estimated 67163 PSMs with q<0.01 Iteration 10: Estimated 67165 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0851 0.0794 0.0692 retentiontime 0.0000 0.0000 0.0000 rank -0.2124 -0.2256 -0.2546 abs_ppm -0.1272 -0.1158 -0.1502 isotope_errors -0.4421 -0.2008 -0.4560 log10_evalue 0.9137 0.8847 0.9599 hyperscore 0.8138 0.7208 0.6978 delta_hyperscore 0.7543 0.7180 0.7566 matched_ion_num -0.8616 -0.8875 -0.9410 complementary_ions 0.0376 -0.0652 -0.1041 ion_series -0.0138 -0.0077 -0.0305 weighted_average_abs_fragment_ppm 0.0885 0.0720 0.1076 peptide_length 0.0000 0.0000 0.0000 ntt -0.1290 -0.1441 -0.1850 nmc 0.0000 0.0000 0.0000 charge_1 -0.0230 -0.0043 0.0177 charge_2 0.0272 -0.0009 -0.0228 charge_3 -0.0071 0.0202 0.0061 charge_4 -0.0146 -0.0134 0.0282 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0467 -0.0330 -0.0337 15.9949M 0.5176 0.5587 0.5397 unweighted_spectral_entropy -0.5608 -0.5487 -0.5562 delta_RT_loess 2.8163 2.5574 2.9281 m0 Found 67139 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 71712 target PSMs and 5211 decoy PSMs. Calculating q values. Final list yields 67141 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 22.31 cpu seconds or 22 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-101_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-101_percolator_decoy_psms.tsv S22049-Arjun-101_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-101_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-101_percolator_decoy_psms.tsv S22049-Arjun-101_edited.pin Started Sat Mar 4 12:37:01 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-101_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 65112 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 61513 positives and 3599 negatives, size ratio=17.0917 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38140 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 38158 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38306 training set positives with q<0.01 in that direction. Found 57311 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.668 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 57970 PSMs with q<0.01 Iteration 2: Estimated 58158 PSMs with q<0.01 Iteration 3: Estimated 58231 PSMs with q<0.01 Iteration 4: Estimated 58266 PSMs with q<0.01 Iteration 5: Estimated 58273 PSMs with q<0.01 Iteration 6: Estimated 58278 PSMs with q<0.01 Iteration 7: Estimated 58277 PSMs with q<0.01 Iteration 8: Estimated 58278 PSMs with q<0.01 Iteration 9: Estimated 58276 PSMs with q<0.01 Iteration 10: Estimated 58278 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0083 -0.0337 0.0433 retentiontime 0.0000 0.0000 0.0000 rank -0.1812 -0.1640 -0.1757 abs_ppm -0.0946 -0.0709 -0.0895 isotope_errors -0.6579 -0.4723 -0.5093 log10_evalue 0.5451 0.9350 0.7443 hyperscore 0.4734 0.4724 0.5132 delta_hyperscore 0.2912 0.5669 0.4070 matched_ion_num -0.6276 -0.7781 -0.6692 complementary_ions -0.1248 -0.1296 -0.1475 ion_series -0.0125 -0.0600 -0.0042 weighted_average_abs_fragment_ppm 0.1261 0.2283 0.1298 peptide_length 0.0000 0.0000 0.0000 ntt -0.1586 -0.1410 -0.1535 nmc 0.0000 0.0000 0.0000 charge_1 0.0115 -0.0036 0.0099 charge_2 -0.0205 -0.0154 -0.0233 charge_3 -0.0240 0.0109 -0.0189 charge_4 0.1384 0.1164 0.1589 charge_5 -0.0098 -0.0088 -0.0111 charge_6 -0.0084 -0.0089 -0.0092 charge_7_or_more -0.0447 -0.0808 -0.0322 15.9949M 0.5128 0.4947 0.5338 unweighted_spectral_entropy -0.4669 -0.4757 -0.4698 delta_RT_loess 2.1495 2.2620 2.3542 m0 Found 58266 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 61513 target PSMs and 3599 decoy PSMs. Calculating q values. Final list yields 58267 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.2 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-56_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-56_percolator_decoy_psms.tsv S22049-Arjun-56_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-56_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-56_percolator_decoy_psms.tsv S22049-Arjun-56_edited.pin Started Sat Mar 4 12:37:22 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-56_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73236 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68607 positives and 4629 negatives, size ratio=14.8211 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41912 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42095 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42049 training set positives with q<0.01 in that direction. Found 62994 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.768 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64144 PSMs with q<0.01 Iteration 2: Estimated 64376 PSMs with q<0.01 Iteration 3: Estimated 64501 PSMs with q<0.01 Iteration 4: Estimated 64520 PSMs with q<0.01 Iteration 5: Estimated 64529 PSMs with q<0.01 Iteration 6: Estimated 64519 PSMs with q<0.01 Iteration 7: Estimated 64521 PSMs with q<0.01 Iteration 8: Estimated 64522 PSMs with q<0.01 Iteration 9: Estimated 64522 PSMs with q<0.01 Iteration 10: Estimated 64523 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0681 0.0861 0.0154 retentiontime 0.0000 0.0000 0.0000 rank -0.1486 -0.1724 -0.2113 abs_ppm -0.1477 -0.1621 -0.1472 isotope_errors -0.9104 -0.8807 -0.8139 log10_evalue 0.7569 0.3400 0.3875 hyperscore 0.6371 0.5230 0.5477 delta_hyperscore 0.5656 0.7232 0.7522 matched_ion_num -0.6998 -0.5886 -0.6994 complementary_ions 0.0216 0.0188 -0.1437 ion_series -0.0408 -0.0659 -0.0195 weighted_average_abs_fragment_ppm 0.2095 0.1308 0.1449 peptide_length 0.0000 0.0000 0.0000 ntt -0.1720 -0.1389 -0.1672 nmc 0.0000 0.0000 0.0000 charge_1 0.0029 -0.0106 0.0059 charge_2 -0.0256 -0.0041 -0.0150 charge_3 0.0741 0.0492 0.0316 charge_4 0.0224 0.0124 -0.0012 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0377 -0.0291 -0.0422 15.9949M 0.4000 0.4164 0.4953 unweighted_spectral_entropy -0.3742 -0.3409 -0.4274 delta_RT_loess 2.3531 2.0998 2.5743 m0 Found 64507 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68607 target PSMs and 4629 decoy PSMs. Calculating q values. Final list yields 64507 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.87 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-119_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-119_percolator_decoy_psms.tsv S22049-Arjun-119_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-119_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-119_percolator_decoy_psms.tsv S22049-Arjun-119_edited.pin Started Sat Mar 4 12:37:43 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-119_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 56612 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 53118 positives and 3494 negatives, size ratio=15.2026 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 32604 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 32622 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 32618 training set positives with q<0.01 in that direction. Found 48897 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.272 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 49644 PSMs with q<0.01 Iteration 2: Estimated 49867 PSMs with q<0.01 Iteration 3: Estimated 49939 PSMs with q<0.01 Iteration 4: Estimated 49969 PSMs with q<0.01 Iteration 5: Estimated 49972 PSMs with q<0.01 Iteration 6: Estimated 49966 PSMs with q<0.01 Iteration 7: Estimated 49970 PSMs with q<0.01 Iteration 8: Estimated 49971 PSMs with q<0.01 Iteration 9: Estimated 49970 PSMs with q<0.01 Iteration 10: Estimated 49969 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0682 -0.0544 -0.0642 retentiontime 0.0000 0.0000 0.0000 rank -0.2213 -0.2064 -0.1936 abs_ppm -0.0540 -0.0664 -0.0606 isotope_errors -0.5503 -0.6149 -0.8123 log10_evalue 1.1288 0.2542 0.9620 hyperscore 0.2707 0.5853 0.4295 delta_hyperscore -0.1185 0.2937 -0.0234 matched_ion_num -0.5355 -0.4366 -0.7243 complementary_ions 0.0360 0.0867 0.0773 ion_series -0.0120 -0.0252 0.0138 weighted_average_abs_fragment_ppm 0.1717 0.1682 0.1469 peptide_length 0.0000 0.0000 0.0000 ntt -0.1456 -0.1567 -0.1241 nmc 0.0000 0.0000 0.0000 charge_1 -0.0154 -0.0167 -0.0089 charge_2 0.0219 0.0069 0.0156 charge_3 -0.0276 0.0451 -0.0278 charge_4 -0.0012 -0.0091 -0.0079 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0320 -0.0161 -0.0519 15.9949M 0.4228 0.4638 0.4463 unweighted_spectral_entropy -0.4395 -0.5857 -0.4731 delta_RT_loess 1.5031 2.1651 2.0468 m0 Found 49952 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 53118 target PSMs and 3494 decoy PSMs. Calculating q values. Final list yields 49955 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.14 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-29_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-29_percolator_decoy_psms.tsv S22049-Arjun-29_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-29_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-29_percolator_decoy_psms.tsv S22049-Arjun-29_edited.pin Started Sat Mar 4 12:38:05 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-29_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 79232 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 73386 positives and 5846 negatives, size ratio=12.5532 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 44069 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 44173 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 44424 training set positives with q<0.01 in that direction. Found 66336 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.118 cpu seconds or 3 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 67772 PSMs with q<0.01 Iteration 2: Estimated 68011 PSMs with q<0.01 Iteration 3: Estimated 68081 PSMs with q<0.01 Iteration 4: Estimated 68096 PSMs with q<0.01 Iteration 5: Estimated 68095 PSMs with q<0.01 Iteration 6: Estimated 68110 PSMs with q<0.01 Iteration 7: Estimated 68107 PSMs with q<0.01 Iteration 8: Estimated 68109 PSMs with q<0.01 Iteration 9: Estimated 68113 PSMs with q<0.01 Iteration 10: Estimated 68112 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0697 0.0697 0.0762 retentiontime 0.0000 0.0000 0.0000 rank -0.2424 -0.2413 -0.2355 abs_ppm -0.1179 -0.1375 -0.1201 isotope_errors -0.2879 -0.3503 -0.3595 log10_evalue 0.7059 0.6276 0.6397 hyperscore 0.7276 0.6933 0.7900 delta_hyperscore 0.5960 1.0102 1.0492 matched_ion_num -0.7862 -0.9000 -0.9566 complementary_ions -0.1387 -0.2012 -0.2025 ion_series -0.0745 -0.0436 -0.0498 weighted_average_abs_fragment_ppm 0.1150 0.1282 0.0941 peptide_length 0.0000 0.0000 0.0000 ntt -0.1794 -0.1732 -0.1855 nmc 0.0000 0.0000 0.0000 charge_1 0.0100 0.0246 0.0261 charge_2 -0.0082 -0.0198 -0.0031 charge_3 -0.0026 -0.0055 -0.0577 charge_4 -0.0174 -0.0263 -0.0317 charge_5 0.0350 -0.0131 0.0352 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0543 -0.0354 -0.0194 15.9949M 0.6384 0.5910 0.6340 unweighted_spectral_entropy -0.6396 -0.6265 -0.6209 delta_RT_loess 2.3629 2.5840 2.7306 m0 Found 68085 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 73386 target PSMs and 5846 decoy PSMs. Calculating q values. Final list yields 68087 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.79 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-143_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-143_percolator_decoy_psms.tsv S22049-Arjun-143_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-143_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-143_percolator_decoy_psms.tsv S22049-Arjun-143_edited.pin Started Sat Mar 4 12:38:30 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-143_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 50957 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 47585 positives and 3372 negatives, size ratio=14.1118 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 29151 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 29055 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 29063 training set positives with q<0.01 in that direction. Found 43617 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.279 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 44229 PSMs with q<0.01 Iteration 2: Estimated 44334 PSMs with q<0.01 Iteration 3: Estimated 44374 PSMs with q<0.01 Iteration 4: Estimated 44397 PSMs with q<0.01 Iteration 5: Estimated 44404 PSMs with q<0.01 Iteration 6: Estimated 44406 PSMs with q<0.01 Iteration 7: Estimated 44407 PSMs with q<0.01 Iteration 8: Estimated 44410 PSMs with q<0.01 Iteration 9: Estimated 44418 PSMs with q<0.01 Iteration 10: Estimated 44420 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1088 0.0432 0.0747 retentiontime 0.0000 0.0000 0.0000 rank -0.1687 -0.1889 -0.1710 abs_ppm -0.1263 -0.0875 -0.1211 isotope_errors -0.6314 -0.6021 -0.8935 log10_evalue 0.1964 0.0835 -0.2550 hyperscore 0.6481 0.5853 0.6609 delta_hyperscore 1.2218 1.6326 1.4931 matched_ion_num -0.8947 -1.0203 -0.8639 complementary_ions -0.2913 -0.2042 -0.2191 ion_series -0.0480 0.0051 -0.0056 weighted_average_abs_fragment_ppm -0.0367 0.0537 0.0067 peptide_length 0.0000 0.0000 0.0000 ntt -0.0685 -0.1413 -0.0244 nmc 0.0000 0.0000 0.0000 charge_1 -0.0342 -0.0122 0.0055 charge_2 0.0380 0.0223 0.0062 charge_3 -0.0109 -0.0430 -0.0518 charge_4 -0.0278 0.0023 0.0102 charge_5 -0.0113 -0.0122 -0.0122 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0251 -0.0230 -0.0207 15.9949M 0.5920 0.5696 0.5821 unweighted_spectral_entropy -0.4820 -0.4910 -0.4429 delta_RT_loess 2.5593 2.7470 2.7313 m0 Found 44394 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 47585 target PSMs and 3372 decoy PSMs. Calculating q values. Final list yields 44394 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 11.08 cpu seconds or 11 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-43_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-43_percolator_decoy_psms.tsv S22049-Arjun-43_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-43_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-43_percolator_decoy_psms.tsv S22049-Arjun-43_edited.pin Started Sat Mar 4 12:38:43 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-43_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72896 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68456 positives and 4440 negatives, size ratio=15.418 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42137 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42218 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42375 training set positives with q<0.01 in that direction. Found 63377 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.471 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64336 PSMs with q<0.01 Iteration 2: Estimated 64549 PSMs with q<0.01 Iteration 3: Estimated 64605 PSMs with q<0.01 Iteration 4: Estimated 64623 PSMs with q<0.01 Iteration 5: Estimated 64634 PSMs with q<0.01 Iteration 6: Estimated 64634 PSMs with q<0.01 Iteration 7: Estimated 64638 PSMs with q<0.01 Iteration 8: Estimated 64644 PSMs with q<0.01 Iteration 9: Estimated 64643 PSMs with q<0.01 Iteration 10: Estimated 64643 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0497 0.0234 0.0144 retentiontime 0.0000 0.0000 0.0000 rank -0.2201 -0.1669 -0.2223 abs_ppm -0.0901 -0.1577 -0.1365 isotope_errors -0.7509 -0.6296 -0.8413 log10_evalue 0.9102 0.7791 0.8450 hyperscore 0.3922 0.5082 0.3919 delta_hyperscore 0.2452 0.5696 0.5230 matched_ion_num -0.7073 -0.7683 -0.9372 complementary_ions -0.0685 -0.1725 -0.0132 ion_series -0.0099 0.0089 -0.0124 weighted_average_abs_fragment_ppm 0.0825 0.1622 0.1519 peptide_length 0.0000 0.0000 0.0000 ntt -0.2014 -0.1918 -0.1701 nmc 0.0000 0.0000 0.0000 charge_1 -0.0182 -0.0039 -0.0213 charge_2 0.0103 0.0110 0.0105 charge_3 0.0083 -0.0282 0.0044 charge_4 0.0568 0.0263 0.1018 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0130 -0.0310 -0.0543 15.9949M 0.5245 0.5327 0.4936 unweighted_spectral_entropy -0.5799 -0.4889 -0.4999 delta_RT_loess 2.5717 2.5972 2.4481 m0 Found 64605 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68456 target PSMs and 4440 decoy PSMs. Calculating q values. Final list yields 64606 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.1 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-12_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-12_percolator_decoy_psms.tsv S22049-Arjun-12_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-12_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-12_percolator_decoy_psms.tsv S22049-Arjun-12_edited.pin Started Sat Mar 4 12:39:02 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-12_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 71145 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66024 positives and 5121 negatives, size ratio=12.8928 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40022 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39833 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39960 training set positives with q<0.01 in that direction. Found 59892 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.83 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61011 PSMs with q<0.01 Iteration 2: Estimated 61240 PSMs with q<0.01 Iteration 3: Estimated 61343 PSMs with q<0.01 Iteration 4: Estimated 61377 PSMs with q<0.01 Iteration 5: Estimated 61385 PSMs with q<0.01 Iteration 6: Estimated 61381 PSMs with q<0.01 Iteration 7: Estimated 61379 PSMs with q<0.01 Iteration 8: Estimated 61380 PSMs with q<0.01 Iteration 9: Estimated 61378 PSMs with q<0.01 Iteration 10: Estimated 61382 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0393 0.0466 0.0269 retentiontime 0.0000 0.0000 0.0000 rank -0.2329 -0.2225 -0.1771 abs_ppm -0.1313 -0.1073 -0.1408 isotope_errors -0.6669 -0.6429 -0.7688 log10_evalue 0.4451 0.2579 0.5224 hyperscore 0.4878 0.6541 0.5424 delta_hyperscore 0.7970 0.6425 0.5977 matched_ion_num -0.7923 -0.6653 -0.8842 complementary_ions -0.1009 0.1158 -0.1083 ion_series -0.0150 -0.0314 -0.0403 weighted_average_abs_fragment_ppm 0.1510 0.1849 0.1729 peptide_length 0.0000 0.0000 0.0000 ntt -0.1645 -0.1602 -0.1680 nmc 0.0000 0.0000 0.0000 charge_1 -0.0138 0.0286 0.0274 charge_2 0.0028 -0.0247 -0.0242 charge_3 0.0338 -0.0168 -0.0151 charge_4 0.0027 0.0104 0.0123 charge_5 -0.0073 -0.0073 -0.0090 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0239 -0.0041 -0.0420 15.9949M 0.5487 0.5411 0.5617 unweighted_spectral_entropy -0.5575 -0.5501 -0.6354 delta_RT_loess 2.1871 1.9402 2.4382 m0 Found 61383 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66024 target PSMs and 5121 decoy PSMs. Calculating q values. Final list yields 61383 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.88 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-97_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-97_percolator_decoy_psms.tsv S22049-Arjun-97_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-97_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-97_percolator_decoy_psms.tsv S22049-Arjun-97_edited.pin Started Sat Mar 4 12:39:23 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-97_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 34555 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 28642 positives and 5913 negatives, size ratio=4.8439 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 13822 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 13940 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 13850 training set positives with q<0.01 in that direction. Found 20753 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.885 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 22190 PSMs with q<0.01 Iteration 2: Estimated 22420 PSMs with q<0.01 Iteration 3: Estimated 22498 PSMs with q<0.01 Iteration 4: Estimated 22528 PSMs with q<0.01 Iteration 5: Estimated 22533 PSMs with q<0.01 Iteration 6: Estimated 22538 PSMs with q<0.01 Iteration 7: Estimated 22540 PSMs with q<0.01 Iteration 8: Estimated 22538 PSMs with q<0.01 Iteration 9: Estimated 22538 PSMs with q<0.01 Iteration 10: Estimated 22537 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.1500 -0.0805 -0.1031 retentiontime 0.0000 0.0000 0.0000 rank -0.1641 -0.1600 -0.1883 abs_ppm -0.1531 -0.1871 -0.1529 isotope_errors -0.6967 -0.7964 -0.6754 log10_evalue -1.3843 -1.4661 -1.4054 hyperscore 0.4597 0.3086 0.3795 delta_hyperscore 2.7552 2.4310 2.5074 matched_ion_num -1.0212 -0.8723 -0.8557 complementary_ions -0.2403 -0.1173 -0.0948 ion_series -0.0440 0.0063 0.0239 weighted_average_abs_fragment_ppm 0.3521 0.3698 0.3661 peptide_length 0.0000 0.0000 0.0000 ntt -0.1062 -0.1224 -0.1635 nmc 0.0000 0.0000 0.0000 charge_1 0.0099 -0.0166 -0.0086 charge_2 0.0095 0.0399 -0.0041 charge_3 -0.0639 -0.0791 0.0536 charge_4 -0.0245 -0.0109 -0.0259 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0803 -0.0539 -0.0649 15.9949M 1.1946 1.2291 1.1628 unweighted_spectral_entropy -1.2566 -1.0705 -1.1614 delta_RT_loess 0.8213 0.7021 0.7660 m0 Found 22511 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 28642 target PSMs and 5913 decoy PSMs. Calculating q values. Final list yields 22511 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 6.624 cpu seconds or 7 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-16_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-16_percolator_decoy_psms.tsv S22049-Arjun-16_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-16_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-16_percolator_decoy_psms.tsv S22049-Arjun-16_edited.pin Started Sat Mar 4 12:39:31 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-16_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72829 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67268 positives and 5561 negatives, size ratio=12.0964 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40150 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40059 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40173 training set positives with q<0.01 in that direction. Found 60164 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.537 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61703 PSMs with q<0.01 Iteration 2: Estimated 62034 PSMs with q<0.01 Iteration 3: Estimated 62123 PSMs with q<0.01 Iteration 4: Estimated 62126 PSMs with q<0.01 Iteration 5: Estimated 62127 PSMs with q<0.01 Iteration 6: Estimated 62135 PSMs with q<0.01 Iteration 7: Estimated 62132 PSMs with q<0.01 Iteration 8: Estimated 62127 PSMs with q<0.01 Iteration 9: Estimated 62130 PSMs with q<0.01 Iteration 10: Estimated 62129 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0183 0.0216 0.0471 retentiontime 0.0000 0.0000 0.0000 rank -0.2223 -0.2403 -0.2196 abs_ppm -0.1452 -0.1450 -0.1593 isotope_errors -0.8059 -0.5992 -0.6393 log10_evalue 0.3951 0.8537 0.8351 hyperscore 0.4801 0.5626 0.4309 delta_hyperscore 0.8175 0.5139 0.5180 matched_ion_num -0.8966 -0.9475 -0.7886 complementary_ions -0.1176 -0.1504 -0.1818 ion_series -0.0519 -0.0447 -0.0078 weighted_average_abs_fragment_ppm 0.1666 0.1596 0.1215 peptide_length 0.0000 0.0000 0.0000 ntt -0.1547 -0.1711 -0.1745 nmc 0.0000 0.0000 0.0000 charge_1 0.0288 0.0315 0.0034 charge_2 -0.0098 -0.0205 0.0068 charge_3 -0.0757 -0.0558 -0.0460 charge_4 0.0521 0.0712 0.0529 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0090 -0.0331 -0.0496 15.9949M 0.5491 0.6054 0.5520 unweighted_spectral_entropy -0.6975 -0.7206 -0.7569 delta_RT_loess 2.3498 2.3867 2.3336 m0 Found 62091 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67268 target PSMs and 5561 decoy PSMs. Calculating q values. Final list yields 62093 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.91 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-93_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-93_percolator_decoy_psms.tsv S22049-Arjun-93_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-93_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-93_percolator_decoy_psms.tsv S22049-Arjun-93_edited.pin Started Sat Mar 4 12:39:52 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-93_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67029 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63005 positives and 4024 negatives, size ratio=15.6573 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38957 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39044 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39089 training set positives with q<0.01 in that direction. Found 58545 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.449 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59302 PSMs with q<0.01 Iteration 2: Estimated 59497 PSMs with q<0.01 Iteration 3: Estimated 59516 PSMs with q<0.01 Iteration 4: Estimated 59515 PSMs with q<0.01 Iteration 5: Estimated 59512 PSMs with q<0.01 Iteration 6: Estimated 59508 PSMs with q<0.01 Iteration 7: Estimated 59513 PSMs with q<0.01 Iteration 8: Estimated 59510 PSMs with q<0.01 Iteration 9: Estimated 59513 PSMs with q<0.01 Iteration 10: Estimated 59510 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0280 -0.0516 -0.0308 retentiontime 0.0000 0.0000 0.0000 rank -0.1263 -0.1870 -0.2195 abs_ppm -0.1317 -0.1433 -0.1175 isotope_errors -0.1341 -0.3291 -0.4197 log10_evalue 1.0366 0.2906 0.7812 hyperscore 0.8307 0.8345 0.5524 delta_hyperscore 0.7341 1.5551 0.8428 matched_ion_num -0.7609 -0.7873 -0.8082 complementary_ions -0.0957 -0.2625 -0.2822 ion_series -0.0649 -0.0412 -0.0536 weighted_average_abs_fragment_ppm 0.2091 0.2719 0.2138 peptide_length 0.0000 0.0000 0.0000 ntt -0.1519 -0.1461 -0.1791 nmc 0.0000 0.0000 0.0000 charge_1 -0.0050 0.0474 0.0253 charge_2 0.0079 -0.0289 -0.0164 charge_3 -0.0187 -0.0478 -0.0197 charge_4 0.0353 -0.0108 -0.0142 charge_5 0.0019 -0.0095 -0.0093 charge_6 -0.0086 -0.0105 -0.0100 charge_7_or_more -0.0451 -0.0450 -0.0562 15.9949M 0.5298 0.5059 0.5341 unweighted_spectral_entropy -0.4864 -0.5097 -0.5194 delta_RT_loess 2.2224 2.7111 2.5901 m0 Found 59477 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63005 target PSMs and 4024 decoy PSMs. Calculating q values. Final list yields 59478 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.81 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-71_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-71_percolator_decoy_psms.tsv S22049-Arjun-71_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-71_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-71_percolator_decoy_psms.tsv S22049-Arjun-71_edited.pin Started Sat Mar 4 12:40:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-71_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75892 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70628 positives and 5264 negatives, size ratio=13.4172 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42922 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42850 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42821 training set positives with q<0.01 in that direction. Found 64286 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.086 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65604 PSMs with q<0.01 Iteration 2: Estimated 65848 PSMs with q<0.01 Iteration 3: Estimated 65923 PSMs with q<0.01 Iteration 4: Estimated 65937 PSMs with q<0.01 Iteration 5: Estimated 65944 PSMs with q<0.01 Iteration 6: Estimated 65948 PSMs with q<0.01 Iteration 7: Estimated 65948 PSMs with q<0.01 Iteration 8: Estimated 65953 PSMs with q<0.01 Iteration 9: Estimated 65951 PSMs with q<0.01 Iteration 10: Estimated 65948 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1046 0.0663 0.0188 retentiontime 0.0000 0.0000 0.0000 rank -0.1665 -0.2141 -0.2521 abs_ppm -0.1465 -0.1182 -0.1423 isotope_errors -0.4845 -0.6848 -0.7596 log10_evalue 1.1642 1.0449 0.6798 hyperscore 0.7144 0.4446 0.5753 delta_hyperscore 0.4170 0.3870 0.6108 matched_ion_num -0.8863 -0.9141 -0.9868 complementary_ions -0.0941 -0.0022 0.0131 ion_series -0.0011 0.0137 -0.0045 weighted_average_abs_fragment_ppm 0.0759 0.1531 0.1488 peptide_length 0.0000 0.0000 0.0000 ntt -0.2197 -0.2032 -0.1844 nmc 0.0000 0.0000 0.0000 charge_1 -0.0090 0.0156 0.0473 charge_2 -0.0150 -0.0099 -0.0466 charge_3 0.0767 -0.0168 -0.0050 charge_4 0.0088 -0.0121 -0.0030 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0490 -0.0273 -0.0573 15.9949M 0.5156 0.5546 0.5421 unweighted_spectral_entropy -0.4391 -0.4738 -0.5078 delta_RT_loess 2.1597 2.7431 2.7206 m0 Found 65944 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70628 target PSMs and 5264 decoy PSMs. Calculating q values. Final list yields 65944 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.02 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-25_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-25_percolator_decoy_psms.tsv S22049-Arjun-25_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-25_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-25_percolator_decoy_psms.tsv S22049-Arjun-25_edited.pin Started Sat Mar 4 12:40:35 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-25_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62862 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58374 positives and 4488 negatives, size ratio=13.0067 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35262 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35158 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35324 training set positives with q<0.01 in that direction. Found 52840 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.46 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54005 PSMs with q<0.01 Iteration 2: Estimated 54247 PSMs with q<0.01 Iteration 3: Estimated 54311 PSMs with q<0.01 Iteration 4: Estimated 54337 PSMs with q<0.01 Iteration 5: Estimated 54341 PSMs with q<0.01 Iteration 6: Estimated 54351 PSMs with q<0.01 Iteration 7: Estimated 54357 PSMs with q<0.01 Iteration 8: Estimated 54354 PSMs with q<0.01 Iteration 9: Estimated 54356 PSMs with q<0.01 Iteration 10: Estimated 54354 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.1011 -0.0282 -0.0298 retentiontime 0.0000 0.0000 0.0000 rank -0.2323 -0.2304 -0.2159 abs_ppm -0.1396 -0.1298 -0.1129 isotope_errors -0.7745 -0.7569 -0.6371 log10_evalue 0.5840 0.4878 0.9905 hyperscore 0.6500 0.5368 0.5834 delta_hyperscore 0.6312 0.4861 0.3287 matched_ion_num -0.9231 -0.7317 -0.7189 complementary_ions -0.0696 0.0057 0.0033 ion_series -0.0093 -0.0041 0.0113 weighted_average_abs_fragment_ppm 0.2083 0.2061 0.1802 peptide_length 0.0000 0.0000 0.0000 ntt -0.1938 -0.1480 -0.1768 nmc 0.0000 0.0000 0.0000 charge_1 0.0199 0.0308 0.0007 charge_2 -0.0326 -0.0355 -0.0073 charge_3 0.0603 0.0240 0.0313 charge_4 0.0024 -0.0208 0.0070 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0604 -0.0753 -0.0683 15.9949M 0.5759 0.5246 0.5032 unweighted_spectral_entropy -0.5751 -0.5796 -0.5727 delta_RT_loess 2.6739 2.4466 2.3724 m0 Found 54352 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58374 target PSMs and 4488 decoy PSMs. Calculating q values. Final list yields 54352 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.5 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-104_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-104_percolator_decoy_psms.tsv S22049-Arjun-104_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-104_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-104_percolator_decoy_psms.tsv S22049-Arjun-104_edited.pin Started Sat Mar 4 12:40:54 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-104_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62855 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58982 positives and 3873 negatives, size ratio=15.229 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36237 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36223 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36186 training set positives with q<0.01 in that direction. Found 54310 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.543 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55225 PSMs with q<0.01 Iteration 2: Estimated 55386 PSMs with q<0.01 Iteration 3: Estimated 55452 PSMs with q<0.01 Iteration 4: Estimated 55460 PSMs with q<0.01 Iteration 5: Estimated 55464 PSMs with q<0.01 Iteration 6: Estimated 55462 PSMs with q<0.01 Iteration 7: Estimated 55464 PSMs with q<0.01 Iteration 8: Estimated 55465 PSMs with q<0.01 Iteration 9: Estimated 55465 PSMs with q<0.01 Iteration 10: Estimated 55463 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0416 0.1165 0.0246 retentiontime 0.0000 0.0000 0.0000 rank -0.2032 -0.1758 -0.1777 abs_ppm -0.1240 -0.0990 -0.1451 isotope_errors -0.5784 -0.8048 -0.7310 log10_evalue 0.1849 1.0970 0.4437 hyperscore 0.5067 0.6011 0.3627 delta_hyperscore 0.9363 0.5045 0.8833 matched_ion_num -0.6187 -0.7934 -0.7741 complementary_ions -0.0562 0.0517 -0.1260 ion_series -0.0164 -0.0128 -0.0108 weighted_average_abs_fragment_ppm 0.1846 0.1428 0.2076 peptide_length 0.0000 0.0000 0.0000 ntt -0.1097 -0.1734 -0.1443 nmc 0.0000 0.0000 0.0000 charge_1 0.0444 0.0198 0.0565 charge_2 -0.0199 -0.0198 -0.0420 charge_3 -0.0741 -0.0059 -0.0397 charge_4 -0.0016 0.0123 -0.0197 charge_5 -0.0042 0.0002 -0.0173 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0494 -0.0371 -0.0311 15.9949M 0.4734 0.5043 0.4539 unweighted_spectral_entropy -0.5835 -0.4844 -0.6024 delta_RT_loess 2.4694 2.6430 2.5027 m0 Found 55440 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58982 target PSMs and 3873 decoy PSMs. Calculating q values. Final list yields 55444 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 24.28 cpu seconds or 24 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-30_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-30_percolator_decoy_psms.tsv S22049-Arjun-30_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-30_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-30_percolator_decoy_psms.tsv S22049-Arjun-30_edited.pin Started Sat Mar 4 12:41:21 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-30_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73261 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67476 positives and 5785 negatives, size ratio=11.664 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40259 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40373 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40213 training set positives with q<0.01 in that direction. Found 60434 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.029 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61803 PSMs with q<0.01 Iteration 2: Estimated 62026 PSMs with q<0.01 Iteration 3: Estimated 62106 PSMs with q<0.01 Iteration 4: Estimated 62142 PSMs with q<0.01 Iteration 5: Estimated 62162 PSMs with q<0.01 Iteration 6: Estimated 62167 PSMs with q<0.01 Iteration 7: Estimated 62169 PSMs with q<0.01 Iteration 8: Estimated 62171 PSMs with q<0.01 Iteration 9: Estimated 62171 PSMs with q<0.01 Iteration 10: Estimated 62171 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1142 0.0947 0.1151 retentiontime 0.0000 0.0000 0.0000 rank -0.2192 -0.2262 -0.2260 abs_ppm -0.1373 -0.1777 -0.1480 isotope_errors -0.3902 -0.4838 -0.6418 log10_evalue 0.4046 0.6072 0.1354 hyperscore 0.4936 0.5472 0.4900 delta_hyperscore 0.7067 0.5383 0.7626 matched_ion_num -0.8297 -0.8403 -0.7550 complementary_ions 0.0214 0.1279 0.0975 ion_series -0.0286 -0.0549 -0.0390 weighted_average_abs_fragment_ppm 0.0716 0.1553 0.0841 peptide_length 0.0000 0.0000 0.0000 ntt -0.1446 -0.1310 -0.1354 nmc 0.0000 0.0000 0.0000 charge_1 -0.0105 0.0265 0.0023 charge_2 0.0020 -0.0273 -0.0010 charge_3 0.0372 -0.0117 -0.0155 charge_4 -0.0072 0.0763 0.0594 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0077 0.0015 0.0188 15.9949M 0.6494 0.6006 0.6224 unweighted_spectral_entropy -0.6727 -0.6011 -0.6231 delta_RT_loess 2.1418 2.3783 2.2611 m0 Found 62137 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67476 target PSMs and 5785 decoy PSMs. Calculating q values. Final list yields 62141 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-65-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-65-2nd_percolator_decoy_psms.tsv S22049-Arjun-65-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-65-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-65-2nd_percolator_decoy_psms.tsv S22049-Arjun-65-2nd_edited.pin Started Sat Mar 4 12:41:44 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-65-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75249 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70358 positives and 4891 negatives, size ratio=14.3852 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42861 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43023 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43102 training set positives with q<0.01 in that direction. Found 64450 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.719 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65691 PSMs with q<0.01 Iteration 2: Estimated 65922 PSMs with q<0.01 Iteration 3: Estimated 66009 PSMs with q<0.01 Iteration 4: Estimated 66035 PSMs with q<0.01 Iteration 5: Estimated 66038 PSMs with q<0.01 Iteration 6: Estimated 66041 PSMs with q<0.01 Iteration 7: Estimated 66043 PSMs with q<0.01 Iteration 8: Estimated 66043 PSMs with q<0.01 Iteration 9: Estimated 66042 PSMs with q<0.01 Iteration 10: Estimated 66042 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0660 0.0307 0.0458 retentiontime 0.0000 0.0000 0.0000 rank -0.2344 -0.2578 -0.2330 abs_ppm -0.1133 -0.1040 -0.1217 isotope_errors -0.7812 -0.6744 -0.8882 log10_evalue 0.6235 0.6109 0.4494 hyperscore 0.5084 0.6220 0.4886 delta_hyperscore 0.1798 0.3025 0.4305 matched_ion_num -0.7453 -0.7747 -0.8336 complementary_ions 0.0440 0.1003 -0.0247 ion_series -0.0301 -0.0248 -0.0350 weighted_average_abs_fragment_ppm 0.1434 0.1667 0.0974 peptide_length 0.0000 0.0000 0.0000 ntt -0.1525 -0.1810 -0.1764 nmc 0.0000 0.0000 0.0000 charge_1 0.0123 0.0001 0.0033 charge_2 -0.0032 -0.0114 -0.0138 charge_3 -0.0269 0.0156 0.0311 charge_4 -0.0029 0.0641 0.0004 charge_5 -0.0089 -0.0096 -0.0092 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0086 -0.0506 -0.0277 15.9949M 0.5635 0.5890 0.5670 unweighted_spectral_entropy -0.4959 -0.4753 -0.4556 delta_RT_loess 2.4326 2.6400 2.5171 m0 Found 66014 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70358 target PSMs and 4891 decoy PSMs. Calculating q values. Final list yields 66016 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.12 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-79_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-79_percolator_decoy_psms.tsv S22049-Arjun-79_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-79_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-79_percolator_decoy_psms.tsv S22049-Arjun-79_edited.pin Started Sat Mar 4 12:42:06 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-79_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 63094 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59106 positives and 3988 negatives, size ratio=14.821 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36341 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36382 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36264 training set positives with q<0.01 in that direction. Found 54506 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.774 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55164 PSMs with q<0.01 Iteration 2: Estimated 55359 PSMs with q<0.01 Iteration 3: Estimated 55427 PSMs with q<0.01 Iteration 4: Estimated 55452 PSMs with q<0.01 Iteration 5: Estimated 55464 PSMs with q<0.01 Iteration 6: Estimated 55471 PSMs with q<0.01 Iteration 7: Estimated 55471 PSMs with q<0.01 Iteration 8: Estimated 55473 PSMs with q<0.01 Iteration 9: Estimated 55472 PSMs with q<0.01 Iteration 10: Estimated 55472 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1192 0.0524 0.0610 retentiontime 0.0000 0.0000 0.0000 rank -0.2548 -0.2314 -0.2318 abs_ppm -0.0861 -0.1046 -0.0871 isotope_errors -0.4378 -0.3445 -0.5574 log10_evalue 0.8373 1.0444 0.6728 hyperscore 0.5886 0.6612 0.6420 delta_hyperscore 0.6214 0.2405 0.4444 matched_ion_num -0.7881 -0.6824 -0.5827 complementary_ions 0.0981 0.0563 -0.0717 ion_series 0.0162 0.0097 -0.0166 weighted_average_abs_fragment_ppm 0.1825 0.1634 0.1552 peptide_length 0.0000 0.0000 0.0000 ntt -0.1301 -0.1662 -0.1638 nmc 0.0000 0.0000 0.0000 charge_1 0.0038 -0.0023 0.0048 charge_2 -0.0041 0.0038 0.0018 charge_3 -0.0027 -0.0122 -0.0266 charge_4 0.0168 0.0317 0.0074 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0231 -0.0239 -0.0337 15.9949M 0.5349 0.5462 0.5324 unweighted_spectral_entropy -0.5733 -0.5717 -0.5399 delta_RT_loess 2.2232 2.6416 2.5940 m0 Found 55454 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59106 target PSMs and 3988 decoy PSMs. Calculating q values. Final list yields 55459 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.86 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-38_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-38_percolator_decoy_psms.tsv S22049-Arjun-38_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-38_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-38_percolator_decoy_psms.tsv S22049-Arjun-38_edited.pin Started Sat Mar 4 12:42:28 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-38_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 76929 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 71373 positives and 5556 negatives, size ratio=12.8461 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42918 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43273 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43134 training set positives with q<0.01 in that direction. Found 64645 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.854 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66045 PSMs with q<0.01 Iteration 2: Estimated 66296 PSMs with q<0.01 Iteration 3: Estimated 66403 PSMs with q<0.01 Iteration 4: Estimated 66430 PSMs with q<0.01 Iteration 5: Estimated 66428 PSMs with q<0.01 Iteration 6: Estimated 66435 PSMs with q<0.01 Iteration 7: Estimated 66443 PSMs with q<0.01 Iteration 8: Estimated 66443 PSMs with q<0.01 Iteration 9: Estimated 66444 PSMs with q<0.01 Iteration 10: Estimated 66444 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0145 0.0460 0.0884 retentiontime 0.0000 0.0000 0.0000 rank -0.1569 -0.2204 -0.2319 abs_ppm -0.1414 -0.1579 -0.1270 isotope_errors -0.6392 -0.8253 -0.5782 log10_evalue 0.6403 0.4860 0.2744 hyperscore 0.4449 0.4765 0.4207 delta_hyperscore 0.8309 0.8624 1.0336 matched_ion_num -0.9329 -0.9408 -0.9212 complementary_ions 0.0641 -0.1082 -0.1231 ion_series 0.0198 0.0166 0.0065 weighted_average_abs_fragment_ppm 0.2033 0.1142 0.0856 peptide_length 0.0000 0.0000 0.0000 ntt -0.1621 -0.1624 -0.1318 nmc 0.0000 0.0000 0.0000 charge_1 0.0320 0.0345 0.0064 charge_2 -0.0406 -0.0421 -0.0135 charge_3 0.0045 -0.0072 -0.0080 charge_4 0.0992 0.1349 0.1373 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0721 -0.0764 -0.0648 15.9949M 0.5566 0.5769 0.5807 unweighted_spectral_entropy -0.5465 -0.5244 -0.5757 delta_RT_loess 2.0496 2.6811 2.3537 m0 Found 66416 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 71373 target PSMs and 5556 decoy PSMs. Calculating q values. Final list yields 66418 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.96 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-88_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-88_percolator_decoy_psms.tsv S22049-Arjun-88_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-88_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-88_percolator_decoy_psms.tsv S22049-Arjun-88_edited.pin Started Sat Mar 4 12:42:50 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-88_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 65670 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 61644 positives and 4026 negatives, size ratio=15.3115 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37901 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37871 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38004 training set positives with q<0.01 in that direction. Found 56889 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.755 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 57666 PSMs with q<0.01 Iteration 2: Estimated 57861 PSMs with q<0.01 Iteration 3: Estimated 57913 PSMs with q<0.01 Iteration 4: Estimated 57936 PSMs with q<0.01 Iteration 5: Estimated 57947 PSMs with q<0.01 Iteration 6: Estimated 57950 PSMs with q<0.01 Iteration 7: Estimated 57956 PSMs with q<0.01 Iteration 8: Estimated 57958 PSMs with q<0.01 Iteration 9: Estimated 57962 PSMs with q<0.01 Iteration 10: Estimated 57963 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0337 0.0116 -0.0094 retentiontime 0.0000 0.0000 0.0000 rank -0.2145 -0.2059 -0.2238 abs_ppm -0.0859 -0.0890 -0.1139 isotope_errors -0.6248 -0.6267 -0.7758 log10_evalue 0.5156 0.8590 0.0805 hyperscore 0.4882 0.5137 0.4256 delta_hyperscore 1.1115 0.5208 0.9551 matched_ion_num -1.0440 -0.9345 -0.8284 complementary_ions -0.1159 0.0196 0.0306 ion_series -0.0185 -0.0248 -0.0482 weighted_average_abs_fragment_ppm 0.2579 0.2167 0.1904 peptide_length 0.0000 0.0000 0.0000 ntt -0.1418 -0.1088 -0.1327 nmc 0.0000 0.0000 0.0000 charge_1 0.0511 0.0394 0.0260 charge_2 -0.0786 -0.0393 -0.0259 charge_3 0.0875 -0.0041 -0.0010 charge_4 0.0099 0.0038 -0.0056 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0385 -0.0383 -0.0280 15.9949M 0.5357 0.5343 0.5114 unweighted_spectral_entropy -0.5445 -0.5547 -0.5626 delta_RT_loess 2.7442 2.6709 2.5417 m0 Found 57962 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 61644 target PSMs and 4026 decoy PSMs. Calculating q values. Final list yields 57962 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 23.64 cpu seconds or 24 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-142_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-142_percolator_decoy_psms.tsv S22049-Arjun-142_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-142_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-142_percolator_decoy_psms.tsv S22049-Arjun-142_edited.pin Started Sat Mar 4 12:43:17 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-142_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 58826 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54705 positives and 4121 negatives, size ratio=13.2747 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33119 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33111 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33234 training set positives with q<0.01 in that direction. Found 49757 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.942 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50602 PSMs with q<0.01 Iteration 2: Estimated 50777 PSMs with q<0.01 Iteration 3: Estimated 50875 PSMs with q<0.01 Iteration 4: Estimated 50911 PSMs with q<0.01 Iteration 5: Estimated 50918 PSMs with q<0.01 Iteration 6: Estimated 50914 PSMs with q<0.01 Iteration 7: Estimated 50916 PSMs with q<0.01 Iteration 8: Estimated 50913 PSMs with q<0.01 Iteration 9: Estimated 50916 PSMs with q<0.01 Iteration 10: Estimated 50914 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0412 0.0484 -0.0061 retentiontime 0.0000 0.0000 0.0000 rank -0.2177 -0.2394 -0.2046 abs_ppm -0.1153 -0.1647 -0.1359 isotope_errors -0.7291 -0.7489 -0.7128 log10_evalue 0.5482 0.4956 0.6273 hyperscore 0.4411 0.2916 0.4411 delta_hyperscore 0.5599 0.7825 0.6729 matched_ion_num -0.7451 -0.8218 -0.7719 complementary_ions -0.1263 -0.0680 -0.2483 ion_series -0.0550 -0.0143 -0.0396 weighted_average_abs_fragment_ppm 0.2284 0.1446 0.1248 peptide_length 0.0000 0.0000 0.0000 ntt -0.1921 -0.1546 -0.1514 nmc 0.0000 0.0000 0.0000 charge_1 0.0284 0.0382 0.0339 charge_2 -0.0455 -0.0374 -0.0359 charge_3 0.0658 -0.0085 -0.0002 charge_4 -0.0142 0.0144 0.0305 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0344 -0.0048 -0.0299 15.9949M 0.5204 0.5089 0.5281 unweighted_spectral_entropy -0.5386 -0.4906 -0.5691 delta_RT_loess 2.3055 2.1008 2.3514 m0 Found 50901 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54705 target PSMs and 4121 decoy PSMs. Calculating q values. Final list yields 50909 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.05 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-80_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-80_percolator_decoy_psms.tsv S22049-Arjun-80_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-80_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-80_percolator_decoy_psms.tsv S22049-Arjun-80_edited.pin Started Sat Mar 4 12:43:36 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-80_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 54010 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 50670 positives and 3340 negatives, size ratio=15.1707 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31194 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31125 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31256 training set positives with q<0.01 in that direction. Found 46779 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.155 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47453 PSMs with q<0.01 Iteration 2: Estimated 47569 PSMs with q<0.01 Iteration 3: Estimated 47624 PSMs with q<0.01 Iteration 4: Estimated 47651 PSMs with q<0.01 Iteration 5: Estimated 47651 PSMs with q<0.01 Iteration 6: Estimated 47653 PSMs with q<0.01 Iteration 7: Estimated 47653 PSMs with q<0.01 Iteration 8: Estimated 47651 PSMs with q<0.01 Iteration 9: Estimated 47655 PSMs with q<0.01 Iteration 10: Estimated 47655 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0328 -0.0339 -0.0211 retentiontime 0.0000 0.0000 0.0000 rank -0.2065 -0.2243 -0.1959 abs_ppm -0.0903 -0.0988 -0.0820 isotope_errors -0.3060 -0.2182 -0.2002 log10_evalue 0.9184 1.1197 0.9494 hyperscore 0.4944 0.6305 0.5184 delta_hyperscore 0.5117 0.3628 0.4029 matched_ion_num -0.8297 -0.8230 -0.7815 complementary_ions -0.0324 -0.0165 -0.0322 ion_series 0.0032 0.0009 0.0029 weighted_average_abs_fragment_ppm 0.1703 0.2528 0.1932 peptide_length 0.0000 0.0000 0.0000 ntt -0.1422 -0.1387 -0.1457 nmc 0.0000 0.0000 0.0000 charge_1 0.0255 0.0512 0.0372 charge_2 -0.0241 -0.0449 -0.0361 charge_3 -0.0181 -0.0267 -0.0079 charge_4 0.0569 0.0013 0.0054 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0180 -0.0002 -0.0051 15.9949M 0.5315 0.5650 0.5295 unweighted_spectral_entropy -0.5273 -0.5283 -0.4821 delta_RT_loess 2.2876 2.5201 2.1852 m0 Found 47661 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 50670 target PSMs and 3340 decoy PSMs. Calculating q values. Final list yields 47665 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 12.43 cpu seconds or 12 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-105_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-105_percolator_decoy_psms.tsv S22049-Arjun-105_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-105_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-105_percolator_decoy_psms.tsv S22049-Arjun-105_edited.pin Started Sat Mar 4 12:43:50 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-105_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64765 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59983 positives and 4782 negatives, size ratio=12.5435 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36174 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36373 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36234 training set positives with q<0.01 in that direction. Found 54381 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.57 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55300 PSMs with q<0.01 Iteration 2: Estimated 55402 PSMs with q<0.01 Iteration 3: Estimated 55486 PSMs with q<0.01 Iteration 4: Estimated 55517 PSMs with q<0.01 Iteration 5: Estimated 55528 PSMs with q<0.01 Iteration 6: Estimated 55534 PSMs with q<0.01 Iteration 7: Estimated 55534 PSMs with q<0.01 Iteration 8: Estimated 55535 PSMs with q<0.01 Iteration 9: Estimated 55534 PSMs with q<0.01 Iteration 10: Estimated 55533 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0707 0.1184 0.1053 retentiontime 0.0000 0.0000 0.0000 rank -0.1820 -0.2180 -0.2001 abs_ppm -0.0651 -0.1124 -0.0942 isotope_errors -0.8000 -0.5508 -0.9822 log10_evalue 0.5564 0.5995 0.0447 hyperscore 0.4168 0.4273 0.5991 delta_hyperscore 1.1361 0.8168 1.2470 matched_ion_num -0.7767 -0.7595 -0.7830 complementary_ions -0.1398 -0.1219 0.0715 ion_series 0.0132 0.0082 0.0268 weighted_average_abs_fragment_ppm 0.2388 0.1573 0.2250 peptide_length 0.0000 0.0000 0.0000 ntt -0.1642 -0.1575 -0.1157 nmc 0.0000 0.0000 0.0000 charge_1 0.0307 0.0294 0.0513 charge_2 -0.0023 -0.0114 -0.0213 charge_3 -0.0748 -0.0698 -0.0851 charge_4 -0.0001 0.0575 0.0093 charge_5 -0.0202 -0.0162 -0.0137 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0042 0.0238 -0.0017 15.9949M 0.6582 0.6332 0.6466 unweighted_spectral_entropy -0.5194 -0.5140 -0.5136 delta_RT_loess 2.6020 2.4834 2.5238 m0 Found 55503 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59983 target PSMs and 4782 decoy PSMs. Calculating q values. Final list yields 55505 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.27 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-1_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-1_percolator_decoy_psms.tsv S22049-Arjun-1_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-1_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-1_percolator_decoy_psms.tsv S22049-Arjun-1_edited.pin Started Sat Mar 4 12:44:14 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-1_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60802 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56501 positives and 4301 negatives, size ratio=13.1367 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34026 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34111 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33876 training set positives with q<0.01 in that direction. Found 50939 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.094 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52196 PSMs with q<0.01 Iteration 2: Estimated 52437 PSMs with q<0.01 Iteration 3: Estimated 52541 PSMs with q<0.01 Iteration 4: Estimated 52563 PSMs with q<0.01 Iteration 5: Estimated 52566 PSMs with q<0.01 Iteration 6: Estimated 52572 PSMs with q<0.01 Iteration 7: Estimated 52565 PSMs with q<0.01 Iteration 8: Estimated 52568 PSMs with q<0.01 Iteration 9: Estimated 52570 PSMs with q<0.01 Iteration 10: Estimated 52566 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0308 0.0111 0.1121 retentiontime 0.0000 0.0000 0.0000 rank -0.1763 -0.2399 -0.2052 abs_ppm -0.0841 -0.0967 -0.1220 isotope_errors -0.6651 -0.5494 -0.6213 log10_evalue 0.2920 0.4732 0.5016 hyperscore 0.4564 0.5017 0.6328 delta_hyperscore 0.5599 1.1146 0.7852 matched_ion_num -0.5769 -0.8438 -0.6985 complementary_ions -0.0004 -0.1490 -0.0235 ion_series -0.0356 -0.0220 0.0154 weighted_average_abs_fragment_ppm 0.1735 0.2556 0.0841 peptide_length 0.0000 0.0000 0.0000 ntt -0.1497 -0.1544 -0.1659 nmc 0.0000 0.0000 0.0000 charge_1 -0.0012 0.0360 -0.0195 charge_2 0.0091 -0.0403 0.0239 charge_3 -0.0471 0.0257 -0.0240 charge_4 -0.0093 -0.0110 -0.0133 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0522 -0.0678 -0.0745 15.9949M 0.5209 0.5114 0.4885 unweighted_spectral_entropy -0.6678 -0.6375 -0.5339 delta_RT_loess 2.2258 2.5670 2.3067 m0 Found 52543 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56501 target PSMs and 4301 decoy PSMs. Calculating q values. Final list yields 52544 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 35.67 cpu seconds or 36 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-22_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-22_percolator_decoy_psms.tsv S22049-Arjun-22_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-22_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-22_percolator_decoy_psms.tsv S22049-Arjun-22_edited.pin Started Sat Mar 4 12:44:53 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-22_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64267 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59986 positives and 4281 negatives, size ratio=14.0121 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36450 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36429 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36408 training set positives with q<0.01 in that direction. Found 54646 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.889 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55833 PSMs with q<0.01 Iteration 2: Estimated 56051 PSMs with q<0.01 Iteration 3: Estimated 56139 PSMs with q<0.01 Iteration 4: Estimated 56148 PSMs with q<0.01 Iteration 5: Estimated 56154 PSMs with q<0.01 Iteration 6: Estimated 56157 PSMs with q<0.01 Iteration 7: Estimated 56155 PSMs with q<0.01 Iteration 8: Estimated 56155 PSMs with q<0.01 Iteration 9: Estimated 56162 PSMs with q<0.01 Iteration 10: Estimated 56159 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0720 0.0772 0.1265 retentiontime 0.0000 0.0000 0.0000 rank -0.2247 -0.2432 -0.2399 abs_ppm -0.0871 -0.0594 -0.0962 isotope_errors -0.8427 -0.9356 -0.8282 log10_evalue 0.6205 0.4375 0.4505 hyperscore 0.3278 0.3871 0.5973 delta_hyperscore 0.2616 0.5514 0.7650 matched_ion_num -0.5597 -0.5846 -0.4576 complementary_ions -0.1033 -0.1259 -0.1857 ion_series -0.0272 -0.0380 -0.0321 weighted_average_abs_fragment_ppm 0.2026 0.1296 0.0635 peptide_length 0.0000 0.0000 0.0000 ntt -0.1342 -0.1343 -0.1731 nmc 0.0000 0.0000 0.0000 charge_1 0.0009 0.0052 -0.0176 charge_2 0.0034 -0.0106 0.0147 charge_3 -0.0248 0.0305 0.0145 charge_4 0.0126 -0.0148 0.0160 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0468 -0.0373 -0.0342 15.9949M 0.4925 0.4538 0.4489 unweighted_spectral_entropy -0.6440 -0.5072 -0.4509 delta_RT_loess 2.3288 2.4937 2.5370 m0 Found 56147 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59986 target PSMs and 4281 decoy PSMs. Calculating q values. Final list yields 56151 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-89_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-89_percolator_decoy_psms.tsv S22049-Arjun-89_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-89_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-89_percolator_decoy_psms.tsv S22049-Arjun-89_edited.pin Started Sat Mar 4 12:45:16 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-89_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70171 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 65637 positives and 4534 negatives, size ratio=14.4766 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40167 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40206 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40158 training set positives with q<0.01 in that direction. Found 60264 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.698 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61211 PSMs with q<0.01 Iteration 2: Estimated 61411 PSMs with q<0.01 Iteration 3: Estimated 61504 PSMs with q<0.01 Iteration 4: Estimated 61540 PSMs with q<0.01 Iteration 5: Estimated 61555 PSMs with q<0.01 Iteration 6: Estimated 61561 PSMs with q<0.01 Iteration 7: Estimated 61564 PSMs with q<0.01 Iteration 8: Estimated 61562 PSMs with q<0.01 Iteration 9: Estimated 61561 PSMs with q<0.01 Iteration 10: Estimated 61560 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0489 0.0093 0.0051 retentiontime 0.0000 0.0000 0.0000 rank -0.2295 -0.2006 -0.2480 abs_ppm -0.0885 -0.1069 -0.0890 isotope_errors -0.5354 -0.6030 -0.4451 log10_evalue 0.2159 0.3692 0.8872 hyperscore 0.5756 0.5660 0.6822 delta_hyperscore 1.1169 0.8631 0.2943 matched_ion_num -0.8282 -0.8532 -0.5870 complementary_ions -0.0732 -0.0820 -0.0363 ion_series -0.0354 -0.0371 -0.0420 weighted_average_abs_fragment_ppm 0.2710 0.2022 0.2134 peptide_length 0.0000 0.0000 0.0000 ntt -0.1538 -0.1919 -0.1665 nmc 0.0000 0.0000 0.0000 charge_1 0.0395 0.0535 0.0250 charge_2 -0.0170 -0.0529 -0.0158 charge_3 -0.0651 -0.0049 -0.0440 charge_4 0.0031 -0.0026 0.0494 charge_5 -0.0130 -0.0031 0.0005 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0576 -0.0470 -0.0870 15.9949M 0.5359 0.5166 0.5299 unweighted_spectral_entropy -0.5646 -0.5407 -0.4987 delta_RT_loess 2.5638 2.4911 2.3121 m0 Found 61535 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 65637 target PSMs and 4534 decoy PSMs. Calculating q values. Final list yields 61539 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 34.63 cpu seconds or 34 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-37_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-37_percolator_decoy_psms.tsv S22049-Arjun-37_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-37_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-37_percolator_decoy_psms.tsv S22049-Arjun-37_edited.pin Started Sat Mar 4 12:45:54 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-37_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 81149 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 75231 positives and 5918 negatives, size ratio=12.7122 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 45339 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 45418 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 45558 training set positives with q<0.01 in that direction. Found 68136 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.301 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 69706 PSMs with q<0.01 Iteration 2: Estimated 69972 PSMs with q<0.01 Iteration 3: Estimated 70006 PSMs with q<0.01 Iteration 4: Estimated 70019 PSMs with q<0.01 Iteration 5: Estimated 70007 PSMs with q<0.01 Iteration 6: Estimated 70013 PSMs with q<0.01 Iteration 7: Estimated 70014 PSMs with q<0.01 Iteration 8: Estimated 70014 PSMs with q<0.01 Iteration 9: Estimated 70014 PSMs with q<0.01 Iteration 10: Estimated 70014 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0521 0.0820 0.0819 retentiontime 0.0000 0.0000 0.0000 rank -0.2623 -0.2575 -0.2635 abs_ppm -0.1236 -0.1406 -0.1167 isotope_errors -0.4590 -0.8362 -0.6970 log10_evalue 0.5531 0.4048 0.1724 hyperscore 0.5604 0.4623 0.4367 delta_hyperscore 1.1056 0.5509 0.9960 matched_ion_num -1.0697 -0.7632 -0.8557 complementary_ions 0.1153 -0.0441 -0.1517 ion_series -0.0639 -0.0318 -0.0557 weighted_average_abs_fragment_ppm 0.1698 0.1066 0.0849 peptide_length 0.0000 0.0000 0.0000 ntt -0.1578 -0.1569 -0.1715 nmc 0.0000 0.0000 0.0000 charge_1 0.0119 0.0163 0.0256 charge_2 -0.0062 0.0071 -0.0078 charge_3 -0.0150 -0.0673 -0.0534 charge_4 -0.0110 -0.0198 -0.0106 charge_5 -0.0077 -0.0085 -0.0081 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0324 -0.0668 -0.0486 15.9949M 0.5174 0.5478 0.5536 unweighted_spectral_entropy -0.4794 -0.6205 -0.6228 delta_RT_loess 2.1841 2.4348 2.2968 m0 Found 69986 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 75231 target PSMs and 5918 decoy PSMs. Calculating q values. Final list yields 69987 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 25.36 cpu seconds or 25 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-134_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-134_percolator_decoy_psms.tsv S22049-Arjun-134_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-134_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-134_percolator_decoy_psms.tsv S22049-Arjun-134_edited.pin Started Sat Mar 4 12:46:23 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-134_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 7203 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 6485 positives and 718 negatives, size ratio=9.03203 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 3591 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 3705 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 3659 training set positives with q<0.01 in that direction. Found 5465 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.263 cpu seconds or 0 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 5797 PSMs with q<0.01 Iteration 2: Estimated 5825 PSMs with q<0.01 Iteration 3: Estimated 5829 PSMs with q<0.01 Iteration 4: Estimated 5832 PSMs with q<0.01 Iteration 5: Estimated 5838 PSMs with q<0.01 Iteration 6: Estimated 5838 PSMs with q<0.01 Iteration 7: Estimated 5838 PSMs with q<0.01 Iteration 8: Estimated 5838 PSMs with q<0.01 Iteration 9: Estimated 5838 PSMs with q<0.01 Iteration 10: Estimated 5838 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.4788 0.4102 0.3168 retentiontime 0.0000 0.0000 0.0000 rank -0.0501 -0.1220 -0.0099 abs_ppm -0.3736 -0.2742 -0.3279 isotope_errors -0.7463 -0.6618 -0.6744 log10_evalue -0.2074 0.0337 0.1224 hyperscore 0.3070 0.1840 0.4915 delta_hyperscore 1.5409 0.7471 0.9163 matched_ion_num -1.1667 -0.8837 -0.9090 complementary_ions -0.0507 0.2322 0.1155 ion_series -0.0986 -0.0452 -0.0066 weighted_average_abs_fragment_ppm 0.6216 0.3862 0.7098 peptide_length 0.0000 0.0000 0.0000 ntt 0.0206 -0.0083 0.0187 nmc 0.0000 0.0000 0.0000 charge_1 0.0965 0.0724 0.1026 charge_2 -0.0671 -0.0485 -0.0728 charge_3 -0.1123 -0.0903 -0.1142 charge_4 -0.0245 -0.0197 -0.0249 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0133 -0.0158 -0.0870 15.9949M 1.6729 1.2613 1.6602 unweighted_spectral_entropy -0.2983 -0.2096 -0.1678 delta_RT_loess 2.0770 1.6704 2.1121 m0 Found 5831 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 6485 target PSMs and 718 decoy PSMs. Calculating q values. Final list yields 5831 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 4.269 cpu seconds or 5 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-74_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-74_percolator_decoy_psms.tsv S22049-Arjun-74_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-74_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-74_percolator_decoy_psms.tsv S22049-Arjun-74_edited.pin Started Sat Mar 4 12:46:28 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-74_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 58351 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54994 positives and 3357 negatives, size ratio=16.3819 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34094 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34182 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34107 training set positives with q<0.01 in that direction. Found 51183 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.446 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51824 PSMs with q<0.01 Iteration 2: Estimated 51954 PSMs with q<0.01 Iteration 3: Estimated 51990 PSMs with q<0.01 Iteration 4: Estimated 51990 PSMs with q<0.01 Iteration 5: Estimated 51999 PSMs with q<0.01 Iteration 6: Estimated 51996 PSMs with q<0.01 Iteration 7: Estimated 51998 PSMs with q<0.01 Iteration 8: Estimated 51998 PSMs with q<0.01 Iteration 9: Estimated 51999 PSMs with q<0.01 Iteration 10: Estimated 52000 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0571 0.1076 0.0005 retentiontime 0.0000 0.0000 0.0000 rank -0.1647 -0.1803 -0.1726 abs_ppm -0.1120 -0.0886 -0.0904 isotope_errors -0.5844 -0.4534 -0.5537 log10_evalue 0.5916 0.6662 0.6923 hyperscore 0.6019 0.5573 0.7357 delta_hyperscore 0.7569 0.1758 0.6307 matched_ion_num -0.9079 -0.5028 -0.8504 complementary_ions -0.0085 0.1306 0.1590 ion_series 0.0106 0.0341 0.0755 weighted_average_abs_fragment_ppm 0.0533 0.0536 0.1803 peptide_length 0.0000 0.0000 0.0000 ntt -0.1268 -0.1369 -0.1679 nmc 0.0000 0.0000 0.0000 charge_1 -0.0007 -0.0021 0.0361 charge_2 0.0083 -0.0088 -0.0360 charge_3 -0.0195 0.0183 0.0015 charge_4 -0.0188 0.0636 -0.0173 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0147 -0.0368 -0.0574 15.9949M 0.5757 0.4835 0.5365 unweighted_spectral_entropy -0.4120 -0.5286 -0.4808 delta_RT_loess 2.3810 2.3362 2.9363 m0 Found 51977 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54994 target PSMs and 3357 decoy PSMs. Calculating q values. Final list yields 51978 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.94 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-48_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-48_percolator_decoy_psms.tsv S22049-Arjun-48_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-48_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-48_percolator_decoy_psms.tsv S22049-Arjun-48_edited.pin Started Sat Mar 4 12:46:47 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-48_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70450 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 65638 positives and 4812 negatives, size ratio=13.6405 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 39682 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39718 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39942 training set positives with q<0.01 in that direction. Found 59700 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.948 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 60939 PSMs with q<0.01 Iteration 2: Estimated 61237 PSMs with q<0.01 Iteration 3: Estimated 61353 PSMs with q<0.01 Iteration 4: Estimated 61394 PSMs with q<0.01 Iteration 5: Estimated 61399 PSMs with q<0.01 Iteration 6: Estimated 61399 PSMs with q<0.01 Iteration 7: Estimated 61400 PSMs with q<0.01 Iteration 8: Estimated 61399 PSMs with q<0.01 Iteration 9: Estimated 61398 PSMs with q<0.01 Iteration 10: Estimated 61398 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0502 0.0287 0.0245 retentiontime 0.0000 0.0000 0.0000 rank -0.2345 -0.2089 -0.2357 abs_ppm -0.1317 -0.1542 -0.1798 isotope_errors -0.4907 -0.6795 -0.7298 log10_evalue 0.5036 0.9852 0.5454 hyperscore 0.5561 0.5370 0.4964 delta_hyperscore 0.7467 0.3936 0.5650 matched_ion_num -0.7542 -0.8315 -0.6632 complementary_ions -0.0582 -0.0641 -0.0894 ion_series -0.0455 -0.0218 -0.0206 weighted_average_abs_fragment_ppm 0.1541 0.1117 0.1283 peptide_length 0.0000 0.0000 0.0000 ntt -0.1973 -0.1714 -0.1846 nmc 0.0000 0.0000 0.0000 charge_1 0.0202 0.0077 -0.0029 charge_2 -0.0218 -0.0231 0.0026 charge_3 -0.0123 0.0485 -0.0010 charge_4 0.0855 0.0497 0.0119 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0307 0.0036 -0.0318 15.9949M 0.4930 0.5060 0.5013 unweighted_spectral_entropy -0.5697 -0.5514 -0.5914 delta_RT_loess 2.3906 2.2663 2.4988 m0 Found 61381 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 65638 target PSMs and 4812 decoy PSMs. Calculating q values. Final list yields 61381 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.1 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-121_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-121_percolator_decoy_psms.tsv S22049-Arjun-121_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-121_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-121_percolator_decoy_psms.tsv S22049-Arjun-121_edited.pin Started Sat Mar 4 12:47:08 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-121_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 57615 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54150 positives and 3465 negatives, size ratio=15.6277 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33133 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33187 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33202 training set positives with q<0.01 in that direction. Found 49772 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.215 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50627 PSMs with q<0.01 Iteration 2: Estimated 50874 PSMs with q<0.01 Iteration 3: Estimated 50909 PSMs with q<0.01 Iteration 4: Estimated 50919 PSMs with q<0.01 Iteration 5: Estimated 50926 PSMs with q<0.01 Iteration 6: Estimated 50928 PSMs with q<0.01 Iteration 7: Estimated 50928 PSMs with q<0.01 Iteration 8: Estimated 50931 PSMs with q<0.01 Iteration 9: Estimated 50931 PSMs with q<0.01 Iteration 10: Estimated 50931 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0043 0.0217 -0.0002 retentiontime 0.0000 0.0000 0.0000 rank -0.2435 -0.2314 -0.2264 abs_ppm -0.0411 -0.0604 -0.0552 isotope_errors -0.5036 -0.6863 -0.5628 log10_evalue 1.5088 0.7241 1.7566 hyperscore 0.4383 0.5083 0.3040 delta_hyperscore 0.1165 0.6438 -0.4180 matched_ion_num -0.5152 -0.6809 -0.7238 complementary_ions -0.0345 -0.0399 0.1594 ion_series 0.0090 -0.0042 0.0499 weighted_average_abs_fragment_ppm 0.1514 0.1081 0.1142 peptide_length 0.0000 0.0000 0.0000 ntt -0.1741 -0.1401 -0.1711 nmc 0.0000 0.0000 0.0000 charge_1 -0.0246 -0.0075 -0.0261 charge_2 0.0231 0.0059 0.0103 charge_3 0.0110 0.0093 0.0756 charge_4 -0.0221 -0.0083 -0.0017 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0550 -0.0894 -0.0437 15.9949M 0.3582 0.4054 0.3953 unweighted_spectral_entropy -0.4958 -0.5082 -0.5156 delta_RT_loess 2.1620 2.6819 1.8433 m0 Found 50936 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54150 target PSMs and 3465 decoy PSMs. Calculating q values. Final list yields 50937 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 25.46 cpu seconds or 26 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-6_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-6_percolator_decoy_psms.tsv S22049-Arjun-6_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-6_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-6_percolator_decoy_psms.tsv S22049-Arjun-6_edited.pin Started Sat Mar 4 12:47:36 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-6_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67300 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63173 positives and 4127 negatives, size ratio=15.3072 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38818 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 38791 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38739 training set positives with q<0.01 in that direction. Found 58165 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.705 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59094 PSMs with q<0.01 Iteration 2: Estimated 59291 PSMs with q<0.01 Iteration 3: Estimated 59393 PSMs with q<0.01 Iteration 4: Estimated 59427 PSMs with q<0.01 Iteration 5: Estimated 59435 PSMs with q<0.01 Iteration 6: Estimated 59443 PSMs with q<0.01 Iteration 7: Estimated 59447 PSMs with q<0.01 Iteration 8: Estimated 59448 PSMs with q<0.01 Iteration 9: Estimated 59451 PSMs with q<0.01 Iteration 10: Estimated 59450 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0408 0.0442 0.0434 retentiontime 0.0000 0.0000 0.0000 rank -0.2409 -0.2272 -0.1945 abs_ppm -0.1224 -0.1386 -0.1116 isotope_errors -0.5497 -0.5900 -0.6854 log10_evalue 0.6980 0.9904 0.8257 hyperscore 0.4544 0.4713 0.5140 delta_hyperscore 0.2484 -0.0233 0.0783 matched_ion_num -0.4805 -0.5262 -0.5317 complementary_ions -0.0760 -0.1571 -0.0668 ion_series -0.0463 -0.0483 -0.0696 weighted_average_abs_fragment_ppm 0.2786 0.2410 0.2756 peptide_length 0.0000 0.0000 0.0000 ntt -0.1511 -0.1461 -0.1081 nmc 0.0000 0.0000 0.0000 charge_1 0.0438 0.0338 0.0626 charge_2 -0.0501 -0.0334 -0.0601 charge_3 0.0519 -0.0049 -0.0217 charge_4 -0.0035 -0.0028 -0.0136 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0373 -0.0747 -0.0375 15.9949M 0.4900 0.5233 0.5668 unweighted_spectral_entropy -0.5079 -0.4831 -0.4660 delta_RT_loess 2.3300 2.3273 2.4841 m0 Found 59449 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63173 target PSMs and 4127 decoy PSMs. Calculating q values. Final list yields 59450 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.35 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-140_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-140_percolator_decoy_psms.tsv S22049-Arjun-140_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-140_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-140_percolator_decoy_psms.tsv S22049-Arjun-140_edited.pin Started Sat Mar 4 12:47:57 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-140_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61535 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57427 positives and 4108 negatives, size ratio=13.9793 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34843 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34877 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34782 training set positives with q<0.01 in that direction. Found 52252 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.233 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53320 PSMs with q<0.01 Iteration 2: Estimated 53517 PSMs with q<0.01 Iteration 3: Estimated 53572 PSMs with q<0.01 Iteration 4: Estimated 53585 PSMs with q<0.01 Iteration 5: Estimated 53585 PSMs with q<0.01 Iteration 6: Estimated 53580 PSMs with q<0.01 Iteration 7: Estimated 53585 PSMs with q<0.01 Iteration 8: Estimated 53581 PSMs with q<0.01 Iteration 9: Estimated 53584 PSMs with q<0.01 Iteration 10: Estimated 53581 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0256 0.0187 -0.0922 retentiontime 0.0000 0.0000 0.0000 rank -0.1935 -0.1940 -0.1965 abs_ppm -0.0842 -0.1141 -0.0774 isotope_errors -0.7002 -0.6371 -0.9622 log10_evalue 0.7296 0.5669 0.9938 hyperscore 0.5509 0.4402 0.5362 delta_hyperscore 0.4505 0.3388 -0.0818 matched_ion_num -0.7709 -0.7016 -0.6656 complementary_ions 0.0288 -0.0030 0.1373 ion_series 0.0324 0.0157 0.0126 weighted_average_abs_fragment_ppm 0.2294 0.1872 0.3064 peptide_length 0.0000 0.0000 0.0000 ntt -0.1537 -0.1185 -0.2011 nmc 0.0000 0.0000 0.0000 charge_1 0.0277 0.0180 0.0092 charge_2 -0.0269 -0.0113 -0.0014 charge_3 -0.0019 -0.0255 -0.0292 charge_4 -0.0212 -0.0226 -0.0228 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0691 -0.0626 -0.0744 15.9949M 0.5220 0.5631 0.5396 unweighted_spectral_entropy -0.5297 -0.5897 -0.5274 delta_RT_loess 2.3000 2.2655 2.2025 m0 Found 53587 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57427 target PSMs and 4108 decoy PSMs. Calculating q values. Final list yields 53591 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.08 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-11_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-11_percolator_decoy_psms.tsv S22049-Arjun-11_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-11_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-11_percolator_decoy_psms.tsv S22049-Arjun-11_edited.pin Started Sat Mar 4 12:48:16 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-11_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 77759 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 71845 positives and 5914 negatives, size ratio=12.1483 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43189 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43199 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43086 training set positives with q<0.01 in that direction. Found 64755 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 2.11 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66086 PSMs with q<0.01 Iteration 2: Estimated 66253 PSMs with q<0.01 Iteration 3: Estimated 66339 PSMs with q<0.01 Iteration 4: Estimated 66381 PSMs with q<0.01 Iteration 5: Estimated 66399 PSMs with q<0.01 Iteration 6: Estimated 66410 PSMs with q<0.01 Iteration 7: Estimated 66411 PSMs with q<0.01 Iteration 8: Estimated 66420 PSMs with q<0.01 Iteration 9: Estimated 66422 PSMs with q<0.01 Iteration 10: Estimated 66421 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0555 0.0328 0.0854 retentiontime 0.0000 0.0000 0.0000 rank -0.2222 -0.2610 -0.2641 abs_ppm -0.1659 -0.1665 -0.1315 isotope_errors -0.9168 -0.8625 -0.8312 log10_evalue 0.6535 0.6419 0.3378 hyperscore 0.5178 0.6062 0.5151 delta_hyperscore 0.5309 0.9185 0.8931 matched_ion_num -0.9035 -1.1162 -0.9384 complementary_ions -0.1345 -0.2231 -0.1682 ion_series -0.0132 -0.0285 -0.0308 weighted_average_abs_fragment_ppm 0.0851 0.1208 0.0445 peptide_length 0.0000 0.0000 0.0000 ntt -0.1484 -0.1594 -0.1521 nmc 0.0000 0.0000 0.0000 charge_1 0.0125 0.0508 0.0064 charge_2 -0.0047 -0.0376 -0.0238 charge_3 -0.0197 -0.0284 0.0514 charge_4 -0.0041 -0.0279 -0.0152 charge_5 -0.0118 -0.0243 -0.0103 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0323 -0.0231 0.0031 15.9949M 0.6169 0.6154 0.6313 unweighted_spectral_entropy -0.6332 -0.6568 -0.5774 delta_RT_loess 2.5750 2.7846 2.5002 m0 Found 66421 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 71845 target PSMs and 5914 decoy PSMs. Calculating q values. Final list yields 66424 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 21.05 cpu seconds or 21 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-84-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-84-2nd_percolator_decoy_psms.tsv S22049-Arjun-84-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-84-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-84-2nd_percolator_decoy_psms.tsv S22049-Arjun-84-2nd_edited.pin Started Sat Mar 4 12:48:40 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-84-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 66478 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 62078 positives and 4400 negatives, size ratio=14.1086 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37849 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37828 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37805 training set positives with q<0.01 in that direction. Found 56733 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.43 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 57706 PSMs with q<0.01 Iteration 2: Estimated 57894 PSMs with q<0.01 Iteration 3: Estimated 57938 PSMs with q<0.01 Iteration 4: Estimated 57941 PSMs with q<0.01 Iteration 5: Estimated 57948 PSMs with q<0.01 Iteration 6: Estimated 57951 PSMs with q<0.01 Iteration 7: Estimated 57952 PSMs with q<0.01 Iteration 8: Estimated 57952 PSMs with q<0.01 Iteration 9: Estimated 57952 PSMs with q<0.01 Iteration 10: Estimated 57953 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0135 0.0235 0.0145 retentiontime 0.0000 0.0000 0.0000 rank -0.2183 -0.2167 -0.2142 abs_ppm -0.1419 -0.1249 -0.1100 isotope_errors -0.3116 -0.5170 -0.4300 log10_evalue 0.7890 0.7201 0.5255 hyperscore 0.5095 0.6067 0.6181 delta_hyperscore 0.6808 0.7432 0.8037 matched_ion_num -0.8752 -0.9677 -0.8072 complementary_ions -0.0423 -0.0193 -0.0910 ion_series -0.0307 -0.0416 -0.0084 weighted_average_abs_fragment_ppm 0.2251 0.2439 0.1726 peptide_length 0.0000 0.0000 0.0000 ntt -0.1552 -0.1440 -0.1645 nmc 0.0000 0.0000 0.0000 charge_1 0.0606 0.0518 0.0337 charge_2 -0.0377 -0.0427 -0.0283 charge_3 -0.0695 -0.0245 -0.0584 charge_4 -0.0206 -0.0265 0.1459 charge_5 -0.0090 -0.0087 -0.0066 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0646 -0.0644 -0.0542 15.9949M 0.4986 0.5969 0.5386 unweighted_spectral_entropy -0.5828 -0.5806 -0.5766 delta_RT_loess 2.3118 2.6815 2.4490 m0 Found 57959 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 62078 target PSMs and 4400 decoy PSMs. Calculating q values. Final list yields 57960 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 22.09 cpu seconds or 22 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-132_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-132_percolator_decoy_psms.tsv S22049-Arjun-132_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-132_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-132_percolator_decoy_psms.tsv S22049-Arjun-132_edited.pin Started Sat Mar 4 12:49:06 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-132_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64325 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60511 positives and 3814 negatives, size ratio=15.8655 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37013 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37170 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37205 training set positives with q<0.01 in that direction. Found 55672 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.852 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56774 PSMs with q<0.01 Iteration 2: Estimated 57029 PSMs with q<0.01 Iteration 3: Estimated 57075 PSMs with q<0.01 Iteration 4: Estimated 57094 PSMs with q<0.01 Iteration 5: Estimated 57090 PSMs with q<0.01 Iteration 6: Estimated 57092 PSMs with q<0.01 Iteration 7: Estimated 57090 PSMs with q<0.01 Iteration 8: Estimated 57091 PSMs with q<0.01 Iteration 9: Estimated 57091 PSMs with q<0.01 Iteration 10: Estimated 57091 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0524 0.0098 0.0507 retentiontime 0.0000 0.0000 0.0000 rank -0.2405 -0.1871 -0.2048 abs_ppm -0.1255 -0.0985 -0.1589 isotope_errors -0.4150 -0.5768 -0.5360 log10_evalue 0.9372 0.7505 0.4156 hyperscore 0.4399 0.5893 0.5106 delta_hyperscore 0.4681 0.2017 0.6654 matched_ion_num -0.8080 -0.5518 -0.5857 complementary_ions -0.0201 0.1114 0.0496 ion_series -0.0046 0.0016 0.0034 weighted_average_abs_fragment_ppm 0.1286 0.1227 0.1388 peptide_length 0.0000 0.0000 0.0000 ntt -0.0938 -0.1327 -0.1782 nmc 0.0000 0.0000 0.0000 charge_1 -0.0054 -0.0056 0.0004 charge_2 0.0111 0.0096 0.0063 charge_3 -0.0251 -0.0174 -0.0285 charge_4 0.0220 0.0156 0.0171 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0110 -0.0417 -0.0257 15.9949M 0.4761 0.4632 0.4453 unweighted_spectral_entropy -0.5468 -0.6293 -0.5821 delta_RT_loess 2.4426 2.2405 2.5080 m0 Found 57071 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60511 target PSMs and 3814 decoy PSMs. Calculating q values. Final list yields 57071 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.82 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-52_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-52_percolator_decoy_psms.tsv S22049-Arjun-52_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-52_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-52_percolator_decoy_psms.tsv S22049-Arjun-52_edited.pin Started Sat Mar 4 12:49:29 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-52_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72245 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67606 positives and 4639 negatives, size ratio=14.5734 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41427 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41483 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41565 training set positives with q<0.01 in that direction. Found 62240 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.698 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63199 PSMs with q<0.01 Iteration 2: Estimated 63384 PSMs with q<0.01 Iteration 3: Estimated 63442 PSMs with q<0.01 Iteration 4: Estimated 63449 PSMs with q<0.01 Iteration 5: Estimated 63457 PSMs with q<0.01 Iteration 6: Estimated 63457 PSMs with q<0.01 Iteration 7: Estimated 63460 PSMs with q<0.01 Iteration 8: Estimated 63456 PSMs with q<0.01 Iteration 9: Estimated 63459 PSMs with q<0.01 Iteration 10: Estimated 63460 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0040 0.0865 0.0796 retentiontime 0.0000 0.0000 0.0000 rank -0.2374 -0.2555 -0.2202 abs_ppm -0.1002 -0.1303 -0.1440 isotope_errors -0.6742 -0.6031 -0.7791 log10_evalue 0.0759 0.3235 0.1895 hyperscore 0.5004 0.5639 0.5705 delta_hyperscore 1.3661 0.7208 1.2744 matched_ion_num -0.8967 -0.6805 -0.8859 complementary_ions -0.2390 -0.1295 -0.2503 ion_series 0.0208 -0.0212 -0.0048 weighted_average_abs_fragment_ppm 0.0992 0.1291 0.0631 peptide_length 0.0000 0.0000 0.0000 ntt -0.1755 -0.1506 -0.1612 nmc 0.0000 0.0000 0.0000 charge_1 -0.0031 0.0066 -0.0130 charge_2 0.0008 -0.0110 0.0044 charge_3 0.0089 0.0033 0.0265 charge_4 -0.0036 0.0388 0.0103 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0207 -0.0164 0.0308 15.9949M 0.5409 0.5704 0.5396 unweighted_spectral_entropy -0.5178 -0.5089 -0.4294 delta_RT_loess 2.5445 2.4233 2.4498 m0 Found 63419 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67606 target PSMs and 4639 decoy PSMs. Calculating q values. Final list yields 63422 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.28 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-15_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-15_percolator_decoy_psms.tsv S22049-Arjun-15_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-15_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-15_percolator_decoy_psms.tsv S22049-Arjun-15_edited.pin Started Sat Mar 4 12:49:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-15_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73762 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68268 positives and 5494 negatives, size ratio=12.4259 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40778 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41051 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40860 training set positives with q<0.01 in that direction. Found 61370 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.964 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 62768 PSMs with q<0.01 Iteration 2: Estimated 63076 PSMs with q<0.01 Iteration 3: Estimated 63188 PSMs with q<0.01 Iteration 4: Estimated 63234 PSMs with q<0.01 Iteration 5: Estimated 63247 PSMs with q<0.01 Iteration 6: Estimated 63253 PSMs with q<0.01 Iteration 7: Estimated 63252 PSMs with q<0.01 Iteration 8: Estimated 63254 PSMs with q<0.01 Iteration 9: Estimated 63254 PSMs with q<0.01 Iteration 10: Estimated 63254 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0293 0.0234 0.0486 retentiontime 0.0000 0.0000 0.0000 rank -0.2513 -0.2086 -0.2572 abs_ppm -0.1104 -0.0820 -0.1068 isotope_errors -0.5487 -0.6574 -0.4245 log10_evalue 1.1060 1.3100 1.1124 hyperscore 0.6307 0.7128 0.7517 delta_hyperscore 0.3149 0.1902 0.3681 matched_ion_num -0.6454 -0.6709 -0.6623 complementary_ions -0.2296 -0.1679 -0.2028 ion_series -0.0374 -0.0107 -0.0245 weighted_average_abs_fragment_ppm 0.0831 0.0430 0.1102 peptide_length 0.0000 0.0000 0.0000 ntt -0.1552 -0.1294 -0.1475 nmc 0.0000 0.0000 0.0000 charge_1 0.0159 0.0048 0.0312 charge_2 -0.0026 0.0205 -0.0112 charge_3 -0.0340 -0.0661 -0.0512 charge_4 -0.0239 -0.0358 -0.0375 charge_5 -0.0160 -0.0132 -0.0167 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0221 0.0188 -0.0436 15.9949M 0.5331 0.4730 0.5947 unweighted_spectral_entropy -0.6793 -0.5316 -0.6011 delta_RT_loess 2.5137 2.0659 2.6176 m0 Found 63210 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68268 target PSMs and 5494 decoy PSMs. Calculating q values. Final list yields 63217 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 25.86 cpu seconds or 26 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-81_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-81_percolator_decoy_psms.tsv S22049-Arjun-81_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-81_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-81_percolator_decoy_psms.tsv S22049-Arjun-81_edited.pin Started Sat Mar 4 12:50:20 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-81_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62861 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58933 positives and 3928 negatives, size ratio=15.0033 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35959 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36071 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36131 training set positives with q<0.01 in that direction. Found 54058 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.12 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54937 PSMs with q<0.01 Iteration 2: Estimated 55170 PSMs with q<0.01 Iteration 3: Estimated 55258 PSMs with q<0.01 Iteration 4: Estimated 55296 PSMs with q<0.01 Iteration 5: Estimated 55298 PSMs with q<0.01 Iteration 6: Estimated 55304 PSMs with q<0.01 Iteration 7: Estimated 55310 PSMs with q<0.01 Iteration 8: Estimated 55310 PSMs with q<0.01 Iteration 9: Estimated 55310 PSMs with q<0.01 Iteration 10: Estimated 55310 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0527 -0.0186 -0.0540 retentiontime 0.0000 0.0000 0.0000 rank -0.2280 -0.2098 -0.2223 abs_ppm -0.1118 -0.1230 -0.0944 isotope_errors -0.6581 -0.4670 -0.4952 log10_evalue 0.0109 0.4422 0.0501 hyperscore 0.4616 0.4209 0.6167 delta_hyperscore 1.1734 0.7099 1.5527 matched_ion_num -0.7773 -0.6296 -0.9624 complementary_ions -0.1936 -0.1052 -0.1059 ion_series -0.0342 -0.0221 0.0144 weighted_average_abs_fragment_ppm 0.1048 0.2820 0.2300 peptide_length 0.0000 0.0000 0.0000 ntt -0.1494 -0.1611 -0.1282 nmc 0.0000 0.0000 0.0000 charge_1 0.0156 0.0252 0.0207 charge_2 -0.0176 -0.0118 -0.0130 charge_3 0.0080 -0.0546 -0.0321 charge_4 -0.0058 0.0087 0.0085 charge_5 -0.0094 -0.0090 -0.0105 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0063 -0.0130 -0.0335 15.9949M 0.5195 0.4936 0.5148 unweighted_spectral_entropy -0.5784 -0.5512 -0.4649 delta_RT_loess 2.3469 2.2520 2.6353 m0 Found 55309 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58933 target PSMs and 3928 decoy PSMs. Calculating q values. Final list yields 55309 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.89 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-138_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-138_percolator_decoy_psms.tsv S22049-Arjun-138_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-138_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-138_percolator_decoy_psms.tsv S22049-Arjun-138_edited.pin Started Sat Mar 4 12:50:42 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-138_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61671 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57680 positives and 3991 negatives, size ratio=14.4525 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34998 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35038 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35049 training set positives with q<0.01 in that direction. Found 52534 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.379 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53565 PSMs with q<0.01 Iteration 2: Estimated 53787 PSMs with q<0.01 Iteration 3: Estimated 53899 PSMs with q<0.01 Iteration 4: Estimated 53958 PSMs with q<0.01 Iteration 5: Estimated 53974 PSMs with q<0.01 Iteration 6: Estimated 53976 PSMs with q<0.01 Iteration 7: Estimated 53977 PSMs with q<0.01 Iteration 8: Estimated 53980 PSMs with q<0.01 Iteration 9: Estimated 53982 PSMs with q<0.01 Iteration 10: Estimated 53981 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0234 0.0474 0.0732 retentiontime 0.0000 0.0000 0.0000 rank -0.2207 -0.2103 -0.1866 abs_ppm -0.1093 -0.1046 -0.1066 isotope_errors -0.6787 -0.6385 -0.6599 log10_evalue 0.3460 0.3042 0.2520 hyperscore 0.3156 0.3655 0.4355 delta_hyperscore 0.9420 0.6394 0.9181 matched_ion_num -0.8182 -0.6511 -0.7487 complementary_ions -0.0979 -0.1738 -0.0788 ion_series -0.0002 -0.0392 0.0051 weighted_average_abs_fragment_ppm 0.1593 0.0992 0.0972 peptide_length 0.0000 0.0000 0.0000 ntt -0.1492 -0.1186 -0.0891 nmc 0.0000 0.0000 0.0000 charge_1 0.0319 0.0083 0.0100 charge_2 -0.0336 -0.0081 -0.0155 charge_3 0.0031 -0.0024 0.0230 charge_4 0.0129 0.0062 -0.0027 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0553 -0.0263 -0.0096 15.9949M 0.4726 0.5080 0.4962 unweighted_spectral_entropy -0.5457 -0.5884 -0.6194 delta_RT_loess 2.0275 2.0511 2.0742 m0 Found 53950 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57680 target PSMs and 3991 decoy PSMs. Calculating q values. Final list yields 53950 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.01 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-125_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-125_percolator_decoy_psms.tsv S22049-Arjun-125_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-125_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-125_percolator_decoy_psms.tsv S22049-Arjun-125_edited.pin Started Sat Mar 4 12:51:00 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-125_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64244 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59842 positives and 4402 negatives, size ratio=13.5943 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36167 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36489 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36359 training set positives with q<0.01 in that direction. Found 54430 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.225 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55435 PSMs with q<0.01 Iteration 2: Estimated 55603 PSMs with q<0.01 Iteration 3: Estimated 55702 PSMs with q<0.01 Iteration 4: Estimated 55724 PSMs with q<0.01 Iteration 5: Estimated 55737 PSMs with q<0.01 Iteration 6: Estimated 55744 PSMs with q<0.01 Iteration 7: Estimated 55747 PSMs with q<0.01 Iteration 8: Estimated 55745 PSMs with q<0.01 Iteration 9: Estimated 55744 PSMs with q<0.01 Iteration 10: Estimated 55744 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1143 0.1374 0.0210 retentiontime 0.0000 0.0000 0.0000 rank -0.2356 -0.1942 -0.2074 abs_ppm -0.0833 -0.1156 -0.1169 isotope_errors -0.5938 -0.7368 -0.7146 log10_evalue 1.0325 0.5176 0.8262 hyperscore 0.4984 0.4238 0.4368 delta_hyperscore 0.2800 0.7817 0.5780 matched_ion_num -0.7162 -0.7791 -0.7991 complementary_ions 0.1857 -0.0748 -0.1669 ion_series -0.0342 -0.0415 -0.0270 weighted_average_abs_fragment_ppm 0.1351 0.0952 0.1859 peptide_length 0.0000 0.0000 0.0000 ntt -0.1402 -0.1563 -0.1727 nmc 0.0000 0.0000 0.0000 charge_1 0.0116 0.0195 0.0285 charge_2 -0.0006 -0.0140 -0.0302 charge_3 -0.0508 -0.0257 0.0019 charge_4 0.0284 0.0090 0.0211 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0005 0.0097 0.0077 15.9949M 0.5137 0.5457 0.5655 unweighted_spectral_entropy -0.5979 -0.5235 -0.6046 delta_RT_loess 2.4752 2.5690 2.5938 m0 Found 55716 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59842 target PSMs and 4402 decoy PSMs. Calculating q values. Final list yields 55722 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.46 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-67_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-67_percolator_decoy_psms.tsv S22049-Arjun-67_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-67_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-67_percolator_decoy_psms.tsv S22049-Arjun-67_edited.pin Started Sat Mar 4 12:51:18 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-67_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 74879 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 69949 positives and 4930 negatives, size ratio=14.1884 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42664 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42629 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42830 training set positives with q<0.01 in that direction. Found 64008 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.955 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65282 PSMs with q<0.01 Iteration 2: Estimated 65468 PSMs with q<0.01 Iteration 3: Estimated 65550 PSMs with q<0.01 Iteration 4: Estimated 65556 PSMs with q<0.01 Iteration 5: Estimated 65561 PSMs with q<0.01 Iteration 6: Estimated 65560 PSMs with q<0.01 Iteration 7: Estimated 65564 PSMs with q<0.01 Iteration 8: Estimated 65561 PSMs with q<0.01 Iteration 9: Estimated 65564 PSMs with q<0.01 Iteration 10: Estimated 65564 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0016 -0.0155 0.0219 retentiontime 0.0000 0.0000 0.0000 rank -0.2329 -0.2206 -0.2236 abs_ppm -0.1282 -0.1393 -0.1482 isotope_errors -0.8732 -0.8468 -1.0298 log10_evalue 0.1505 0.3085 0.1891 hyperscore 0.5086 0.5260 0.3731 delta_hyperscore 0.9789 0.9533 0.5184 matched_ion_num -1.0304 -1.0301 -0.7548 complementary_ions -0.1708 -0.1638 -0.1367 ion_series -0.0273 -0.0406 -0.0769 weighted_average_abs_fragment_ppm 0.1519 0.1722 0.0849 peptide_length 0.0000 0.0000 0.0000 ntt -0.1585 -0.1893 -0.1829 nmc 0.0000 0.0000 0.0000 charge_1 0.0377 0.0245 -0.0160 charge_2 -0.0351 -0.0203 0.0027 charge_3 -0.0100 -0.0148 0.0453 charge_4 -0.0055 -0.0046 0.0023 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0221 -0.0322 -0.0336 15.9949M 0.5880 0.5389 0.5392 unweighted_spectral_entropy -0.5985 -0.5850 -0.5230 delta_RT_loess 2.4904 2.6086 2.3299 m0 Found 65590 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 69949 target PSMs and 4930 decoy PSMs. Calculating q values. Final list yields 65591 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.33 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-44_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-44_percolator_decoy_psms.tsv S22049-Arjun-44_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-44_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-44_percolator_decoy_psms.tsv S22049-Arjun-44_edited.pin Started Sat Mar 4 12:51:38 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-44_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67993 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63778 positives and 4215 negatives, size ratio=15.1312 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 39257 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39265 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39219 training set positives with q<0.01 in that direction. Found 58871 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.283 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59654 PSMs with q<0.01 Iteration 2: Estimated 59901 PSMs with q<0.01 Iteration 3: Estimated 60005 PSMs with q<0.01 Iteration 4: Estimated 60027 PSMs with q<0.01 Iteration 5: Estimated 60028 PSMs with q<0.01 Iteration 6: Estimated 60030 PSMs with q<0.01 Iteration 7: Estimated 60032 PSMs with q<0.01 Iteration 8: Estimated 60036 PSMs with q<0.01 Iteration 9: Estimated 60039 PSMs with q<0.01 Iteration 10: Estimated 60040 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0278 0.0221 0.0379 retentiontime 0.0000 0.0000 0.0000 rank -0.1930 -0.1972 -0.2200 abs_ppm -0.1354 -0.1099 -0.1264 isotope_errors -0.5755 -0.6662 -0.4771 log10_evalue 0.5920 1.0851 0.9062 hyperscore 0.6271 0.5737 0.6720 delta_hyperscore 0.4373 0.2267 0.3813 matched_ion_num -0.6307 -0.7728 -0.8000 complementary_ions -0.1472 -0.2063 -0.1467 ion_series 0.0050 -0.0193 0.0170 weighted_average_abs_fragment_ppm 0.1256 0.1191 0.0951 peptide_length 0.0000 0.0000 0.0000 ntt -0.1302 -0.2478 -0.1689 nmc 0.0000 0.0000 0.0000 charge_1 0.0186 -0.0148 0.0102 charge_2 -0.0217 0.0009 -0.0133 charge_3 0.0128 0.0545 0.0112 charge_4 -0.0065 0.0147 0.0049 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0405 -0.0538 -0.0431 15.9949M 0.5221 0.5609 0.5399 unweighted_spectral_entropy -0.5264 -0.4006 -0.4825 delta_RT_loess 2.3704 1.9770 2.4449 m0 Found 60030 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63778 target PSMs and 4215 decoy PSMs. Calculating q values. Final list yields 60032 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.5 cpu seconds or 21 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-4_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-4_percolator_decoy_psms.tsv S22049-Arjun-4_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-4_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-4_percolator_decoy_psms.tsv S22049-Arjun-4_edited.pin Started Sat Mar 4 12:52:01 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-4_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 71463 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66190 positives and 5273 negatives, size ratio=12.5526 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 39763 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39680 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39848 training set positives with q<0.01 in that direction. Found 59641 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.287 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 60946 PSMs with q<0.01 Iteration 2: Estimated 61105 PSMs with q<0.01 Iteration 3: Estimated 61197 PSMs with q<0.01 Iteration 4: Estimated 61238 PSMs with q<0.01 Iteration 5: Estimated 61254 PSMs with q<0.01 Iteration 6: Estimated 61266 PSMs with q<0.01 Iteration 7: Estimated 61272 PSMs with q<0.01 Iteration 8: Estimated 61271 PSMs with q<0.01 Iteration 9: Estimated 61275 PSMs with q<0.01 Iteration 10: Estimated 61274 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0243 0.0695 -0.0484 retentiontime 0.0000 0.0000 0.0000 rank -0.2541 -0.2394 -0.2313 abs_ppm -0.1484 -0.1297 -0.1183 isotope_errors -0.4621 -0.4929 -0.4290 log10_evalue 0.7151 0.5167 0.3486 hyperscore 0.5796 0.6323 0.7762 delta_hyperscore 0.8426 0.9072 1.1913 matched_ion_num -0.9625 -0.9405 -0.9249 complementary_ions -0.1038 -0.1368 -0.1604 ion_series -0.0043 -0.0496 0.0253 weighted_average_abs_fragment_ppm 0.1155 0.0839 0.1696 peptide_length 0.0000 0.0000 0.0000 ntt -0.1338 -0.1291 -0.1721 nmc 0.0000 0.0000 0.0000 charge_1 0.0231 0.0180 0.0339 charge_2 -0.0165 -0.0178 -0.0229 charge_3 -0.0236 0.0007 -0.0518 charge_4 -0.0124 -0.0121 0.0354 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0050 -0.0075 0.0020 15.9949M 0.5723 0.5647 0.5894 unweighted_spectral_entropy -0.6764 -0.6143 -0.7257 delta_RT_loess 2.4256 2.3914 2.5311 m0 Found 61265 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66190 target PSMs and 5273 decoy PSMs. Calculating q values. Final list yields 61267 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.79 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-112_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-112_percolator_decoy_psms.tsv S22049-Arjun-112_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-112_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-112_percolator_decoy_psms.tsv S22049-Arjun-112_edited.pin Started Sat Mar 4 12:52:21 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-112_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 50391 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 47762 positives and 2629 negatives, size ratio=18.1674 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 29827 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 29822 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 29785 training set positives with q<0.01 in that direction. Found 44694 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.962 cpu seconds or 0 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 45243 PSMs with q<0.01 Iteration 2: Estimated 45377 PSMs with q<0.01 Iteration 3: Estimated 45398 PSMs with q<0.01 Iteration 4: Estimated 45408 PSMs with q<0.01 Iteration 5: Estimated 45415 PSMs with q<0.01 Iteration 6: Estimated 45420 PSMs with q<0.01 Iteration 7: Estimated 45418 PSMs with q<0.01 Iteration 8: Estimated 45417 PSMs with q<0.01 Iteration 9: Estimated 45417 PSMs with q<0.01 Iteration 10: Estimated 45416 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0187 -0.0333 0.0004 retentiontime 0.0000 0.0000 0.0000 rank -0.1879 -0.1628 -0.1981 abs_ppm -0.0743 -0.0889 -0.0913 isotope_errors -0.4588 -0.4673 -0.3217 log10_evalue 0.5431 0.2758 1.0299 hyperscore 0.4291 0.4380 0.6629 delta_hyperscore 0.4887 0.4245 -0.0068 matched_ion_num -0.6451 -0.6279 -0.6428 complementary_ions -0.0145 0.0212 -0.0347 ion_series -0.0345 -0.0627 -0.0101 weighted_average_abs_fragment_ppm 0.2129 0.2521 0.1815 peptide_length 0.0000 0.0000 0.0000 ntt -0.0521 -0.0632 -0.1038 nmc 0.0000 0.0000 0.0000 charge_1 0.0436 0.0501 0.0330 charge_2 -0.0313 -0.0378 -0.0175 charge_3 -0.0577 -0.0465 -0.0625 charge_4 0.0475 -0.0131 0.0147 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0574 -0.0497 -0.0574 15.9949M 0.4492 0.5148 0.4966 unweighted_spectral_entropy -0.4982 -0.4559 -0.5023 delta_RT_loess 2.2139 2.0129 2.3309 m0 Found 45414 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 47762 target PSMs and 2629 decoy PSMs. Calculating q values. Final list yields 45415 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 11.47 cpu seconds or 12 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-40_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-40_percolator_decoy_psms.tsv S22049-Arjun-40_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-40_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-40_percolator_decoy_psms.tsv S22049-Arjun-40_edited.pin Started Sat Mar 4 12:52:34 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-40_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 68247 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 64498 positives and 3749 negatives, size ratio=17.2041 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40129 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40229 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40335 training set positives with q<0.01 in that direction. Found 60325 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.304 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61045 PSMs with q<0.01 Iteration 2: Estimated 61165 PSMs with q<0.01 Iteration 3: Estimated 61228 PSMs with q<0.01 Iteration 4: Estimated 61246 PSMs with q<0.01 Iteration 5: Estimated 61265 PSMs with q<0.01 Iteration 6: Estimated 61271 PSMs with q<0.01 Iteration 7: Estimated 61269 PSMs with q<0.01 Iteration 8: Estimated 61267 PSMs with q<0.01 Iteration 9: Estimated 61269 PSMs with q<0.01 Iteration 10: Estimated 61267 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0744 0.0445 0.0761 retentiontime 0.0000 0.0000 0.0000 rank -0.2152 -0.1942 -0.2155 abs_ppm -0.0625 -0.1009 -0.0908 isotope_errors -0.6689 -0.6263 -0.7126 log10_evalue 0.6897 0.7917 0.5490 hyperscore 0.6559 0.5435 0.5124 delta_hyperscore 0.9665 0.7709 0.8651 matched_ion_num -1.0092 -0.9530 -1.0213 complementary_ions -0.0724 -0.1682 -0.1372 ion_series -0.0512 -0.0402 -0.0209 weighted_average_abs_fragment_ppm 0.1063 0.1254 0.1095 peptide_length 0.0000 0.0000 0.0000 ntt -0.1173 -0.1025 -0.0984 nmc 0.0000 0.0000 0.0000 charge_1 -0.0131 0.0154 0.0194 charge_2 0.0077 -0.0228 -0.0294 charge_3 0.0070 0.0188 0.0268 charge_4 0.0376 0.0071 0.0059 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0393 -0.0379 -0.0333 15.9949M 0.4815 0.4872 0.5349 unweighted_spectral_entropy -0.4326 -0.4100 -0.3881 delta_RT_loess 2.7390 2.7480 2.7162 m0 Found 61258 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 64498 target PSMs and 3749 decoy PSMs. Calculating q values. Final list yields 61258 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.29 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-19_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-19_percolator_decoy_psms.tsv S22049-Arjun-19_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-19_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-19_percolator_decoy_psms.tsv S22049-Arjun-19_edited.pin Started Sat Mar 4 12:52:52 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-19_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 74875 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 69318 positives and 5557 negatives, size ratio=12.474 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41490 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41611 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41537 training set positives with q<0.01 in that direction. Found 62300 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.626 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63888 PSMs with q<0.01 Iteration 2: Estimated 64176 PSMs with q<0.01 Iteration 3: Estimated 64241 PSMs with q<0.01 Iteration 4: Estimated 64267 PSMs with q<0.01 Iteration 5: Estimated 64273 PSMs with q<0.01 Iteration 6: Estimated 64275 PSMs with q<0.01 Iteration 7: Estimated 64275 PSMs with q<0.01 Iteration 8: Estimated 64276 PSMs with q<0.01 Iteration 9: Estimated 64276 PSMs with q<0.01 Iteration 10: Estimated 64276 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0003 0.0400 0.0064 retentiontime 0.0000 0.0000 0.0000 rank -0.2694 -0.2700 -0.2433 abs_ppm -0.1351 -0.1132 -0.1197 isotope_errors -0.6807 -0.6366 -0.4854 log10_evalue 0.8336 1.1200 1.0344 hyperscore 0.5940 0.4629 0.5933 delta_hyperscore 0.5489 0.2949 0.4764 matched_ion_num -0.9495 -0.9139 -0.8677 complementary_ions -0.0027 0.1573 -0.0447 ion_series -0.0293 -0.0102 -0.0349 weighted_average_abs_fragment_ppm 0.1564 0.1802 0.1813 peptide_length 0.0000 0.0000 0.0000 ntt -0.1869 -0.1488 -0.1827 nmc 0.0000 0.0000 0.0000 charge_1 0.0178 0.0103 0.0148 charge_2 -0.0211 -0.0299 -0.0202 charge_3 0.0104 0.0645 0.0155 charge_4 -0.0026 0.0060 0.0076 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0240 -0.0727 -0.0416 15.9949M 0.5809 0.5206 0.5420 unweighted_spectral_entropy -0.6524 -0.5132 -0.6119 delta_RT_loess 2.7121 2.1208 2.2994 m0 Found 64236 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 69318 target PSMs and 5557 decoy PSMs. Calculating q values. Final list yields 64237 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.03 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-96_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-96_percolator_decoy_psms.tsv S22049-Arjun-96_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-96_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-96_percolator_decoy_psms.tsv S22049-Arjun-96_edited.pin Started Sat Mar 4 12:53:12 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-96_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61536 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57538 positives and 3998 negatives, size ratio=14.3917 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35316 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35317 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35183 training set positives with q<0.01 in that direction. Found 52876 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.123 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53645 PSMs with q<0.01 Iteration 2: Estimated 53820 PSMs with q<0.01 Iteration 3: Estimated 53931 PSMs with q<0.01 Iteration 4: Estimated 53940 PSMs with q<0.01 Iteration 5: Estimated 53943 PSMs with q<0.01 Iteration 6: Estimated 53944 PSMs with q<0.01 Iteration 7: Estimated 53945 PSMs with q<0.01 Iteration 8: Estimated 53945 PSMs with q<0.01 Iteration 9: Estimated 53945 PSMs with q<0.01 Iteration 10: Estimated 53945 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0355 -0.0278 0.0695 retentiontime 0.0000 0.0000 0.0000 rank -0.2319 -0.1713 -0.1884 abs_ppm -0.1162 -0.1205 -0.0917 isotope_errors -0.8066 -0.8809 -0.7178 log10_evalue -0.0049 0.1960 0.4968 hyperscore 0.5137 0.4487 0.4720 delta_hyperscore 0.7917 0.2751 0.4070 matched_ion_num -0.6698 -0.7141 -0.6668 complementary_ions -0.0652 0.1410 0.1204 ion_series -0.0460 -0.0428 -0.0382 weighted_average_abs_fragment_ppm 0.1031 0.2005 0.1216 peptide_length 0.0000 0.0000 0.0000 ntt -0.1481 -0.1854 -0.2105 nmc 0.0000 0.0000 0.0000 charge_1 -0.0007 0.0101 -0.0478 charge_2 -0.0012 -0.0144 0.0245 charge_3 0.0065 0.0081 0.0701 charge_4 -0.0009 0.0168 0.0246 charge_5 -0.0095 -0.0091 -0.0076 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0355 -0.0269 -0.0196 15.9949M 0.5059 0.5654 0.5073 unweighted_spectral_entropy -0.6186 -0.6644 -0.5507 delta_RT_loess 2.3521 2.2554 1.8912 m0 Found 53895 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57538 target PSMs and 3998 decoy PSMs. Calculating q values. Final list yields 53899 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.87 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-92_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-92_percolator_decoy_psms.tsv S22049-Arjun-92_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-92_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-92_percolator_decoy_psms.tsv S22049-Arjun-92_edited.pin Started Sat Mar 4 12:53:32 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-92_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60556 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57032 positives and 3524 negatives, size ratio=16.1839 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35260 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35384 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35178 training set positives with q<0.01 in that direction. Found 52911 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.129 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53761 PSMs with q<0.01 Iteration 2: Estimated 53902 PSMs with q<0.01 Iteration 3: Estimated 53958 PSMs with q<0.01 Iteration 4: Estimated 53966 PSMs with q<0.01 Iteration 5: Estimated 53980 PSMs with q<0.01 Iteration 6: Estimated 53984 PSMs with q<0.01 Iteration 7: Estimated 53989 PSMs with q<0.01 Iteration 8: Estimated 53989 PSMs with q<0.01 Iteration 9: Estimated 53987 PSMs with q<0.01 Iteration 10: Estimated 53992 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0264 -0.0254 0.0158 retentiontime 0.0000 0.0000 0.0000 rank -0.1715 -0.2128 -0.1880 abs_ppm -0.1222 -0.0938 -0.1018 isotope_errors -0.7131 -0.8240 -0.6138 log10_evalue 0.2904 -0.2201 0.5687 hyperscore 0.5146 0.4890 0.5424 delta_hyperscore 0.4076 1.2454 0.3005 matched_ion_num -0.6311 -0.7575 -0.6491 complementary_ions -0.0439 -0.0493 -0.0510 ion_series -0.0607 -0.0272 -0.0619 weighted_average_abs_fragment_ppm 0.2335 0.1765 0.2526 peptide_length 0.0000 0.0000 0.0000 ntt -0.1316 -0.1286 -0.1232 nmc 0.0000 0.0000 0.0000 charge_1 0.0094 0.0338 0.0313 charge_2 -0.0023 -0.0316 -0.0448 charge_3 -0.0223 -0.0060 0.0478 charge_4 -0.0131 -0.0184 -0.0184 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0054 -0.0050 -0.0375 15.9949M 0.5250 0.4815 0.5353 unweighted_spectral_entropy -0.5598 -0.5295 -0.5551 delta_RT_loess 2.3084 2.6031 2.4017 m0 Found 53982 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57032 target PSMs and 3524 decoy PSMs. Calculating q values. Final list yields 53982 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.72 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-85_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-85_percolator_decoy_psms.tsv S22049-Arjun-85_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-85_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-85_percolator_decoy_psms.tsv S22049-Arjun-85_edited.pin Started Sat Mar 4 12:53:50 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-85_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67958 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63635 positives and 4323 negatives, size ratio=14.7201 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38923 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39012 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38872 training set positives with q<0.01 in that direction. Found 58378 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.261 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59270 PSMs with q<0.01 Iteration 2: Estimated 59530 PSMs with q<0.01 Iteration 3: Estimated 59608 PSMs with q<0.01 Iteration 4: Estimated 59638 PSMs with q<0.01 Iteration 5: Estimated 59638 PSMs with q<0.01 Iteration 6: Estimated 59637 PSMs with q<0.01 Iteration 7: Estimated 59638 PSMs with q<0.01 Iteration 8: Estimated 59638 PSMs with q<0.01 Iteration 9: Estimated 59638 PSMs with q<0.01 Iteration 10: Estimated 59638 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0231 -0.0547 0.0661 retentiontime 0.0000 0.0000 0.0000 rank -0.2206 -0.2078 -0.2117 abs_ppm -0.1124 -0.1063 -0.0986 isotope_errors -0.6339 -0.2182 -0.5883 log10_evalue 0.2612 1.5478 0.2437 hyperscore 0.4743 0.7024 0.6815 delta_hyperscore 0.8012 0.6539 0.8690 matched_ion_num -0.8189 -1.0730 -0.8560 complementary_ions -0.0133 -0.0308 0.0511 ion_series 0.0070 0.0037 0.0010 weighted_average_abs_fragment_ppm 0.1777 0.1901 0.0652 peptide_length 0.0000 0.0000 0.0000 ntt -0.1325 -0.1737 -0.1327 nmc 0.0000 0.0000 0.0000 charge_1 0.0268 0.0091 0.0003 charge_2 -0.0227 -0.0214 -0.0083 charge_3 -0.0072 0.0227 0.0110 charge_4 -0.0146 0.0315 0.0344 charge_5 -0.0184 -0.0119 -0.0163 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0216 -0.0072 -0.0093 15.9949M 0.5326 0.5098 0.5096 unweighted_spectral_entropy -0.4826 -0.4013 -0.4704 delta_RT_loess 2.3296 2.3586 2.2014 m0 Found 59599 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63635 target PSMs and 4323 decoy PSMs. Calculating q values. Final list yields 59599 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.01 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-26_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-26_percolator_decoy_psms.tsv S22049-Arjun-26_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-26_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-26_percolator_decoy_psms.tsv S22049-Arjun-26_edited.pin Started Sat Mar 4 12:54:10 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-26_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62903 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58550 positives and 4353 negatives, size ratio=13.4505 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35504 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35431 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35469 training set positives with q<0.01 in that direction. Found 53159 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.233 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54164 PSMs with q<0.01 Iteration 2: Estimated 54427 PSMs with q<0.01 Iteration 3: Estimated 54508 PSMs with q<0.01 Iteration 4: Estimated 54521 PSMs with q<0.01 Iteration 5: Estimated 54525 PSMs with q<0.01 Iteration 6: Estimated 54522 PSMs with q<0.01 Iteration 7: Estimated 54527 PSMs with q<0.01 Iteration 8: Estimated 54528 PSMs with q<0.01 Iteration 9: Estimated 54528 PSMs with q<0.01 Iteration 10: Estimated 54529 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0968 0.1086 0.1223 retentiontime 0.0000 0.0000 0.0000 rank -0.2325 -0.2069 -0.2399 abs_ppm -0.0991 -0.1179 -0.0781 isotope_errors -0.3951 -0.6692 -0.4869 log10_evalue 0.8552 1.0719 0.9221 hyperscore 0.4863 0.4593 0.4952 delta_hyperscore 0.2744 0.2574 0.1946 matched_ion_num -0.5993 -0.7601 -0.6607 complementary_ions -0.0529 -0.0482 -0.0162 ion_series 0.0123 0.0045 0.0012 weighted_average_abs_fragment_ppm 0.1679 0.0688 0.0760 peptide_length 0.0000 0.0000 0.0000 ntt -0.1485 -0.1162 -0.1532 nmc 0.0000 0.0000 0.0000 charge_1 0.0197 0.0007 0.0091 charge_2 -0.0266 -0.0090 -0.0154 charge_3 0.0651 0.0794 0.0589 charge_4 -0.0115 -0.0151 -0.0068 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0593 -0.0668 -0.0361 15.9949M 0.5105 0.4844 0.4949 unweighted_spectral_entropy -0.6122 -0.5629 -0.4638 delta_RT_loess 2.1730 2.1603 1.9146 m0 Found 54510 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58550 target PSMs and 4353 decoy PSMs. Calculating q values. Final list yields 54517 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.34 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-136_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-136_percolator_decoy_psms.tsv S22049-Arjun-136_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-136_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-136_percolator_decoy_psms.tsv S22049-Arjun-136_edited.pin Started Sat Mar 4 12:54:28 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-136_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60287 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56382 positives and 3905 negatives, size ratio=14.4384 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34340 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34408 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34424 training set positives with q<0.01 in that direction. Found 51554 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.184 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52493 PSMs with q<0.01 Iteration 2: Estimated 52739 PSMs with q<0.01 Iteration 3: Estimated 52767 PSMs with q<0.01 Iteration 4: Estimated 52775 PSMs with q<0.01 Iteration 5: Estimated 52769 PSMs with q<0.01 Iteration 6: Estimated 52771 PSMs with q<0.01 Iteration 7: Estimated 52774 PSMs with q<0.01 Iteration 8: Estimated 52774 PSMs with q<0.01 Iteration 9: Estimated 52773 PSMs with q<0.01 Iteration 10: Estimated 52775 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0069 0.0185 0.1060 retentiontime 0.0000 0.0000 0.0000 rank -0.2673 -0.2414 -0.2586 abs_ppm -0.0752 -0.0613 -0.0791 isotope_errors -0.6542 -0.7835 -0.6166 log10_evalue 0.7145 0.3141 0.4874 hyperscore 0.4861 0.6276 0.5521 delta_hyperscore 0.1286 0.5584 0.3006 matched_ion_num -0.6114 -0.5952 -0.5922 complementary_ions -0.1226 0.0345 -0.0510 ion_series -0.0069 -0.0266 -0.0075 weighted_average_abs_fragment_ppm 0.2012 0.2369 0.0997 peptide_length 0.0000 0.0000 0.0000 ntt -0.1519 -0.1603 -0.1322 nmc 0.0000 0.0000 0.0000 charge_1 0.0361 0.0351 0.0268 charge_2 -0.0443 -0.0431 -0.0410 charge_3 0.0299 0.0276 0.0527 charge_4 0.0103 0.0171 0.0265 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0152 -0.0208 0.0045 15.9949M 0.5819 0.5064 0.5116 unweighted_spectral_entropy -0.5529 -0.5828 -0.5185 delta_RT_loess 2.2315 2.6521 1.9219 m0 Found 52766 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56382 target PSMs and 3905 decoy PSMs. Calculating q values. Final list yields 52766 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.69 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-70_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-70_percolator_decoy_psms.tsv S22049-Arjun-70_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-70_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-70_percolator_decoy_psms.tsv S22049-Arjun-70_edited.pin Started Sat Mar 4 12:54:49 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-70_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 74234 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 69113 positives and 5121 negatives, size ratio=13.496 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41767 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41780 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41789 training set positives with q<0.01 in that direction. Found 62649 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.397 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64103 PSMs with q<0.01 Iteration 2: Estimated 64339 PSMs with q<0.01 Iteration 3: Estimated 64434 PSMs with q<0.01 Iteration 4: Estimated 64468 PSMs with q<0.01 Iteration 5: Estimated 64474 PSMs with q<0.01 Iteration 6: Estimated 64467 PSMs with q<0.01 Iteration 7: Estimated 64472 PSMs with q<0.01 Iteration 8: Estimated 64474 PSMs with q<0.01 Iteration 9: Estimated 64471 PSMs with q<0.01 Iteration 10: Estimated 64471 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0961 0.0207 0.1129 retentiontime 0.0000 0.0000 0.0000 rank -0.2840 -0.2622 -0.2640 abs_ppm -0.1310 -0.1405 -0.1160 isotope_errors -0.9463 -0.5996 -0.6825 log10_evalue 0.0636 0.1565 0.2239 hyperscore 0.5172 0.8133 0.5569 delta_hyperscore 0.8740 1.4371 1.1336 matched_ion_num -0.8149 -1.0374 -0.8751 complementary_ions 0.0364 -0.1867 -0.0787 ion_series -0.0089 -0.0330 -0.0374 weighted_average_abs_fragment_ppm 0.0335 0.0950 0.0715 peptide_length 0.0000 0.0000 0.0000 ntt -0.1388 -0.1195 -0.1542 nmc 0.0000 0.0000 0.0000 charge_1 0.0143 0.0486 0.0326 charge_2 -0.0289 -0.0569 -0.0387 charge_3 0.0406 0.0066 -0.0004 charge_4 0.0288 0.0725 0.0758 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0413 -0.0423 -0.0387 15.9949M 0.4831 0.5189 0.4936 unweighted_spectral_entropy -0.5648 -0.5784 -0.5876 delta_RT_loess 2.5998 2.8219 2.6568 m0 Found 64440 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 69113 target PSMs and 5121 decoy PSMs. Calculating q values. Final list yields 64441 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.91 cpu seconds or 21 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-123_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-123_percolator_decoy_psms.tsv S22049-Arjun-123_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-123_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-123_percolator_decoy_psms.tsv S22049-Arjun-123_edited.pin Started Sat Mar 4 12:55:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-123_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60383 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56686 positives and 3697 negatives, size ratio=15.333 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34538 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34486 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34533 training set positives with q<0.01 in that direction. Found 51776 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.091 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52883 PSMs with q<0.01 Iteration 2: Estimated 53122 PSMs with q<0.01 Iteration 3: Estimated 53195 PSMs with q<0.01 Iteration 4: Estimated 53199 PSMs with q<0.01 Iteration 5: Estimated 53198 PSMs with q<0.01 Iteration 6: Estimated 53202 PSMs with q<0.01 Iteration 7: Estimated 53205 PSMs with q<0.01 Iteration 8: Estimated 53206 PSMs with q<0.01 Iteration 9: Estimated 53206 PSMs with q<0.01 Iteration 10: Estimated 53205 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0394 0.0355 0.0002 retentiontime 0.0000 0.0000 0.0000 rank -0.2004 -0.2292 -0.2143 abs_ppm -0.1172 -0.0737 -0.1013 isotope_errors -0.8447 -0.8280 -0.6187 log10_evalue 0.5584 0.2175 0.4003 hyperscore 0.3802 0.5335 0.4849 delta_hyperscore 0.5327 0.6655 0.7043 matched_ion_num -0.7375 -0.6464 -0.7699 complementary_ions -0.0267 0.1248 0.1193 ion_series -0.0203 0.0188 0.0033 weighted_average_abs_fragment_ppm 0.2036 0.1837 0.1780 peptide_length 0.0000 0.0000 0.0000 ntt -0.1866 -0.2079 -0.1736 nmc 0.0000 0.0000 0.0000 charge_1 0.0060 0.0255 0.0188 charge_2 -0.0027 -0.0288 -0.0155 charge_3 -0.0142 0.0149 -0.0155 charge_4 -0.0159 -0.0104 -0.0114 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0106 -0.0441 -0.0110 15.9949M 0.4689 0.4328 0.4264 unweighted_spectral_entropy -0.6301 -0.6070 -0.6160 delta_RT_loess 2.5006 2.3216 2.4528 m0 Found 53191 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56686 target PSMs and 3697 decoy PSMs. Calculating q values. Final list yields 53197 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.41 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-33_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-33_percolator_decoy_psms.tsv S22049-Arjun-33_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-33_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-33_percolator_decoy_psms.tsv S22049-Arjun-33_edited.pin Started Sat Mar 4 12:55:29 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-33_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 66024 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60666 positives and 5358 negatives, size ratio=11.3225 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35992 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36130 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35950 training set positives with q<0.01 in that direction. Found 54023 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.288 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55454 PSMs with q<0.01 Iteration 2: Estimated 55684 PSMs with q<0.01 Iteration 3: Estimated 55745 PSMs with q<0.01 Iteration 4: Estimated 55749 PSMs with q<0.01 Iteration 5: Estimated 55755 PSMs with q<0.01 Iteration 6: Estimated 55763 PSMs with q<0.01 Iteration 7: Estimated 55762 PSMs with q<0.01 Iteration 8: Estimated 55765 PSMs with q<0.01 Iteration 9: Estimated 55765 PSMs with q<0.01 Iteration 10: Estimated 55765 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0193 -0.0115 0.0729 retentiontime 0.0000 0.0000 0.0000 rank -0.2340 -0.2347 -0.2345 abs_ppm -0.1273 -0.1545 -0.1126 isotope_errors -0.7019 -0.5094 -0.5421 log10_evalue 0.3322 0.7314 0.4612 hyperscore 0.5172 0.6562 0.5621 delta_hyperscore 0.6268 0.3498 0.5479 matched_ion_num -0.8971 -0.7892 -0.7001 complementary_ions 0.0328 -0.0144 -0.0113 ion_series -0.0046 0.0227 -0.0093 weighted_average_abs_fragment_ppm 0.1620 0.1640 0.1123 peptide_length 0.0000 0.0000 0.0000 ntt -0.1668 -0.2264 -0.1527 nmc 0.0000 0.0000 0.0000 charge_1 0.0218 -0.0011 0.0166 charge_2 -0.0179 0.0003 -0.0137 charge_3 -0.0156 0.0046 -0.0142 charge_4 -0.0055 -0.0099 0.0106 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0283 -0.0087 -0.0446 15.9949M 0.6116 0.6398 0.5827 unweighted_spectral_entropy -0.5848 -0.6174 -0.5958 delta_RT_loess 2.2275 2.3400 2.2041 m0 Found 55751 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60666 target PSMs and 5358 decoy PSMs. Calculating q values. Final list yields 55752 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.14 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-78_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-78_percolator_decoy_psms.tsv S22049-Arjun-78_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-78_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-78_percolator_decoy_psms.tsv S22049-Arjun-78_edited.pin Started Sat Mar 4 12:55:46 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-78_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60729 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56954 positives and 3775 negatives, size ratio=15.0872 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34991 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34834 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35118 training set positives with q<0.01 in that direction. Found 52478 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.111 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53249 PSMs with q<0.01 Iteration 2: Estimated 53458 PSMs with q<0.01 Iteration 3: Estimated 53532 PSMs with q<0.01 Iteration 4: Estimated 53562 PSMs with q<0.01 Iteration 5: Estimated 53569 PSMs with q<0.01 Iteration 6: Estimated 53574 PSMs with q<0.01 Iteration 7: Estimated 53574 PSMs with q<0.01 Iteration 8: Estimated 53574 PSMs with q<0.01 Iteration 9: Estimated 53574 PSMs with q<0.01 Iteration 10: Estimated 53574 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1031 -0.0070 0.0200 retentiontime 0.0000 0.0000 0.0000 rank -0.2421 -0.2365 -0.2057 abs_ppm -0.0485 -0.0758 -0.0598 isotope_errors -0.4722 -0.6410 -0.4562 log10_evalue 1.2558 0.7465 0.6253 hyperscore 0.4837 0.3432 0.5015 delta_hyperscore 0.0062 0.6953 0.4585 matched_ion_num -0.8723 -0.9734 -0.7586 complementary_ions 0.1702 -0.0242 0.0495 ion_series -0.0669 -0.0092 0.0081 weighted_average_abs_fragment_ppm 0.2475 0.2793 0.1920 peptide_length 0.0000 0.0000 0.0000 ntt -0.1029 -0.1576 -0.1661 nmc 0.0000 0.0000 0.0000 charge_1 0.0410 0.0484 0.0085 charge_2 -0.0318 -0.0328 -0.0084 charge_3 -0.0407 -0.0543 -0.0321 charge_4 0.0339 0.0122 0.1061 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0670 -0.0769 -0.0628 15.9949M 0.5936 0.5214 0.5111 unweighted_spectral_entropy -0.5712 -0.4853 -0.5119 delta_RT_loess 2.3766 2.4962 2.2928 m0 Found 53540 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56954 target PSMs and 3775 decoy PSMs. Calculating q values. Final list yields 53540 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.68 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-110_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-110_percolator_decoy_psms.tsv S22049-Arjun-110_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-110_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-110_percolator_decoy_psms.tsv S22049-Arjun-110_edited.pin Started Sat Mar 4 12:56:03 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-110_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 49834 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 46553 positives and 3281 negatives, size ratio=14.1887 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 28308 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 28367 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 28369 training set positives with q<0.01 in that direction. Found 42516 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.885 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 43130 PSMs with q<0.01 Iteration 2: Estimated 43284 PSMs with q<0.01 Iteration 3: Estimated 43344 PSMs with q<0.01 Iteration 4: Estimated 43387 PSMs with q<0.01 Iteration 5: Estimated 43401 PSMs with q<0.01 Iteration 6: Estimated 43408 PSMs with q<0.01 Iteration 7: Estimated 43413 PSMs with q<0.01 Iteration 8: Estimated 43413 PSMs with q<0.01 Iteration 9: Estimated 43415 PSMs with q<0.01 Iteration 10: Estimated 43415 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0467 0.0289 0.0621 retentiontime 0.0000 0.0000 0.0000 rank -0.2311 -0.2225 -0.2247 abs_ppm -0.0941 -0.0980 -0.1170 isotope_errors -0.6546 -0.5893 -0.5905 log10_evalue 0.5390 0.3380 0.9407 hyperscore 0.3788 0.4227 0.3705 delta_hyperscore 0.5492 0.6596 0.6647 matched_ion_num -0.6086 -0.6939 -0.7903 complementary_ions -0.1095 -0.0966 -0.2272 ion_series 0.0141 -0.0019 -0.0120 weighted_average_abs_fragment_ppm 0.2532 0.1598 0.0950 peptide_length 0.0000 0.0000 0.0000 ntt -0.0685 -0.0796 -0.0606 nmc 0.0000 0.0000 0.0000 charge_1 0.0377 0.0331 -0.0062 charge_2 -0.0255 -0.0245 0.0159 charge_3 -0.0719 -0.0508 -0.0553 charge_4 -0.0146 -0.0133 -0.0135 charge_5 -0.0103 -0.0094 -0.0098 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0026 0.0004 -0.0177 15.9949M 0.5106 0.5244 0.5242 unweighted_spectral_entropy -0.4443 -0.4153 -0.4620 delta_RT_loess 2.2983 2.1000 2.1819 m0 Found 43381 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 46553 target PSMs and 3281 decoy PSMs. Calculating q values. Final list yields 43384 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 10.72 cpu seconds or 10 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-49_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-49_percolator_decoy_psms.tsv S22049-Arjun-49_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-49_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-49_percolator_decoy_psms.tsv S22049-Arjun-49_edited.pin Started Sat Mar 4 12:56:15 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-49_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75172 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70388 positives and 4784 negatives, size ratio=14.7132 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43062 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43239 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43202 training set positives with q<0.01 in that direction. Found 64733 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.434 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65790 PSMs with q<0.01 Iteration 2: Estimated 66008 PSMs with q<0.01 Iteration 3: Estimated 66108 PSMs with q<0.01 Iteration 4: Estimated 66111 PSMs with q<0.01 Iteration 5: Estimated 66122 PSMs with q<0.01 Iteration 6: Estimated 66127 PSMs with q<0.01 Iteration 7: Estimated 66126 PSMs with q<0.01 Iteration 8: Estimated 66127 PSMs with q<0.01 Iteration 9: Estimated 66125 PSMs with q<0.01 Iteration 10: Estimated 66131 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0300 0.0575 0.0125 retentiontime 0.0000 0.0000 0.0000 rank -0.1682 -0.1958 -0.2348 abs_ppm -0.1424 -0.0887 -0.1532 isotope_errors -0.6463 -0.4632 -0.7768 log10_evalue 1.2422 1.4781 1.5607 hyperscore 0.4466 0.4919 0.3971 delta_hyperscore 0.6304 0.5676 0.2772 matched_ion_num -1.0712 -1.0147 -1.2125 complementary_ions -0.1880 -0.2042 -0.2433 ion_series -0.0369 -0.0117 -0.0115 weighted_average_abs_fragment_ppm 0.2129 0.0931 0.0770 peptide_length 0.0000 0.0000 0.0000 ntt -0.1270 -0.1265 -0.1140 nmc 0.0000 0.0000 0.0000 charge_1 0.0370 0.0061 0.0072 charge_2 -0.0332 -0.0210 -0.0039 charge_3 -0.0182 0.0442 -0.0067 charge_4 0.0136 0.0017 -0.0120 charge_5 -0.0081 -0.0077 -0.0099 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0820 -0.0359 -0.0529 15.9949M 0.5441 0.4846 0.5668 unweighted_spectral_entropy -0.6164 -0.3762 -0.4499 delta_RT_loess 2.2148 2.1075 2.7261 m0 Found 66061 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70388 target PSMs and 4784 decoy PSMs. Calculating q values. Final list yields 66062 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.17 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-129_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-129_percolator_decoy_psms.tsv S22049-Arjun-129_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-129_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-129_percolator_decoy_psms.tsv S22049-Arjun-129_edited.pin Started Sat Mar 4 12:56:37 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-129_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 48874 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 46147 positives and 2727 negatives, size ratio=16.9223 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 28653 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 28556 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 28590 training set positives with q<0.01 in that direction. Found 42907 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.121 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 43427 PSMs with q<0.01 Iteration 2: Estimated 43613 PSMs with q<0.01 Iteration 3: Estimated 43665 PSMs with q<0.01 Iteration 4: Estimated 43684 PSMs with q<0.01 Iteration 5: Estimated 43689 PSMs with q<0.01 Iteration 6: Estimated 43690 PSMs with q<0.01 Iteration 7: Estimated 43691 PSMs with q<0.01 Iteration 8: Estimated 43691 PSMs with q<0.01 Iteration 9: Estimated 43691 PSMs with q<0.01 Iteration 10: Estimated 43691 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1210 0.0435 0.0825 retentiontime 0.0000 0.0000 0.0000 rank -0.1678 -0.1585 -0.1646 abs_ppm -0.1097 -0.1455 -0.0839 isotope_errors -0.4473 -0.5712 -0.3901 log10_evalue 0.3774 0.8967 0.8805 hyperscore 0.4257 0.3525 0.3940 delta_hyperscore 0.5047 0.2404 -0.2037 matched_ion_num -0.5428 -0.8559 -0.5031 complementary_ions -0.0607 0.0621 0.0955 ion_series -0.0294 -0.0518 -0.0543 weighted_average_abs_fragment_ppm 0.1329 0.1280 0.1511 peptide_length 0.0000 0.0000 0.0000 ntt -0.0839 -0.0911 -0.1002 nmc 0.0000 0.0000 0.0000 charge_1 -0.0025 -0.0091 -0.0107 charge_2 -0.0040 0.0051 0.0070 charge_3 0.0498 0.0318 0.0293 charge_4 -0.0093 -0.0104 -0.0087 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0074 -0.0360 -0.0039 15.9949M 0.4879 0.4645 0.4879 unweighted_spectral_entropy -0.5664 -0.4777 -0.4481 delta_RT_loess 2.0624 2.3026 1.9155 m0 Found 43693 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 46147 target PSMs and 2727 decoy PSMs. Calculating q values. Final list yields 43693 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 12.88 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-77_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-77_percolator_decoy_psms.tsv S22049-Arjun-77_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-77_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-77_percolator_decoy_psms.tsv S22049-Arjun-77_edited.pin Started Sat Mar 4 12:56:52 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-77_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61530 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57885 positives and 3645 negatives, size ratio=15.8807 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35688 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35703 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35853 training set positives with q<0.01 in that direction. Found 53629 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.401 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54271 PSMs with q<0.01 Iteration 2: Estimated 54441 PSMs with q<0.01 Iteration 3: Estimated 54536 PSMs with q<0.01 Iteration 4: Estimated 54554 PSMs with q<0.01 Iteration 5: Estimated 54564 PSMs with q<0.01 Iteration 6: Estimated 54563 PSMs with q<0.01 Iteration 7: Estimated 54564 PSMs with q<0.01 Iteration 8: Estimated 54564 PSMs with q<0.01 Iteration 9: Estimated 54565 PSMs with q<0.01 Iteration 10: Estimated 54566 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0293 0.0302 0.0348 retentiontime 0.0000 0.0000 0.0000 rank -0.2037 -0.1950 -0.1951 abs_ppm -0.0950 -0.1115 -0.1203 isotope_errors -0.3291 -0.4853 -0.2981 log10_evalue 0.4847 0.9103 1.3990 hyperscore 0.6498 0.7278 0.4949 delta_hyperscore 0.8777 0.4762 0.5931 matched_ion_num -0.6367 -0.8305 -1.0236 complementary_ions -0.0295 0.1416 -0.0426 ion_series -0.0413 0.0136 0.0007 weighted_average_abs_fragment_ppm 0.1836 0.1661 0.2365 peptide_length 0.0000 0.0000 0.0000 ntt -0.1924 -0.1469 -0.1496 nmc 0.0000 0.0000 0.0000 charge_1 -0.0127 0.0070 0.0283 charge_2 0.0139 -0.0226 -0.0226 charge_3 -0.0168 0.0331 -0.0285 charge_4 0.0454 0.0374 0.0308 charge_5 -0.0161 -0.0180 -0.0176 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0428 -0.0137 -0.0515 15.9949M 0.4920 0.5043 0.4993 unweighted_spectral_entropy -0.4422 -0.4629 -0.4493 delta_RT_loess 2.3055 2.5762 2.5138 m0 Found 54586 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57885 target PSMs and 3645 decoy PSMs. Calculating q values. Final list yields 54587 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.66 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-36_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-36_percolator_decoy_psms.tsv S22049-Arjun-36_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-36_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-36_percolator_decoy_psms.tsv S22049-Arjun-36_edited.pin Started Sat Mar 4 12:57:11 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-36_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61623 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56479 positives and 5144 negatives, size ratio=10.9796 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33306 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33325 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33426 training set positives with q<0.01 in that direction. Found 49995 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.377 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51214 PSMs with q<0.01 Iteration 2: Estimated 51448 PSMs with q<0.01 Iteration 3: Estimated 51539 PSMs with q<0.01 Iteration 4: Estimated 51567 PSMs with q<0.01 Iteration 5: Estimated 51569 PSMs with q<0.01 Iteration 6: Estimated 51568 PSMs with q<0.01 Iteration 7: Estimated 51566 PSMs with q<0.01 Iteration 8: Estimated 51567 PSMs with q<0.01 Iteration 9: Estimated 51570 PSMs with q<0.01 Iteration 10: Estimated 51567 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0742 0.0668 0.0358 retentiontime 0.0000 0.0000 0.0000 rank -0.2560 -0.2281 -0.2657 abs_ppm -0.1631 -0.1341 -0.1298 isotope_errors -0.4720 -0.7298 -0.7658 log10_evalue 0.6200 0.2351 0.3588 hyperscore 0.6803 0.6204 0.6915 delta_hyperscore 0.7259 0.7083 0.7954 matched_ion_num -0.8083 -0.6765 -0.7002 complementary_ions -0.0176 0.1531 0.0007 ion_series 0.0223 -0.0036 -0.0039 weighted_average_abs_fragment_ppm 0.1080 0.1189 0.0518 peptide_length 0.0000 0.0000 0.0000 ntt -0.1449 -0.1346 -0.1218 nmc 0.0000 0.0000 0.0000 charge_1 0.0128 -0.0055 -0.0241 charge_2 -0.0171 0.0001 0.0142 charge_3 0.0239 0.0302 0.0561 charge_4 -0.0055 0.0016 0.0009 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0133 -0.0590 -0.0179 15.9949M 0.6012 0.5337 0.5705 unweighted_spectral_entropy -0.7321 -0.4943 -0.6092 delta_RT_loess 2.4008 1.7730 2.2513 m0 Found 51557 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56479 target PSMs and 5144 decoy PSMs. Calculating q values. Final list yields 51558 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.37 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-103_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-103_percolator_decoy_psms.tsv S22049-Arjun-103_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-103_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-103_percolator_decoy_psms.tsv S22049-Arjun-103_edited.pin Started Sat Mar 4 12:57:28 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-103_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64326 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60055 positives and 4271 negatives, size ratio=14.0611 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36623 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36726 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36787 training set positives with q<0.01 in that direction. Found 55049 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.187 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55974 PSMs with q<0.01 Iteration 2: Estimated 56176 PSMs with q<0.01 Iteration 3: Estimated 56228 PSMs with q<0.01 Iteration 4: Estimated 56240 PSMs with q<0.01 Iteration 5: Estimated 56245 PSMs with q<0.01 Iteration 6: Estimated 56247 PSMs with q<0.01 Iteration 7: Estimated 56246 PSMs with q<0.01 Iteration 8: Estimated 56245 PSMs with q<0.01 Iteration 9: Estimated 56245 PSMs with q<0.01 Iteration 10: Estimated 56245 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0153 0.0269 0.0361 retentiontime 0.0000 0.0000 0.0000 rank -0.1838 -0.2064 -0.1870 abs_ppm -0.1142 -0.1013 -0.0994 isotope_errors -0.6768 -0.9306 -0.6440 log10_evalue 0.2231 -0.0174 0.0830 hyperscore 0.4871 0.4655 0.5928 delta_hyperscore 0.5567 0.8232 0.9821 matched_ion_num -0.6087 -0.8319 -0.8299 complementary_ions 0.0144 0.0090 0.0428 ion_series -0.0233 -0.0197 -0.0300 weighted_average_abs_fragment_ppm 0.1747 0.1223 0.1775 peptide_length 0.0000 0.0000 0.0000 ntt -0.1309 -0.1283 -0.1705 nmc 0.0000 0.0000 0.0000 charge_1 0.0381 0.0238 0.0131 charge_2 -0.0213 -0.0140 -0.0201 charge_3 -0.0385 -0.0204 -0.0059 charge_4 -0.0247 -0.0202 0.0729 charge_5 -0.0081 -0.0082 -0.0351 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0365 -0.0303 -0.0290 15.9949M 0.4981 0.5786 0.6099 unweighted_spectral_entropy -0.5970 -0.6078 -0.5957 delta_RT_loess 2.2148 2.4099 2.5675 m0 Found 56239 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60055 target PSMs and 4271 decoy PSMs. Calculating q values. Final list yields 56240 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.36 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-2_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-2_percolator_decoy_psms.tsv S22049-Arjun-2_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-2_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-2_percolator_decoy_psms.tsv S22049-Arjun-2_edited.pin Started Sat Mar 4 12:57:45 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-2_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73975 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68989 positives and 4986 negatives, size ratio=13.8365 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42059 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42174 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42191 training set positives with q<0.01 in that direction. Found 63206 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.481 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64308 PSMs with q<0.01 Iteration 2: Estimated 64465 PSMs with q<0.01 Iteration 3: Estimated 64558 PSMs with q<0.01 Iteration 4: Estimated 64578 PSMs with q<0.01 Iteration 5: Estimated 64584 PSMs with q<0.01 Iteration 6: Estimated 64587 PSMs with q<0.01 Iteration 7: Estimated 64587 PSMs with q<0.01 Iteration 8: Estimated 64588 PSMs with q<0.01 Iteration 9: Estimated 64589 PSMs with q<0.01 Iteration 10: Estimated 64593 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0531 0.0873 0.0828 retentiontime 0.0000 0.0000 0.0000 rank -0.2430 -0.2398 -0.2271 abs_ppm -0.1398 -0.1127 -0.1445 isotope_errors -0.5618 -0.6560 -0.9654 log10_evalue 0.7369 0.4564 0.7096 hyperscore 0.3990 0.4781 0.4932 delta_hyperscore 0.7740 0.9971 0.6181 matched_ion_num -0.9849 -0.9677 -1.0092 complementary_ions 0.0195 -0.1480 -0.1691 ion_series -0.0251 -0.0351 -0.0303 weighted_average_abs_fragment_ppm 0.1622 0.0611 0.0599 peptide_length 0.0000 0.0000 0.0000 ntt -0.1577 -0.1528 -0.1578 nmc 0.0000 0.0000 0.0000 charge_1 0.0196 0.0132 0.0076 charge_2 -0.0134 -0.0198 -0.0242 charge_3 -0.0185 0.0241 0.0543 charge_4 -0.0142 -0.0105 0.0040 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0372 -0.0240 -0.0286 15.9949M 0.5765 0.5595 0.5553 unweighted_spectral_entropy -0.6367 -0.5395 -0.5467 delta_RT_loess 2.5978 2.5205 2.6965 m0 Found 64579 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68989 target PSMs and 4986 decoy PSMs. Calculating q values. Final list yields 64581 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.89 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-51_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-51_percolator_decoy_psms.tsv S22049-Arjun-51_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-51_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-51_percolator_decoy_psms.tsv S22049-Arjun-51_edited.pin Started Sat Mar 4 12:58:05 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-51_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 76232 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 71161 positives and 5071 negatives, size ratio=14.0329 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43442 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43683 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43709 training set positives with q<0.01 in that direction. Found 65396 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.839 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66514 PSMs with q<0.01 Iteration 2: Estimated 66721 PSMs with q<0.01 Iteration 3: Estimated 66777 PSMs with q<0.01 Iteration 4: Estimated 66789 PSMs with q<0.01 Iteration 5: Estimated 66800 PSMs with q<0.01 Iteration 6: Estimated 66803 PSMs with q<0.01 Iteration 7: Estimated 66809 PSMs with q<0.01 Iteration 8: Estimated 66808 PSMs with q<0.01 Iteration 9: Estimated 66810 PSMs with q<0.01 Iteration 10: Estimated 66811 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0691 0.1058 0.0484 retentiontime 0.0000 0.0000 0.0000 rank -0.2484 -0.2084 -0.2519 abs_ppm -0.1582 -0.1438 -0.1219 isotope_errors -0.5307 -0.7437 -0.5983 log10_evalue 1.0513 0.7159 0.7838 hyperscore 0.5524 0.5082 0.5152 delta_hyperscore 0.6026 0.3965 0.5677 matched_ion_num -0.9807 -0.8152 -0.9175 complementary_ions -0.1120 -0.1220 -0.1343 ion_series -0.0474 -0.0258 -0.0463 weighted_average_abs_fragment_ppm 0.1391 0.0631 0.1178 peptide_length 0.0000 0.0000 0.0000 ntt -0.1818 -0.1079 -0.1525 nmc 0.0000 0.0000 0.0000 charge_1 0.0236 0.0260 0.0225 charge_2 -0.0216 -0.0211 -0.0080 charge_3 -0.0106 -0.0122 -0.0392 charge_4 0.0118 -0.0143 -0.0220 charge_5 -0.0164 -0.0119 -0.0135 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0430 -0.0563 -0.0486 15.9949M 0.5470 0.5673 0.5552 unweighted_spectral_entropy -0.5631 -0.5364 -0.5502 delta_RT_loess 2.7561 2.4588 2.4942 m0 Found 66822 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 71161 target PSMs and 5071 decoy PSMs. Calculating q values. Final list yields 66822 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 27.85 cpu seconds or 28 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-60-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-60-2nd_percolator_decoy_psms.tsv S22049-Arjun-60-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-60-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-60-2nd_percolator_decoy_psms.tsv S22049-Arjun-60-2nd_edited.pin Started Sat Mar 4 12:58:35 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-60-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 66820 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 62324 positives and 4496 negatives, size ratio=13.8621 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37671 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37726 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37929 training set positives with q<0.01 in that direction. Found 56664 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.549 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 57851 PSMs with q<0.01 Iteration 2: Estimated 58145 PSMs with q<0.01 Iteration 3: Estimated 58239 PSMs with q<0.01 Iteration 4: Estimated 58279 PSMs with q<0.01 Iteration 5: Estimated 58289 PSMs with q<0.01 Iteration 6: Estimated 58299 PSMs with q<0.01 Iteration 7: Estimated 58305 PSMs with q<0.01 Iteration 8: Estimated 58307 PSMs with q<0.01 Iteration 9: Estimated 58308 PSMs with q<0.01 Iteration 10: Estimated 58309 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0082 0.0364 0.0956 retentiontime 0.0000 0.0000 0.0000 rank -0.2086 -0.2392 -0.2189 abs_ppm -0.1049 -0.1300 -0.1375 isotope_errors -0.9354 -0.8508 -0.7798 log10_evalue 0.2356 0.3995 0.2746 hyperscore 0.4748 0.4758 0.5202 delta_hyperscore 0.6899 0.6332 0.5904 matched_ion_num -0.7537 -0.8162 -0.6781 complementary_ions 0.0940 -0.0540 0.0027 ion_series -0.0426 0.0067 -0.0548 weighted_average_abs_fragment_ppm 0.1840 0.1205 0.0757 peptide_length 0.0000 0.0000 0.0000 ntt -0.1940 -0.1717 -0.1902 nmc 0.0000 0.0000 0.0000 charge_1 0.0249 0.0386 0.0142 charge_2 -0.0165 -0.0352 -0.0206 charge_3 -0.0488 -0.0285 0.0227 charge_4 0.0534 0.0543 0.0213 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0365 0.0349 0.0234 15.9949M 0.4865 0.5103 0.5225 unweighted_spectral_entropy -0.6213 -0.6123 -0.6601 delta_RT_loess 2.5594 2.3981 2.4105 m0 Found 58311 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 62324 target PSMs and 4496 decoy PSMs. Calculating q values. Final list yields 58313 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.07 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-10_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-10_percolator_decoy_psms.tsv S22049-Arjun-10_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-10_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-10_percolator_decoy_psms.tsv S22049-Arjun-10_edited.pin Started Sat Mar 4 12:58:55 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-10_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 57874 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54396 positives and 3478 negatives, size ratio=15.64 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33600 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33592 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33611 training set positives with q<0.01 in that direction. Found 50367 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.052 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50914 PSMs with q<0.01 Iteration 2: Estimated 51091 PSMs with q<0.01 Iteration 3: Estimated 51151 PSMs with q<0.01 Iteration 4: Estimated 51169 PSMs with q<0.01 Iteration 5: Estimated 51155 PSMs with q<0.01 Iteration 6: Estimated 51164 PSMs with q<0.01 Iteration 7: Estimated 51171 PSMs with q<0.01 Iteration 8: Estimated 51174 PSMs with q<0.01 Iteration 9: Estimated 51174 PSMs with q<0.01 Iteration 10: Estimated 51173 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0791 0.1222 0.1347 retentiontime 0.0000 0.0000 0.0000 rank -0.2146 -0.2266 -0.2316 abs_ppm -0.1078 -0.1144 -0.1244 isotope_errors -0.5764 -0.6280 -0.5327 log10_evalue 0.8867 0.5336 0.6411 hyperscore 0.3625 0.4754 0.4053 delta_hyperscore 0.0382 0.3469 0.5097 matched_ion_num -0.4977 -0.3978 -0.5645 complementary_ions -0.1028 -0.0420 -0.1718 ion_series -0.0238 -0.0364 -0.0296 weighted_average_abs_fragment_ppm 0.1987 0.1473 0.1480 peptide_length 0.0000 0.0000 0.0000 ntt -0.1132 -0.1239 -0.0971 nmc 0.0000 0.0000 0.0000 charge_1 0.0124 -0.0114 0.0033 charge_2 -0.0147 0.0088 -0.0053 charge_3 0.0189 0.0230 0.0201 charge_4 0.0214 0.0212 -0.0093 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0226 -0.0141 -0.0134 15.9949M 0.5082 0.4731 0.4910 unweighted_spectral_entropy -0.5479 -0.5096 -0.4706 delta_RT_loess 2.1509 2.4371 2.2396 m0 Found 51171 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54396 target PSMs and 3478 decoy PSMs. Calculating q values. Final list yields 51176 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 22.69 cpu seconds or 23 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-45_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-45_percolator_decoy_psms.tsv S22049-Arjun-45_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-45_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-45_percolator_decoy_psms.tsv S22049-Arjun-45_edited.pin Started Sat Mar 4 12:59:20 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-45_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70930 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66338 positives and 4592 negatives, size ratio=14.4464 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40352 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40721 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40669 training set positives with q<0.01 in that direction. Found 60837 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.38 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61828 PSMs with q<0.01 Iteration 2: Estimated 62014 PSMs with q<0.01 Iteration 3: Estimated 62110 PSMs with q<0.01 Iteration 4: Estimated 62148 PSMs with q<0.01 Iteration 5: Estimated 62163 PSMs with q<0.01 Iteration 6: Estimated 62171 PSMs with q<0.01 Iteration 7: Estimated 62174 PSMs with q<0.01 Iteration 8: Estimated 62178 PSMs with q<0.01 Iteration 9: Estimated 62182 PSMs with q<0.01 Iteration 10: Estimated 62182 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1076 0.1329 0.0344 retentiontime 0.0000 0.0000 0.0000 rank -0.2184 -0.2334 -0.2343 abs_ppm -0.1441 -0.1432 -0.1739 isotope_errors -0.5495 -0.6082 -0.6394 log10_evalue 0.6792 0.8786 0.9707 hyperscore 0.4666 0.3757 0.5497 delta_hyperscore 0.3803 0.3083 0.4477 matched_ion_num -0.6025 -0.7346 -0.8410 complementary_ions -0.0378 -0.0514 -0.0195 ion_series -0.0128 0.0167 0.0136 weighted_average_abs_fragment_ppm 0.1090 0.0445 0.1274 peptide_length 0.0000 0.0000 0.0000 ntt -0.1277 -0.1584 -0.1845 nmc 0.0000 0.0000 0.0000 charge_1 -0.0020 -0.0107 -0.0018 charge_2 0.0049 0.0049 -0.0035 charge_3 -0.0079 0.0239 0.0169 charge_4 -0.0131 -0.0070 0.0154 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0247 0.0113 -0.0324 15.9949M 0.5326 0.5492 0.5152 unweighted_spectral_entropy -0.5121 -0.5316 -0.4416 delta_RT_loess 2.3349 2.3442 2.3667 m0 Found 62170 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66338 target PSMs and 4592 decoy PSMs. Calculating q values. Final list yields 62174 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.68 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-114_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-114_percolator_decoy_psms.tsv S22049-Arjun-114_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-114_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-114_percolator_decoy_psms.tsv S22049-Arjun-114_edited.pin Started Sat Mar 4 12:59:42 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-114_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 53669 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 50777 positives and 2892 negatives, size ratio=17.5577 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31672 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31639 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31604 training set positives with q<0.01 in that direction. Found 47463 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.95 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47955 PSMs with q<0.01 Iteration 2: Estimated 48099 PSMs with q<0.01 Iteration 3: Estimated 48176 PSMs with q<0.01 Iteration 4: Estimated 48211 PSMs with q<0.01 Iteration 5: Estimated 48225 PSMs with q<0.01 Iteration 6: Estimated 48227 PSMs with q<0.01 Iteration 7: Estimated 48230 PSMs with q<0.01 Iteration 8: Estimated 48231 PSMs with q<0.01 Iteration 9: Estimated 48232 PSMs with q<0.01 Iteration 10: Estimated 48231 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1008 0.0794 0.0952 retentiontime 0.0000 0.0000 0.0000 rank -0.1861 -0.1991 -0.1798 abs_ppm -0.1050 -0.1224 -0.1067 isotope_errors -0.7791 -0.5234 -0.6039 log10_evalue 0.3442 0.6124 0.8184 hyperscore 0.4653 0.3759 0.3977 delta_hyperscore 0.5889 0.3884 0.2191 matched_ion_num -0.6014 -0.6689 -0.6371 complementary_ions -0.2338 -0.1029 -0.1163 ion_series -0.0406 -0.0071 -0.0176 weighted_average_abs_fragment_ppm 0.1038 0.1355 0.0620 peptide_length 0.0000 0.0000 0.0000 ntt -0.1220 -0.1160 -0.1104 nmc 0.0000 0.0000 0.0000 charge_1 -0.0012 -0.0009 -0.0144 charge_2 -0.0110 -0.0043 0.0061 charge_3 0.0900 0.0393 0.0618 charge_4 -0.0178 -0.0148 -0.0122 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0401 -0.0546 -0.0661 15.9949M 0.4951 0.5034 0.4558 unweighted_spectral_entropy -0.4906 -0.4557 -0.4193 delta_RT_loess 2.3835 2.1897 2.2606 m0 Found 48233 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 50777 target PSMs and 2892 decoy PSMs. Calculating q values. Final list yields 48240 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.5 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-133_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-133_percolator_decoy_psms.tsv S22049-Arjun-133_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-133_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-133_percolator_decoy_psms.tsv S22049-Arjun-133_edited.pin Started Sat Mar 4 12:59:58 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-133_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 56895 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 52236 positives and 4659 negatives, size ratio=11.2118 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 30998 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31175 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31112 training set positives with q<0.01 in that direction. Found 46641 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.304 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47519 PSMs with q<0.01 Iteration 2: Estimated 47636 PSMs with q<0.01 Iteration 3: Estimated 47705 PSMs with q<0.01 Iteration 4: Estimated 47745 PSMs with q<0.01 Iteration 5: Estimated 47778 PSMs with q<0.01 Iteration 6: Estimated 47800 PSMs with q<0.01 Iteration 7: Estimated 47816 PSMs with q<0.01 Iteration 8: Estimated 47818 PSMs with q<0.01 Iteration 9: Estimated 47822 PSMs with q<0.01 Iteration 10: Estimated 47828 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0128 -0.0605 -0.0137 retentiontime 0.0000 0.0000 0.0000 rank -0.1786 -0.1752 -0.1758 abs_ppm -0.1164 -0.1371 -0.1388 isotope_errors -0.7647 -0.7510 -0.7573 log10_evalue 0.4959 0.9354 0.4912 hyperscore 0.4438 0.4035 0.3157 delta_hyperscore 0.5032 0.8482 0.5542 matched_ion_num -0.7855 -0.9468 -0.7493 complementary_ions -0.0779 -0.1417 -0.1566 ion_series -0.0418 0.0008 -0.0503 weighted_average_abs_fragment_ppm 0.1671 0.2257 0.1667 peptide_length 0.0000 0.0000 0.0000 ntt -0.1590 -0.1632 -0.1517 nmc 0.0000 0.0000 0.0000 charge_1 0.0132 0.0217 0.0236 charge_2 -0.0064 -0.0018 -0.0114 charge_3 -0.0306 -0.0888 -0.0539 charge_4 -0.0068 -0.0060 -0.0163 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0050 0.0275 0.0112 15.9949M 0.6519 0.6361 0.6226 unweighted_spectral_entropy -0.5508 -0.5080 -0.5462 delta_RT_loess 2.1634 2.7356 2.0376 m0 Found 47788 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 52236 target PSMs and 4659 decoy PSMs. Calculating q values. Final list yields 47790 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.29 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-55_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-55_percolator_decoy_psms.tsv S22049-Arjun-55_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-55_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-55_percolator_decoy_psms.tsv S22049-Arjun-55_edited.pin Started Sat Mar 4 13:00:20 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-55_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 71147 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66475 positives and 4672 negatives, size ratio=14.2284 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40923 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40867 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40741 training set positives with q<0.01 in that direction. Found 61268 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.722 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 62174 PSMs with q<0.01 Iteration 2: Estimated 62362 PSMs with q<0.01 Iteration 3: Estimated 62460 PSMs with q<0.01 Iteration 4: Estimated 62469 PSMs with q<0.01 Iteration 5: Estimated 62468 PSMs with q<0.01 Iteration 6: Estimated 62467 PSMs with q<0.01 Iteration 7: Estimated 62475 PSMs with q<0.01 Iteration 8: Estimated 62477 PSMs with q<0.01 Iteration 9: Estimated 62474 PSMs with q<0.01 Iteration 10: Estimated 62475 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0208 -0.0299 0.0530 retentiontime 0.0000 0.0000 0.0000 rank -0.2281 -0.2099 -0.2223 abs_ppm -0.1233 -0.1368 -0.1417 isotope_errors -0.7073 -1.1418 -0.7727 log10_evalue 0.3412 0.4915 0.2291 hyperscore 0.5602 0.5110 0.6028 delta_hyperscore 0.7757 0.7511 0.8327 matched_ion_num -0.7515 -0.7129 -0.7257 complementary_ions -0.1738 -0.1125 -0.1781 ion_series -0.0301 -0.0342 -0.0715 weighted_average_abs_fragment_ppm 0.2048 0.2496 0.1525 peptide_length 0.0000 0.0000 0.0000 ntt -0.1602 -0.1293 -0.1634 nmc 0.0000 0.0000 0.0000 charge_1 0.0311 0.0345 0.0221 charge_2 -0.0262 -0.0323 -0.0169 charge_3 -0.0157 -0.0059 -0.0143 charge_4 -0.0182 -0.0201 -0.0277 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0331 -0.0435 -0.0300 15.9949M 0.5538 0.4845 0.5362 unweighted_spectral_entropy -0.4757 -0.3597 -0.4218 delta_RT_loess 2.5297 2.4310 2.6094 m0 Found 62474 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66475 target PSMs and 4672 decoy PSMs. Calculating q values. Final list yields 62474 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.03 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-41_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-41_percolator_decoy_psms.tsv S22049-Arjun-41_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-41_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-41_percolator_decoy_psms.tsv S22049-Arjun-41_edited.pin Started Sat Mar 4 13:00:39 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-41_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67746 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63826 positives and 3920 negatives, size ratio=16.2821 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 39346 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39571 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39618 training set positives with q<0.01 in that direction. Found 59252 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.284 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59999 PSMs with q<0.01 Iteration 2: Estimated 60194 PSMs with q<0.01 Iteration 3: Estimated 60249 PSMs with q<0.01 Iteration 4: Estimated 60272 PSMs with q<0.01 Iteration 5: Estimated 60284 PSMs with q<0.01 Iteration 6: Estimated 60282 PSMs with q<0.01 Iteration 7: Estimated 60284 PSMs with q<0.01 Iteration 8: Estimated 60285 PSMs with q<0.01 Iteration 9: Estimated 60283 PSMs with q<0.01 Iteration 10: Estimated 60285 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0590 0.0353 0.0484 retentiontime 0.0000 0.0000 0.0000 rank -0.2049 -0.1718 -0.1889 abs_ppm -0.1203 -0.1238 -0.1011 isotope_errors -0.8013 -0.5188 -0.4563 log10_evalue 0.6616 0.5296 0.7514 hyperscore 0.3982 0.5466 0.6086 delta_hyperscore 0.6986 0.7174 0.5700 matched_ion_num -0.8230 -0.7482 -0.7420 complementary_ions -0.3719 -0.1983 -0.2443 ion_series -0.0299 -0.0441 -0.0192 weighted_average_abs_fragment_ppm 0.0088 0.0862 0.1070 peptide_length 0.0000 0.0000 0.0000 ntt -0.1370 -0.1486 -0.1130 nmc 0.0000 0.0000 0.0000 charge_1 0.0195 0.0254 0.0383 charge_2 -0.0164 -0.0212 -0.0329 charge_3 -0.0328 -0.0334 -0.0380 charge_4 0.1004 0.0821 0.0796 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0164 -0.0150 -0.0142 15.9949M 0.4811 0.4882 0.5466 unweighted_spectral_entropy -0.5842 -0.5093 -0.5510 delta_RT_loess 2.3571 2.3342 2.3793 m0 Found 60287 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63826 target PSMs and 3920 decoy PSMs. Calculating q values. Final list yields 60287 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 23.99 cpu seconds or 24 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-106_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-106_percolator_decoy_psms.tsv S22049-Arjun-106_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-106_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-106_percolator_decoy_psms.tsv S22049-Arjun-106_edited.pin Started Sat Mar 4 13:01:06 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-106_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 65049 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 61120 positives and 3929 negatives, size ratio=15.5561 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37483 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37693 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37667 training set positives with q<0.01 in that direction. Found 56407 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.176 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 57098 PSMs with q<0.01 Iteration 2: Estimated 57249 PSMs with q<0.01 Iteration 3: Estimated 57361 PSMs with q<0.01 Iteration 4: Estimated 57402 PSMs with q<0.01 Iteration 5: Estimated 57403 PSMs with q<0.01 Iteration 6: Estimated 57412 PSMs with q<0.01 Iteration 7: Estimated 57419 PSMs with q<0.01 Iteration 8: Estimated 57417 PSMs with q<0.01 Iteration 9: Estimated 57418 PSMs with q<0.01 Iteration 10: Estimated 57420 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0058 -0.0229 0.0635 retentiontime 0.0000 0.0000 0.0000 rank -0.1987 -0.1710 -0.1698 abs_ppm -0.1022 -0.0709 -0.0390 isotope_errors -0.5368 -0.7467 -0.4323 log10_evalue 0.6677 0.3955 0.7903 hyperscore 0.4306 0.5453 0.7870 delta_hyperscore 0.7792 0.7251 0.6713 matched_ion_num -0.7299 -0.6165 -0.4676 complementary_ions -0.1329 -0.1385 -0.1367 ion_series 0.0002 -0.0002 -0.0119 weighted_average_abs_fragment_ppm 0.1664 0.1630 0.0262 peptide_length 0.0000 0.0000 0.0000 ntt -0.1633 -0.1565 -0.1389 nmc 0.0000 0.0000 0.0000 charge_1 0.0063 0.0103 -0.0365 charge_2 0.0007 -0.0213 0.0141 charge_3 -0.0114 0.0042 0.0599 charge_4 -0.0233 0.0783 0.0170 charge_5 -0.0138 -0.0137 -0.0018 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0535 0.0895 0.0720 15.9949M 0.5040 0.5149 0.4938 unweighted_spectral_entropy -0.5096 -0.5137 -0.4194 delta_RT_loess 2.4530 2.5383 2.1791 m0 Found 57409 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 61120 target PSMs and 3929 decoy PSMs. Calculating q values. Final list yields 57410 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.83 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-62-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-62-2nd_percolator_decoy_psms.tsv S22049-Arjun-62-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-62-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-62-2nd_percolator_decoy_psms.tsv S22049-Arjun-62-2nd_edited.pin Started Sat Mar 4 13:01:28 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-62-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75354 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70127 positives and 5227 negatives, size ratio=13.4163 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42470 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42605 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42644 training set positives with q<0.01 in that direction. Found 63840 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.38 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65067 PSMs with q<0.01 Iteration 2: Estimated 65319 PSMs with q<0.01 Iteration 3: Estimated 65445 PSMs with q<0.01 Iteration 4: Estimated 65472 PSMs with q<0.01 Iteration 5: Estimated 65486 PSMs with q<0.01 Iteration 6: Estimated 65487 PSMs with q<0.01 Iteration 7: Estimated 65489 PSMs with q<0.01 Iteration 8: Estimated 65489 PSMs with q<0.01 Iteration 9: Estimated 65490 PSMs with q<0.01 Iteration 10: Estimated 65489 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0131 0.0503 0.0640 retentiontime 0.0000 0.0000 0.0000 rank -0.2389 -0.2330 -0.2409 abs_ppm -0.1278 -0.1508 -0.1134 isotope_errors -0.6626 -0.6769 -0.7543 log10_evalue 1.1507 0.8621 0.9783 hyperscore 0.5102 0.4886 0.4011 delta_hyperscore 0.5388 0.5755 0.5626 matched_ion_num -1.0817 -0.9856 -0.9597 complementary_ions -0.1565 -0.0272 -0.1200 ion_series -0.0009 0.0026 -0.0073 weighted_average_abs_fragment_ppm 0.1444 0.1172 0.0953 peptide_length 0.0000 0.0000 0.0000 ntt -0.2063 -0.1868 -0.1827 nmc 0.0000 0.0000 0.0000 charge_1 0.0244 0.0162 -0.0035 charge_2 -0.0162 -0.0200 -0.0038 charge_3 -0.0299 0.0106 0.0237 charge_4 0.0017 0.0032 0.0046 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0521 -0.0518 -0.0530 15.9949M 0.5099 0.5015 0.5589 unweighted_spectral_entropy -0.5527 -0.5287 -0.5635 delta_RT_loess 2.6903 2.5951 2.6876 m0 Found 65501 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70127 target PSMs and 5227 decoy PSMs. Calculating q values. Final list yields 65504 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 21.49 cpu seconds or 22 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-130_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-130_percolator_decoy_psms.tsv S22049-Arjun-130_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-130_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-130_percolator_decoy_psms.tsv S22049-Arjun-130_edited.pin Started Sat Mar 4 13:01:52 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-130_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61663 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57922 positives and 3741 negatives, size ratio=15.483 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35620 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35575 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35659 training set positives with q<0.01 in that direction. Found 53423 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.094 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54249 PSMs with q<0.01 Iteration 2: Estimated 54478 PSMs with q<0.01 Iteration 3: Estimated 54551 PSMs with q<0.01 Iteration 4: Estimated 54577 PSMs with q<0.01 Iteration 5: Estimated 54581 PSMs with q<0.01 Iteration 6: Estimated 54580 PSMs with q<0.01 Iteration 7: Estimated 54580 PSMs with q<0.01 Iteration 8: Estimated 54588 PSMs with q<0.01 Iteration 9: Estimated 54587 PSMs with q<0.01 Iteration 10: Estimated 54588 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0101 -0.0268 -0.0863 retentiontime 0.0000 0.0000 0.0000 rank -0.2369 -0.1870 -0.1805 abs_ppm -0.1010 -0.1038 -0.0988 isotope_errors -0.8713 -0.7256 -0.6398 log10_evalue 0.3931 0.4142 0.5511 hyperscore 0.3192 0.4281 0.3405 delta_hyperscore 0.5064 0.5332 0.6060 matched_ion_num -0.7104 -0.7712 -0.7223 complementary_ions -0.0526 -0.0299 -0.1213 ion_series 0.0077 -0.0002 0.0096 weighted_average_abs_fragment_ppm 0.1922 0.2066 0.2796 peptide_length 0.0000 0.0000 0.0000 ntt -0.1614 -0.1235 -0.1997 nmc 0.0000 0.0000 0.0000 charge_1 0.0302 0.0447 0.0235 charge_2 -0.0153 -0.0231 -0.0138 charge_3 -0.0680 -0.0902 -0.0378 charge_4 0.0287 -0.0031 -0.0172 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0189 -0.0276 -0.0218 15.9949M 0.5114 0.5287 0.4862 unweighted_spectral_entropy -0.6263 -0.6005 -0.6107 delta_RT_loess 2.3745 2.3290 2.3272 m0 Found 54583 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57922 target PSMs and 3741 decoy PSMs. Calculating q values. Final list yields 54583 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.51 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-107_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-107_percolator_decoy_psms.tsv S22049-Arjun-107_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-107_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-107_percolator_decoy_psms.tsv S22049-Arjun-107_edited.pin Started Sat Mar 4 13:02:09 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-107_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 52137 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 48694 positives and 3443 negatives, size ratio=14.1429 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 29755 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 29688 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 29810 training set positives with q<0.01 in that direction. Found 44627 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.929 cpu seconds or 0 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 45238 PSMs with q<0.01 Iteration 2: Estimated 45400 PSMs with q<0.01 Iteration 3: Estimated 45491 PSMs with q<0.01 Iteration 4: Estimated 45521 PSMs with q<0.01 Iteration 5: Estimated 45530 PSMs with q<0.01 Iteration 6: Estimated 45530 PSMs with q<0.01 Iteration 7: Estimated 45533 PSMs with q<0.01 Iteration 8: Estimated 45534 PSMs with q<0.01 Iteration 9: Estimated 45534 PSMs with q<0.01 Iteration 10: Estimated 45534 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0456 0.0350 0.0832 retentiontime 0.0000 0.0000 0.0000 rank -0.2141 -0.2140 -0.1869 abs_ppm -0.1010 -0.1174 -0.0964 isotope_errors -0.5480 -0.6642 -0.8197 log10_evalue 0.6092 0.6472 0.7776 hyperscore 0.5082 0.3551 0.4165 delta_hyperscore 0.9189 0.5868 0.6082 matched_ion_num -0.6659 -0.6226 -0.8755 complementary_ions -0.2537 -0.2247 -0.2637 ion_series -0.0056 0.0203 -0.0277 weighted_average_abs_fragment_ppm 0.2325 0.1588 0.0747 peptide_length 0.0000 0.0000 0.0000 ntt -0.1174 -0.1192 -0.0764 nmc 0.0000 0.0000 0.0000 charge_1 -0.0079 0.0198 -0.0310 charge_2 -0.0133 -0.0151 0.0330 charge_3 0.0994 -0.0270 -0.0127 charge_4 -0.0136 0.0275 0.0354 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0422 0.0399 0.0283 15.9949M 0.5613 0.5531 0.6440 unweighted_spectral_entropy -0.5289 -0.5113 -0.4560 delta_RT_loess 2.3773 2.3688 2.3097 m0 Found 45529 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 48694 target PSMs and 3443 decoy PSMs. Calculating q values. Final list yields 45531 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 12.95 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-68_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-68_percolator_decoy_psms.tsv S22049-Arjun-68_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-68_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-68_percolator_decoy_psms.tsv S22049-Arjun-68_edited.pin Started Sat Mar 4 13:02:23 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-68_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 77377 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 72086 positives and 5291 negatives, size ratio=13.6243 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43882 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43834 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43859 training set positives with q<0.01 in that direction. Found 65785 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.38 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 67112 PSMs with q<0.01 Iteration 2: Estimated 67347 PSMs with q<0.01 Iteration 3: Estimated 67421 PSMs with q<0.01 Iteration 4: Estimated 67435 PSMs with q<0.01 Iteration 5: Estimated 67441 PSMs with q<0.01 Iteration 6: Estimated 67438 PSMs with q<0.01 Iteration 7: Estimated 67440 PSMs with q<0.01 Iteration 8: Estimated 67439 PSMs with q<0.01 Iteration 9: Estimated 67439 PSMs with q<0.01 Iteration 10: Estimated 67435 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0591 0.0889 0.1286 retentiontime 0.0000 0.0000 0.0000 rank -0.2134 -0.2427 -0.2160 abs_ppm -0.1256 -0.1362 -0.1530 isotope_errors -0.6968 -0.9609 -0.3024 log10_evalue 1.3014 0.9172 1.6327 hyperscore 0.5999 0.5473 0.4965 delta_hyperscore 0.2946 0.6171 -0.0248 matched_ion_num -0.8658 -1.0337 -0.7814 complementary_ions -0.2269 -0.2477 0.1223 ion_series -0.0530 -0.0286 0.0042 weighted_average_abs_fragment_ppm 0.1168 0.0860 0.0723 peptide_length 0.0000 0.0000 0.0000 ntt -0.1494 -0.1531 -0.1754 nmc 0.0000 0.0000 0.0000 charge_1 -0.0110 0.0069 -0.0491 charge_2 -0.0044 -0.0120 0.0400 charge_3 0.0489 0.0135 0.0262 charge_4 -0.0081 0.0042 0.0129 charge_5 -0.0209 -0.0111 -0.0021 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0699 -0.0282 -0.0556 15.9949M 0.5502 0.5666 0.4869 unweighted_spectral_entropy -0.5235 -0.5882 -0.5059 delta_RT_loess 2.5424 2.8858 2.1021 m0 Found 67435 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 72086 target PSMs and 5291 decoy PSMs. Calculating q values. Final list yields 67438 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.15 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-14_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-14_percolator_decoy_psms.tsv S22049-Arjun-14_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-14_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-14_percolator_decoy_psms.tsv S22049-Arjun-14_edited.pin Started Sat Mar 4 13:02:46 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-14_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61276 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57029 positives and 4247 negatives, size ratio=13.4281 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34301 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34261 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34287 training set positives with q<0.01 in that direction. Found 51421 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.415 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52768 PSMs with q<0.01 Iteration 2: Estimated 53028 PSMs with q<0.01 Iteration 3: Estimated 53133 PSMs with q<0.01 Iteration 4: Estimated 53147 PSMs with q<0.01 Iteration 5: Estimated 53145 PSMs with q<0.01 Iteration 6: Estimated 53146 PSMs with q<0.01 Iteration 7: Estimated 53150 PSMs with q<0.01 Iteration 8: Estimated 53150 PSMs with q<0.01 Iteration 9: Estimated 53152 PSMs with q<0.01 Iteration 10: Estimated 53152 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0089 0.0373 0.0628 retentiontime 0.0000 0.0000 0.0000 rank -0.2294 -0.1809 -0.2040 abs_ppm -0.1106 -0.0843 -0.0776 isotope_errors -0.7222 -0.7556 -0.7114 log10_evalue 0.4408 0.6065 0.5419 hyperscore 0.4728 0.4015 0.5016 delta_hyperscore 0.2963 0.5373 0.4713 matched_ion_num -0.5632 -0.5713 -0.5135 complementary_ions 0.1431 -0.0610 -0.0423 ion_series -0.0245 0.0115 -0.0031 weighted_average_abs_fragment_ppm 0.1925 0.1596 0.1148 peptide_length 0.0000 0.0000 0.0000 ntt -0.1121 -0.1231 -0.0724 nmc 0.0000 0.0000 0.0000 charge_1 0.0267 -0.0277 0.0092 charge_2 -0.0229 0.0105 -0.0031 charge_3 -0.0205 0.1018 -0.0367 charge_4 -0.0226 0.0028 0.0060 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0414 -0.0739 -0.0444 15.9949M 0.4630 0.4602 0.4552 unweighted_spectral_entropy -0.6443 -0.5181 -0.5401 delta_RT_loess 2.2811 2.1746 2.0827 m0 Found 53135 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57029 target PSMs and 4247 decoy PSMs. Calculating q values. Final list yields 53135 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.93 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-144_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-144_percolator_decoy_psms.tsv S22049-Arjun-144_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-144_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-144_percolator_decoy_psms.tsv S22049-Arjun-144_edited.pin Started Sat Mar 4 13:03:09 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-144_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 48644 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 45345 positives and 3299 negatives, size ratio=13.7451 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 27657 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 27681 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 27663 training set positives with q<0.01 in that direction. Found 41501 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.085 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 42045 PSMs with q<0.01 Iteration 2: Estimated 42148 PSMs with q<0.01 Iteration 3: Estimated 42231 PSMs with q<0.01 Iteration 4: Estimated 42275 PSMs with q<0.01 Iteration 5: Estimated 42280 PSMs with q<0.01 Iteration 6: Estimated 42281 PSMs with q<0.01 Iteration 7: Estimated 42282 PSMs with q<0.01 Iteration 8: Estimated 42284 PSMs with q<0.01 Iteration 9: Estimated 42284 PSMs with q<0.01 Iteration 10: Estimated 42285 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0712 0.0343 0.0491 retentiontime 0.0000 0.0000 0.0000 rank -0.1921 -0.1969 -0.1829 abs_ppm -0.1333 -0.1473 -0.1460 isotope_errors -0.6311 -0.8800 -0.6539 log10_evalue 0.2960 0.1416 0.1191 hyperscore 0.5294 0.5435 0.4727 delta_hyperscore 0.5193 0.7583 0.6960 matched_ion_num -0.6200 -0.8642 -0.6473 complementary_ions -0.0296 -0.0277 -0.1095 ion_series -0.0252 -0.0368 -0.0513 weighted_average_abs_fragment_ppm 0.1761 0.1845 0.1479 peptide_length 0.0000 0.0000 0.0000 ntt -0.0911 -0.1060 -0.0800 nmc 0.0000 0.0000 0.0000 charge_1 0.0099 0.0208 0.0064 charge_2 -0.0274 -0.0281 -0.0134 charge_3 0.1228 0.0573 0.0464 charge_4 0.0197 -0.0255 0.0197 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0266 -0.0116 0.0010 15.9949M 0.5844 0.6348 0.6023 unweighted_spectral_entropy -0.4176 -0.4021 -0.3910 delta_RT_loess 2.2257 2.5136 2.1165 m0 Found 42273 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 45345 target PSMs and 3299 decoy PSMs. Calculating q values. Final list yields 42274 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 11.67 cpu seconds or 11 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-8_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-8_percolator_decoy_psms.tsv S22049-Arjun-8_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-8_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-8_percolator_decoy_psms.tsv S22049-Arjun-8_edited.pin Started Sat Mar 4 13:03:22 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-8_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73842 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68521 positives and 5321 negatives, size ratio=12.8775 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41253 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41310 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41206 training set positives with q<0.01 in that direction. Found 61854 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.331 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63329 PSMs with q<0.01 Iteration 2: Estimated 63620 PSMs with q<0.01 Iteration 3: Estimated 63729 PSMs with q<0.01 Iteration 4: Estimated 63750 PSMs with q<0.01 Iteration 5: Estimated 63752 PSMs with q<0.01 Iteration 6: Estimated 63754 PSMs with q<0.01 Iteration 7: Estimated 63755 PSMs with q<0.01 Iteration 8: Estimated 63756 PSMs with q<0.01 Iteration 9: Estimated 63757 PSMs with q<0.01 Iteration 10: Estimated 63754 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.1444 -0.0515 -0.0582 retentiontime 0.0000 0.0000 0.0000 rank -0.2263 -0.2063 -0.2025 abs_ppm -0.0961 -0.1228 -0.0942 isotope_errors -0.5456 -0.6647 -0.7332 log10_evalue 0.7384 0.8711 0.9515 hyperscore 0.7158 0.6381 0.5784 delta_hyperscore 0.8268 0.5173 0.6475 matched_ion_num -0.9801 -0.9243 -0.9512 complementary_ions 0.0739 -0.0675 -0.1327 ion_series -0.0120 0.0207 -0.0008 weighted_average_abs_fragment_ppm 0.2391 0.0926 0.1482 peptide_length 0.0000 0.0000 0.0000 ntt -0.1800 -0.1545 -0.2025 nmc 0.0000 0.0000 0.0000 charge_1 0.0157 0.0049 0.0125 charge_2 -0.0061 -0.0153 -0.0121 charge_3 -0.0417 0.0333 -0.0160 charge_4 0.0259 0.0145 0.0558 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0145 -0.0307 -0.0442 15.9949M 0.5172 0.5368 0.5019 unweighted_spectral_entropy -0.4992 -0.6507 -0.5580 delta_RT_loess 2.2111 2.6053 2.4025 m0 Found 63755 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68521 target PSMs and 5321 decoy PSMs. Calculating q values. Final list yields 63756 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 24 cpu seconds or 24 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-99_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-99_percolator_decoy_psms.tsv S22049-Arjun-99_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-99_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-99_percolator_decoy_psms.tsv S22049-Arjun-99_edited.pin Started Sat Mar 4 13:03:49 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-99_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 55502 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 52126 positives and 3376 negatives, size ratio=15.4402 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 32085 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 32168 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 32146 training set positives with q<0.01 in that direction. Found 48241 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.01 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 48727 PSMs with q<0.01 Iteration 2: Estimated 48826 PSMs with q<0.01 Iteration 3: Estimated 48882 PSMs with q<0.01 Iteration 4: Estimated 48920 PSMs with q<0.01 Iteration 5: Estimated 48942 PSMs with q<0.01 Iteration 6: Estimated 48946 PSMs with q<0.01 Iteration 7: Estimated 48947 PSMs with q<0.01 Iteration 8: Estimated 48945 PSMs with q<0.01 Iteration 9: Estimated 48945 PSMs with q<0.01 Iteration 10: Estimated 48944 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1282 0.1389 0.0753 retentiontime 0.0000 0.0000 0.0000 rank -0.2109 -0.1828 -0.1936 abs_ppm -0.0692 -0.0524 -0.0928 isotope_errors -0.5637 -0.5018 -0.6818 log10_evalue 0.0955 -0.0460 -0.0169 hyperscore 0.6440 0.5119 0.3942 delta_hyperscore 0.9337 0.7169 0.9715 matched_ion_num -0.6187 -0.4335 -0.6854 complementary_ions 0.0085 -0.0005 -0.1157 ion_series 0.0124 -0.0003 -0.0157 weighted_average_abs_fragment_ppm 0.0407 0.0228 0.1285 peptide_length 0.0000 0.0000 0.0000 ntt -0.0822 -0.1085 -0.1083 nmc 0.0000 0.0000 0.0000 charge_1 -0.0128 -0.0076 0.0137 charge_2 0.0031 -0.0067 -0.0448 charge_3 0.0131 0.0321 0.0804 charge_4 0.0611 0.0412 0.0423 charge_5 -0.0107 -0.0088 -0.0094 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0494 0.0010 0.0047 15.9949M 0.5453 0.5061 0.5397 unweighted_spectral_entropy -0.5154 -0.4269 -0.4791 delta_RT_loess 2.5232 2.0688 2.2228 m0 Found 48919 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 52126 target PSMs and 3376 decoy PSMs. Calculating q values. Final list yields 48922 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.83 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-18_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-18_percolator_decoy_psms.tsv S22049-Arjun-18_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-18_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-18_percolator_decoy_psms.tsv S22049-Arjun-18_edited.pin Started Sat Mar 4 13:04:05 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-18_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 66349 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60995 positives and 5354 negatives, size ratio=11.3924 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35723 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35824 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35751 training set positives with q<0.01 in that direction. Found 53628 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.296 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55421 PSMs with q<0.01 Iteration 2: Estimated 55714 PSMs with q<0.01 Iteration 3: Estimated 55822 PSMs with q<0.01 Iteration 4: Estimated 55872 PSMs with q<0.01 Iteration 5: Estimated 55900 PSMs with q<0.01 Iteration 6: Estimated 55920 PSMs with q<0.01 Iteration 7: Estimated 55916 PSMs with q<0.01 Iteration 8: Estimated 55918 PSMs with q<0.01 Iteration 9: Estimated 55920 PSMs with q<0.01 Iteration 10: Estimated 55915 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0564 0.0112 0.0538 retentiontime 0.0000 0.0000 0.0000 rank -0.2714 -0.2845 -0.2915 abs_ppm -0.1216 -0.1401 -0.1129 isotope_errors -0.4917 -0.8605 -0.7021 log10_evalue 0.6736 0.1866 0.3144 hyperscore 0.5581 0.6202 0.5894 delta_hyperscore 0.6368 0.5112 0.9077 matched_ion_num -0.8778 -0.7573 -0.7841 complementary_ions 0.0516 0.0456 0.0191 ion_series -0.0400 -0.0494 -0.0446 weighted_average_abs_fragment_ppm 0.2082 0.2045 0.2062 peptide_length 0.0000 0.0000 0.0000 ntt -0.1475 -0.1659 -0.1764 nmc 0.0000 0.0000 0.0000 charge_1 0.0269 0.0485 0.0182 charge_2 -0.0202 -0.0391 -0.0145 charge_3 -0.0388 -0.0559 -0.0213 charge_4 -0.0065 -0.0037 -0.0051 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0089 -0.0185 -0.0463 15.9949M 0.6075 0.6043 0.5278 unweighted_spectral_entropy -0.8064 -0.6988 -0.7148 delta_RT_loess 2.3661 2.3070 2.5121 m0 Found 55893 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60995 target PSMs and 5354 decoy PSMs. Calculating q values. Final list yields 55894 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.57 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-95_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-95_percolator_decoy_psms.tsv S22049-Arjun-95_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-95_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-95_percolator_decoy_psms.tsv S22049-Arjun-95_edited.pin Started Sat Mar 4 13:04:23 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-95_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64444 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60661 positives and 3783 negatives, size ratio=16.0352 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37368 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37572 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37525 training set positives with q<0.01 in that direction. Found 56223 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.155 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56923 PSMs with q<0.01 Iteration 2: Estimated 57110 PSMs with q<0.01 Iteration 3: Estimated 57174 PSMs with q<0.01 Iteration 4: Estimated 57185 PSMs with q<0.01 Iteration 5: Estimated 57181 PSMs with q<0.01 Iteration 6: Estimated 57183 PSMs with q<0.01 Iteration 7: Estimated 57183 PSMs with q<0.01 Iteration 8: Estimated 57184 PSMs with q<0.01 Iteration 9: Estimated 57184 PSMs with q<0.01 Iteration 10: Estimated 57185 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0006 0.0448 0.0563 retentiontime 0.0000 0.0000 0.0000 rank -0.1494 -0.1682 -0.1857 abs_ppm -0.1161 -0.1294 -0.0975 isotope_errors -0.6892 -0.3694 -0.0804 log10_evalue 0.8427 0.7452 0.9127 hyperscore 0.4947 0.5306 0.7140 delta_hyperscore 0.3520 0.4645 0.6190 matched_ion_num -0.7613 -0.6823 -0.8862 complementary_ions -0.1111 -0.0158 -0.0045 ion_series -0.0704 -0.0439 -0.0590 weighted_average_abs_fragment_ppm 0.1203 0.1784 0.2272 peptide_length 0.0000 0.0000 0.0000 ntt -0.2009 -0.1754 -0.1551 nmc 0.0000 0.0000 0.0000 charge_1 -0.0386 0.0070 0.0047 charge_2 0.0087 -0.0322 -0.0195 charge_3 0.0764 0.0698 0.0349 charge_4 0.0728 0.0288 0.0403 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0661 -0.0324 -0.0214 15.9949M 0.5737 0.5094 0.6487 unweighted_spectral_entropy -0.5583 -0.5571 -0.5704 delta_RT_loess 2.3145 2.4382 1.9949 m0 Found 57195 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60661 target PSMs and 3783 decoy PSMs. Calculating q values. Final list yields 57196 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.27 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-117_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-117_percolator_decoy_psms.tsv S22049-Arjun-117_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-117_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-117_percolator_decoy_psms.tsv S22049-Arjun-117_edited.pin Started Sat Mar 4 13:04:40 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-117_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 56880 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 53555 positives and 3325 negatives, size ratio=16.1068 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33027 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33033 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33025 training set positives with q<0.01 in that direction. Found 49540 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.095 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50238 PSMs with q<0.01 Iteration 2: Estimated 50429 PSMs with q<0.01 Iteration 3: Estimated 50456 PSMs with q<0.01 Iteration 4: Estimated 50467 PSMs with q<0.01 Iteration 5: Estimated 50462 PSMs with q<0.01 Iteration 6: Estimated 50473 PSMs with q<0.01 Iteration 7: Estimated 50476 PSMs with q<0.01 Iteration 8: Estimated 50474 PSMs with q<0.01 Iteration 9: Estimated 50479 PSMs with q<0.01 Iteration 10: Estimated 50477 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1221 0.0281 0.0038 retentiontime 0.0000 0.0000 0.0000 rank -0.1812 -0.1826 -0.1541 abs_ppm -0.0487 -0.0562 -0.0633 isotope_errors -0.5049 -0.4220 -0.5112 log10_evalue 1.0302 0.8971 0.8000 hyperscore 0.4686 0.4753 0.5239 delta_hyperscore 0.2604 0.3807 0.6355 matched_ion_num -0.5191 -0.6917 -0.7363 complementary_ions -0.1029 0.0253 -0.1027 ion_series 0.0040 0.0026 -0.0214 weighted_average_abs_fragment_ppm 0.0039 0.1117 0.1518 peptide_length 0.0000 0.0000 0.0000 ntt -0.0959 -0.0915 -0.1118 nmc 0.0000 0.0000 0.0000 charge_1 -0.0144 -0.0051 0.0078 charge_2 0.0070 0.0095 -0.0071 charge_3 0.0327 -0.0184 -0.0044 charge_4 0.0135 -0.0098 0.0074 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0158 -0.0418 -0.0579 15.9949M 0.5147 0.4522 0.4606 unweighted_spectral_entropy -0.6484 -0.5312 -0.6263 delta_RT_loess 1.8846 2.0500 2.2409 m0 Found 50457 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 53555 target PSMs and 3325 decoy PSMs. Calculating q values. Final list yields 50465 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.96 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-91_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-91_percolator_decoy_psms.tsv S22049-Arjun-91_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-91_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-91_percolator_decoy_psms.tsv S22049-Arjun-91_edited.pin Started Sat Mar 4 13:04:56 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-91_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64567 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60704 positives and 3863 negatives, size ratio=15.7142 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37295 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37412 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37531 training set positives with q<0.01 in that direction. Found 56108 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.079 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56950 PSMs with q<0.01 Iteration 2: Estimated 57134 PSMs with q<0.01 Iteration 3: Estimated 57152 PSMs with q<0.01 Iteration 4: Estimated 57152 PSMs with q<0.01 Iteration 5: Estimated 57155 PSMs with q<0.01 Iteration 6: Estimated 57157 PSMs with q<0.01 Iteration 7: Estimated 57157 PSMs with q<0.01 Iteration 8: Estimated 57157 PSMs with q<0.01 Iteration 9: Estimated 57157 PSMs with q<0.01 Iteration 10: Estimated 57157 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0019 0.0759 -0.0213 retentiontime 0.0000 0.0000 0.0000 rank -0.1665 -0.1856 -0.1771 abs_ppm -0.0975 -0.1115 -0.0782 isotope_errors -0.7182 -0.5018 -0.5953 log10_evalue 0.8383 0.5375 0.7139 hyperscore 0.3853 0.4026 0.4177 delta_hyperscore 0.2516 0.5015 0.5193 matched_ion_num -0.7608 -0.7871 -0.7485 complementary_ions 0.1053 0.0099 0.2475 ion_series -0.0264 -0.0310 -0.0220 weighted_average_abs_fragment_ppm 0.2179 0.1314 0.2405 peptide_length 0.0000 0.0000 0.0000 ntt -0.1383 -0.1481 -0.1547 nmc 0.0000 0.0000 0.0000 charge_1 0.0104 0.0107 -0.0166 charge_2 -0.0188 -0.0123 0.0121 charge_3 -0.0017 -0.0199 -0.0097 charge_4 0.0841 0.0781 0.0794 charge_5 -0.0123 -0.0114 -0.0103 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0441 -0.0318 -0.0226 15.9949M 0.5053 0.5597 0.4492 unweighted_spectral_entropy -0.5268 -0.5345 -0.5407 delta_RT_loess 2.2177 2.2370 2.0817 m0 Found 57162 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60704 target PSMs and 3863 decoy PSMs. Calculating q values. Final list yields 57163 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.42 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-86_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-86_percolator_decoy_psms.tsv S22049-Arjun-86_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-86_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-86_percolator_decoy_psms.tsv S22049-Arjun-86_edited.pin Started Sat Mar 4 13:05:15 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-86_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64045 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59952 positives and 4093 negatives, size ratio=14.6474 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36635 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36975 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36885 training set positives with q<0.01 in that direction. Found 55220 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.225 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55970 PSMs with q<0.01 Iteration 2: Estimated 56120 PSMs with q<0.01 Iteration 3: Estimated 56200 PSMs with q<0.01 Iteration 4: Estimated 56229 PSMs with q<0.01 Iteration 5: Estimated 56237 PSMs with q<0.01 Iteration 6: Estimated 56240 PSMs with q<0.01 Iteration 7: Estimated 56240 PSMs with q<0.01 Iteration 8: Estimated 56240 PSMs with q<0.01 Iteration 9: Estimated 56239 PSMs with q<0.01 Iteration 10: Estimated 56239 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0645 0.0273 0.0884 retentiontime 0.0000 0.0000 0.0000 rank -0.2285 -0.2197 -0.2288 abs_ppm -0.1213 -0.1376 -0.1288 isotope_errors -0.7403 -0.5047 -0.6938 log10_evalue 0.7834 0.5374 0.7364 hyperscore 0.4132 0.5078 0.5489 delta_hyperscore 0.2437 0.1444 0.5220 matched_ion_num -0.9047 -0.6376 -0.9007 complementary_ions 0.1576 0.1494 0.0739 ion_series 0.0235 -0.0055 0.0281 weighted_average_abs_fragment_ppm 0.1433 0.2095 0.0895 peptide_length 0.0000 0.0000 0.0000 ntt -0.1242 -0.1599 -0.1178 nmc 0.0000 0.0000 0.0000 charge_1 0.0344 0.0336 0.0259 charge_2 -0.0275 -0.0307 -0.0335 charge_3 -0.0308 -0.0085 0.0236 charge_4 0.0176 -0.0141 -0.0007 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0249 -0.0324 -0.0256 15.9949M 0.5430 0.5392 0.4870 unweighted_spectral_entropy -0.5318 -0.4979 -0.4491 delta_RT_loess 2.4642 2.2065 2.3853 m0 Found 56236 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59952 target PSMs and 4093 decoy PSMs. Calculating q values. Final list yields 56237 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.6 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-32_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-32_percolator_decoy_psms.tsv S22049-Arjun-32_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-32_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-32_percolator_decoy_psms.tsv S22049-Arjun-32_edited.pin Started Sat Mar 4 13:05:33 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-32_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62806 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57350 positives and 5456 negatives, size ratio=10.5114 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33752 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33950 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33874 training set positives with q<0.01 in that direction. Found 50769 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.252 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51850 PSMs with q<0.01 Iteration 2: Estimated 52047 PSMs with q<0.01 Iteration 3: Estimated 52138 PSMs with q<0.01 Iteration 4: Estimated 52171 PSMs with q<0.01 Iteration 5: Estimated 52179 PSMs with q<0.01 Iteration 6: Estimated 52185 PSMs with q<0.01 Iteration 7: Estimated 52190 PSMs with q<0.01 Iteration 8: Estimated 52188 PSMs with q<0.01 Iteration 9: Estimated 52191 PSMs with q<0.01 Iteration 10: Estimated 52191 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0460 0.1172 0.0533 retentiontime 0.0000 0.0000 0.0000 rank -0.2204 -0.2240 -0.2213 abs_ppm -0.1624 -0.1913 -0.1467 isotope_errors -0.6172 -0.7126 -0.5234 log10_evalue 0.4231 0.2076 0.3191 hyperscore 0.5444 0.4858 0.5392 delta_hyperscore 0.5825 1.0330 1.0222 matched_ion_num -0.8132 -0.8041 -0.8374 complementary_ions 0.0621 -0.1530 -0.1349 ion_series 0.0128 -0.0091 -0.0245 weighted_average_abs_fragment_ppm 0.0902 0.0974 0.1481 peptide_length 0.0000 0.0000 0.0000 ntt -0.1293 -0.1220 -0.1535 nmc 0.0000 0.0000 0.0000 charge_1 -0.0167 0.0058 -0.0133 charge_2 0.0115 -0.0037 0.0110 charge_3 0.0207 -0.0133 0.0084 charge_4 0.0251 0.0223 0.0163 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0103 -0.0235 -0.0028 15.9949M 0.6333 0.6450 0.6640 unweighted_spectral_entropy -0.6744 -0.6951 -0.6861 delta_RT_loess 2.1563 2.3175 2.2307 m0 Found 52167 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57350 target PSMs and 5456 decoy PSMs. Calculating q values. Final list yields 52168 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.34 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-141_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-141_percolator_decoy_psms.tsv S22049-Arjun-141_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-141_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-141_percolator_decoy_psms.tsv S22049-Arjun-141_edited.pin Started Sat Mar 4 13:05:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-141_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64070 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59945 positives and 4125 negatives, size ratio=14.5321 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36543 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36816 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36633 training set positives with q<0.01 in that direction. Found 54930 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.147 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55907 PSMs with q<0.01 Iteration 2: Estimated 56117 PSMs with q<0.01 Iteration 3: Estimated 56195 PSMs with q<0.01 Iteration 4: Estimated 56223 PSMs with q<0.01 Iteration 5: Estimated 56237 PSMs with q<0.01 Iteration 6: Estimated 56238 PSMs with q<0.01 Iteration 7: Estimated 56238 PSMs with q<0.01 Iteration 8: Estimated 56238 PSMs with q<0.01 Iteration 9: Estimated 56237 PSMs with q<0.01 Iteration 10: Estimated 56237 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0242 0.0249 0.0585 retentiontime 0.0000 0.0000 0.0000 rank -0.2093 -0.2224 -0.2101 abs_ppm -0.1119 -0.1159 -0.0986 isotope_errors -0.5495 -0.4366 -0.7055 log10_evalue 0.6404 0.6614 0.4168 hyperscore 0.5824 0.5404 0.4842 delta_hyperscore 0.5933 0.5307 0.6313 matched_ion_num -0.7580 -0.7824 -0.7615 complementary_ions -0.0701 -0.0351 0.0456 ion_series -0.0320 -0.0195 -0.0144 weighted_average_abs_fragment_ppm 0.1562 0.1878 0.1495 peptide_length 0.0000 0.0000 0.0000 ntt -0.2201 -0.1501 -0.1980 nmc 0.0000 0.0000 0.0000 charge_1 -0.0046 0.0272 -0.0014 charge_2 0.0002 -0.0204 -0.0020 charge_3 0.0143 -0.0236 0.0148 charge_4 0.0103 -0.0168 -0.0113 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0555 -0.0111 -0.0457 15.9949M 0.5526 0.5296 0.5156 unweighted_spectral_entropy -0.6075 -0.5990 -0.5791 delta_RT_loess 2.5965 2.4012 2.5365 m0 Found 56225 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59945 target PSMs and 4125 decoy PSMs. Calculating q values. Final list yields 56230 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 26.51 cpu seconds or 26 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-73_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-73_percolator_decoy_psms.tsv S22049-Arjun-73_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-73_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-73_percolator_decoy_psms.tsv S22049-Arjun-73_edited.pin Started Sat Mar 4 13:06:19 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-73_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60060 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56927 positives and 3133 negatives, size ratio=18.1701 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35548 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35634 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35523 training set positives with q<0.01 in that direction. Found 53355 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.069 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53899 PSMs with q<0.01 Iteration 2: Estimated 54020 PSMs with q<0.01 Iteration 3: Estimated 54078 PSMs with q<0.01 Iteration 4: Estimated 54099 PSMs with q<0.01 Iteration 5: Estimated 54106 PSMs with q<0.01 Iteration 6: Estimated 54105 PSMs with q<0.01 Iteration 7: Estimated 54110 PSMs with q<0.01 Iteration 8: Estimated 54110 PSMs with q<0.01 Iteration 9: Estimated 54114 PSMs with q<0.01 Iteration 10: Estimated 54116 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0723 -0.0095 0.0515 retentiontime 0.0000 0.0000 0.0000 rank -0.1748 -0.1841 -0.1688 abs_ppm -0.0968 -0.0812 -0.1214 isotope_errors -0.8847 -0.7075 -0.7402 log10_evalue 0.6072 0.5427 -0.0046 hyperscore 0.3651 0.4881 0.5879 delta_hyperscore 0.6378 0.6085 1.1587 matched_ion_num -0.9528 -0.8236 -0.7821 complementary_ions 0.0570 -0.0033 0.0137 ion_series 0.0104 -0.0161 0.0067 weighted_average_abs_fragment_ppm 0.3147 0.1606 0.1232 peptide_length 0.0000 0.0000 0.0000 ntt -0.1475 -0.1466 -0.1208 nmc 0.0000 0.0000 0.0000 charge_1 0.0331 0.0045 0.0396 charge_2 -0.0244 0.0026 -0.0319 charge_3 -0.0206 -0.0252 -0.0303 charge_4 -0.0070 0.0205 0.0213 charge_5 -0.0298 -0.0091 -0.0087 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0358 -0.0434 -0.0234 15.9949M 0.4772 0.5027 0.4631 unweighted_spectral_entropy -0.4592 -0.4228 -0.4008 delta_RT_loess 2.7618 2.5745 2.7392 m0 Found 54096 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56927 target PSMs and 3133 decoy PSMs. Calculating q values. Final list yields 54097 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.07 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-23_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-23_percolator_decoy_psms.tsv S22049-Arjun-23_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-23_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-23_percolator_decoy_psms.tsv S22049-Arjun-23_edited.pin Started Sat Mar 4 13:06:37 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-23_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75852 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70500 positives and 5352 negatives, size ratio=13.1726 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42565 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42669 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42661 training set positives with q<0.01 in that direction. Found 63938 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.523 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65394 PSMs with q<0.01 Iteration 2: Estimated 65638 PSMs with q<0.01 Iteration 3: Estimated 65739 PSMs with q<0.01 Iteration 4: Estimated 65756 PSMs with q<0.01 Iteration 5: Estimated 65762 PSMs with q<0.01 Iteration 6: Estimated 65765 PSMs with q<0.01 Iteration 7: Estimated 65764 PSMs with q<0.01 Iteration 8: Estimated 65764 PSMs with q<0.01 Iteration 9: Estimated 65765 PSMs with q<0.01 Iteration 10: Estimated 65765 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0007 -0.0696 -0.0040 retentiontime 0.0000 0.0000 0.0000 rank -0.2576 -0.2823 -0.2372 abs_ppm -0.1057 -0.0873 -0.0999 isotope_errors -0.5617 -0.6849 -0.7101 log10_evalue 0.8654 0.3686 0.5758 hyperscore 0.6378 0.6269 0.5482 delta_hyperscore 0.5667 0.9595 0.5701 matched_ion_num -0.8885 -0.9178 -0.9422 complementary_ions -0.1696 -0.1349 -0.0160 ion_series -0.0623 -0.0303 -0.0613 weighted_average_abs_fragment_ppm 0.1698 0.1968 0.1740 peptide_length 0.0000 0.0000 0.0000 ntt -0.1442 -0.1731 -0.1516 nmc 0.0000 0.0000 0.0000 charge_1 0.0143 0.0316 0.0130 charge_2 -0.0172 -0.0328 -0.0155 charge_3 0.0052 -0.0129 0.0032 charge_4 0.0170 0.0642 0.0203 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0149 -0.0257 -0.0470 15.9949M 0.5822 0.5667 0.5608 unweighted_spectral_entropy -0.6384 -0.6499 -0.5913 delta_RT_loess 2.2944 2.6256 2.2140 m0 Found 65772 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70500 target PSMs and 5352 decoy PSMs. Calculating q values. Final list yields 65773 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.39 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-118_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-118_percolator_decoy_psms.tsv S22049-Arjun-118_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-118_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-118_percolator_decoy_psms.tsv S22049-Arjun-118_edited.pin Started Sat Mar 4 13:06:58 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-118_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 54684 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 51245 positives and 3439 negatives, size ratio=14.9011 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31520 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31467 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31538 training set positives with q<0.01 in that direction. Found 47246 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.977 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 48006 PSMs with q<0.01 Iteration 2: Estimated 48265 PSMs with q<0.01 Iteration 3: Estimated 48354 PSMs with q<0.01 Iteration 4: Estimated 48356 PSMs with q<0.01 Iteration 5: Estimated 48354 PSMs with q<0.01 Iteration 6: Estimated 48351 PSMs with q<0.01 Iteration 7: Estimated 48351 PSMs with q<0.01 Iteration 8: Estimated 48351 PSMs with q<0.01 Iteration 9: Estimated 48348 PSMs with q<0.01 Iteration 10: Estimated 48351 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1242 0.0931 0.0254 retentiontime 0.0000 0.0000 0.0000 rank -0.1967 -0.1803 -0.2118 abs_ppm -0.1128 -0.1414 -0.1565 isotope_errors -0.6298 -0.3085 -0.3470 log10_evalue 0.3932 0.6909 0.5145 hyperscore 0.3529 0.5211 0.5579 delta_hyperscore 0.6841 0.6956 0.9900 matched_ion_num -0.5347 -0.4316 -0.6455 complementary_ions -0.2148 -0.3026 -0.1933 ion_series -0.0345 -0.0228 -0.0085 weighted_average_abs_fragment_ppm 0.0939 0.1442 0.2407 peptide_length 0.0000 0.0000 0.0000 ntt -0.1141 -0.1283 -0.1609 nmc 0.0000 0.0000 0.0000 charge_1 -0.0059 0.0147 0.0294 charge_2 0.0076 -0.0136 -0.0280 charge_3 -0.0141 -0.0096 -0.0133 charge_4 0.0000 0.0000 0.0000 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0275 -0.0380 -0.0435 15.9949M 0.4427 0.4557 0.4443 unweighted_spectral_entropy -0.5336 -0.4853 -0.4566 delta_RT_loess 2.1513 2.3122 2.5071 m0 Found 48347 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 51245 target PSMs and 3439 decoy PSMs. Calculating q values. Final list yields 48347 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 12.56 cpu seconds or 12 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-61-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-61-2nd_percolator_decoy_psms.tsv S22049-Arjun-61-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-61-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-61-2nd_percolator_decoy_psms.tsv S22049-Arjun-61-2nd_edited.pin Started Sat Mar 4 13:07:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-61-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 63434 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59260 positives and 4174 negatives, size ratio=14.1974 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36069 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35858 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36079 training set positives with q<0.01 in that direction. Found 53983 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.354 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55019 PSMs with q<0.01 Iteration 2: Estimated 55320 PSMs with q<0.01 Iteration 3: Estimated 55393 PSMs with q<0.01 Iteration 4: Estimated 55428 PSMs with q<0.01 Iteration 5: Estimated 55439 PSMs with q<0.01 Iteration 6: Estimated 55437 PSMs with q<0.01 Iteration 7: Estimated 55434 PSMs with q<0.01 Iteration 8: Estimated 55432 PSMs with q<0.01 Iteration 9: Estimated 55432 PSMs with q<0.01 Iteration 10: Estimated 55432 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0010 0.0148 0.0609 retentiontime 0.0000 0.0000 0.0000 rank -0.2245 -0.2305 -0.2315 abs_ppm -0.1107 -0.1204 -0.0856 isotope_errors -0.4597 -0.5087 -0.6426 log10_evalue 0.8060 0.9166 0.3491 hyperscore 0.4305 0.4677 0.3802 delta_hyperscore 0.4190 0.4034 0.5499 matched_ion_num -0.8331 -0.8515 -0.7583 complementary_ions -0.0749 -0.0173 0.0947 ion_series -0.0148 -0.0110 -0.0112 weighted_average_abs_fragment_ppm 0.2320 0.1716 0.1126 peptide_length 0.0000 0.0000 0.0000 ntt -0.1847 -0.1614 -0.1295 nmc 0.0000 0.0000 0.0000 charge_1 0.0401 0.0460 0.0368 charge_2 -0.0402 -0.0456 -0.0418 charge_3 -0.0145 -0.0091 0.0144 charge_4 0.0605 0.0209 0.0044 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0313 -0.0269 -0.0355 15.9949M 0.5818 0.5123 0.5118 unweighted_spectral_entropy -0.6056 -0.6191 -0.5806 delta_RT_loess 2.2776 2.4187 2.2463 m0 Found 55442 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59260 target PSMs and 4174 decoy PSMs. Calculating q values. Final list yields 55444 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.13 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-9_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-9_percolator_decoy_psms.tsv S22049-Arjun-9_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-9_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-9_percolator_decoy_psms.tsv S22049-Arjun-9_edited.pin Started Sat Mar 4 13:07:31 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-9_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62770 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58717 positives and 4053 negatives, size ratio=14.4873 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36008 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36076 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36071 training set positives with q<0.01 in that direction. Found 54019 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.092 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 54864 PSMs with q<0.01 Iteration 2: Estimated 55090 PSMs with q<0.01 Iteration 3: Estimated 55157 PSMs with q<0.01 Iteration 4: Estimated 55202 PSMs with q<0.01 Iteration 5: Estimated 55237 PSMs with q<0.01 Iteration 6: Estimated 55253 PSMs with q<0.01 Iteration 7: Estimated 55254 PSMs with q<0.01 Iteration 8: Estimated 55252 PSMs with q<0.01 Iteration 9: Estimated 55250 PSMs with q<0.01 Iteration 10: Estimated 55248 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1001 0.0737 0.0796 retentiontime 0.0000 0.0000 0.0000 rank -0.1809 -0.1894 -0.2428 abs_ppm -0.1261 -0.1117 -0.1112 isotope_errors -0.6654 -0.6020 -0.4252 log10_evalue 0.2866 0.3026 0.7304 hyperscore 0.5101 0.5124 0.6159 delta_hyperscore 0.5836 0.7386 0.4868 matched_ion_num -0.5383 -0.6230 -0.6692 complementary_ions -0.2004 -0.2004 -0.1328 ion_series -0.0321 -0.0230 -0.0290 weighted_average_abs_fragment_ppm 0.0193 0.1463 0.0641 peptide_length 0.0000 0.0000 0.0000 ntt -0.1436 -0.1441 -0.1266 nmc 0.0000 0.0000 0.0000 charge_1 -0.0279 0.0095 -0.0176 charge_2 0.0230 -0.0111 0.0166 charge_3 0.0346 0.0107 0.0078 charge_4 0.0000 0.0000 0.0000 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0169 -0.0581 -0.0512 15.9949M 0.4937 0.4850 0.5481 unweighted_spectral_entropy -0.5487 -0.5020 -0.4873 delta_RT_loess 2.1937 2.2535 2.1430 m0 Found 55240 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58717 target PSMs and 4053 decoy PSMs. Calculating q values. Final list yields 55242 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.76 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-27_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-27_percolator_decoy_psms.tsv S22049-Arjun-27_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-27_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-27_percolator_decoy_psms.tsv S22049-Arjun-27_edited.pin Started Sat Mar 4 13:07:50 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-27_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75209 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 69531 positives and 5678 negatives, size ratio=12.2457 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41639 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41670 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41864 training set positives with q<0.01 in that direction. Found 62613 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.402 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64124 PSMs with q<0.01 Iteration 2: Estimated 64403 PSMs with q<0.01 Iteration 3: Estimated 64497 PSMs with q<0.01 Iteration 4: Estimated 64514 PSMs with q<0.01 Iteration 5: Estimated 64519 PSMs with q<0.01 Iteration 6: Estimated 64515 PSMs with q<0.01 Iteration 7: Estimated 64516 PSMs with q<0.01 Iteration 8: Estimated 64515 PSMs with q<0.01 Iteration 9: Estimated 64515 PSMs with q<0.01 Iteration 10: Estimated 64517 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0572 -0.0142 0.0288 retentiontime 0.0000 0.0000 0.0000 rank -0.2357 -0.2129 -0.1872 abs_ppm -0.1248 -0.0830 -0.0963 isotope_errors -0.7720 -0.8109 -0.8443 log10_evalue 0.4187 0.8934 0.7628 hyperscore 0.5616 0.5507 0.5810 delta_hyperscore 0.4354 0.4642 0.3063 matched_ion_num -0.6153 -0.6733 -0.7844 complementary_ions 0.0170 -0.1293 -0.0396 ion_series -0.0047 -0.0238 -0.0405 weighted_average_abs_fragment_ppm 0.2219 0.1991 0.1327 peptide_length 0.0000 0.0000 0.0000 ntt -0.1910 -0.1515 -0.1080 nmc 0.0000 0.0000 0.0000 charge_1 0.0229 0.0442 0.0657 charge_2 -0.0278 -0.0180 -0.0394 charge_3 0.0238 -0.1061 -0.0820 charge_4 -0.0386 0.0728 -0.0265 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0572 -0.0226 -0.0093 15.9949M 0.5679 0.5353 0.5902 unweighted_spectral_entropy -0.7102 -0.6783 -0.4748 delta_RT_loess 2.4505 2.1420 1.9352 m0 Found 64463 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 69531 target PSMs and 5678 decoy PSMs. Calculating q values. Final list yields 64464 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.88 cpu seconds or 21 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-82_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-82_percolator_decoy_psms.tsv S22049-Arjun-82_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-82_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-82_percolator_decoy_psms.tsv S22049-Arjun-82_edited.pin Started Sat Mar 4 13:08:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-82_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64049 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59878 positives and 4171 negatives, size ratio=14.3558 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36448 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36447 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36386 training set positives with q<0.01 in that direction. Found 54660 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.372 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55673 PSMs with q<0.01 Iteration 2: Estimated 55836 PSMs with q<0.01 Iteration 3: Estimated 55903 PSMs with q<0.01 Iteration 4: Estimated 55912 PSMs with q<0.01 Iteration 5: Estimated 55912 PSMs with q<0.01 Iteration 6: Estimated 55918 PSMs with q<0.01 Iteration 7: Estimated 55919 PSMs with q<0.01 Iteration 8: Estimated 55919 PSMs with q<0.01 Iteration 9: Estimated 55920 PSMs with q<0.01 Iteration 10: Estimated 55919 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0702 0.0525 0.0439 retentiontime 0.0000 0.0000 0.0000 rank -0.1677 -0.2402 -0.2306 abs_ppm -0.1405 -0.1332 -0.1059 isotope_errors -0.7796 -0.7215 -0.6149 log10_evalue 0.8635 0.5596 0.8970 hyperscore 0.5077 0.4277 0.3530 delta_hyperscore 0.5692 0.6046 0.5315 matched_ion_num -0.9506 -0.8721 -0.9194 complementary_ions -0.0484 -0.0200 -0.0581 ion_series -0.0463 -0.0470 -0.0329 weighted_average_abs_fragment_ppm 0.1227 0.1489 0.1309 peptide_length 0.0000 0.0000 0.0000 ntt -0.2078 -0.1597 -0.1757 nmc 0.0000 0.0000 0.0000 charge_1 -0.0169 -0.0002 -0.0235 charge_2 0.0010 -0.0222 -0.0040 charge_3 0.0327 0.0577 0.0147 charge_4 0.0552 0.0323 0.2308 charge_5 -0.0079 -0.0099 -0.0093 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0302 -0.0409 -0.0438 15.9949M 0.5546 0.5516 0.5220 unweighted_spectral_entropy -0.4523 -0.5500 -0.5161 delta_RT_loess 2.1682 2.5022 2.4302 m0 Found 55926 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59878 target PSMs and 4171 decoy PSMs. Calculating q values. Final list yields 55934 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.43 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-63-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-63-2nd_percolator_decoy_psms.tsv S22049-Arjun-63-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-63-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-63-2nd_percolator_decoy_psms.tsv S22049-Arjun-63-2nd_edited.pin Started Sat Mar 4 13:08:36 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-63-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 78534 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 73133 positives and 5401 negatives, size ratio=13.5406 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 44318 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 44489 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 44559 training set positives with q<0.01 in that direction. Found 66626 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.426 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 67957 PSMs with q<0.01 Iteration 2: Estimated 68166 PSMs with q<0.01 Iteration 3: Estimated 68249 PSMs with q<0.01 Iteration 4: Estimated 68266 PSMs with q<0.01 Iteration 5: Estimated 68270 PSMs with q<0.01 Iteration 6: Estimated 68270 PSMs with q<0.01 Iteration 7: Estimated 68270 PSMs with q<0.01 Iteration 8: Estimated 68269 PSMs with q<0.01 Iteration 9: Estimated 68265 PSMs with q<0.01 Iteration 10: Estimated 68270 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0950 0.0313 0.0802 retentiontime 0.0000 0.0000 0.0000 rank -0.1949 -0.2187 -0.2346 abs_ppm -0.0557 -0.0968 -0.1139 isotope_errors -0.8964 -0.8874 -1.0369 log10_evalue 0.0370 0.2395 0.3626 hyperscore 0.5418 0.4913 0.3239 delta_hyperscore 1.1502 1.0192 0.5811 matched_ion_num -0.7708 -0.9335 -0.8202 complementary_ions 0.0401 -0.0374 -0.0238 ion_series -0.0483 -0.0301 -0.0366 weighted_average_abs_fragment_ppm 0.1736 0.1252 0.0955 peptide_length 0.0000 0.0000 0.0000 ntt -0.1163 -0.1518 -0.1554 nmc 0.0000 0.0000 0.0000 charge_1 0.0244 0.0241 0.0064 charge_2 -0.0253 -0.0367 -0.0213 charge_3 0.0008 0.0338 0.0386 charge_4 -0.0194 -0.0110 -0.0211 charge_5 0.0682 0.0011 0.0647 charge_6 -0.0078 -0.0085 -0.0089 charge_7_or_more -0.0244 -0.0049 -0.0189 15.9949M 0.4937 0.5755 0.5461 unweighted_spectral_entropy -0.5468 -0.5047 -0.5636 delta_RT_loess 2.1967 2.3818 2.4838 m0 Found 68269 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 73133 target PSMs and 5401 decoy PSMs. Calculating q values. Final list yields 68269 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.03 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-115_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-115_percolator_decoy_psms.tsv S22049-Arjun-115_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-115_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-115_percolator_decoy_psms.tsv S22049-Arjun-115_edited.pin Started Sat Mar 4 13:08:58 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-115_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 58298 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 54876 positives and 3422 negatives, size ratio=16.0362 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33850 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33926 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33802 training set positives with q<0.01 in that direction. Found 50779 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.126 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51469 PSMs with q<0.01 Iteration 2: Estimated 51643 PSMs with q<0.01 Iteration 3: Estimated 51674 PSMs with q<0.01 Iteration 4: Estimated 51678 PSMs with q<0.01 Iteration 5: Estimated 51674 PSMs with q<0.01 Iteration 6: Estimated 51669 PSMs with q<0.01 Iteration 7: Estimated 51670 PSMs with q<0.01 Iteration 8: Estimated 51670 PSMs with q<0.01 Iteration 9: Estimated 51671 PSMs with q<0.01 Iteration 10: Estimated 51671 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0540 0.0135 0.0296 retentiontime 0.0000 0.0000 0.0000 rank -0.1688 -0.2172 -0.1936 abs_ppm -0.1029 -0.1254 -0.0785 isotope_errors -0.7758 -0.7908 -0.7339 log10_evalue 0.9180 0.5546 0.5703 hyperscore 0.5934 0.6486 0.5354 delta_hyperscore -0.0338 0.5586 0.3887 matched_ion_num -0.6744 -0.7444 -0.7890 complementary_ions 0.0748 -0.0056 0.0346 ion_series -0.0569 -0.0169 -0.0209 weighted_average_abs_fragment_ppm 0.0999 0.0942 0.1283 peptide_length 0.0000 0.0000 0.0000 ntt -0.1125 -0.0765 -0.1241 nmc 0.0000 0.0000 0.0000 charge_1 0.0127 0.0223 -0.0021 charge_2 -0.0035 -0.0110 0.0053 charge_3 -0.0397 -0.0490 -0.0121 charge_4 -0.0147 -0.0217 -0.0162 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0372 -0.0141 -0.0397 15.9949M 0.5197 0.4415 0.5172 unweighted_spectral_entropy -0.5389 -0.4904 -0.5018 delta_RT_loess 2.2864 2.1352 2.1746 m0 Found 51660 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 54876 target PSMs and 3422 decoy PSMs. Calculating q values. Final list yields 51661 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.72 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-20_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-20_percolator_decoy_psms.tsv S22049-Arjun-20_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-20_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-20_percolator_decoy_psms.tsv S22049-Arjun-20_edited.pin Started Sat Mar 4 13:09:20 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-20_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 78320 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 72638 positives and 5682 negatives, size ratio=12.7839 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43780 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43677 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43881 training set positives with q<0.01 in that direction. Found 65626 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.376 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 67056 PSMs with q<0.01 Iteration 2: Estimated 67254 PSMs with q<0.01 Iteration 3: Estimated 67336 PSMs with q<0.01 Iteration 4: Estimated 67358 PSMs with q<0.01 Iteration 5: Estimated 67364 PSMs with q<0.01 Iteration 6: Estimated 67365 PSMs with q<0.01 Iteration 7: Estimated 67365 PSMs with q<0.01 Iteration 8: Estimated 67365 PSMs with q<0.01 Iteration 9: Estimated 67362 PSMs with q<0.01 Iteration 10: Estimated 67361 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0814 0.0521 0.0855 retentiontime 0.0000 0.0000 0.0000 rank -0.2360 -0.2556 -0.2626 abs_ppm -0.1462 -0.1456 -0.1306 isotope_errors -0.5047 -0.6034 -0.6072 log10_evalue 0.4180 0.6261 0.6813 hyperscore 0.6188 0.5429 0.5944 delta_hyperscore 1.0367 0.7582 0.6412 matched_ion_num -0.9756 -0.8970 -0.9541 complementary_ions -0.1227 -0.0831 -0.0904 ion_series -0.0285 -0.0317 -0.0441 weighted_average_abs_fragment_ppm 0.0500 0.1413 0.0855 peptide_length 0.0000 0.0000 0.0000 ntt -0.1506 -0.1789 -0.1282 nmc 0.0000 0.0000 0.0000 charge_1 0.0377 0.0358 0.0448 charge_2 -0.0262 -0.0326 -0.0301 charge_3 -0.0481 -0.0096 -0.0522 charge_4 0.0138 -0.0163 -0.0134 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0375 -0.0451 -0.0360 15.9949M 0.5552 0.5767 0.5926 unweighted_spectral_entropy -0.6588 -0.5635 -0.5169 delta_RT_loess 2.4178 2.5273 2.4921 m0 Found 67330 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 72638 target PSMs and 5682 decoy PSMs. Calculating q values. Final list yields 67333 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.32 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-76_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-76_percolator_decoy_psms.tsv S22049-Arjun-76_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-76_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-76_percolator_decoy_psms.tsv S22049-Arjun-76_edited.pin Started Sat Mar 4 13:09:41 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-76_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60303 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56810 positives and 3493 negatives, size ratio=16.264 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34957 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35083 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35169 training set positives with q<0.01 in that direction. Found 52575 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.104 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53392 PSMs with q<0.01 Iteration 2: Estimated 53556 PSMs with q<0.01 Iteration 3: Estimated 53643 PSMs with q<0.01 Iteration 4: Estimated 53669 PSMs with q<0.01 Iteration 5: Estimated 53685 PSMs with q<0.01 Iteration 6: Estimated 53688 PSMs with q<0.01 Iteration 7: Estimated 53688 PSMs with q<0.01 Iteration 8: Estimated 53688 PSMs with q<0.01 Iteration 9: Estimated 53688 PSMs with q<0.01 Iteration 10: Estimated 53688 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0736 -0.0340 -0.0220 retentiontime 0.0000 0.0000 0.0000 rank -0.1848 -0.1897 -0.1775 abs_ppm -0.1415 -0.1067 -0.1346 isotope_errors -0.6202 -0.5352 -0.4753 log10_evalue 0.4755 0.4591 0.5880 hyperscore 0.4518 0.4612 0.5692 delta_hyperscore 0.7604 0.5957 0.5910 matched_ion_num -0.8995 -0.7430 -0.7616 complementary_ions -0.1279 -0.0591 -0.0196 ion_series -0.0281 -0.0206 -0.0371 weighted_average_abs_fragment_ppm 0.2542 0.1803 0.2432 peptide_length 0.0000 0.0000 0.0000 ntt -0.1542 -0.1195 -0.1298 nmc 0.0000 0.0000 0.0000 charge_1 0.0265 0.0243 0.0424 charge_2 -0.0204 -0.0165 -0.0306 charge_3 -0.0246 -0.0297 -0.0524 charge_4 0.0107 0.0090 0.0417 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0008 -0.0424 -0.0275 15.9949M 0.5329 0.4860 0.4894 unweighted_spectral_entropy -0.5199 -0.4883 -0.4910 delta_RT_loess 2.3500 2.1998 2.4467 m0 Found 53667 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56810 target PSMs and 3493 decoy PSMs. Calculating q values. Final list yields 53667 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 20.29 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-102_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-102_percolator_decoy_psms.tsv S22049-Arjun-102_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-102_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-102_percolator_decoy_psms.tsv S22049-Arjun-102_edited.pin Started Sat Mar 4 13:10:03 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-102_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 43305 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 40894 positives and 2411 negatives, size ratio=16.9614 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 25385 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 25307 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 25459 training set positives with q<0.01 in that direction. Found 38061 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.759 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 38196 PSMs with q<0.01 Iteration 2: Estimated 38209 PSMs with q<0.01 Iteration 3: Estimated 38219 PSMs with q<0.01 Iteration 4: Estimated 38226 PSMs with q<0.01 Iteration 5: Estimated 38225 PSMs with q<0.01 Iteration 6: Estimated 38227 PSMs with q<0.01 Iteration 7: Estimated 38229 PSMs with q<0.01 Iteration 8: Estimated 38231 PSMs with q<0.01 Iteration 9: Estimated 38232 PSMs with q<0.01 Iteration 10: Estimated 38232 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1216 0.1070 0.0523 retentiontime 0.0000 0.0000 0.0000 rank -0.0910 -0.1074 -0.1221 abs_ppm -0.0745 -0.1079 -0.0967 isotope_errors 0.0166 0.1309 0.0802 log10_evalue 0.0120 -0.1776 -0.3255 hyperscore 0.7101 0.8279 0.8612 delta_hyperscore 0.7598 1.0895 1.3295 matched_ion_num -0.2722 -0.2185 -0.2411 complementary_ions -0.2248 -0.2809 -0.3863 ion_series -0.0244 -0.0334 0.0061 weighted_average_abs_fragment_ppm 0.1696 0.2183 0.2326 peptide_length 0.0000 0.0000 0.0000 ntt -0.1199 -0.1294 -0.1401 nmc 0.0000 0.0000 0.0000 charge_1 -0.0041 -0.0012 -0.0121 charge_2 0.0091 0.0066 0.0182 charge_3 -0.0327 -0.0357 -0.0394 charge_4 0.0000 0.0000 0.0000 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0128 0.0320 0.0118 15.9949M 0.8853 0.8828 0.9936 unweighted_spectral_entropy -0.2155 -0.1135 -0.1410 delta_RT_loess 1.5643 1.7114 1.8329 m0 Found 38199 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 40894 target PSMs and 2411 decoy PSMs. Calculating q values. Final list yields 38203 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 10.32 cpu seconds or 11 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-35_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-35_percolator_decoy_psms.tsv S22049-Arjun-35_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-35_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-35_percolator_decoy_psms.tsv S22049-Arjun-35_edited.pin Started Sat Mar 4 13:10:15 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-35_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60383 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 55604 positives and 4779 negatives, size ratio=11.6351 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 32996 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33091 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33133 training set positives with q<0.01 in that direction. Found 49593 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.142 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50714 PSMs with q<0.01 Iteration 2: Estimated 50905 PSMs with q<0.01 Iteration 3: Estimated 50988 PSMs with q<0.01 Iteration 4: Estimated 51030 PSMs with q<0.01 Iteration 5: Estimated 51034 PSMs with q<0.01 Iteration 6: Estimated 51038 PSMs with q<0.01 Iteration 7: Estimated 51036 PSMs with q<0.01 Iteration 8: Estimated 51037 PSMs with q<0.01 Iteration 9: Estimated 51039 PSMs with q<0.01 Iteration 10: Estimated 51039 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0287 -0.0388 0.0508 retentiontime 0.0000 0.0000 0.0000 rank -0.2638 -0.2216 -0.2455 abs_ppm -0.1244 -0.1271 -0.1040 isotope_errors -0.6299 -0.5316 -0.7358 log10_evalue 0.2169 0.7122 0.5362 hyperscore 0.7882 0.7801 0.5030 delta_hyperscore 1.2879 0.4116 0.4922 matched_ion_num -1.0251 -0.6167 -0.6835 complementary_ions -0.0319 -0.1207 -0.1314 ion_series -0.0188 -0.0266 -0.0115 weighted_average_abs_fragment_ppm 0.0932 0.1640 0.0525 peptide_length 0.0000 0.0000 0.0000 ntt -0.1351 -0.1695 -0.1328 nmc 0.0000 0.0000 0.0000 charge_1 -0.0075 0.0127 0.0013 charge_2 0.0044 -0.0112 -0.0056 charge_3 0.0124 -0.0061 0.0280 charge_4 0.0282 -0.0149 -0.0288 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0342 -0.0302 -0.0139 15.9949M 0.6346 0.6295 0.6231 unweighted_spectral_entropy -0.7058 -0.6403 -0.6113 delta_RT_loess 2.7262 2.4416 2.2414 m0 Found 51031 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 55604 target PSMs and 4779 decoy PSMs. Calculating q values. Final list yields 51034 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.35 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-113_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-113_percolator_decoy_psms.tsv S22049-Arjun-113_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-113_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-113_percolator_decoy_psms.tsv S22049-Arjun-113_edited.pin Started Sat Mar 4 13:10:32 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-113_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 53084 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 50242 positives and 2842 negatives, size ratio=17.6784 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31157 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31215 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31261 training set positives with q<0.01 in that direction. Found 46806 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.934 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47367 PSMs with q<0.01 Iteration 2: Estimated 47515 PSMs with q<0.01 Iteration 3: Estimated 47584 PSMs with q<0.01 Iteration 4: Estimated 47616 PSMs with q<0.01 Iteration 5: Estimated 47630 PSMs with q<0.01 Iteration 6: Estimated 47631 PSMs with q<0.01 Iteration 7: Estimated 47633 PSMs with q<0.01 Iteration 8: Estimated 47635 PSMs with q<0.01 Iteration 9: Estimated 47638 PSMs with q<0.01 Iteration 10: Estimated 47639 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0080 0.0700 0.0624 retentiontime 0.0000 0.0000 0.0000 rank -0.1703 -0.1761 -0.1636 abs_ppm -0.1120 -0.1055 -0.1071 isotope_errors -0.4976 -0.4672 -0.7216 log10_evalue 0.6185 0.2615 0.0121 hyperscore 0.6249 0.5692 0.5683 delta_hyperscore 0.3488 0.8146 0.7550 matched_ion_num -0.5207 -0.5119 -0.4351 complementary_ions -0.0423 -0.0190 -0.0197 ion_series 0.0021 -0.0065 0.0318 weighted_average_abs_fragment_ppm 0.1319 0.0781 0.0428 peptide_length 0.0000 0.0000 0.0000 ntt -0.0970 -0.1092 -0.0975 nmc 0.0000 0.0000 0.0000 charge_1 0.0138 0.0272 0.0087 charge_2 -0.0064 -0.0249 -0.0076 charge_3 -0.0325 -0.0099 -0.0058 charge_4 -0.0014 -0.0161 0.0047 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0571 -0.0472 -0.0339 15.9949M 0.4294 0.4457 0.4588 unweighted_spectral_entropy -0.5010 -0.5212 -0.4602 delta_RT_loess 2.3624 2.4569 2.1203 m0 Found 47620 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 50242 target PSMs and 2842 decoy PSMs. Calculating q values. Final list yields 47622 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.36 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-46_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-46_percolator_decoy_psms.tsv S22049-Arjun-46_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-46_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-46_percolator_decoy_psms.tsv S22049-Arjun-46_edited.pin Started Sat Mar 4 13:10:48 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-46_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 69582 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 64974 positives and 4608 negatives, size ratio=14.1003 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 39545 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 39563 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 39598 training set positives with q<0.01 in that direction. Found 59349 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.33 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 60396 PSMs with q<0.01 Iteration 2: Estimated 60565 PSMs with q<0.01 Iteration 3: Estimated 60617 PSMs with q<0.01 Iteration 4: Estimated 60629 PSMs with q<0.01 Iteration 5: Estimated 60641 PSMs with q<0.01 Iteration 6: Estimated 60653 PSMs with q<0.01 Iteration 7: Estimated 60652 PSMs with q<0.01 Iteration 8: Estimated 60652 PSMs with q<0.01 Iteration 9: Estimated 60660 PSMs with q<0.01 Iteration 10: Estimated 60662 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0560 0.0113 0.0243 retentiontime 0.0000 0.0000 0.0000 rank -0.2200 -0.2550 -0.2322 abs_ppm -0.0960 -0.1634 -0.1402 isotope_errors -0.5535 -0.6412 -0.3846 log10_evalue 1.1896 0.7696 0.9899 hyperscore 0.4866 0.6399 0.6048 delta_hyperscore 0.4651 0.9757 0.5884 matched_ion_num -0.8872 -1.0209 -0.8477 complementary_ions -0.0360 -0.0650 -0.1747 ion_series -0.0200 0.0099 0.0123 weighted_average_abs_fragment_ppm 0.1947 0.1981 0.1258 peptide_length 0.0000 0.0000 0.0000 ntt -0.1930 -0.1780 -0.1740 nmc 0.0000 0.0000 0.0000 charge_1 0.0110 0.0328 0.0010 charge_2 -0.0145 -0.0324 0.0043 charge_3 0.0113 -0.0200 -0.0191 charge_4 0.0033 0.0704 -0.0015 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0123 -0.0396 -0.0152 15.9949M 0.5160 0.5745 0.5475 unweighted_spectral_entropy -0.5884 -0.5240 -0.5022 delta_RT_loess 2.3572 3.0040 2.4979 m0 Found 60653 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 64974 target PSMs and 4608 decoy PSMs. Calculating q values. Final list yields 60653 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 26.51 cpu seconds or 26 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-100_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-100_percolator_decoy_psms.tsv S22049-Arjun-100_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-100_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-100_percolator_decoy_psms.tsv S22049-Arjun-100_edited.pin Started Sat Mar 4 13:11:17 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-100_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 62561 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 58984 positives and 3577 negatives, size ratio=16.4898 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36529 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36668 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36617 training set positives with q<0.01 in that direction. Found 54881 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.123 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55513 PSMs with q<0.01 Iteration 2: Estimated 55700 PSMs with q<0.01 Iteration 3: Estimated 55774 PSMs with q<0.01 Iteration 4: Estimated 55807 PSMs with q<0.01 Iteration 5: Estimated 55825 PSMs with q<0.01 Iteration 6: Estimated 55830 PSMs with q<0.01 Iteration 7: Estimated 55834 PSMs with q<0.01 Iteration 8: Estimated 55836 PSMs with q<0.01 Iteration 9: Estimated 55838 PSMs with q<0.01 Iteration 10: Estimated 55833 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0181 -0.0239 0.0072 retentiontime 0.0000 0.0000 0.0000 rank -0.1880 -0.1808 -0.1944 abs_ppm -0.1010 -0.0851 -0.1068 isotope_errors -0.4688 -0.7643 -0.6336 log10_evalue 0.9193 0.5015 0.4887 hyperscore 0.4684 0.4207 0.4254 delta_hyperscore 0.4587 0.6831 0.8274 matched_ion_num -0.8479 -0.7733 -0.9047 complementary_ions 0.0071 -0.0164 -0.0718 ion_series -0.0384 -0.0292 -0.0323 weighted_average_abs_fragment_ppm 0.1473 0.1732 0.1245 peptide_length 0.0000 0.0000 0.0000 ntt -0.1493 -0.1586 -0.1212 nmc 0.0000 0.0000 0.0000 charge_1 0.0012 0.0187 0.0283 charge_2 -0.0067 -0.0187 -0.0209 charge_3 0.0213 -0.0125 -0.0208 charge_4 -0.0181 0.0364 -0.0095 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0321 -0.0339 0.0042 15.9949M 0.4799 0.4944 0.4868 unweighted_spectral_entropy -0.5066 -0.4558 -0.4623 delta_RT_loess 2.5067 2.6226 2.4544 m0 Found 55834 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 58984 target PSMs and 3577 decoy PSMs. Calculating q values. Final list yields 55834 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.71 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-109_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-109_percolator_decoy_psms.tsv S22049-Arjun-109_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-109_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-109_percolator_decoy_psms.tsv S22049-Arjun-109_edited.pin Started Sat Mar 4 13:11:34 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-109_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 56946 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 52617 positives and 4329 negatives, size ratio=12.1545 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31464 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31565 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31557 training set positives with q<0.01 in that direction. Found 47282 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.101 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 48151 PSMs with q<0.01 Iteration 2: Estimated 48262 PSMs with q<0.01 Iteration 3: Estimated 48305 PSMs with q<0.01 Iteration 4: Estimated 48311 PSMs with q<0.01 Iteration 5: Estimated 48317 PSMs with q<0.01 Iteration 6: Estimated 48322 PSMs with q<0.01 Iteration 7: Estimated 48323 PSMs with q<0.01 Iteration 8: Estimated 48321 PSMs with q<0.01 Iteration 9: Estimated 48323 PSMs with q<0.01 Iteration 10: Estimated 48322 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0794 0.0985 0.2242 retentiontime 0.0000 0.0000 0.0000 rank -0.1943 -0.2083 -0.1626 abs_ppm -0.0598 -0.1175 -0.0680 isotope_errors -0.6895 -0.7607 -0.7290 log10_evalue 0.3689 0.2474 0.3473 hyperscore 0.4331 0.5041 0.4291 delta_hyperscore 0.5815 0.9825 0.5468 matched_ion_num -0.6849 -0.7700 -0.6148 complementary_ions 0.1163 -0.0230 0.0993 ion_series -0.0236 -0.0815 -0.0305 weighted_average_abs_fragment_ppm 0.1623 0.2277 0.0236 peptide_length 0.0000 0.0000 0.0000 ntt -0.0597 -0.1416 -0.0271 nmc 0.0000 0.0000 0.0000 charge_1 0.0168 0.0142 0.0150 charge_2 -0.0236 -0.0427 -0.0199 charge_3 0.0126 0.0915 0.0041 charge_4 0.0585 0.0706 0.0688 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0427 0.0063 0.0631 15.9949M 0.6191 0.6943 0.6108 unweighted_spectral_entropy -0.4865 -0.5272 -0.5013 delta_RT_loess 2.0045 2.3872 1.6801 m0 Found 48300 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 52617 target PSMs and 4329 decoy PSMs. Calculating q values. Final list yields 48304 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 11.76 cpu seconds or 12 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-3_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-3_percolator_decoy_psms.tsv S22049-Arjun-3_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-3_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-3_percolator_decoy_psms.tsv S22049-Arjun-3_edited.pin Started Sat Mar 4 13:11:48 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-3_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 73654 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68875 positives and 4779 negatives, size ratio=14.412 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42088 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42189 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42124 training set positives with q<0.01 in that direction. Found 63186 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.351 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 64237 PSMs with q<0.01 Iteration 2: Estimated 64470 PSMs with q<0.01 Iteration 3: Estimated 64574 PSMs with q<0.01 Iteration 4: Estimated 64599 PSMs with q<0.01 Iteration 5: Estimated 64615 PSMs with q<0.01 Iteration 6: Estimated 64619 PSMs with q<0.01 Iteration 7: Estimated 64622 PSMs with q<0.01 Iteration 8: Estimated 64620 PSMs with q<0.01 Iteration 9: Estimated 64621 PSMs with q<0.01 Iteration 10: Estimated 64621 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0863 0.0779 0.1250 retentiontime 0.0000 0.0000 0.0000 rank -0.2182 -0.2104 -0.2357 abs_ppm -0.1118 -0.0943 -0.1334 isotope_errors -0.5782 -0.7142 -0.7144 log10_evalue 0.3803 0.1039 0.1324 hyperscore 0.6385 0.5678 0.6076 delta_hyperscore 0.6666 1.0372 0.9035 matched_ion_num -0.6481 -0.5543 -0.6711 complementary_ions -0.1125 -0.1365 -0.0896 ion_series -0.0377 -0.0349 -0.0250 weighted_average_abs_fragment_ppm 0.1074 0.1953 0.1085 peptide_length 0.0000 0.0000 0.0000 ntt -0.1508 -0.2279 -0.1566 nmc 0.0000 0.0000 0.0000 charge_1 0.0032 -0.0024 0.0276 charge_2 -0.0102 0.0044 -0.0250 charge_3 0.0089 -0.0265 -0.0315 charge_4 0.0594 0.0746 0.0789 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0445 -0.0416 -0.0267 15.9949M 0.5566 0.5281 0.5425 unweighted_spectral_entropy -0.6179 -0.6491 -0.5956 delta_RT_loess 2.4820 2.1270 2.6517 m0 Found 64601 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68875 target PSMs and 4779 decoy PSMs. Calculating q values. Final list yields 64603 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.02 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-50_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-50_percolator_decoy_psms.tsv S22049-Arjun-50_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-50_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-50_percolator_decoy_psms.tsv S22049-Arjun-50_edited.pin Started Sat Mar 4 13:12:09 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-50_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72461 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67761 positives and 4700 negatives, size ratio=14.4172 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41521 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41377 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41469 training set positives with q<0.01 in that direction. Found 62154 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.525 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63238 PSMs with q<0.01 Iteration 2: Estimated 63466 PSMs with q<0.01 Iteration 3: Estimated 63544 PSMs with q<0.01 Iteration 4: Estimated 63574 PSMs with q<0.01 Iteration 5: Estimated 63573 PSMs with q<0.01 Iteration 6: Estimated 63567 PSMs with q<0.01 Iteration 7: Estimated 63565 PSMs with q<0.01 Iteration 8: Estimated 63568 PSMs with q<0.01 Iteration 9: Estimated 63566 PSMs with q<0.01 Iteration 10: Estimated 63571 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0714 0.0384 0.1144 retentiontime 0.0000 0.0000 0.0000 rank -0.1535 -0.2324 -0.1934 abs_ppm -0.1692 -0.1387 -0.1683 isotope_errors -0.7907 -0.8850 -0.6119 log10_evalue 0.2737 -0.1041 0.1926 hyperscore 0.4590 0.6129 0.5753 delta_hyperscore 1.1040 1.3751 0.7959 matched_ion_num -0.9892 -0.9144 -0.6783 complementary_ions -0.1972 -0.0944 0.1317 ion_series -0.0729 -0.0432 -0.0626 weighted_average_abs_fragment_ppm 0.0811 0.1138 0.0624 peptide_length 0.0000 0.0000 0.0000 ntt -0.1847 -0.1044 -0.1636 nmc 0.0000 0.0000 0.0000 charge_1 -0.0119 -0.0051 -0.0357 charge_2 -0.0076 0.0048 0.0207 charge_3 0.0674 0.0032 0.0395 charge_4 0.0124 -0.0087 0.0785 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0000 -0.0258 0.0102 15.9949M 0.5995 0.5164 0.5198 unweighted_spectral_entropy -0.4792 -0.4974 -0.3994 delta_RT_loess 1.9817 2.5265 1.9637 m0 Found 63525 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67761 target PSMs and 4700 decoy PSMs. Calculating q values. Final list yields 63527 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 21.32 cpu seconds or 22 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-57_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-57_percolator_decoy_psms.tsv S22049-Arjun-57_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-57_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-57_percolator_decoy_psms.tsv S22049-Arjun-57_edited.pin Started Sat Mar 4 13:12:33 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-57_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 71916 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67764 positives and 4152 negatives, size ratio=16.3208 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42029 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42084 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42058 training set positives with q<0.01 in that direction. Found 63062 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.277 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63857 PSMs with q<0.01 Iteration 2: Estimated 64052 PSMs with q<0.01 Iteration 3: Estimated 64104 PSMs with q<0.01 Iteration 4: Estimated 64128 PSMs with q<0.01 Iteration 5: Estimated 64134 PSMs with q<0.01 Iteration 6: Estimated 64139 PSMs with q<0.01 Iteration 7: Estimated 64138 PSMs with q<0.01 Iteration 8: Estimated 64142 PSMs with q<0.01 Iteration 9: Estimated 64141 PSMs with q<0.01 Iteration 10: Estimated 64141 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0203 -0.0254 0.0518 retentiontime 0.0000 0.0000 0.0000 rank -0.2081 -0.2246 -0.1970 abs_ppm -0.0945 -0.1383 -0.1186 isotope_errors -0.4488 -0.5212 -0.6569 log10_evalue 0.5564 0.9863 0.3739 hyperscore 0.4477 0.4922 0.4960 delta_hyperscore 0.8027 0.5828 1.0237 matched_ion_num -0.7854 -0.8959 -0.8482 complementary_ions -0.1491 -0.2288 -0.1420 ion_series -0.0110 -0.0445 -0.0054 weighted_average_abs_fragment_ppm 0.1270 0.1939 0.0704 peptide_length 0.0000 0.0000 0.0000 ntt -0.1347 -0.1094 -0.1217 nmc 0.0000 0.0000 0.0000 charge_1 0.0016 0.0253 0.0027 charge_2 0.0021 -0.0297 -0.0096 charge_3 -0.0074 0.0143 0.0235 charge_4 -0.0163 -0.0094 -0.0084 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0311 -0.0022 -0.0323 15.9949M 0.4965 0.5387 0.4821 unweighted_spectral_entropy -0.5140 -0.4946 -0.5034 delta_RT_loess 2.3848 2.6436 2.3674 m0 Found 64132 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67764 target PSMs and 4152 decoy PSMs. Calculating q values. Final list yields 64138 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 19.67 cpu seconds or 20 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-128_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-128_percolator_decoy_psms.tsv S22049-Arjun-128_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-128_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-128_percolator_decoy_psms.tsv S22049-Arjun-128_edited.pin Started Sat Mar 4 13:12:55 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-128_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 54582 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 51108 positives and 3474 negatives, size ratio=14.7116 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 31341 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 31399 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 31283 training set positives with q<0.01 in that direction. Found 46984 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.976 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 47791 PSMs with q<0.01 Iteration 2: Estimated 47980 PSMs with q<0.01 Iteration 3: Estimated 48074 PSMs with q<0.01 Iteration 4: Estimated 48101 PSMs with q<0.01 Iteration 5: Estimated 48101 PSMs with q<0.01 Iteration 6: Estimated 48107 PSMs with q<0.01 Iteration 7: Estimated 48107 PSMs with q<0.01 Iteration 8: Estimated 48108 PSMs with q<0.01 Iteration 9: Estimated 48107 PSMs with q<0.01 Iteration 10: Estimated 48106 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0307 0.0621 0.0986 retentiontime 0.0000 0.0000 0.0000 rank -0.2326 -0.2072 -0.2163 abs_ppm -0.0697 -0.0515 -0.0535 isotope_errors -0.3948 -0.6328 -0.4103 log10_evalue 0.7657 0.4026 0.7917 hyperscore 0.4208 0.4191 0.5154 delta_hyperscore 0.4111 0.4893 0.9006 matched_ion_num -0.6213 -0.6455 -0.7053 complementary_ions -0.0530 -0.0197 -0.2874 ion_series 0.0174 -0.0092 -0.0139 weighted_average_abs_fragment_ppm 0.2093 0.0872 0.0732 peptide_length 0.0000 0.0000 0.0000 ntt -0.1407 -0.1238 -0.1052 nmc 0.0000 0.0000 0.0000 charge_1 0.0154 0.0013 -0.0226 charge_2 -0.0181 0.0031 0.0262 charge_3 0.0139 -0.0226 -0.0168 charge_4 -0.0096 -0.0092 -0.0095 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0495 -0.0222 -0.0684 15.9949M 0.5018 0.4696 0.4540 unweighted_spectral_entropy -0.5931 -0.5516 -0.4764 delta_RT_loess 2.2415 2.1587 2.2104 m0 Found 48097 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 51108 target PSMs and 3474 decoy PSMs. Calculating q values. Final list yields 48098 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.28 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-54_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-54_percolator_decoy_psms.tsv S22049-Arjun-54_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-54_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-54_percolator_decoy_psms.tsv S22049-Arjun-54_edited.pin Started Sat Mar 4 13:13:13 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-54_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72729 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68018 positives and 4711 negatives, size ratio=14.4381 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41497 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41639 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41654 training set positives with q<0.01 in that direction. Found 62396 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.319 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63413 PSMs with q<0.01 Iteration 2: Estimated 63627 PSMs with q<0.01 Iteration 3: Estimated 63700 PSMs with q<0.01 Iteration 4: Estimated 63730 PSMs with q<0.01 Iteration 5: Estimated 63729 PSMs with q<0.01 Iteration 6: Estimated 63722 PSMs with q<0.01 Iteration 7: Estimated 63723 PSMs with q<0.01 Iteration 8: Estimated 63722 PSMs with q<0.01 Iteration 9: Estimated 63722 PSMs with q<0.01 Iteration 10: Estimated 63722 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0092 0.0537 0.0033 retentiontime 0.0000 0.0000 0.0000 rank -0.2136 -0.2184 -0.2284 abs_ppm -0.1639 -0.1276 -0.1788 isotope_errors -0.7031 -0.6504 -0.7159 log10_evalue 1.4069 0.7296 0.8469 hyperscore 0.3312 0.4981 0.4960 delta_hyperscore 0.1464 0.5924 0.5856 matched_ion_num -0.8209 -0.8185 -0.8224 complementary_ions -0.0952 -0.1917 -0.0909 ion_series -0.0253 -0.0135 -0.0382 weighted_average_abs_fragment_ppm 0.1407 0.0586 0.1819 peptide_length 0.0000 0.0000 0.0000 ntt -0.1397 -0.1444 -0.1065 nmc 0.0000 0.0000 0.0000 charge_1 0.0150 0.0019 0.0482 charge_2 -0.0192 -0.0195 -0.0533 charge_3 0.0149 0.0628 0.0146 charge_4 -0.0045 -0.0014 0.0012 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0409 -0.0275 -0.0274 15.9949M 0.5097 0.5375 0.5316 unweighted_spectral_entropy -0.4666 -0.4328 -0.4182 delta_RT_loess 2.6457 2.4049 2.3963 m0 Found 63719 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68018 target PSMs and 4711 decoy PSMs. Calculating q values. Final list yields 63721 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.63 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-111_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-111_percolator_decoy_psms.tsv S22049-Arjun-111_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-111_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-111_percolator_decoy_psms.tsv S22049-Arjun-111_edited.pin Started Sat Mar 4 13:13:33 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-111_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 59712 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 55508 positives and 4204 negatives, size ratio=13.2036 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33556 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33372 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33603 training set positives with q<0.01 in that direction. Found 50254 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.061 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51130 PSMs with q<0.01 Iteration 2: Estimated 51371 PSMs with q<0.01 Iteration 3: Estimated 51487 PSMs with q<0.01 Iteration 4: Estimated 51498 PSMs with q<0.01 Iteration 5: Estimated 51508 PSMs with q<0.01 Iteration 6: Estimated 51504 PSMs with q<0.01 Iteration 7: Estimated 51504 PSMs with q<0.01 Iteration 8: Estimated 51508 PSMs with q<0.01 Iteration 9: Estimated 51508 PSMs with q<0.01 Iteration 10: Estimated 51509 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1827 0.0493 -0.0260 retentiontime 0.0000 0.0000 0.0000 rank -0.2448 -0.2048 -0.2118 abs_ppm -0.0890 -0.0689 -0.1171 isotope_errors -0.4851 -0.7043 -0.5536 log10_evalue 0.2496 0.6660 0.6282 hyperscore 0.5066 0.4027 0.3943 delta_hyperscore 1.2120 0.6027 0.3840 matched_ion_num -0.7710 -0.8299 -0.5610 complementary_ions -0.1902 -0.0232 -0.0017 ion_series -0.0353 -0.0131 0.0041 weighted_average_abs_fragment_ppm -0.0412 0.1221 0.2055 peptide_length 0.0000 0.0000 0.0000 ntt -0.1454 -0.1212 -0.1727 nmc 0.0000 0.0000 0.0000 charge_1 -0.0379 -0.0299 0.0011 charge_2 0.0332 0.0243 0.0029 charge_3 0.0244 0.0293 -0.0182 charge_4 -0.0024 -0.0148 -0.0098 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0025 -0.0075 -0.0440 15.9949M 0.4668 0.4857 0.4868 unweighted_spectral_entropy -0.6248 -0.6008 -0.5700 delta_RT_loess 2.0679 2.0939 2.1954 m0 Found 51450 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 55508 target PSMs and 4204 decoy PSMs. Calculating q values. Final list yields 51453 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.42 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-64-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-64-2nd_percolator_decoy_psms.tsv S22049-Arjun-64-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-64-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-64-2nd_percolator_decoy_psms.tsv S22049-Arjun-64-2nd_edited.pin Started Sat Mar 4 13:13:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-64-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70957 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 66181 positives and 4776 negatives, size ratio=13.857 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40107 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40114 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40128 training set positives with q<0.01 in that direction. Found 60172 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.409 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61422 PSMs with q<0.01 Iteration 2: Estimated 61654 PSMs with q<0.01 Iteration 3: Estimated 61746 PSMs with q<0.01 Iteration 4: Estimated 61771 PSMs with q<0.01 Iteration 5: Estimated 61773 PSMs with q<0.01 Iteration 6: Estimated 61773 PSMs with q<0.01 Iteration 7: Estimated 61771 PSMs with q<0.01 Iteration 8: Estimated 61771 PSMs with q<0.01 Iteration 9: Estimated 61772 PSMs with q<0.01 Iteration 10: Estimated 61773 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0249 0.0315 0.0219 retentiontime 0.0000 0.0000 0.0000 rank -0.2098 -0.2529 -0.2314 abs_ppm -0.1223 -0.1181 -0.0852 isotope_errors -0.5913 -0.7310 -0.7994 log10_evalue 1.0087 0.5899 0.9009 hyperscore 0.4715 0.5318 0.3559 delta_hyperscore 0.4573 0.6879 0.4203 matched_ion_num -0.9076 -0.8537 -0.8560 complementary_ions -0.0574 0.1769 -0.0707 ion_series -0.0378 -0.0195 -0.0683 weighted_average_abs_fragment_ppm 0.1636 0.1547 0.1965 peptide_length 0.0000 0.0000 0.0000 ntt -0.1624 -0.1384 -0.1356 nmc 0.0000 0.0000 0.0000 charge_1 0.0072 0.0184 0.0320 charge_2 -0.0001 -0.0015 -0.0225 charge_3 -0.0267 -0.0670 -0.0478 charge_4 -0.0081 -0.0000 0.0390 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0136 -0.0292 -0.0240 15.9949M 0.5502 0.4371 0.5367 unweighted_spectral_entropy -0.6220 -0.4422 -0.5945 delta_RT_loess 2.5603 2.4690 2.5601 m0 Found 61737 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 66181 target PSMs and 4776 decoy PSMs. Calculating q values. Final list yields 61739 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.49 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-13_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-13_percolator_decoy_psms.tsv S22049-Arjun-13_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-13_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-13_percolator_decoy_psms.tsv S22049-Arjun-13_edited.pin Started Sat Mar 4 13:14:11 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-13_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64155 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59781 positives and 4374 negatives, size ratio=13.6674 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36383 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36293 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36401 training set positives with q<0.01 in that direction. Found 54525 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.15 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55551 PSMs with q<0.01 Iteration 2: Estimated 55801 PSMs with q<0.01 Iteration 3: Estimated 55905 PSMs with q<0.01 Iteration 4: Estimated 55943 PSMs with q<0.01 Iteration 5: Estimated 55943 PSMs with q<0.01 Iteration 6: Estimated 55950 PSMs with q<0.01 Iteration 7: Estimated 55953 PSMs with q<0.01 Iteration 8: Estimated 55953 PSMs with q<0.01 Iteration 9: Estimated 55954 PSMs with q<0.01 Iteration 10: Estimated 55954 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0824 0.0476 0.0653 retentiontime 0.0000 0.0000 0.0000 rank -0.1912 -0.1872 -0.1806 abs_ppm -0.1107 -0.0941 -0.1153 isotope_errors -0.6018 -0.5564 -0.6801 log10_evalue 0.4836 0.2495 0.0241 hyperscore 0.5181 0.5198 0.5022 delta_hyperscore 0.6261 0.7376 0.8766 matched_ion_num -0.7008 -0.7074 -0.7205 complementary_ions -0.0740 0.0249 -0.0692 ion_series -0.0021 0.0098 -0.0268 weighted_average_abs_fragment_ppm 0.1543 0.1362 0.1835 peptide_length 0.0000 0.0000 0.0000 ntt -0.1510 -0.1365 -0.1377 nmc 0.0000 0.0000 0.0000 charge_1 0.0042 0.0117 0.0307 charge_2 -0.0134 -0.0092 -0.0284 charge_3 0.0640 -0.0181 -0.0181 charge_4 0.0000 0.0000 0.0000 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0584 -0.0343 -0.0403 15.9949M 0.5005 0.5332 0.5492 unweighted_spectral_entropy -0.5489 -0.4723 -0.4994 delta_RT_loess 2.3871 2.2659 2.2670 m0 Found 55959 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59781 target PSMs and 4374 decoy PSMs. Calculating q values. Final list yields 55959 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 14.11 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-98_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-98_percolator_decoy_psms.tsv S22049-Arjun-98_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-98_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-98_percolator_decoy_psms.tsv S22049-Arjun-98_edited.pin Started Sat Mar 4 13:14:27 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-98_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 59091 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 55424 positives and 3667 negatives, size ratio=15.1143 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33943 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34049 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34065 training set positives with q<0.01 in that direction. Found 51017 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.069 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 51808 PSMs with q<0.01 Iteration 2: Estimated 52027 PSMs with q<0.01 Iteration 3: Estimated 52059 PSMs with q<0.01 Iteration 4: Estimated 52073 PSMs with q<0.01 Iteration 5: Estimated 52080 PSMs with q<0.01 Iteration 6: Estimated 52083 PSMs with q<0.01 Iteration 7: Estimated 52086 PSMs with q<0.01 Iteration 8: Estimated 52089 PSMs with q<0.01 Iteration 9: Estimated 52087 PSMs with q<0.01 Iteration 10: Estimated 52089 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0061 0.0672 0.0447 retentiontime 0.0000 0.0000 0.0000 rank -0.2336 -0.2101 -0.1927 abs_ppm -0.0630 -0.0997 -0.1257 isotope_errors -0.5548 -0.5255 -0.3840 log10_evalue 1.1350 0.5703 0.5406 hyperscore 0.4291 0.4726 0.5766 delta_hyperscore 0.3581 0.6550 1.0032 matched_ion_num -0.6394 -0.5568 -0.6943 complementary_ions -0.0825 -0.0756 -0.0906 ion_series 0.0242 -0.0015 -0.0006 weighted_average_abs_fragment_ppm 0.1848 0.0764 0.1655 peptide_length 0.0000 0.0000 0.0000 ntt -0.1733 -0.1241 -0.1157 nmc 0.0000 0.0000 0.0000 charge_1 0.0137 0.0052 0.0228 charge_2 -0.0253 -0.0271 -0.0302 charge_3 0.0180 0.0718 0.0245 charge_4 0.0694 -0.0029 -0.0073 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0185 -0.0156 -0.0145 15.9949M 0.4049 0.4690 0.4730 unweighted_spectral_entropy -0.3782 -0.6255 -0.5662 delta_RT_loess 1.9588 2.4488 2.6761 m0 Found 52078 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 55424 target PSMs and 3667 decoy PSMs. Calculating q values. Final list yields 52079 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.73 cpu seconds or 15 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-139_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-139_percolator_decoy_psms.tsv S22049-Arjun-139_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-139_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-139_percolator_decoy_psms.tsv S22049-Arjun-139_edited.pin Started Sat Mar 4 13:14:45 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-139_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 54043 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 50142 positives and 3901 negatives, size ratio=12.8536 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 29959 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 29981 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 29981 training set positives with q<0.01 in that direction. Found 44939 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.11 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 46011 PSMs with q<0.01 Iteration 2: Estimated 46278 PSMs with q<0.01 Iteration 3: Estimated 46377 PSMs with q<0.01 Iteration 4: Estimated 46396 PSMs with q<0.01 Iteration 5: Estimated 46391 PSMs with q<0.01 Iteration 6: Estimated 46394 PSMs with q<0.01 Iteration 7: Estimated 46395 PSMs with q<0.01 Iteration 8: Estimated 46395 PSMs with q<0.01 Iteration 9: Estimated 46396 PSMs with q<0.01 Iteration 10: Estimated 46396 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0719 -0.1032 -0.0637 retentiontime 0.0000 0.0000 0.0000 rank -0.2248 -0.2075 -0.2341 abs_ppm -0.0826 -0.1227 -0.0827 isotope_errors -0.7704 -0.7598 -0.5857 log10_evalue 0.5225 0.6962 0.6206 hyperscore 0.6706 0.6428 0.6323 delta_hyperscore 0.5465 0.2547 0.1876 matched_ion_num -0.7349 -0.6816 -0.4616 complementary_ions -0.0104 0.0824 0.0117 ion_series 0.0161 0.0174 0.0065 weighted_average_abs_fragment_ppm 0.1471 0.2553 0.2245 peptide_length 0.0000 0.0000 0.0000 ntt -0.1284 -0.1524 -0.1783 nmc 0.0000 0.0000 0.0000 charge_1 -0.0019 0.0168 -0.0012 charge_2 -0.0166 -0.0134 0.0036 charge_3 0.1089 -0.0203 -0.0184 charge_4 0.0389 -0.0150 0.0341 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0642 -0.0568 -0.0330 15.9949M 0.5054 0.4963 0.5249 unweighted_spectral_entropy -0.6314 -0.5368 -0.5814 delta_RT_loess 2.5088 2.4681 2.2766 m0 Found 46377 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 50142 target PSMs and 3901 decoy PSMs. Calculating q values. Final list yields 46377 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.58 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-42_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-42_percolator_decoy_psms.tsv S22049-Arjun-42_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-42_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-42_percolator_decoy_psms.tsv S22049-Arjun-42_edited.pin Started Sat Mar 4 13:15:05 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-42_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 70169 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 65906 positives and 4263 negatives, size ratio=15.46 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40425 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 40446 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 40337 training set positives with q<0.01 in that direction. Found 60593 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.357 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 61701 PSMs with q<0.01 Iteration 2: Estimated 61933 PSMs with q<0.01 Iteration 3: Estimated 61992 PSMs with q<0.01 Iteration 4: Estimated 62027 PSMs with q<0.01 Iteration 5: Estimated 62040 PSMs with q<0.01 Iteration 6: Estimated 62044 PSMs with q<0.01 Iteration 7: Estimated 62036 PSMs with q<0.01 Iteration 8: Estimated 62045 PSMs with q<0.01 Iteration 9: Estimated 62046 PSMs with q<0.01 Iteration 10: Estimated 62042 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0461 0.0495 -0.0088 retentiontime 0.0000 0.0000 0.0000 rank -0.2066 -0.2119 -0.2295 abs_ppm -0.1740 -0.1346 -0.1389 isotope_errors -0.4713 -0.4914 -0.7242 log10_evalue 1.0058 1.0329 0.5950 hyperscore 0.4668 0.5133 0.5032 delta_hyperscore 0.6465 0.3953 0.8233 matched_ion_num -0.8472 -0.7564 -0.9162 complementary_ions -0.1895 -0.1566 -0.1729 ion_series -0.0026 -0.0330 -0.0198 weighted_average_abs_fragment_ppm 0.1472 0.1559 0.1397 peptide_length 0.0000 0.0000 0.0000 ntt -0.1998 -0.1330 -0.1792 nmc 0.0000 0.0000 0.0000 charge_1 -0.0020 0.0294 0.0151 charge_2 0.0047 -0.0197 -0.0087 charge_3 -0.0093 -0.0336 -0.0212 charge_4 -0.0009 -0.0097 -0.0094 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0232 -0.0332 -0.0425 15.9949M 0.5094 0.4901 0.5133 unweighted_spectral_entropy -0.5334 -0.5558 -0.5520 delta_RT_loess 2.2567 2.4346 2.5784 m0 Found 62040 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 65906 target PSMs and 4263 decoy PSMs. Calculating q values. Final list yields 62040 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 17.29 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-69_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-69_percolator_decoy_psms.tsv S22049-Arjun-69_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-69_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-69_percolator_decoy_psms.tsv S22049-Arjun-69_edited.pin Started Sat Mar 4 13:15:25 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-69_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 72760 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 68003 positives and 4757 negatives, size ratio=14.2954 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 41356 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41517 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41602 training set positives with q<0.01 in that direction. Found 62239 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.43 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 63375 PSMs with q<0.01 Iteration 2: Estimated 63616 PSMs with q<0.01 Iteration 3: Estimated 63673 PSMs with q<0.01 Iteration 4: Estimated 63705 PSMs with q<0.01 Iteration 5: Estimated 63709 PSMs with q<0.01 Iteration 6: Estimated 63709 PSMs with q<0.01 Iteration 7: Estimated 63708 PSMs with q<0.01 Iteration 8: Estimated 63708 PSMs with q<0.01 Iteration 9: Estimated 63712 PSMs with q<0.01 Iteration 10: Estimated 63710 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0686 0.0445 0.0631 retentiontime 0.0000 0.0000 0.0000 rank -0.1970 -0.2348 -0.2602 abs_ppm -0.1398 -0.0949 -0.1043 isotope_errors -0.4344 -0.3429 -0.5376 log10_evalue 0.4555 0.2941 0.5451 hyperscore 0.6034 0.5326 0.5475 delta_hyperscore 0.8766 1.2309 0.7278 matched_ion_num -0.7979 -0.8923 -0.6732 complementary_ions -0.0780 -0.1273 -0.1664 ion_series -0.0251 -0.0040 -0.0277 weighted_average_abs_fragment_ppm 0.1098 0.1792 0.1299 peptide_length 0.0000 0.0000 0.0000 ntt -0.1621 -0.1211 -0.1984 nmc 0.0000 0.0000 0.0000 charge_1 0.0322 0.0636 0.0295 charge_2 -0.0290 -0.0509 -0.0320 charge_3 -0.0209 -0.0497 0.0002 charge_4 0.0340 0.0125 0.0248 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0365 -0.0206 -0.0407 15.9949M 0.5093 0.5520 0.5162 unweighted_spectral_entropy -0.5208 -0.5391 -0.5012 delta_RT_loess 2.1899 2.4377 2.1702 m0 Found 63705 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 68003 target PSMs and 4757 decoy PSMs. Calculating q values. Final list yields 63707 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 26.99 cpu seconds or 27 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-126_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-126_percolator_decoy_psms.tsv S22049-Arjun-126_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-126_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-126_percolator_decoy_psms.tsv S22049-Arjun-126_edited.pin Started Sat Mar 4 13:15:55 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-126_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 52584 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 47953 positives and 4631 negatives, size ratio=10.3548 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 28316 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 28130 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 28314 training set positives with q<0.01 in that direction. Found 42326 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.962 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 43229 PSMs with q<0.01 Iteration 2: Estimated 43367 PSMs with q<0.01 Iteration 3: Estimated 43410 PSMs with q<0.01 Iteration 4: Estimated 43429 PSMs with q<0.01 Iteration 5: Estimated 43452 PSMs with q<0.01 Iteration 6: Estimated 43476 PSMs with q<0.01 Iteration 7: Estimated 43483 PSMs with q<0.01 Iteration 8: Estimated 43487 PSMs with q<0.01 Iteration 9: Estimated 43490 PSMs with q<0.01 Iteration 10: Estimated 43492 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0033 -0.0319 0.0020 retentiontime 0.0000 0.0000 0.0000 rank -0.2604 -0.2349 -0.2647 abs_ppm -0.0780 -0.0729 -0.1145 isotope_errors -0.7582 -1.0006 -0.9139 log10_evalue 0.5014 0.5556 0.5382 hyperscore 0.4870 0.3826 0.3756 delta_hyperscore 0.7573 0.8309 0.5879 matched_ion_num -0.8471 -0.8904 -0.7821 complementary_ions 0.0483 -0.2924 -0.0809 ion_series 0.0038 -0.0138 -0.0291 weighted_average_abs_fragment_ppm 0.3263 0.2486 0.2551 peptide_length 0.0000 0.0000 0.0000 ntt -0.1322 -0.1172 -0.1736 nmc 0.0000 0.0000 0.0000 charge_1 0.0328 0.0000 0.0228 charge_2 -0.0273 -0.0286 -0.0208 charge_3 -0.0306 0.1622 -0.0107 charge_4 -0.0193 -0.0187 -0.0179 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0100 0.0093 0.0338 15.9949M 0.7010 0.8205 0.6752 unweighted_spectral_entropy -0.5849 -0.4943 -0.5004 delta_RT_loess 2.5503 2.4795 2.3690 m0 Found 43461 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 47953 target PSMs and 4631 decoy PSMs. Calculating q values. Final list yields 43464 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.61 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-17_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-17_percolator_decoy_psms.tsv S22049-Arjun-17_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-17_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-17_percolator_decoy_psms.tsv S22049-Arjun-17_edited.pin Started Sat Mar 4 13:16:10 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-17_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60785 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56651 positives and 4134 negatives, size ratio=13.7037 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34413 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34314 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34417 training set positives with q<0.01 in that direction. Found 51574 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.122 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52522 PSMs with q<0.01 Iteration 2: Estimated 52753 PSMs with q<0.01 Iteration 3: Estimated 52854 PSMs with q<0.01 Iteration 4: Estimated 52902 PSMs with q<0.01 Iteration 5: Estimated 52908 PSMs with q<0.01 Iteration 6: Estimated 52907 PSMs with q<0.01 Iteration 7: Estimated 52909 PSMs with q<0.01 Iteration 8: Estimated 52911 PSMs with q<0.01 Iteration 9: Estimated 52908 PSMs with q<0.01 Iteration 10: Estimated 52911 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.1212 0.1157 0.0829 retentiontime 0.0000 0.0000 0.0000 rank -0.2505 -0.2084 -0.2227 abs_ppm -0.0956 -0.1179 -0.1092 isotope_errors -0.4211 -0.2887 -0.6061 log10_evalue 0.6928 0.7243 0.6631 hyperscore 0.5485 0.6096 0.5192 delta_hyperscore 0.5678 0.5921 0.4889 matched_ion_num -0.5208 -0.6920 -0.6453 complementary_ions -0.1723 -0.0382 -0.1685 ion_series -0.0642 -0.0322 -0.0651 weighted_average_abs_fragment_ppm 0.2077 0.2045 0.1651 peptide_length 0.0000 0.0000 0.0000 ntt -0.0933 -0.1221 -0.1110 nmc 0.0000 0.0000 0.0000 charge_1 0.0106 0.0254 0.0117 charge_2 -0.0113 -0.0243 -0.0107 charge_3 0.0097 -0.0109 -0.0092 charge_4 -0.0121 -0.0119 -0.0135 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0165 -0.0020 -0.0012 15.9949M 0.5658 0.5693 0.5549 unweighted_spectral_entropy -0.5887 -0.4381 -0.4945 delta_RT_loess 2.1161 2.0808 2.3582 m0 Found 52888 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56651 target PSMs and 4134 decoy PSMs. Calculating q values. Final list yields 52888 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.39 cpu seconds or 19 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-94_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-94_percolator_decoy_psms.tsv S22049-Arjun-94_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-94_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-94_percolator_decoy_psms.tsv S22049-Arjun-94_edited.pin Started Sat Mar 4 13:16:31 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-94_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 60988 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 57318 positives and 3670 negatives, size ratio=15.618 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 35254 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 35338 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 35380 training set positives with q<0.01 in that direction. Found 52977 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.059 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 53608 PSMs with q<0.01 Iteration 2: Estimated 53717 PSMs with q<0.01 Iteration 3: Estimated 53807 PSMs with q<0.01 Iteration 4: Estimated 53834 PSMs with q<0.01 Iteration 5: Estimated 53839 PSMs with q<0.01 Iteration 6: Estimated 53839 PSMs with q<0.01 Iteration 7: Estimated 53838 PSMs with q<0.01 Iteration 8: Estimated 53840 PSMs with q<0.01 Iteration 9: Estimated 53841 PSMs with q<0.01 Iteration 10: Estimated 53841 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0205 0.0200 -0.0180 retentiontime 0.0000 0.0000 0.0000 rank -0.1937 -0.1441 -0.1941 abs_ppm -0.1142 -0.0568 -0.1206 isotope_errors -0.4723 -0.4497 -0.6044 log10_evalue 0.8726 0.8256 0.5442 hyperscore 0.4396 0.3549 0.3158 delta_hyperscore 0.6777 0.3543 0.7344 matched_ion_num -0.8475 -0.7089 -0.7850 complementary_ions -0.1831 0.0577 -0.1395 ion_series 0.0064 -0.0064 -0.0208 weighted_average_abs_fragment_ppm 0.1532 0.2206 0.2063 peptide_length 0.0000 0.0000 0.0000 ntt -0.1284 -0.1940 -0.1643 nmc 0.0000 0.0000 0.0000 charge_1 0.0217 0.0144 0.0201 charge_2 -0.0217 -0.0306 -0.0178 charge_3 -0.0122 0.0442 -0.0270 charge_4 0.0420 0.0378 0.0701 charge_5 -0.0100 -0.0070 -0.0095 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0281 -0.0239 -0.0214 15.9949M 0.5245 0.5542 0.5210 unweighted_spectral_entropy -0.5153 -0.4387 -0.4983 delta_RT_loess 2.4699 1.7318 2.3533 m0 Found 53815 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 57318 target PSMs and 3670 decoy PSMs. Calculating q values. Final list yields 53816 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.19 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-59-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-59-2nd_percolator_decoy_psms.tsv S22049-Arjun-59-2nd_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-59-2nd_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-59-2nd_percolator_decoy_psms.tsv S22049-Arjun-59-2nd_edited.pin Started Sat Mar 4 13:16:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-59-2nd_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 71946 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 67223 positives and 4723 negatives, size ratio=14.2331 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 40969 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 41119 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 41107 training set positives with q<0.01 in that direction. Found 61587 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.396 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 62589 PSMs with q<0.01 Iteration 2: Estimated 62792 PSMs with q<0.01 Iteration 3: Estimated 62897 PSMs with q<0.01 Iteration 4: Estimated 62925 PSMs with q<0.01 Iteration 5: Estimated 62934 PSMs with q<0.01 Iteration 6: Estimated 62939 PSMs with q<0.01 Iteration 7: Estimated 62940 PSMs with q<0.01 Iteration 8: Estimated 62946 PSMs with q<0.01 Iteration 9: Estimated 62948 PSMs with q<0.01 Iteration 10: Estimated 62948 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0294 0.0393 0.0391 retentiontime 0.0000 0.0000 0.0000 rank -0.2581 -0.2452 -0.2671 abs_ppm -0.0866 -0.0931 -0.0918 isotope_errors -0.3994 -0.6043 -0.4168 log10_evalue 0.6380 0.9026 0.9322 hyperscore 0.5271 0.5311 0.5152 delta_hyperscore 0.9016 0.7935 0.6960 matched_ion_num -0.9029 -0.9742 -0.8613 complementary_ions -0.0879 -0.1401 -0.1240 ion_series 0.0090 -0.0192 -0.0174 weighted_average_abs_fragment_ppm 0.1955 0.1742 0.1696 peptide_length 0.0000 0.0000 0.0000 ntt -0.1452 -0.1489 -0.1646 nmc 0.0000 0.0000 0.0000 charge_1 0.0404 0.0292 0.0103 charge_2 -0.0342 -0.0230 -0.0007 charge_3 -0.0193 -0.0178 -0.0275 charge_4 -0.0111 -0.0127 -0.0108 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0668 -0.0676 -0.0518 15.9949M 0.5006 0.5114 0.4788 unweighted_spectral_entropy -0.5318 -0.5320 -0.5516 delta_RT_loess 2.4658 2.7768 2.5989 m0 Found 62948 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 67223 target PSMs and 4723 decoy PSMs. Calculating q values. Final list yields 62950 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.79 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-31_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-31_percolator_decoy_psms.tsv S22049-Arjun-31_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-31_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-31_percolator_decoy_psms.tsv S22049-Arjun-31_edited.pin Started Sat Mar 4 13:17:10 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-31_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 61609 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 56816 positives and 4793 negatives, size ratio=11.854 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33915 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33860 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 33915 training set positives with q<0.01 in that direction. Found 50819 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.224 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52026 PSMs with q<0.01 Iteration 2: Estimated 52242 PSMs with q<0.01 Iteration 3: Estimated 52372 PSMs with q<0.01 Iteration 4: Estimated 52398 PSMs with q<0.01 Iteration 5: Estimated 52419 PSMs with q<0.01 Iteration 6: Estimated 52424 PSMs with q<0.01 Iteration 7: Estimated 52423 PSMs with q<0.01 Iteration 8: Estimated 52424 PSMs with q<0.01 Iteration 9: Estimated 52423 PSMs with q<0.01 Iteration 10: Estimated 52424 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0691 0.0841 0.0829 retentiontime 0.0000 0.0000 0.0000 rank -0.2465 -0.2372 -0.2449 abs_ppm -0.1123 -0.1074 -0.1096 isotope_errors -0.5286 -0.6357 -0.6605 log10_evalue 0.7106 0.5070 0.5466 hyperscore 0.6414 0.5638 0.5698 delta_hyperscore 0.5369 0.9000 0.4597 matched_ion_num -0.6584 -0.8465 -0.5992 complementary_ions -0.0827 -0.1963 -0.1056 ion_series 0.0061 -0.0185 0.0026 weighted_average_abs_fragment_ppm 0.1082 0.0974 0.0728 peptide_length 0.0000 0.0000 0.0000 ntt -0.1362 -0.1066 -0.1367 nmc 0.0000 0.0000 0.0000 charge_1 0.0218 0.0268 0.0015 charge_2 -0.0255 -0.0248 -0.0022 charge_3 0.0138 -0.0095 0.0009 charge_4 0.0158 -0.0079 0.0165 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0231 -0.0153 0.0105 15.9949M 0.5190 0.5827 0.5404 unweighted_spectral_entropy -0.6713 -0.6362 -0.6510 delta_RT_loess 2.3933 2.4199 2.2692 m0 Found 52418 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 56816 target PSMs and 4793 decoy PSMs. Calculating q values. Final list yields 52422 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.76 cpu seconds or 14 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-122_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-122_percolator_decoy_psms.tsv S22049-Arjun-122_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-122_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-122_percolator_decoy_psms.tsv S22049-Arjun-122_edited.pin Started Sat Mar 4 13:17:26 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-122_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 57106 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 53733 positives and 3373 negatives, size ratio=15.9303 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 33120 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 33165 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 32988 training set positives with q<0.01 in that direction. Found 49622 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.076 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 50411 PSMs with q<0.01 Iteration 2: Estimated 50623 PSMs with q<0.01 Iteration 3: Estimated 50719 PSMs with q<0.01 Iteration 4: Estimated 50749 PSMs with q<0.01 Iteration 5: Estimated 50747 PSMs with q<0.01 Iteration 6: Estimated 50746 PSMs with q<0.01 Iteration 7: Estimated 50744 PSMs with q<0.01 Iteration 8: Estimated 50744 PSMs with q<0.01 Iteration 9: Estimated 50744 PSMs with q<0.01 Iteration 10: Estimated 50743 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0176 0.0107 0.0603 retentiontime 0.0000 0.0000 0.0000 rank -0.2081 -0.1922 -0.2043 abs_ppm -0.0978 -0.0865 -0.1061 isotope_errors -0.7243 -0.8089 -0.6416 log10_evalue 0.6161 0.1630 0.4563 hyperscore 0.3696 0.3207 0.3614 delta_hyperscore 0.4361 0.5270 0.3818 matched_ion_num -0.5263 -0.3957 -0.4675 complementary_ions -0.0760 0.0772 -0.0539 ion_series 0.0060 -0.0048 0.0221 weighted_average_abs_fragment_ppm 0.1362 0.1988 0.1348 peptide_length 0.0000 0.0000 0.0000 ntt -0.1457 -0.0969 -0.1327 nmc 0.0000 0.0000 0.0000 charge_1 -0.0301 0.0013 -0.0212 charge_2 0.0262 -0.0040 0.0171 charge_3 0.0303 0.0193 0.0298 charge_4 -0.0202 -0.0097 -0.0084 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0440 -0.0236 -0.0465 15.9949M 0.4321 0.4090 0.4406 unweighted_spectral_entropy -0.4349 -0.4532 -0.4714 delta_RT_loess 2.4100 2.3091 2.1801 m0 Found 50740 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 53733 target PSMs and 3373 decoy PSMs. Calculating q values. Final list yields 50745 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 23.16 cpu seconds or 23 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-24_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-24_percolator_decoy_psms.tsv S22049-Arjun-24_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-24_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-24_percolator_decoy_psms.tsv S22049-Arjun-24_edited.pin Started Sat Mar 4 13:17:51 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-24_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 76440 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70761 positives and 5679 negatives, size ratio=12.4601 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42346 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42570 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42526 training set positives with q<0.01 in that direction. Found 63723 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.415 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65244 PSMs with q<0.01 Iteration 2: Estimated 65470 PSMs with q<0.01 Iteration 3: Estimated 65574 PSMs with q<0.01 Iteration 4: Estimated 65604 PSMs with q<0.01 Iteration 5: Estimated 65628 PSMs with q<0.01 Iteration 6: Estimated 65624 PSMs with q<0.01 Iteration 7: Estimated 65623 PSMs with q<0.01 Iteration 8: Estimated 65624 PSMs with q<0.01 Iteration 9: Estimated 65627 PSMs with q<0.01 Iteration 10: Estimated 65629 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0934 0.0784 0.0948 retentiontime 0.0000 0.0000 0.0000 rank -0.2558 -0.2435 -0.2578 abs_ppm -0.1291 -0.1469 -0.1451 isotope_errors -0.7177 -0.5775 -0.6123 log10_evalue 0.4809 0.7048 0.5716 hyperscore 0.5595 0.6194 0.4687 delta_hyperscore 0.4537 0.6168 0.5184 matched_ion_num -0.7931 -0.9282 -0.8187 complementary_ions 0.0018 -0.0489 0.0574 ion_series -0.0328 -0.0397 -0.0273 weighted_average_abs_fragment_ppm 0.0728 0.0804 0.0762 peptide_length 0.0000 0.0000 0.0000 ntt -0.1515 -0.1563 -0.1441 nmc 0.0000 0.0000 0.0000 charge_1 0.0078 0.0264 0.0231 charge_2 -0.0297 -0.0336 -0.0338 charge_3 0.0663 0.0130 0.0252 charge_4 0.0586 0.0513 0.0535 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0118 -0.0462 -0.0470 15.9949M 0.6266 0.5978 0.5432 unweighted_spectral_entropy -0.7295 -0.6024 -0.5791 delta_RT_loess 2.0764 2.4980 2.3316 m0 Found 65624 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70761 target PSMs and 5679 decoy PSMs. Calculating q values. Final list yields 65624 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.67 cpu seconds or 17 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-72_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-72_percolator_decoy_psms.tsv S22049-Arjun-72_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-72_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-72_percolator_decoy_psms.tsv S22049-Arjun-72_edited.pin Started Sat Mar 4 13:18:10 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-72_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 75240 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 70198 positives and 5042 negatives, size ratio=13.9226 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 42737 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 42683 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 42831 training set positives with q<0.01 in that direction. Found 64115 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.354 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 65292 PSMs with q<0.01 Iteration 2: Estimated 65556 PSMs with q<0.01 Iteration 3: Estimated 65640 PSMs with q<0.01 Iteration 4: Estimated 65658 PSMs with q<0.01 Iteration 5: Estimated 65674 PSMs with q<0.01 Iteration 6: Estimated 65677 PSMs with q<0.01 Iteration 7: Estimated 65679 PSMs with q<0.01 Iteration 8: Estimated 65679 PSMs with q<0.01 Iteration 9: Estimated 65678 PSMs with q<0.01 Iteration 10: Estimated 65679 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0075 0.0289 0.0728 retentiontime 0.0000 0.0000 0.0000 rank -0.2573 -0.2346 -0.2342 abs_ppm -0.1317 -0.1563 -0.1499 isotope_errors -0.8351 -0.7896 -0.6175 log10_evalue 0.5731 0.6830 0.6376 hyperscore 0.5460 0.5938 0.5634 delta_hyperscore 0.5806 0.3480 0.4884 matched_ion_num -0.8837 -0.8130 -0.8936 complementary_ions -0.0688 -0.0518 -0.0077 ion_series -0.0425 -0.0211 -0.0007 weighted_average_abs_fragment_ppm 0.1599 0.1156 0.0810 peptide_length 0.0000 0.0000 0.0000 ntt -0.1594 -0.1422 -0.1760 nmc 0.0000 0.0000 0.0000 charge_1 0.0266 0.0349 0.0100 charge_2 -0.0236 -0.0281 -0.0219 charge_3 -0.0103 -0.0182 0.0379 charge_4 -0.0014 -0.0159 -0.0116 charge_5 -0.0083 -0.0094 -0.0069 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0581 -0.0218 -0.0420 15.9949M 0.5321 0.5464 0.5673 unweighted_spectral_entropy -0.5616 -0.5284 -0.5207 delta_RT_loess 2.6627 2.5747 2.5124 m0 Found 65674 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 70198 target PSMs and 5042 decoy PSMs. Calculating q values. Final list yields 65675 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 18.66 cpu seconds or 18 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-39_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-39_percolator_decoy_psms.tsv S22049-Arjun-39_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-39_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-39_percolator_decoy_psms.tsv S22049-Arjun-39_edited.pin Started Sat Mar 4 13:18:31 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-39_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 58828 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 55504 positives and 3324 negatives, size ratio=16.698 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 34369 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 34557 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 34488 training set positives with q<0.01 in that direction. Found 51665 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.008 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 52374 PSMs with q<0.01 Iteration 2: Estimated 52569 PSMs with q<0.01 Iteration 3: Estimated 52608 PSMs with q<0.01 Iteration 4: Estimated 52611 PSMs with q<0.01 Iteration 5: Estimated 52608 PSMs with q<0.01 Iteration 6: Estimated 52613 PSMs with q<0.01 Iteration 7: Estimated 52617 PSMs with q<0.01 Iteration 8: Estimated 52619 PSMs with q<0.01 Iteration 9: Estimated 52620 PSMs with q<0.01 Iteration 10: Estimated 52620 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0148 0.0787 0.0124 retentiontime 0.0000 0.0000 0.0000 rank -0.1692 -0.1976 -0.2110 abs_ppm -0.0819 -0.1341 -0.0991 isotope_errors -0.4585 -0.4241 -0.4678 log10_evalue 0.7929 0.6212 1.0571 hyperscore 0.5825 0.4560 0.4607 delta_hyperscore 0.3395 0.6561 -0.0060 matched_ion_num -0.6393 -0.7081 -0.5512 complementary_ions 0.1273 -0.1133 -0.0684 ion_series 0.0070 0.0160 -0.0160 weighted_average_abs_fragment_ppm 0.0867 0.0610 0.1541 peptide_length 0.0000 0.0000 0.0000 ntt -0.0989 -0.0817 -0.1164 nmc 0.0000 0.0000 0.0000 charge_1 -0.0043 0.0187 0.0246 charge_2 -0.0086 -0.0232 -0.0346 charge_3 0.0539 0.0205 0.0422 charge_4 0.0167 -0.0101 0.0006 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0084 -0.0049 -0.0318 15.9949M 0.4237 0.4636 0.4744 unweighted_spectral_entropy -0.4248 -0.4742 -0.5042 delta_RT_loess 1.8284 2.3213 2.2570 m0 Found 52593 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 55504 target PSMs and 3324 decoy PSMs. Calculating q values. Final list yields 52593 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 28.62 cpu seconds or 29 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-28_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-28_percolator_decoy_psms.tsv S22049-Arjun-28_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-28_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-28_percolator_decoy_psms.tsv S22049-Arjun-28_edited.pin Started Sat Mar 4 13:19:02 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-28_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 78176 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 72423 positives and 5753 negatives, size ratio=12.5887 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 43473 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 43573 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 43660 training set positives with q<0.01 in that direction. Found 65320 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.398 cpu seconds or 2 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 66761 PSMs with q<0.01 Iteration 2: Estimated 66998 PSMs with q<0.01 Iteration 3: Estimated 67102 PSMs with q<0.01 Iteration 4: Estimated 67144 PSMs with q<0.01 Iteration 5: Estimated 67141 PSMs with q<0.01 Iteration 6: Estimated 67143 PSMs with q<0.01 Iteration 7: Estimated 67141 PSMs with q<0.01 Iteration 8: Estimated 67145 PSMs with q<0.01 Iteration 9: Estimated 67142 PSMs with q<0.01 Iteration 10: Estimated 67145 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0944 0.0865 0.0381 retentiontime 0.0000 0.0000 0.0000 rank -0.2095 -0.1827 -0.2301 abs_ppm -0.1362 -0.1331 -0.1399 isotope_errors -0.5365 -0.7645 -0.8915 log10_evalue 0.4865 0.1540 0.0541 hyperscore 0.4882 0.4289 0.3905 delta_hyperscore 0.6553 0.8196 0.8428 matched_ion_num -0.8013 -0.7041 -0.8735 complementary_ions 0.0023 -0.0765 0.0242 ion_series -0.0266 -0.0211 -0.0503 weighted_average_abs_fragment_ppm 0.1218 0.0700 0.1466 peptide_length 0.0000 0.0000 0.0000 ntt -0.1751 -0.1984 -0.1765 nmc 0.0000 0.0000 0.0000 charge_1 0.0079 -0.0154 0.0373 charge_2 -0.0266 -0.0026 -0.0453 charge_3 0.0608 0.0490 0.0280 charge_4 -0.0120 0.0262 -0.0196 charge_5 -0.0084 -0.0073 -0.0084 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0502 -0.0470 -0.0424 15.9949M 0.5850 0.5674 0.5495 unweighted_spectral_entropy -0.5419 -0.4687 -0.5504 delta_RT_loess 2.3399 2.0369 2.3494 m0 Found 67121 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 72423 target PSMs and 5753 decoy PSMs. Calculating q values. Final list yields 67121 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 16.48 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-87_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-87_percolator_decoy_psms.tsv S22049-Arjun-87_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-87_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-87_percolator_decoy_psms.tsv S22049-Arjun-87_edited.pin Started Sat Mar 4 13:19:21 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-87_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 67354 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 63209 positives and 4145 negatives, size ratio=15.2495 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 38664 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 38869 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 38794 training set positives with q<0.01 in that direction. Found 58151 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.076 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 59149 PSMs with q<0.01 Iteration 2: Estimated 59382 PSMs with q<0.01 Iteration 3: Estimated 59480 PSMs with q<0.01 Iteration 4: Estimated 59497 PSMs with q<0.01 Iteration 5: Estimated 59489 PSMs with q<0.01 Iteration 6: Estimated 59491 PSMs with q<0.01 Iteration 7: Estimated 59493 PSMs with q<0.01 Iteration 8: Estimated 59493 PSMs with q<0.01 Iteration 9: Estimated 59491 PSMs with q<0.01 Iteration 10: Estimated 59492 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0371 -0.0168 -0.0292 retentiontime 0.0000 0.0000 0.0000 rank -0.1940 -0.2098 -0.1860 abs_ppm -0.1276 -0.1231 -0.0969 isotope_errors -0.8141 -0.3956 -0.7247 log10_evalue 0.8052 0.8672 0.9939 hyperscore 0.4353 0.7254 0.5090 delta_hyperscore 0.3473 0.6823 -0.0973 matched_ion_num -0.8884 -1.0071 -0.7384 complementary_ions -0.0792 -0.0447 0.1288 ion_series -0.0545 -0.0494 -0.0492 weighted_average_abs_fragment_ppm 0.1785 0.1827 0.2959 peptide_length 0.0000 0.0000 0.0000 ntt -0.1851 -0.1211 -0.1848 nmc 0.0000 0.0000 0.0000 charge_1 0.0439 0.0342 0.0473 charge_2 -0.0413 -0.0177 -0.0262 charge_3 0.0004 -0.0400 -0.0460 charge_4 -0.0296 -0.0231 -0.0451 charge_5 -0.0116 -0.0063 -0.0136 charge_6 -0.0140 -0.0132 -0.0140 charge_7_or_more -0.0622 -0.0774 -0.0754 15.9949M 0.5217 0.5226 0.5495 unweighted_spectral_entropy -0.6758 -0.6851 -0.6436 delta_RT_loess 2.5615 2.4278 2.5612 m0 Found 59511 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 63209 target PSMs and 4145 decoy PSMs. Calculating q values. Final list yields 59513 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 15.84 cpu seconds or 16 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-83_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-83_percolator_decoy_psms.tsv S22049-Arjun-83_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-83_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-83_percolator_decoy_psms.tsv S22049-Arjun-83_edited.pin Started Sat Mar 4 13:19:39 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-83_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 63083 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 59163 positives and 3920 negatives, size ratio=15.0926 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 36467 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 36408 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 36232 training set positives with q<0.01 in that direction. Found 54578 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.99 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 55490 PSMs with q<0.01 Iteration 2: Estimated 55725 PSMs with q<0.01 Iteration 3: Estimated 55763 PSMs with q<0.01 Iteration 4: Estimated 55768 PSMs with q<0.01 Iteration 5: Estimated 55783 PSMs with q<0.01 Iteration 6: Estimated 55784 PSMs with q<0.01 Iteration 7: Estimated 55787 PSMs with q<0.01 Iteration 8: Estimated 55789 PSMs with q<0.01 Iteration 9: Estimated 55787 PSMs with q<0.01 Iteration 10: Estimated 55786 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName -0.0157 0.0596 -0.0459 retentiontime 0.0000 0.0000 0.0000 rank -0.1634 -0.1987 -0.2092 abs_ppm -0.0883 -0.1017 -0.1185 isotope_errors -0.6677 -0.6190 -0.6392 log10_evalue 0.6259 0.6182 0.4989 hyperscore 0.5188 0.4912 0.6071 delta_hyperscore 0.4583 0.4006 0.6792 matched_ion_num -0.8300 -0.6983 -0.8523 complementary_ions 0.0290 0.0409 0.0022 ion_series -0.0152 -0.0057 -0.0456 weighted_average_abs_fragment_ppm 0.1467 0.1057 0.1983 peptide_length 0.0000 0.0000 0.0000 ntt -0.1619 -0.1298 -0.1454 nmc 0.0000 0.0000 0.0000 charge_1 0.0282 0.0192 0.0288 charge_2 -0.0251 -0.0219 -0.0202 charge_3 -0.0159 -0.0085 -0.0329 charge_4 0.0166 0.0597 0.0169 charge_5 -0.0100 -0.0098 -0.0103 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0402 -0.0391 -0.0214 15.9949M 0.5046 0.4893 0.5017 unweighted_spectral_entropy -0.6079 -0.5539 -0.5486 delta_RT_loess 2.5026 2.4554 2.5867 m0 Found 55797 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 59163 target PSMs and 3920 decoy PSMs. Calculating q values. Final list yields 55798 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 13.33 cpu seconds or 13 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-137_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-137_percolator_decoy_psms.tsv S22049-Arjun-137_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-137_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-137_percolator_decoy_psms.tsv S22049-Arjun-137_edited.pin Started Sat Mar 4 13:19:54 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-137_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 50058 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 47077 positives and 2981 negatives, size ratio=15.7924 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 29018 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 28931 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 28919 training set positives with q<0.01 in that direction. Found 43420 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 0.794 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 44142 PSMs with q<0.01 Iteration 2: Estimated 44374 PSMs with q<0.01 Iteration 3: Estimated 44453 PSMs with q<0.01 Iteration 4: Estimated 44473 PSMs with q<0.01 Iteration 5: Estimated 44484 PSMs with q<0.01 Iteration 6: Estimated 44487 PSMs with q<0.01 Iteration 7: Estimated 44488 PSMs with q<0.01 Iteration 8: Estimated 44489 PSMs with q<0.01 Iteration 9: Estimated 44489 PSMs with q<0.01 Iteration 10: Estimated 44489 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0116 0.0408 0.0137 retentiontime 0.0000 0.0000 0.0000 rank -0.2124 -0.1777 -0.1845 abs_ppm -0.1137 -0.0899 -0.1016 isotope_errors -0.8308 -0.5407 -0.4298 log10_evalue -0.0810 0.1083 0.5072 hyperscore 0.4791 0.4613 0.4157 delta_hyperscore 0.4376 0.5073 0.2423 matched_ion_num -0.5136 -0.4786 -0.5668 complementary_ions 0.0822 0.0007 0.0474 ion_series -0.0824 -0.0457 -0.0511 weighted_average_abs_fragment_ppm 0.3036 0.2098 0.3076 peptide_length 0.0000 0.0000 0.0000 ntt -0.1313 -0.1205 -0.1421 nmc 0.0000 0.0000 0.0000 charge_1 0.0413 0.0065 0.0309 charge_2 -0.0549 -0.0163 -0.0357 charge_3 0.0903 0.0664 0.0318 charge_4 -0.0143 -0.0129 -0.0129 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more 0.0249 -0.0211 -0.0169 15.9949M 0.5028 0.4885 0.4989 unweighted_spectral_entropy -0.5437 -0.4767 -0.4901 delta_RT_loess 2.2583 2.0422 2.0487 m0 Found 44458 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 47077 target PSMs and 2981 decoy PSMs. Calculating q values. Final list yields 44459 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 11.65 cpu seconds or 12 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-5_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-5_percolator_decoy_psms.tsv S22049-Arjun-5_edited.pin Percolator version 3.05.0, Build Date May 18 2020 02:35:01 Copyright (c) 2006-9 University of Washington. All rights reserved. Written by Lukas Käll (lukall@u.washington.edu) in the Department of Genome Sciences at the University of Washington. Issued command: D:\JAM\fragpipe\tools\percolator-305\percolator.exe --only-psms --no-terminate --post-processing-tdc --num-threads 7 --results-psms S22049-Arjun-5_percolator_target_psms.tsv --decoy-results-psms S22049-Arjun-5_percolator_decoy_psms.tsv S22049-Arjun-5_edited.pin Started Sat Mar 4 13:20:08 2023 Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 Reading tab-delimited input from datafile S22049-Arjun-5_edited.pin Features: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc charge_1 charge_2 charge_3 charge_4 charge_5 charge_6 charge_7_or_more 15.9949M unweighted_spectral_entropy delta_RT_loess Found 64752 PSMs Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. Train/test set contains 60708 positives and 4044 negatives, size ratio=15.0119 and pi0=1 Selecting Cpos by cross-validation. Selecting Cneg by cross-validation. Split 1: Selected feature 23 as initial direction. Could separate 37312 training set positives with q<0.01 in that direction. Split 2: Selected feature 23 as initial direction. Could separate 37467 training set positives with q<0.01 in that direction. Split 3: Selected feature 23 as initial direction. Could separate 37381 training set positives with q<0.01 in that direction. Found 56065 test set positives with q<0.01 in initial direction Reading in data and feature calculation took 1.057 cpu seconds or 1 seconds wall clock time. ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 Iteration 1: Estimated 56929 PSMs with q<0.01 Iteration 2: Estimated 57163 PSMs with q<0.01 Iteration 3: Estimated 57319 PSMs with q<0.01 Iteration 4: Estimated 57379 PSMs with q<0.01 Iteration 5: Estimated 57398 PSMs with q<0.01 Iteration 6: Estimated 57404 PSMs with q<0.01 Iteration 7: Estimated 57407 PSMs with q<0.01 Iteration 8: Estimated 57407 PSMs with q<0.01 Iteration 9: Estimated 57409 PSMs with q<0.01 Iteration 10: Estimated 57408 PSMs with q<0.01 Learned normalized SVM weights for the 3 cross-validation splits: Split1 Split2 Split3 FeatureName 0.0751 0.0499 0.1266 retentiontime 0.0000 0.0000 0.0000 rank -0.2206 -0.2276 -0.2074 abs_ppm -0.0859 -0.1049 -0.1084 isotope_errors -0.5323 -0.6679 -0.5363 log10_evalue 0.2071 0.0426 0.1602 hyperscore 0.4568 0.3959 0.4503 delta_hyperscore 0.7238 1.0377 0.6958 matched_ion_num -0.5828 -0.6409 -0.5992 complementary_ions -0.1326 -0.2059 -0.0631 ion_series 0.0034 0.0089 -0.0234 weighted_average_abs_fragment_ppm 0.1323 0.1287 0.1090 peptide_length 0.0000 0.0000 0.0000 ntt -0.1088 -0.0889 -0.1018 nmc 0.0000 0.0000 0.0000 charge_1 -0.0037 0.0100 0.0064 charge_2 0.0025 -0.0145 -0.0073 charge_3 0.0088 0.0268 0.0049 charge_4 -0.0118 -0.0004 0.0006 charge_5 0.0000 0.0000 0.0000 charge_6 0.0000 0.0000 0.0000 charge_7_or_more -0.0652 -0.0583 -0.0517 15.9949M 0.4745 0.4734 0.5064 unweighted_spectral_entropy -0.5747 -0.5339 -0.5771 delta_RT_loess 2.1304 2.2879 2.1670 m0 Found 57419 test set PSMs with q<0.01. Selected best-scoring PSM per scan+expMass (target-decoy competition): 60708 target PSMs and 4044 decoy PSMs. Calculating q values. Final list yields 57421 target PSMs with q<0.01. Calculating posterior error probabilities (PEPs). Processing took 25.37 cpu seconds or 25 seconds wall clock time. Process 'Percolator' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-21.pin S22049-Arjun-21 S22049-Arjun-21_percolator_target_psms.tsv S22049-Arjun-21_percolator_decoy_psms.tsv interact-S22049-Arjun-21 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\S22049-Arjun-21_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-120.pin S22049-Arjun-120 S22049-Arjun-120_percolator_target_psms.tsv S22049-Arjun-120_percolator_decoy_psms.tsv interact-S22049-Arjun-120 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\S22049-Arjun-120_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-34.pin S22049-Arjun-34 S22049-Arjun-34_percolator_target_psms.tsv S22049-Arjun-34_percolator_decoy_psms.tsv interact-S22049-Arjun-34 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\S22049-Arjun-34_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-75.pin S22049-Arjun-75 S22049-Arjun-75_percolator_target_psms.tsv S22049-Arjun-75_percolator_decoy_psms.tsv interact-S22049-Arjun-75 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\S22049-Arjun-75_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-116.pin S22049-Arjun-116 S22049-Arjun-116_percolator_target_psms.tsv S22049-Arjun-116_percolator_decoy_psms.tsv interact-S22049-Arjun-116 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\S22049-Arjun-116_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-47.pin S22049-Arjun-47 S22049-Arjun-47_percolator_target_psms.tsv S22049-Arjun-47_percolator_decoy_psms.tsv interact-S22049-Arjun-47 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\S22049-Arjun-47_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-90.pin S22049-Arjun-90 S22049-Arjun-90_percolator_target_psms.tsv S22049-Arjun-90_percolator_decoy_psms.tsv interact-S22049-Arjun-90 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\S22049-Arjun-90_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-135.pin S22049-Arjun-135 S22049-Arjun-135_percolator_target_psms.tsv S22049-Arjun-135_percolator_decoy_psms.tsv interact-S22049-Arjun-135 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\S22049-Arjun-135_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-131.pin S22049-Arjun-131 S22049-Arjun-131_percolator_target_psms.tsv S22049-Arjun-131_percolator_decoy_psms.tsv interact-S22049-Arjun-131 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\S22049-Arjun-131_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-108.pin S22049-Arjun-108 S22049-Arjun-108_percolator_target_psms.tsv S22049-Arjun-108_percolator_decoy_psms.tsv interact-S22049-Arjun-108 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\S22049-Arjun-108_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-66-2nd.pin S22049-Arjun-66-2nd S22049-Arjun-66-2nd_percolator_target_psms.tsv S22049-Arjun-66-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-66-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\S22049-Arjun-66-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-127.pin S22049-Arjun-127 S22049-Arjun-127_percolator_target_psms.tsv S22049-Arjun-127_percolator_decoy_psms.tsv interact-S22049-Arjun-127 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\S22049-Arjun-127_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-58-2nd.pin S22049-Arjun-58-2nd S22049-Arjun-58-2nd_percolator_target_psms.tsv S22049-Arjun-58-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-58-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\S22049-Arjun-58-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-53.pin S22049-Arjun-53 S22049-Arjun-53_percolator_target_psms.tsv S22049-Arjun-53_percolator_decoy_psms.tsv interact-S22049-Arjun-53 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\S22049-Arjun-53_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-7.pin S22049-Arjun-7 S22049-Arjun-7_percolator_target_psms.tsv S22049-Arjun-7_percolator_decoy_psms.tsv interact-S22049-Arjun-7 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\S22049-Arjun-7_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-101.pin S22049-Arjun-101 S22049-Arjun-101_percolator_target_psms.tsv S22049-Arjun-101_percolator_decoy_psms.tsv interact-S22049-Arjun-101 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\S22049-Arjun-101_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-56.pin S22049-Arjun-56 S22049-Arjun-56_percolator_target_psms.tsv S22049-Arjun-56_percolator_decoy_psms.tsv interact-S22049-Arjun-56 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\S22049-Arjun-56_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-119.pin S22049-Arjun-119 S22049-Arjun-119_percolator_target_psms.tsv S22049-Arjun-119_percolator_decoy_psms.tsv interact-S22049-Arjun-119 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\S22049-Arjun-119_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-29.pin S22049-Arjun-29 S22049-Arjun-29_percolator_target_psms.tsv S22049-Arjun-29_percolator_decoy_psms.tsv interact-S22049-Arjun-29 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\S22049-Arjun-29_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-143.pin S22049-Arjun-143 S22049-Arjun-143_percolator_target_psms.tsv S22049-Arjun-143_percolator_decoy_psms.tsv interact-S22049-Arjun-143 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\S22049-Arjun-143_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-43.pin S22049-Arjun-43 S22049-Arjun-43_percolator_target_psms.tsv S22049-Arjun-43_percolator_decoy_psms.tsv interact-S22049-Arjun-43 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\S22049-Arjun-43_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-12.pin S22049-Arjun-12 S22049-Arjun-12_percolator_target_psms.tsv S22049-Arjun-12_percolator_decoy_psms.tsv interact-S22049-Arjun-12 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\S22049-Arjun-12_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-97.pin S22049-Arjun-97 S22049-Arjun-97_percolator_target_psms.tsv S22049-Arjun-97_percolator_decoy_psms.tsv interact-S22049-Arjun-97 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\S22049-Arjun-97_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-16.pin S22049-Arjun-16 S22049-Arjun-16_percolator_target_psms.tsv S22049-Arjun-16_percolator_decoy_psms.tsv interact-S22049-Arjun-16 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\S22049-Arjun-16_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-93.pin S22049-Arjun-93 S22049-Arjun-93_percolator_target_psms.tsv S22049-Arjun-93_percolator_decoy_psms.tsv interact-S22049-Arjun-93 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\S22049-Arjun-93_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-71.pin S22049-Arjun-71 S22049-Arjun-71_percolator_target_psms.tsv S22049-Arjun-71_percolator_decoy_psms.tsv interact-S22049-Arjun-71 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\S22049-Arjun-71_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-25.pin S22049-Arjun-25 S22049-Arjun-25_percolator_target_psms.tsv S22049-Arjun-25_percolator_decoy_psms.tsv interact-S22049-Arjun-25 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\S22049-Arjun-25_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-104.pin S22049-Arjun-104 S22049-Arjun-104_percolator_target_psms.tsv S22049-Arjun-104_percolator_decoy_psms.tsv interact-S22049-Arjun-104 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\S22049-Arjun-104_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-30.pin S22049-Arjun-30 S22049-Arjun-30_percolator_target_psms.tsv S22049-Arjun-30_percolator_decoy_psms.tsv interact-S22049-Arjun-30 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\S22049-Arjun-30_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-65-2nd.pin S22049-Arjun-65-2nd S22049-Arjun-65-2nd_percolator_target_psms.tsv S22049-Arjun-65-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-65-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\S22049-Arjun-65-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-79.pin S22049-Arjun-79 S22049-Arjun-79_percolator_target_psms.tsv S22049-Arjun-79_percolator_decoy_psms.tsv interact-S22049-Arjun-79 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\S22049-Arjun-79_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-38.pin S22049-Arjun-38 S22049-Arjun-38_percolator_target_psms.tsv S22049-Arjun-38_percolator_decoy_psms.tsv interact-S22049-Arjun-38 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\S22049-Arjun-38_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-88.pin S22049-Arjun-88 S22049-Arjun-88_percolator_target_psms.tsv S22049-Arjun-88_percolator_decoy_psms.tsv interact-S22049-Arjun-88 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\S22049-Arjun-88_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-142.pin S22049-Arjun-142 S22049-Arjun-142_percolator_target_psms.tsv S22049-Arjun-142_percolator_decoy_psms.tsv interact-S22049-Arjun-142 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\S22049-Arjun-142_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-80.pin S22049-Arjun-80 S22049-Arjun-80_percolator_target_psms.tsv S22049-Arjun-80_percolator_decoy_psms.tsv interact-S22049-Arjun-80 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\S22049-Arjun-80_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-105.pin S22049-Arjun-105 S22049-Arjun-105_percolator_target_psms.tsv S22049-Arjun-105_percolator_decoy_psms.tsv interact-S22049-Arjun-105 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\S22049-Arjun-105_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-1.pin S22049-Arjun-1 S22049-Arjun-1_percolator_target_psms.tsv S22049-Arjun-1_percolator_decoy_psms.tsv interact-S22049-Arjun-1 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\S22049-Arjun-1_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\S22049-Arjun-1_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-22.pin S22049-Arjun-22 S22049-Arjun-22_percolator_target_psms.tsv S22049-Arjun-22_percolator_decoy_psms.tsv interact-S22049-Arjun-22 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\S22049-Arjun-22_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-89.pin S22049-Arjun-89 S22049-Arjun-89_percolator_target_psms.tsv S22049-Arjun-89_percolator_decoy_psms.tsv interact-S22049-Arjun-89 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\S22049-Arjun-89_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-37.pin S22049-Arjun-37 S22049-Arjun-37_percolator_target_psms.tsv S22049-Arjun-37_percolator_decoy_psms.tsv interact-S22049-Arjun-37 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\S22049-Arjun-37_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-134.pin S22049-Arjun-134 S22049-Arjun-134_percolator_target_psms.tsv S22049-Arjun-134_percolator_decoy_psms.tsv interact-S22049-Arjun-134 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\S22049-Arjun-134_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-74.pin S22049-Arjun-74 S22049-Arjun-74_percolator_target_psms.tsv S22049-Arjun-74_percolator_decoy_psms.tsv interact-S22049-Arjun-74 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\S22049-Arjun-74_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-48.pin S22049-Arjun-48 S22049-Arjun-48_percolator_target_psms.tsv S22049-Arjun-48_percolator_decoy_psms.tsv interact-S22049-Arjun-48 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\S22049-Arjun-48_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-121.pin S22049-Arjun-121 S22049-Arjun-121_percolator_target_psms.tsv S22049-Arjun-121_percolator_decoy_psms.tsv interact-S22049-Arjun-121 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\S22049-Arjun-121_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-6.pin S22049-Arjun-6 S22049-Arjun-6_percolator_target_psms.tsv S22049-Arjun-6_percolator_decoy_psms.tsv interact-S22049-Arjun-6 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\S22049-Arjun-6_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-140.pin S22049-Arjun-140 S22049-Arjun-140_percolator_target_psms.tsv S22049-Arjun-140_percolator_decoy_psms.tsv interact-S22049-Arjun-140 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\S22049-Arjun-140_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-11.pin S22049-Arjun-11 S22049-Arjun-11_percolator_target_psms.tsv S22049-Arjun-11_percolator_decoy_psms.tsv interact-S22049-Arjun-11 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\S22049-Arjun-11_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-84-2nd.pin S22049-Arjun-84-2nd S22049-Arjun-84-2nd_percolator_target_psms.tsv S22049-Arjun-84-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-84-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\S22049-Arjun-84-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-132.pin S22049-Arjun-132 S22049-Arjun-132_percolator_target_psms.tsv S22049-Arjun-132_percolator_decoy_psms.tsv interact-S22049-Arjun-132 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\S22049-Arjun-132_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-52.pin S22049-Arjun-52 S22049-Arjun-52_percolator_target_psms.tsv S22049-Arjun-52_percolator_decoy_psms.tsv interact-S22049-Arjun-52 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\S22049-Arjun-52_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-15.pin S22049-Arjun-15 S22049-Arjun-15_percolator_target_psms.tsv S22049-Arjun-15_percolator_decoy_psms.tsv interact-S22049-Arjun-15 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\S22049-Arjun-15_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-81.pin S22049-Arjun-81 S22049-Arjun-81_percolator_target_psms.tsv S22049-Arjun-81_percolator_decoy_psms.tsv interact-S22049-Arjun-81 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\S22049-Arjun-81_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-138.pin S22049-Arjun-138 S22049-Arjun-138_percolator_target_psms.tsv S22049-Arjun-138_percolator_decoy_psms.tsv interact-S22049-Arjun-138 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\S22049-Arjun-138_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-125.pin S22049-Arjun-125 S22049-Arjun-125_percolator_target_psms.tsv S22049-Arjun-125_percolator_decoy_psms.tsv interact-S22049-Arjun-125 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\S22049-Arjun-125_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-67.pin S22049-Arjun-67 S22049-Arjun-67_percolator_target_psms.tsv S22049-Arjun-67_percolator_decoy_psms.tsv interact-S22049-Arjun-67 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\S22049-Arjun-67_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-44.pin S22049-Arjun-44 S22049-Arjun-44_percolator_target_psms.tsv S22049-Arjun-44_percolator_decoy_psms.tsv interact-S22049-Arjun-44 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\S22049-Arjun-44_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-4.pin S22049-Arjun-4 S22049-Arjun-4_percolator_target_psms.tsv S22049-Arjun-4_percolator_decoy_psms.tsv interact-S22049-Arjun-4 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\S22049-Arjun-4_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-112.pin S22049-Arjun-112 S22049-Arjun-112_percolator_target_psms.tsv S22049-Arjun-112_percolator_decoy_psms.tsv interact-S22049-Arjun-112 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\S22049-Arjun-112_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-40.pin S22049-Arjun-40 S22049-Arjun-40_percolator_target_psms.tsv S22049-Arjun-40_percolator_decoy_psms.tsv interact-S22049-Arjun-40 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\S22049-Arjun-40_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-19.pin S22049-Arjun-19 S22049-Arjun-19_percolator_target_psms.tsv S22049-Arjun-19_percolator_decoy_psms.tsv interact-S22049-Arjun-19 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\S22049-Arjun-19_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-96.pin S22049-Arjun-96 S22049-Arjun-96_percolator_target_psms.tsv S22049-Arjun-96_percolator_decoy_psms.tsv interact-S22049-Arjun-96 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\S22049-Arjun-96_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-92.pin S22049-Arjun-92 S22049-Arjun-92_percolator_target_psms.tsv S22049-Arjun-92_percolator_decoy_psms.tsv interact-S22049-Arjun-92 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\S22049-Arjun-92_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-85.pin S22049-Arjun-85 S22049-Arjun-85_percolator_target_psms.tsv S22049-Arjun-85_percolator_decoy_psms.tsv interact-S22049-Arjun-85 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\S22049-Arjun-85_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-26.pin S22049-Arjun-26 S22049-Arjun-26_percolator_target_psms.tsv S22049-Arjun-26_percolator_decoy_psms.tsv interact-S22049-Arjun-26 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\S22049-Arjun-26_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-136.pin S22049-Arjun-136 S22049-Arjun-136_percolator_target_psms.tsv S22049-Arjun-136_percolator_decoy_psms.tsv interact-S22049-Arjun-136 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\S22049-Arjun-136_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-70.pin S22049-Arjun-70 S22049-Arjun-70_percolator_target_psms.tsv S22049-Arjun-70_percolator_decoy_psms.tsv interact-S22049-Arjun-70 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\S22049-Arjun-70_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-123.pin S22049-Arjun-123 S22049-Arjun-123_percolator_target_psms.tsv S22049-Arjun-123_percolator_decoy_psms.tsv interact-S22049-Arjun-123 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\S22049-Arjun-123_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-33.pin S22049-Arjun-33 S22049-Arjun-33_percolator_target_psms.tsv S22049-Arjun-33_percolator_decoy_psms.tsv interact-S22049-Arjun-33 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\S22049-Arjun-33_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-78.pin S22049-Arjun-78 S22049-Arjun-78_percolator_target_psms.tsv S22049-Arjun-78_percolator_decoy_psms.tsv interact-S22049-Arjun-78 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\S22049-Arjun-78_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-110.pin S22049-Arjun-110 S22049-Arjun-110_percolator_target_psms.tsv S22049-Arjun-110_percolator_decoy_psms.tsv interact-S22049-Arjun-110 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\S22049-Arjun-110_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-49.pin S22049-Arjun-49 S22049-Arjun-49_percolator_target_psms.tsv S22049-Arjun-49_percolator_decoy_psms.tsv interact-S22049-Arjun-49 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\S22049-Arjun-49_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-129.pin S22049-Arjun-129 S22049-Arjun-129_percolator_target_psms.tsv S22049-Arjun-129_percolator_decoy_psms.tsv interact-S22049-Arjun-129 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\S22049-Arjun-129_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-77.pin S22049-Arjun-77 S22049-Arjun-77_percolator_target_psms.tsv S22049-Arjun-77_percolator_decoy_psms.tsv interact-S22049-Arjun-77 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\S22049-Arjun-77_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-36.pin S22049-Arjun-36 S22049-Arjun-36_percolator_target_psms.tsv S22049-Arjun-36_percolator_decoy_psms.tsv interact-S22049-Arjun-36 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\S22049-Arjun-36_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-103.pin S22049-Arjun-103 S22049-Arjun-103_percolator_target_psms.tsv S22049-Arjun-103_percolator_decoy_psms.tsv interact-S22049-Arjun-103 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\S22049-Arjun-103_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-2.pin S22049-Arjun-2 S22049-Arjun-2_percolator_target_psms.tsv S22049-Arjun-2_percolator_decoy_psms.tsv interact-S22049-Arjun-2 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\S22049-Arjun-2_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-51.pin S22049-Arjun-51 S22049-Arjun-51_percolator_target_psms.tsv S22049-Arjun-51_percolator_decoy_psms.tsv interact-S22049-Arjun-51 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\S22049-Arjun-51_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-60-2nd.pin S22049-Arjun-60-2nd S22049-Arjun-60-2nd_percolator_target_psms.tsv S22049-Arjun-60-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-60-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\S22049-Arjun-60-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-10.pin S22049-Arjun-10 S22049-Arjun-10_percolator_target_psms.tsv S22049-Arjun-10_percolator_decoy_psms.tsv interact-S22049-Arjun-10 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\S22049-Arjun-10_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\S22049-Arjun-10_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-45.pin S22049-Arjun-45 S22049-Arjun-45_percolator_target_psms.tsv S22049-Arjun-45_percolator_decoy_psms.tsv interact-S22049-Arjun-45 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\S22049-Arjun-45_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-114.pin S22049-Arjun-114 S22049-Arjun-114_percolator_target_psms.tsv S22049-Arjun-114_percolator_decoy_psms.tsv interact-S22049-Arjun-114 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\S22049-Arjun-114_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-133.pin S22049-Arjun-133 S22049-Arjun-133_percolator_target_psms.tsv S22049-Arjun-133_percolator_decoy_psms.tsv interact-S22049-Arjun-133 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\S22049-Arjun-133_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-55.pin S22049-Arjun-55 S22049-Arjun-55_percolator_target_psms.tsv S22049-Arjun-55_percolator_decoy_psms.tsv interact-S22049-Arjun-55 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\S22049-Arjun-55_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-41.pin S22049-Arjun-41 S22049-Arjun-41_percolator_target_psms.tsv S22049-Arjun-41_percolator_decoy_psms.tsv interact-S22049-Arjun-41 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\S22049-Arjun-41_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-106.pin S22049-Arjun-106 S22049-Arjun-106_percolator_target_psms.tsv S22049-Arjun-106_percolator_decoy_psms.tsv interact-S22049-Arjun-106 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\S22049-Arjun-106_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-62-2nd.pin S22049-Arjun-62-2nd S22049-Arjun-62-2nd_percolator_target_psms.tsv S22049-Arjun-62-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-62-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\S22049-Arjun-62-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-130.pin S22049-Arjun-130 S22049-Arjun-130_percolator_target_psms.tsv S22049-Arjun-130_percolator_decoy_psms.tsv interact-S22049-Arjun-130 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\S22049-Arjun-130_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-107.pin S22049-Arjun-107 S22049-Arjun-107_percolator_target_psms.tsv S22049-Arjun-107_percolator_decoy_psms.tsv interact-S22049-Arjun-107 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\S22049-Arjun-107_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-68.pin S22049-Arjun-68 S22049-Arjun-68_percolator_target_psms.tsv S22049-Arjun-68_percolator_decoy_psms.tsv interact-S22049-Arjun-68 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\S22049-Arjun-68_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-14.pin S22049-Arjun-14 S22049-Arjun-14_percolator_target_psms.tsv S22049-Arjun-14_percolator_decoy_psms.tsv interact-S22049-Arjun-14 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\S22049-Arjun-14_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-144.pin S22049-Arjun-144 S22049-Arjun-144_percolator_target_psms.tsv S22049-Arjun-144_percolator_decoy_psms.tsv interact-S22049-Arjun-144 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\S22049-Arjun-144_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-8.pin S22049-Arjun-8 S22049-Arjun-8_percolator_target_psms.tsv S22049-Arjun-8_percolator_decoy_psms.tsv interact-S22049-Arjun-8 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\S22049-Arjun-8_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-99.pin S22049-Arjun-99 S22049-Arjun-99_percolator_target_psms.tsv S22049-Arjun-99_percolator_decoy_psms.tsv interact-S22049-Arjun-99 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\S22049-Arjun-99_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-18.pin S22049-Arjun-18 S22049-Arjun-18_percolator_target_psms.tsv S22049-Arjun-18_percolator_decoy_psms.tsv interact-S22049-Arjun-18 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\S22049-Arjun-18_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-95.pin S22049-Arjun-95 S22049-Arjun-95_percolator_target_psms.tsv S22049-Arjun-95_percolator_decoy_psms.tsv interact-S22049-Arjun-95 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\S22049-Arjun-95_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-117.pin S22049-Arjun-117 S22049-Arjun-117_percolator_target_psms.tsv S22049-Arjun-117_percolator_decoy_psms.tsv interact-S22049-Arjun-117 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\S22049-Arjun-117_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-91.pin S22049-Arjun-91 S22049-Arjun-91_percolator_target_psms.tsv S22049-Arjun-91_percolator_decoy_psms.tsv interact-S22049-Arjun-91 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\S22049-Arjun-91_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-86.pin S22049-Arjun-86 S22049-Arjun-86_percolator_target_psms.tsv S22049-Arjun-86_percolator_decoy_psms.tsv interact-S22049-Arjun-86 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\S22049-Arjun-86_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-32.pin S22049-Arjun-32 S22049-Arjun-32_percolator_target_psms.tsv S22049-Arjun-32_percolator_decoy_psms.tsv interact-S22049-Arjun-32 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\S22049-Arjun-32_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-141.pin S22049-Arjun-141 S22049-Arjun-141_percolator_target_psms.tsv S22049-Arjun-141_percolator_decoy_psms.tsv interact-S22049-Arjun-141 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\S22049-Arjun-141_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-73.pin S22049-Arjun-73 S22049-Arjun-73_percolator_target_psms.tsv S22049-Arjun-73_percolator_decoy_psms.tsv interact-S22049-Arjun-73 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\S22049-Arjun-73_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-23.pin S22049-Arjun-23 S22049-Arjun-23_percolator_target_psms.tsv S22049-Arjun-23_percolator_decoy_psms.tsv interact-S22049-Arjun-23 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\S22049-Arjun-23_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-118.pin S22049-Arjun-118 S22049-Arjun-118_percolator_target_psms.tsv S22049-Arjun-118_percolator_decoy_psms.tsv interact-S22049-Arjun-118 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\S22049-Arjun-118_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-61-2nd.pin S22049-Arjun-61-2nd S22049-Arjun-61-2nd_percolator_target_psms.tsv S22049-Arjun-61-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-61-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\S22049-Arjun-61-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-9.pin S22049-Arjun-9 S22049-Arjun-9_percolator_target_psms.tsv S22049-Arjun-9_percolator_decoy_psms.tsv interact-S22049-Arjun-9 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\S22049-Arjun-9_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-27.pin S22049-Arjun-27 S22049-Arjun-27_percolator_target_psms.tsv S22049-Arjun-27_percolator_decoy_psms.tsv interact-S22049-Arjun-27 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\S22049-Arjun-27_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-82.pin S22049-Arjun-82 S22049-Arjun-82_percolator_target_psms.tsv S22049-Arjun-82_percolator_decoy_psms.tsv interact-S22049-Arjun-82 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\S22049-Arjun-82_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-63-2nd.pin S22049-Arjun-63-2nd S22049-Arjun-63-2nd_percolator_target_psms.tsv S22049-Arjun-63-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-63-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\S22049-Arjun-63-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-115.pin S22049-Arjun-115 S22049-Arjun-115_percolator_target_psms.tsv S22049-Arjun-115_percolator_decoy_psms.tsv interact-S22049-Arjun-115 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\S22049-Arjun-115_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-20.pin S22049-Arjun-20 S22049-Arjun-20_percolator_target_psms.tsv S22049-Arjun-20_percolator_decoy_psms.tsv interact-S22049-Arjun-20 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\S22049-Arjun-20_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-76.pin S22049-Arjun-76 S22049-Arjun-76_percolator_target_psms.tsv S22049-Arjun-76_percolator_decoy_psms.tsv interact-S22049-Arjun-76 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\S22049-Arjun-76_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-102.pin S22049-Arjun-102 S22049-Arjun-102_percolator_target_psms.tsv S22049-Arjun-102_percolator_decoy_psms.tsv interact-S22049-Arjun-102 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\S22049-Arjun-102_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-35.pin S22049-Arjun-35 S22049-Arjun-35_percolator_target_psms.tsv S22049-Arjun-35_percolator_decoy_psms.tsv interact-S22049-Arjun-35 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\S22049-Arjun-35_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-113.pin S22049-Arjun-113 S22049-Arjun-113_percolator_target_psms.tsv S22049-Arjun-113_percolator_decoy_psms.tsv interact-S22049-Arjun-113 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\S22049-Arjun-113_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-46.pin S22049-Arjun-46 S22049-Arjun-46_percolator_target_psms.tsv S22049-Arjun-46_percolator_decoy_psms.tsv interact-S22049-Arjun-46 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\S22049-Arjun-46_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-100.pin S22049-Arjun-100 S22049-Arjun-100_percolator_target_psms.tsv S22049-Arjun-100_percolator_decoy_psms.tsv interact-S22049-Arjun-100 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\S22049-Arjun-100_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-109.pin S22049-Arjun-109 S22049-Arjun-109_percolator_target_psms.tsv S22049-Arjun-109_percolator_decoy_psms.tsv interact-S22049-Arjun-109 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\S22049-Arjun-109_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-3.pin S22049-Arjun-3 S22049-Arjun-3_percolator_target_psms.tsv S22049-Arjun-3_percolator_decoy_psms.tsv interact-S22049-Arjun-3 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\S22049-Arjun-3_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-50.pin S22049-Arjun-50 S22049-Arjun-50_percolator_target_psms.tsv S22049-Arjun-50_percolator_decoy_psms.tsv interact-S22049-Arjun-50 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\S22049-Arjun-50_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-57.pin S22049-Arjun-57 S22049-Arjun-57_percolator_target_psms.tsv S22049-Arjun-57_percolator_decoy_psms.tsv interact-S22049-Arjun-57 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\S22049-Arjun-57_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-128.pin S22049-Arjun-128 S22049-Arjun-128_percolator_target_psms.tsv S22049-Arjun-128_percolator_decoy_psms.tsv interact-S22049-Arjun-128 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\S22049-Arjun-128_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-54.pin S22049-Arjun-54 S22049-Arjun-54_percolator_target_psms.tsv S22049-Arjun-54_percolator_decoy_psms.tsv interact-S22049-Arjun-54 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\S22049-Arjun-54_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-111.pin S22049-Arjun-111 S22049-Arjun-111_percolator_target_psms.tsv S22049-Arjun-111_percolator_decoy_psms.tsv interact-S22049-Arjun-111 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\S22049-Arjun-111_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-64-2nd.pin S22049-Arjun-64-2nd S22049-Arjun-64-2nd_percolator_target_psms.tsv S22049-Arjun-64-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-64-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\S22049-Arjun-64-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-13.pin S22049-Arjun-13 S22049-Arjun-13_percolator_target_psms.tsv S22049-Arjun-13_percolator_decoy_psms.tsv interact-S22049-Arjun-13 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\S22049-Arjun-13_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-98.pin S22049-Arjun-98 S22049-Arjun-98_percolator_target_psms.tsv S22049-Arjun-98_percolator_decoy_psms.tsv interact-S22049-Arjun-98 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\S22049-Arjun-98_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-139.pin S22049-Arjun-139 S22049-Arjun-139_percolator_target_psms.tsv S22049-Arjun-139_percolator_decoy_psms.tsv interact-S22049-Arjun-139 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\S22049-Arjun-139_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-42.pin S22049-Arjun-42 S22049-Arjun-42_percolator_target_psms.tsv S22049-Arjun-42_percolator_decoy_psms.tsv interact-S22049-Arjun-42 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\S22049-Arjun-42_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-69.pin S22049-Arjun-69 S22049-Arjun-69_percolator_target_psms.tsv S22049-Arjun-69_percolator_decoy_psms.tsv interact-S22049-Arjun-69 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\S22049-Arjun-69_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-126.pin S22049-Arjun-126 S22049-Arjun-126_percolator_target_psms.tsv S22049-Arjun-126_percolator_decoy_psms.tsv interact-S22049-Arjun-126 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\S22049-Arjun-126_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-17.pin S22049-Arjun-17 S22049-Arjun-17_percolator_target_psms.tsv S22049-Arjun-17_percolator_decoy_psms.tsv interact-S22049-Arjun-17 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\S22049-Arjun-17_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-94.pin S22049-Arjun-94 S22049-Arjun-94_percolator_target_psms.tsv S22049-Arjun-94_percolator_decoy_psms.tsv interact-S22049-Arjun-94 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\S22049-Arjun-94_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-59-2nd.pin S22049-Arjun-59-2nd S22049-Arjun-59-2nd_percolator_target_psms.tsv S22049-Arjun-59-2nd_percolator_decoy_psms.tsv interact-S22049-Arjun-59-2nd DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\S22049-Arjun-59-2nd_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-31.pin S22049-Arjun-31 S22049-Arjun-31_percolator_target_psms.tsv S22049-Arjun-31_percolator_decoy_psms.tsv interact-S22049-Arjun-31 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\S22049-Arjun-31_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-122.pin S22049-Arjun-122 S22049-Arjun-122_percolator_target_psms.tsv S22049-Arjun-122_percolator_decoy_psms.tsv interact-S22049-Arjun-122 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\S22049-Arjun-122_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-24.pin S22049-Arjun-24 S22049-Arjun-24_percolator_target_psms.tsv S22049-Arjun-24_percolator_decoy_psms.tsv interact-S22049-Arjun-24 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\S22049-Arjun-24_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-72.pin S22049-Arjun-72 S22049-Arjun-72_percolator_target_psms.tsv S22049-Arjun-72_percolator_decoy_psms.tsv interact-S22049-Arjun-72 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\S22049-Arjun-72_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-39.pin S22049-Arjun-39 S22049-Arjun-39_percolator_target_psms.tsv S22049-Arjun-39_percolator_decoy_psms.tsv interact-S22049-Arjun-39 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\S22049-Arjun-39_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-28.pin S22049-Arjun-28 S22049-Arjun-28_percolator_target_psms.tsv S22049-Arjun-28_percolator_decoy_psms.tsv interact-S22049-Arjun-28 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\S22049-Arjun-28_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-87.pin S22049-Arjun-87 S22049-Arjun-87_percolator_target_psms.tsv S22049-Arjun-87_percolator_decoy_psms.tsv interact-S22049-Arjun-87 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\S22049-Arjun-87_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-83.pin S22049-Arjun-83 S22049-Arjun-83_percolator_target_psms.tsv S22049-Arjun-83_percolator_decoy_psms.tsv interact-S22049-Arjun-83 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\S22049-Arjun-83_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-137.pin S22049-Arjun-137 S22049-Arjun-137_percolator_target_psms.tsv S22049-Arjun-137_percolator_decoy_psms.tsv interact-S22049-Arjun-137 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\S22049-Arjun-137_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Convert to pepxml [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib/* com.dmtavt.fragpipe.tools.percolator.PercolatorOutputToPepXML S22049-Arjun-5.pin S22049-Arjun-5 S22049-Arjun-5_percolator_target_psms.tsv S22049-Arjun-5_percolator_decoy_psms.tsv interact-S22049-Arjun-5 DDA 0.5 Process 'Percolator: Convert to pepxml' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5_percolator_target_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 Percolator: Delete temp D:\JAM\fragpipe\jre\bin\java.exe -cp D:\JAM\fragpipe\lib\fragpipe-19.1.jar com.github.chhh.utils.FileDelete D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\S22049-Arjun-5_percolator_decoy_psms.tsv Process 'Percolator: Delete temp' finished, exit code: 0 ProteinProphet [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe proteinprophet --maxppmdiff 2000000 --output combined D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\filelist_proteinprophet.txt INFO[13:32:39] Executing ProteinProphet v4.8.1 ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the original Perl by A. Keller (TPP v6.0.0-rc15 Noctilucent, Build 202105101442-exported (Windows_NT-x86_64)) (no FPKM) (no groups) (using degen pep info) Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\interact-S22049-Arjun-1.pep.xml... ...read in 0 1+, 41075 2+, 11330 3+, 248 4+, 3 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10\interact-S22049-Arjun-10.pep.xml... ...read in 0 1+, 45975 2+, 5187 3+, 47 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100\interact-S22049-Arjun-100.pep.xml... ...read in 0 1+, 39078 2+, 15090 3+, 1346 4+, 122 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101\interact-S22049-Arjun-101.pep.xml... ...read in 0 1+, 39495 2+, 16590 3+, 1822 4+, 217 5+, 10 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102\interact-S22049-Arjun-102.pep.xml... ...read in 0 1+, 37885 2+, 807 3+, 19 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103\interact-S22049-Arjun-103.pep.xml... ...read in 0 1+, 38986 2+, 15269 3+, 1660 4+, 212 5+, 10 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104\interact-S22049-Arjun-104.pep.xml... ...read in 0 1+, 39215 2+, 14736 3+, 1353 4+, 144 5+, 2 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105\interact-S22049-Arjun-105.pep.xml... ...read in 0 1+, 38373 2+, 15069 3+, 1707 4+, 243 5+, 15 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106\interact-S22049-Arjun-106.pep.xml... ...read in 0 1+, 39987 2+, 15622 3+, 1557 4+, 175 5+, 5 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107\interact-S22049-Arjun-107.pep.xml... ...read in 0 1+, 34809 2+, 10226 3+, 412 4+, 8 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108\interact-S22049-Arjun-108.pep.xml... ...read in 0 1+, 37272 2+, 13158 3+, 924 4+, 59 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109\interact-S22049-Arjun-109.pep.xml... ...read in 0 1+, 35520 2+, 12095 3+, 707 4+, 26 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11\interact-S22049-Arjun-11.pep.xml... ...read in 0 1+, 44385 2+, 19719 3+, 2035 4+, 216 5+, 6 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110\interact-S22049-Arjun-110.pep.xml... ...read in 0 1+, 34609 2+, 8695 3+, 206 4+, 2 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111\interact-S22049-Arjun-111.pep.xml... ...read in 0 1+, 39535 2+, 11492 3+, 434 4+, 2 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112\interact-S22049-Arjun-112.pep.xml... ...read in 0 1+, 33770 2+, 10945 3+, 622 4+, 24 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113\interact-S22049-Arjun-113.pep.xml... ...read in 0 1+, 36743 2+, 10502 3+, 453 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114\interact-S22049-Arjun-114.pep.xml... ...read in 0 1+, 40573 2+, 7474 3+, 130 4+, 3 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115\interact-S22049-Arjun-115.pep.xml... ...read in 0 1+, 39971 2+, 11318 3+, 466 4+, 2 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116\interact-S22049-Arjun-116.pep.xml... ...read in 0 1+, 36765 2+, 9545 3+, 290 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117\interact-S22049-Arjun-117.pep.xml... ...read in 0 1+, 39028 2+, 11015 3+, 448 4+, 6 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118\interact-S22049-Arjun-118.pep.xml... ...read in 0 1+, 42306 2+, 6047 3+, 74 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119\interact-S22049-Arjun-119.pep.xml... ...read in 0 1+, 38272 2+, 11307 3+, 470 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12\interact-S22049-Arjun-12.pep.xml... ...read in 0 1+, 42246 2+, 17562 3+, 1405 4+, 122 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120\interact-S22049-Arjun-120.pep.xml... ...read in 0 1+, 38132 2+, 9623 3+, 275 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121\interact-S22049-Arjun-121.pep.xml... ...read in 0 1+, 39621 2+, 10999 3+, 408 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122\interact-S22049-Arjun-122.pep.xml... ...read in 0 1+, 41266 2+, 9480 3+, 178 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123\interact-S22049-Arjun-123.pep.xml... ...read in 0 1+, 41384 2+, 11439 3+, 422 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125\interact-S22049-Arjun-125.pep.xml... ...read in 0 1+, 41937 2+, 13171 3+, 599 4+, 12 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126\interact-S22049-Arjun-126.pep.xml... ...read in 0 1+, 35003 2+, 8381 3+, 239 4+, 3 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127\interact-S22049-Arjun-127.pep.xml... ...read in 0 1+, 36017 2+, 8568 3+, 170 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128\interact-S22049-Arjun-128.pep.xml... ...read in 0 1+, 38345 2+, 9520 3+, 292 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129\interact-S22049-Arjun-129.pep.xml... ...read in 0 1+, 36455 2+, 7274 3+, 114 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13\interact-S22049-Arjun-13.pep.xml... ...read in 0 1+, 46351 2+, 9497 3+, 164 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130\interact-S22049-Arjun-130.pep.xml... ...read in 0 1+, 41572 2+, 12386 3+, 591 4+, 15 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131\interact-S22049-Arjun-131.pep.xml... ...read in 0 1+, 39192 2+, 11073 3+, 401 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132\interact-S22049-Arjun-132.pep.xml... ...read in 0 1+, 42831 2+, 13499 3+, 716 4+, 18 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133\interact-S22049-Arjun-133.pep.xml... ...read in 0 1+, 36851 2+, 10768 3+, 452 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134\interact-S22049-Arjun-134.pep.xml... ...read in 0 1+, 5593 2+, 218 3+, 21 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135\interact-S22049-Arjun-135.pep.xml... ...read in 0 1+, 3814 2+, 721 3+, 64 4+, 3 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136\interact-S22049-Arjun-136.pep.xml... ...read in 0 1+, 41340 2+, 10839 3+, 497 4+, 23 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137\interact-S22049-Arjun-137.pep.xml... ...read in 0 1+, 36027 2+, 8387 3+, 162 4+, 2 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138\interact-S22049-Arjun-138.pep.xml... ...read in 0 1+, 41054 2+, 12319 3+, 577 4+, 10 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139\interact-S22049-Arjun-139.pep.xml... ...read in 0 1+, 37619 2+, 8695 3+, 204 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14\interact-S22049-Arjun-14.pep.xml... ...read in 0 1+, 42117 2+, 10832 3+, 265 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140\interact-S22049-Arjun-140.pep.xml... ...read in 0 1+, 40906 2+, 12179 3+, 569 4+, 14 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141\interact-S22049-Arjun-141.pep.xml... ...read in 0 1+, 41969 2+, 13433 3+, 800 4+, 35 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142\interact-S22049-Arjun-142.pep.xml... ...read in 0 1+, 38537 2+, 11804 3+, 644 4+, 16 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143\interact-S22049-Arjun-143.pep.xml... ...read in 0 1+, 33803 2+, 10133 3+, 430 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144\interact-S22049-Arjun-144.pep.xml... ...read in 0 1+, 35448 2+, 6819 3+, 120 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15\interact-S22049-Arjun-15.pep.xml... ...read in 0 1+, 44364 2+, 17411 3+, 1350 4+, 122 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16\interact-S22049-Arjun-16.pep.xml... ...read in 0 1+, 44095 2+, 16690 3+, 1245 4+, 78 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17\interact-S22049-Arjun-17.pep.xml... ...read in 0 1+, 47116 2+, 5840 3+, 43 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18\interact-S22049-Arjun-18.pep.xml... ...read in 0 1+, 44385 2+, 11428 3+, 278 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19\interact-S22049-Arjun-19.pep.xml... ...read in 0 1+, 46061 2+, 17053 3+, 1114 4+, 66 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2\interact-S22049-Arjun-2.pep.xml... ...read in 0 1+, 45374 2+, 17902 3+, 1173 4+, 81 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20\interact-S22049-Arjun-20.pep.xml... ...read in 0 1+, 48735 2+, 17479 3+, 1057 4+, 73 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21\interact-S22049-Arjun-21.pep.xml... ...read in 0 1+, 46664 2+, 9905 3+, 146 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22\interact-S22049-Arjun-22.pep.xml... ...read in 0 1+, 43515 2+, 12376 3+, 348 4+, 5 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23\interact-S22049-Arjun-23.pep.xml... ...read in 0 1+, 47189 2+, 17441 3+, 1087 4+, 60 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24\interact-S22049-Arjun-24.pep.xml... ...read in 0 1+, 47888 2+, 16772 3+, 963 4+, 53 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25\interact-S22049-Arjun-25.pep.xml... ...read in 0 1+, 41200 2+, 12638 3+, 430 4+, 8 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26\interact-S22049-Arjun-26.pep.xml... ...read in 0 1+, 47726 2+, 7004 3+, 80 4+, 3 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27\interact-S22049-Arjun-27.pep.xml... ...read in 0 1+, 45636 2+, 17416 3+, 1282 4+, 86 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28\interact-S22049-Arjun-28.pep.xml... ...read in 0 1+, 47109 2+, 18508 3+, 1476 4+, 123 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29\interact-S22049-Arjun-29.pep.xml... ...read in 0 1+, 46435 2+, 19435 3+, 1927 4+, 196 5+, 10 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3\interact-S22049-Arjun-3.pep.xml... ...read in 0 1+, 45995 2+, 17357 3+, 1051 4+, 77 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30\interact-S22049-Arjun-30.pep.xml... ...read in 0 1+, 46407 2+, 15190 3+, 710 4+, 21 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31\interact-S22049-Arjun-31.pep.xml... ...read in 0 1+, 38793 2+, 13243 3+, 483 4+, 10 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32\interact-S22049-Arjun-32.pep.xml... ...read in 0 1+, 39101 2+, 12605 3+, 516 4+, 11 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33\interact-S22049-Arjun-33.pep.xml... ...read in 0 1+, 40285 2+, 14693 3+, 775 4+, 15 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34\interact-S22049-Arjun-34.pep.xml... ...read in 0 1+, 43709 2+, 15371 3+, 718 4+, 20 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35\interact-S22049-Arjun-35.pep.xml... ...read in 0 1+, 39163 2+, 11575 3+, 343 4+, 9 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36\interact-S22049-Arjun-36.pep.xml... ...read in 0 1+, 39376 2+, 11990 3+, 321 4+, 4 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37\interact-S22049-Arjun-37.pep.xml... ...read in 0 1+, 48777 2+, 19557 3+, 1535 4+, 126 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38\interact-S22049-Arjun-38.pep.xml... ...read in 0 1+, 47591 2+, 17777 3+, 1104 4+, 67 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39\interact-S22049-Arjun-39.pep.xml... ...read in 0 1+, 39844 2+, 12115 3+, 500 4+, 19 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4\interact-S22049-Arjun-4.pep.xml... ...read in 0 1+, 44105 2+, 16219 3+, 858 4+, 43 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40\interact-S22049-Arjun-40.pep.xml... ...read in 0 1+, 42145 2+, 17404 3+, 1459 4+, 102 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41\interact-S22049-Arjun-41.pep.xml... ...read in 0 1+, 43282 2+, 15965 3+, 935 4+, 39 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42\interact-S22049-Arjun-42.pep.xml... ...read in 0 1+, 43828 2+, 17183 3+, 1050 4+, 49 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43\interact-S22049-Arjun-43.pep.xml... ...read in 0 1+, 43900 2+, 18919 3+, 1595 4+, 129 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44\interact-S22049-Arjun-44.pep.xml... ...read in 0 1+, 43975 2+, 15208 3+, 712 4+, 24 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45\interact-S22049-Arjun-45.pep.xml... ...read in 0 1+, 44978 2+, 16358 3+, 888 4+, 38 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46\interact-S22049-Arjun-46.pep.xml... ...read in 0 1+, 43751 2+, 15879 3+, 902 4+, 47 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47\interact-S22049-Arjun-47.pep.xml... ...read in 0 1+, 43724 2+, 17226 3+, 1233 4+, 82 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48\interact-S22049-Arjun-48.pep.xml... ...read in 0 1+, 44725 2+, 15854 3+, 843 4+, 34 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49\interact-S22049-Arjun-49.pep.xml... ...read in 0 1+, 45678 2+, 18666 3+, 1524 4+, 140 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5\interact-S22049-Arjun-5.pep.xml... ...read in 0 1+, 45189 2+, 11928 3+, 270 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50\interact-S22049-Arjun-50.pep.xml... ...read in 0 1+, 45084 2+, 17431 3+, 1070 4+, 44 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51\interact-S22049-Arjun-51.pep.xml... ...read in 0 1+, 46073 2+, 19026 3+, 1512 4+, 126 5+, 2 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52\interact-S22049-Arjun-52.pep.xml... ...read in 0 1+, 44986 2+, 17075 3+, 1185 4+, 90 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53\interact-S22049-Arjun-53.pep.xml... ...read in 0 1+, 49551 2+, 16567 3+, 817 4+, 36 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54\interact-S22049-Arjun-54.pep.xml... ...read in 0 1+, 46130 2+, 16548 3+, 1032 4+, 56 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55\interact-S22049-Arjun-55.pep.xml... ...read in 0 1+, 45037 2+, 16342 3+, 954 4+, 45 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56\interact-S22049-Arjun-56.pep.xml... ...read in 0 1+, 46626 2+, 16853 3+, 1069 4+, 62 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57\interact-S22049-Arjun-57.pep.xml... ...read in 0 1+, 44451 2+, 18042 3+, 1351 4+, 84 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd\interact-S22049-Arjun-58-2nd.pep.xml... ...read in 0 1+, 41156 2+, 16242 3+, 1082 4+, 62 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd\interact-S22049-Arjun-59-2nd.pep.xml... ...read in 0 1+, 43738 2+, 17684 3+, 1368 4+, 91 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6\interact-S22049-Arjun-6.pep.xml... ...read in 0 1+, 50186 2+, 9226 3+, 115 4+, 1 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd\interact-S22049-Arjun-60-2nd.pep.xml... ...read in 0 1+, 44071 2+, 13669 3+, 564 4+, 25 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd\interact-S22049-Arjun-61-2nd.pep.xml... ...read in 0 1+, 40236 2+, 14255 3+, 830 4+, 31 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd\interact-S22049-Arjun-62-2nd.pep.xml... ...read in 0 1+, 46909 2+, 17370 3+, 1153 4+, 79 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd\interact-S22049-Arjun-63-2nd.pep.xml... ...read in 0 1+, 46423 2+, 19125 3+, 2347 4+, 343 5+, 24 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd\interact-S22049-Arjun-64-2nd.pep.xml... ...read in 0 1+, 45502 2+, 15593 3+, 795 4+, 39 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd\interact-S22049-Arjun-65-2nd.pep.xml... ...read in 0 1+, 45550 2+, 18744 3+, 1598 4+, 122 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd\interact-S22049-Arjun-66-2nd.pep.xml... ...read in 0 1+, 46712 2+, 16727 3+, 935 4+, 51 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67\interact-S22049-Arjun-67.pep.xml... ...read in 0 1+, 46782 2+, 17553 3+, 1165 4+, 57 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68\interact-S22049-Arjun-68.pep.xml... ...read in 0 1+, 46594 2+, 18909 3+, 1735 4+, 161 5+, 6 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69\interact-S22049-Arjun-69.pep.xml... ...read in 0 1+, 44894 2+, 17578 3+, 1198 4+, 65 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7\interact-S22049-Arjun-7.pep.xml... ...read in 0 1+, 46142 2+, 19301 3+, 1521 4+, 117 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70\interact-S22049-Arjun-70.pep.xml... ...read in 0 1+, 45916 2+, 17335 3+, 1194 4+, 65 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71\interact-S22049-Arjun-71.pep.xml... ...read in 0 1+, 46737 2+, 17935 3+, 1298 4+, 74 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72\interact-S22049-Arjun-72.pep.xml... ...read in 0 1+, 45675 2+, 18317 3+, 1592 4+, 125 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73\interact-S22049-Arjun-73.pep.xml... ...read in 0 1+, 37480 2+, 14517 3+, 1768 4+, 226 5+, 7 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74\interact-S22049-Arjun-74.pep.xml... ...read in 0 1+, 37937 2+, 12926 3+, 958 4+, 66 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75\interact-S22049-Arjun-75.pep.xml... ...read in 0 1+, 37806 2+, 14292 3+, 1335 4+, 135 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76\interact-S22049-Arjun-76.pep.xml... ...read in 0 1+, 38622 2+, 13910 3+, 1002 4+, 61 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77\interact-S22049-Arjun-77.pep.xml... ...read in 0 1+, 38992 2+, 14232 3+, 1262 4+, 141 5+, 3 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78\interact-S22049-Arjun-78.pep.xml... ...read in 0 1+, 38276 2+, 13924 3+, 1186 4+, 104 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79\interact-S22049-Arjun-79.pep.xml... ...read in 0 1+, 40978 2+, 13628 3+, 764 4+, 30 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8\interact-S22049-Arjun-8.pep.xml... ...read in 0 1+, 45488 2+, 17221 3+, 1037 4+, 65 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80\interact-S22049-Arjun-80.pep.xml... ...read in 0 1+, 34999 2+, 11831 3+, 719 4+, 27 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81\interact-S22049-Arjun-81.pep.xml... ...read in 0 1+, 41314 2+, 13372 3+, 671 4+, 22 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82\interact-S22049-Arjun-82.pep.xml... ...read in 0 1+, 39594 2+, 14873 3+, 1254 4+, 119 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83\interact-S22049-Arjun-83.pep.xml... ...read in 0 1+, 39347 2+, 15167 3+, 1163 4+, 73 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd\interact-S22049-Arjun-84-2nd.pep.xml... ...read in 0 1+, 41144 2+, 15420 3+, 1203 4+, 90 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85\interact-S22049-Arjun-85.pep.xml... ...read in 0 1+, 41989 2+, 15778 3+, 1572 4+, 191 5+, 7 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86\interact-S22049-Arjun-86.pep.xml... ...read in 0 1+, 41120 2+, 14103 3+, 956 4+, 68 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87\interact-S22049-Arjun-87.pep.xml... ...read in 0 1+, 41236 2+, 16639 3+, 1541 4+, 141 5+, 5 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88\interact-S22049-Arjun-88.pep.xml... ...read in 0 1+, 41776 2+, 15089 3+, 1007 4+, 48 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89\interact-S22049-Arjun-89.pep.xml... ...read in 0 1+, 42041 2+, 17525 3+, 1741 4+, 186 5+, 6 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9\interact-S22049-Arjun-9.pep.xml... ...read in 0 1+, 44434 2+, 10650 3+, 189 4+, 0 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90\interact-S22049-Arjun-90.pep.xml... ...read in 0 1+, 41320 2+, 14894 3+, 1043 4+, 69 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91\interact-S22049-Arjun-91.pep.xml... ...read in 0 1+, 39900 2+, 15673 3+, 1362 4+, 121 5+, 1 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92\interact-S22049-Arjun-92.pep.xml... ...read in 0 1+, 38497 2+, 14453 3+, 952 4+, 36 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93\interact-S22049-Arjun-93.pep.xml... ...read in 0 1+, 39726 2+, 17552 3+, 1887 4+, 190 5+, 9 6+, 1 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94\interact-S22049-Arjun-94.pep.xml... ...read in 0 1+, 39397 2+, 13384 3+, 909 4+, 55 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95\interact-S22049-Arjun-95.pep.xml... ...read in 0 1+, 40293 2+, 15508 3+, 1221 4+, 71 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96\interact-S22049-Arjun-96.pep.xml... ...read in 0 1+, 39152 2+, 13550 3+, 1063 4+, 78 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97\interact-S22049-Arjun-97.pep.xml... ...read in 0 1+, 18230 2+, 4381 3+, 311 4+, 24 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98\interact-S22049-Arjun-98.pep.xml... ...read in 0 1+, 37768 2+, 13193 3+, 972 4+, 66 5+, 0 6+, 0 7+ spectra with min prob 0.05 Reading in D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99\interact-S22049-Arjun-99.pep.xml... ...read in 0 1+, 34267 2+, 13358 3+, 1134 4+, 86 5+, 0 6+, 0 7+ spectra with min prob 0.05 Initializing 52671 peptide weights: 0%...10%...20%...30%...40%...50%...60%WARNING: Trying to compute mass of non-residue: WARNING: Trying to compute mass of non-residue: WARNING: Trying to compute mass of non-residue: WARNING: Trying to compute mass of non-residue: ...70%...80%...90%...100% Calculating protein lengths and molecular weights from database D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas .........:.........:.........:.........:.........:.........:.........:.........:.........:.........1000 .........:.........:.........:.........:.........:.........:.........:.........:.........:.........2000 .........:.........:.........:.........:.........:.WARNING: Found the following zero-mass residues in protein entry rev_tr|AbiV|Sylvain_LACLM : M KNNALKEFLEDTTESVEFSHHTYGVLSDDFCEIAYLLLARSQEKSIKESPVELIDDIIDAYLSSERISILEGTEADEVIKDIMEDGIAKNLRGGMKITPLSGFAHKSKHNRLPDKGRKIDKNESIFMGIHTKGVEEIITISIFTSTAFSENTYLLYADKILVSIHDICKNLDDTSKLSFKSEKTNLTNKMKGLAYNDKDF ........:.........:.........:.........:.........3000 .........:.........:.........:.........:.........:.........:.........:.........:.........:.........4000 .........:.........:.........:.........:.........:.........:.........:.........:.........:.........5000 ......WARNING: Found the following zero-mass residues in protein entry tr|AbiV|Sylvain_LACLM : MFDKDNYALGKMKNTLNTKESKFSLKSTDDLNKCIDHISVLIKDAYLLYTNESFATSTFISITIIEEVGKTHIGMFISENKDIKRGKDPLRNHKSKHAFGSLPTIKMGGRLNKAIGDEMIDKIVEDAETGELISIRESSLYADIIDDILEVPSEKISKEQSRALLLYAIECFDDSLVGYTHHSFEVSETTDELFEKLANNK ...: Total: 5102 Computing degenerate peptides for 4575 proteins: 0%...10%...20%...30%...40%...50%...60%...70%...80%...90%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Computing probabilities for 4596 proteins. Loop 1: 0%...20%...40%...60%...80%...100% Loop 2: 0%...20%...40%...60%...80%...100% Calculating sensitivity...and error tables... INFO: mu=0.00152673, db_size=2918063 Computing MU for 4596 proteins: 0%...10%...20%...30%...40%...50%...60%...70%...80%...90%...100% INFO[13:39:39] Done Process 'ProteinProphet' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_112] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:40] Executing Database v4.8.1 INFO[13:39:40] Annotating the database INFO[13:39:41] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_111] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:41] Executing Database v4.8.1 INFO[13:39:41] Annotating the database INFO[13:39:42] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_110] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:43] Executing Database v4.8.1 INFO[13:39:43] Annotating the database INFO[13:39:43] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_58_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:44] Executing Database v4.8.1 INFO[13:39:44] Annotating the database INFO[13:39:44] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_119] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:45] Executing Database v4.8.1 INFO[13:39:45] Annotating the database INFO[13:39:45] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_84_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:46] Executing Database v4.8.1 INFO[13:39:46] Annotating the database INFO[13:39:46] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_118] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:47] Executing Database v4.8.1 INFO[13:39:47] Annotating the database INFO[13:39:47] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_117] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:48] Executing Database v4.8.1 INFO[13:39:48] Annotating the database INFO[13:39:49] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_116] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:49] Executing Database v4.8.1 INFO[13:39:49] Annotating the database INFO[13:39:50] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_17] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:50] Executing Database v4.8.1 INFO[13:39:50] Annotating the database INFO[13:39:51] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_115] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:52] Executing Database v4.8.1 INFO[13:39:52] Annotating the database INFO[13:39:52] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_16] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:53] Executing Database v4.8.1 INFO[13:39:53] Annotating the database INFO[13:39:53] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_114] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:54] Executing Database v4.8.1 INFO[13:39:54] Annotating the database INFO[13:39:54] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_19] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:55] Executing Database v4.8.1 INFO[13:39:55] Annotating the database INFO[13:39:55] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_113] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:56] Executing Database v4.8.1 INFO[13:39:56] Annotating the database INFO[13:39:56] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_18] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:57] Executing Database v4.8.1 INFO[13:39:57] Annotating the database INFO[13:39:58] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_24] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:58] Executing Database v4.8.1 INFO[13:39:58] Annotating the database INFO[13:39:59] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_23] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:39:59] Executing Database v4.8.1 INFO[13:39:59] Annotating the database INFO[13:40:00] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_26] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:00] Executing Database v4.8.1 INFO[13:40:01] Annotating the database INFO[13:40:01] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_25] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:02] Executing Database v4.8.1 INFO[13:40:02] Annotating the database INFO[13:40:02] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_20] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:03] Executing Database v4.8.1 INFO[13:40:03] Annotating the database INFO[13:40:03] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_22] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:04] Executing Database v4.8.1 INFO[13:40:04] Annotating the database INFO[13:40:04] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_21] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:05] Executing Database v4.8.1 INFO[13:40:05] Annotating the database INFO[13:40:05] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_101] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:06] Executing Database v4.8.1 INFO[13:40:06] Annotating the database INFO[13:40:07] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_100] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:07] Executing Database v4.8.1 INFO[13:40:07] Annotating the database INFO[13:40:08] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_109] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:08] Executing Database v4.8.1 INFO[13:40:08] Annotating the database INFO[13:40:09] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_108] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:09] Executing Database v4.8.1 INFO[13:40:09] Annotating the database INFO[13:40:10] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_107] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:11] Executing Database v4.8.1 INFO[13:40:11] Annotating the database INFO[13:40:11] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_106] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:12] Executing Database v4.8.1 INFO[13:40:12] Annotating the database INFO[13:40:12] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_105] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:13] Executing Database v4.8.1 INFO[13:40:13] Annotating the database INFO[13:40:13] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_104] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:14] Executing Database v4.8.1 INFO[13:40:14] Annotating the database INFO[13:40:14] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_103] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:15] Executing Database v4.8.1 INFO[13:40:15] Annotating the database INFO[13:40:16] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_102] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:16] Executing Database v4.8.1 INFO[13:40:16] Annotating the database INFO[13:40:17] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_13] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:17] Executing Database v4.8.1 INFO[13:40:17] Annotating the database INFO[13:40:18] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_12] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:18] Executing Database v4.8.1 INFO[13:40:18] Annotating the database INFO[13:40:19] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_15] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:20] Executing Database v4.8.1 INFO[13:40:20] Annotating the database INFO[13:40:20] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_14] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:21] Executing Database v4.8.1 INFO[13:40:21] Annotating the database INFO[13:40:21] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_97] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:22] Executing Database v4.8.1 INFO[13:40:22] Annotating the database INFO[13:40:22] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_96] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:23] Executing Database v4.8.1 INFO[13:40:23] Annotating the database INFO[13:40:23] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_11] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:24] Executing Database v4.8.1 INFO[13:40:24] Annotating the database INFO[13:40:24] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_99] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:25] Executing Database v4.8.1 INFO[13:40:25] Annotating the database INFO[13:40:26] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_10] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:26] Executing Database v4.8.1 INFO[13:40:26] Annotating the database INFO[13:40:27] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_98] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:27] Executing Database v4.8.1 INFO[13:40:27] Annotating the database INFO[13:40:28] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_66_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:29] Executing Database v4.8.1 INFO[13:40:29] Annotating the database INFO[13:40:29] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_93] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:30] Executing Database v4.8.1 INFO[13:40:30] Annotating the database INFO[13:40:30] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_92] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:31] Executing Database v4.8.1 INFO[13:40:31] Annotating the database INFO[13:40:31] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_95] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:32] Executing Database v4.8.1 INFO[13:40:32] Annotating the database INFO[13:40:32] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_94] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:33] Executing Database v4.8.1 INFO[13:40:33] Annotating the database INFO[13:40:33] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_91] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:34] Executing Database v4.8.1 INFO[13:40:34] Annotating the database INFO[13:40:35] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_90] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:35] Executing Database v4.8.1 INFO[13:40:35] Annotating the database INFO[13:40:36] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_62_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:36] Executing Database v4.8.1 INFO[13:40:36] Annotating the database INFO[13:40:37] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_39] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:37] Executing Database v4.8.1 INFO[13:40:37] Annotating the database INFO[13:40:38] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_38] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:39] Executing Database v4.8.1 INFO[13:40:39] Annotating the database INFO[13:40:39] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_46] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:40] Executing Database v4.8.1 INFO[13:40:40] Annotating the database INFO[13:40:40] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_45] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:41] Executing Database v4.8.1 INFO[13:40:41] Annotating the database INFO[13:40:41] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_48] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:42] Executing Database v4.8.1 INFO[13:40:42] Annotating the database INFO[13:40:42] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_47] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:43] Executing Database v4.8.1 INFO[13:40:43] Annotating the database INFO[13:40:44] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_42] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:44] Executing Database v4.8.1 INFO[13:40:44] Annotating the database INFO[13:40:45] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_41] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:45] Executing Database v4.8.1 INFO[13:40:45] Annotating the database INFO[13:40:46] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_44] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:46] Executing Database v4.8.1 INFO[13:40:46] Annotating the database INFO[13:40:47] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_43] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:48] Executing Database v4.8.1 INFO[13:40:48] Annotating the database INFO[13:40:48] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_60_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:49] Executing Database v4.8.1 INFO[13:40:49] Annotating the database INFO[13:40:49] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_40] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:50] Executing Database v4.8.1 INFO[13:40:50] Annotating the database INFO[13:40:50] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_64_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:51] Executing Database v4.8.1 INFO[13:40:51] Annotating the database INFO[13:40:51] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_2] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:52] Executing Database v4.8.1 INFO[13:40:52] Annotating the database INFO[13:40:53] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:53] Executing Database v4.8.1 INFO[13:40:53] Annotating the database INFO[13:40:54] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_9] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:54] Executing Database v4.8.1 INFO[13:40:54] Annotating the database INFO[13:40:55] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_8] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:55] Executing Database v4.8.1 INFO[13:40:55] Annotating the database INFO[13:40:56] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_7] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:57] Executing Database v4.8.1 INFO[13:40:57] Annotating the database INFO[13:40:57] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_28] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:58] Executing Database v4.8.1 INFO[13:40:58] Annotating the database INFO[13:40:58] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_6] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:40:59] Executing Database v4.8.1 INFO[13:40:59] Annotating the database INFO[13:40:59] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_27] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:00] Executing Database v4.8.1 INFO[13:41:00] Annotating the database INFO[13:41:00] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_5] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:01] Executing Database v4.8.1 INFO[13:41:01] Annotating the database INFO[13:41:01] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_4] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:02] Executing Database v4.8.1 INFO[13:41:02] Annotating the database INFO[13:41:03] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_29] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:03] Executing Database v4.8.1 INFO[13:41:03] Annotating the database INFO[13:41:04] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:04] Executing Database v4.8.1 INFO[13:41:04] Annotating the database INFO[13:41:05] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_35] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:05] Executing Database v4.8.1 INFO[13:41:05] Annotating the database INFO[13:41:06] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_34] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:07] Executing Database v4.8.1 INFO[13:41:07] Annotating the database INFO[13:41:07] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_37] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:08] Executing Database v4.8.1 INFO[13:41:08] Annotating the database INFO[13:41:08] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_36] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:09] Executing Database v4.8.1 INFO[13:41:09] Annotating the database INFO[13:41:09] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_31] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:10] Executing Database v4.8.1 INFO[13:41:10] Annotating the database INFO[13:41:10] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_30] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:11] Executing Database v4.8.1 INFO[13:41:11] Annotating the database INFO[13:41:12] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_33] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:12] Executing Database v4.8.1 INFO[13:41:12] Annotating the database INFO[13:41:13] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_32] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:13] Executing Database v4.8.1 INFO[13:41:13] Annotating the database INFO[13:41:14] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_68] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:15] Executing Database v4.8.1 INFO[13:41:15] Annotating the database INFO[13:41:15] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_67] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:16] Executing Database v4.8.1 INFO[13:41:16] Annotating the database INFO[13:41:16] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_69] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:17] Executing Database v4.8.1 INFO[13:41:17] Annotating the database INFO[13:41:17] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_59_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:18] Executing Database v4.8.1 INFO[13:41:18] Annotating the database INFO[13:41:18] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_144] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:19] Executing Database v4.8.1 INFO[13:41:19] Annotating the database INFO[13:41:19] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_143] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:20] Executing Database v4.8.1 INFO[13:41:20] Annotating the database INFO[13:41:21] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_142] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:21] Executing Database v4.8.1 INFO[13:41:21] Annotating the database INFO[13:41:22] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_141] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:22] Executing Database v4.8.1 INFO[13:41:22] Annotating the database INFO[13:41:23] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_140] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:23] Executing Database v4.8.1 INFO[13:41:23] Annotating the database INFO[13:41:24] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_49] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:25] Executing Database v4.8.1 INFO[13:41:25] Annotating the database INFO[13:41:25] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_65_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:27] Executing Database v4.8.1 INFO[13:41:27] Annotating the database INFO[13:41:33] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_57] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:34] Executing Database v4.8.1 INFO[13:41:34] Annotating the database INFO[13:41:34] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_56] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:35] Executing Database v4.8.1 INFO[13:41:35] Annotating the database INFO[13:41:35] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_53] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:36] Executing Database v4.8.1 INFO[13:41:36] Annotating the database INFO[13:41:36] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_52] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:37] Executing Database v4.8.1 INFO[13:41:37] Annotating the database INFO[13:41:37] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_55] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:38] Executing Database v4.8.1 INFO[13:41:38] Annotating the database INFO[13:41:39] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_54] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:39] Executing Database v4.8.1 INFO[13:41:39] Annotating the database INFO[13:41:40] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_51] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:40] Executing Database v4.8.1 INFO[13:41:40] Annotating the database INFO[13:41:41] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_50] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:41] Executing Database v4.8.1 INFO[13:41:41] Annotating the database INFO[13:41:42] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_134] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:43] Executing Database v4.8.1 INFO[13:41:43] Annotating the database INFO[13:41:43] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_133] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:44] Executing Database v4.8.1 INFO[13:41:44] Annotating the database INFO[13:41:44] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_132] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:45] Executing Database v4.8.1 INFO[13:41:45] Annotating the database INFO[13:41:45] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_131] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:46] Executing Database v4.8.1 INFO[13:41:46] Annotating the database INFO[13:41:46] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_130] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:47] Executing Database v4.8.1 INFO[13:41:47] Annotating the database INFO[13:41:48] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:48] Executing Database v4.8.1 INFO[13:41:48] Annotating the database INFO[13:41:49] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_61_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:49] Executing Database v4.8.1 INFO[13:41:49] Annotating the database INFO[13:41:50] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_139] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:51] Executing Database v4.8.1 INFO[13:41:51] Annotating the database INFO[13:41:51] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_138] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:52] Executing Database v4.8.1 INFO[13:41:52] Annotating the database INFO[13:41:52] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_137] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:53] Executing Database v4.8.1 INFO[13:41:53] Annotating the database INFO[13:41:53] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_136] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:54] Executing Database v4.8.1 INFO[13:41:54] Annotating the database INFO[13:41:54] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_135] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:55] Executing Database v4.8.1 INFO[13:41:55] Annotating the database INFO[13:41:56] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_63_2nd] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:56] Executing Database v4.8.1 INFO[13:41:56] Annotating the database INFO[13:41:57] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_89] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:57] Executing Database v4.8.1 INFO[13:41:57] Annotating the database INFO[13:41:58] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_86] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:41:58] Executing Database v4.8.1 INFO[13:41:58] Annotating the database INFO[13:41:59] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_85] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:00] Executing Database v4.8.1 INFO[13:42:00] Annotating the database INFO[13:42:00] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_88] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:01] Executing Database v4.8.1 INFO[13:42:01] Annotating the database INFO[13:42:01] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_87] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:02] Executing Database v4.8.1 INFO[13:42:02] Annotating the database INFO[13:42:02] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_82] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:03] Executing Database v4.8.1 INFO[13:42:03] Annotating the database INFO[13:42:04] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_81] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:04] Executing Database v4.8.1 INFO[13:42:04] Annotating the database INFO[13:42:05] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_83] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:05] Executing Database v4.8.1 INFO[13:42:05] Annotating the database INFO[13:42:06] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_80] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:06] Executing Database v4.8.1 INFO[13:42:06] Annotating the database INFO[13:42:07] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_123] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:08] Executing Database v4.8.1 INFO[13:42:08] Annotating the database INFO[13:42:08] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_122] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:09] Executing Database v4.8.1 INFO[13:42:09] Annotating the database INFO[13:42:09] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_121] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:10] Executing Database v4.8.1 INFO[13:42:10] Annotating the database INFO[13:42:10] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_120] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:11] Executing Database v4.8.1 INFO[13:42:11] Annotating the database INFO[13:42:12] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_129] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:12] Executing Database v4.8.1 INFO[13:42:12] Annotating the database INFO[13:42:13] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_128] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:13] Executing Database v4.8.1 INFO[13:42:13] Annotating the database INFO[13:42:14] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_127] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:14] Executing Database v4.8.1 INFO[13:42:14] Annotating the database INFO[13:42:15] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_126] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:16] Executing Database v4.8.1 INFO[13:42:16] Annotating the database INFO[13:42:16] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_125] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:17] Executing Database v4.8.1 INFO[13:42:17] Annotating the database INFO[13:42:17] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_79] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:18] Executing Database v4.8.1 INFO[13:42:18] Annotating the database INFO[13:42:18] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_78] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:19] Executing Database v4.8.1 INFO[13:42:19] Annotating the database INFO[13:42:19] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_75] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:20] Executing Database v4.8.1 INFO[13:42:20] Annotating the database INFO[13:42:21] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_74] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:21] Executing Database v4.8.1 INFO[13:42:21] Annotating the database INFO[13:42:22] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_77] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:22] Executing Database v4.8.1 INFO[13:42:22] Annotating the database INFO[13:42:23] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_76] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:23] Executing Database v4.8.1 INFO[13:42:24] Annotating the database INFO[13:42:24] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_71] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:25] Executing Database v4.8.1 INFO[13:42:25] Annotating the database INFO[13:42:25] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_70] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:26] Executing Database v4.8.1 INFO[13:42:26] Annotating the database INFO[13:42:26] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_73] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:27] Executing Database v4.8.1 INFO[13:42:27] Annotating the database INFO[13:42:27] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherDbAnnotate [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_72] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe database --annotate D:\JAM\Sylvain_fragpipe\2023-03-03-decoys-contam-PhageP2_and_Lactococcus_Phage_P2_Lactococcus lactis bacteriophage p2_3AUP00000234_21Feb2023_49_Proteins_Lactococcus_lactis_(strain_MG1363)_3AUP00000036_21Feb2023_2383_Proteins.txt.fas --prefix rev_ INFO[13:42:28] Executing Database v4.8.1 INFO[13:42:28] Annotating the database INFO[13:42:29] Done Process 'PhilosopherDbAnnotate' finished, exit code: 0 PhilosopherFilter [Work dir: D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1] D:\JAM\fragpipe\tools\philosopher_v4.8.1_windows_amd64\philosopher.exe filter --sequential --prot 0.01 --tag rev_ --pepxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1 --protxml D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\combined.prot.xml --razor INFO[13:42:29] Executing Filter v4.8.1 INFO[13:42:29] Processing peptide identification files INFO[13:42:29] Parsing D:\JAM\Sylvain_fragpipe\Fragpipe_output_3\S22049_Arjun_1\interact-S22049-Arjun-1.pep.xml INFO[13:42:34] 1+ Charge profile decoy=0 target=0 INFO[13:42:34] 2+ Charge profile decoy=312 target=40763 INFO[13:42:34] 3+ Charge profile decoy=61 target=11269 INFO[13:42:34] 4+ Charge profile decoy=4 target=244 INFO[13:42:34] 5+ Charge profile decoy=0 target=3 INFO[13:42:34] 6+ Charge profile decoy=0 target=0 INFO[13:42:34] Database search results ions=13712 peptides=10922 psms=52656 INFO[13:42:34] Converged to 0.72 % FDR with 52279 PSMs decoy=377 threshold=0.50069 total=52656 INFO[13:42:34] Converged to 1.00 % FDR with 10429 Peptides decoy=104 threshold=0.863916 total=10533 INFO[13:42:34] Converged to 1.00 % FDR with 13230 Ions decoy=132 threshold=0.814472 total=13362 INFO[13:42:36] Protein inference results decoy=2210 target=2337 ERRO[13:42:36] the protein FDR filter didn't reach the desired threshold, try a higher threshold using the --prot parameter INFO[13:42:36] Converged to 0.00 % FDR with 0 Proteins decoy=0 threshold=10 total=0 panic: reflect: reflect.Value.Set using unaddressable value goroutine 1 [running]: reflect.flag.mustBeAssignableSlow(0xc00110e0a8?) /home/prvst/sdk/go1.19.4/src/reflect/value.go:260 +0x85 reflect.flag.mustBeAssignable(...) /home/prvst/sdk/go1.19.4/src/reflect/value.go:247 reflect.Value.Set({0x1307aa0?, 0xc0000081e0?, 0x1307a01?}, {0x1307aa0?, 0x0?, 0x2f9c9a0?}) /home/prvst/sdk/go1.19.4/src/reflect/value.go:2154 +0x6a github.com/vmihailenco/msgpack/v5.ptrValueDecoder.func1(0x1504d88?, {0x1307aa0?, 0xc0000081e0?, 0x194?}) /home/prvst/go/pkg/mod/github.com/vmihailenco/msgpack/v5@v5.3.5/decode_value.go:130 +0x133 github.com/vmihailenco/msgpack/v5.(*Decoder).DecodeValue(0x12b76c0?, {0x1307aa0?, 0xc0000081e0?, 0x0?}) /home/prvst/go/pkg/mod/github.com/vmihailenco/msgpack/v5@v5.3.5/decode.go:309 +0x84 github.com/vmihailenco/msgpack/v5.(*Decoder).Decode(0xc003582a20?, {0x1280260?, 0xc00392e2f0?}) /home/prvst/go/pkg/mod/github.com/vmihailenco/msgpack/v5@v5.3.5/decode.go:288 +0x825 philosopher/lib/sys.Restore({0x1307aa0, 0xc0000081e0}, {0xc002516150, 0xd}, 0x0) /workspace/philosopher/lib/sys/sys.go:270 +0x209 philosopher/lib/id.(*ProtIDList).Restore(0xc000000100?) /workspace/philosopher/lib/id/pro.go:302 +0x93 philosopher/lib/fil.Run({{0xc000020840, 0x24}, {0xc000022540, 0x38}, {0xc0000286e0, 0x49}, {0xc000028730, 0x47}, {0xc000022580, 0x3e}, ...}) /workspace/philosopher/lib/fil/fil.go:84 +0x8bf philosopher/cmd.glob..func5(0x2f7d9c0?, {0x1380615?, 0xa?, 0xa?}) /workspace/philosopher/cmd/filter.go:43 +0x390 github.com/spf13/cobra.(*Command).execute(0x2f7d9c0, {0xc000200be0, 0xa, 0xa}) /home/prvst/go/pkg/mod/github.com/spf13/cobra@v1.6.1/command.go:920 +0x847 github.com/spf13/cobra.(*Command).ExecuteC(0x2f7c2c0) /home/prvst/go/pkg/mod/github.com/spf13/cobra@v1.6.1/command.go:1044 +0x3bd github.com/spf13/cobra.(*Command).Execute(...) /home/prvst/go/pkg/mod/github.com/spf13/cobra@v1.6.1/command.go:968 philosopher/cmd.Execute() /workspace/philosopher/cmd/root.go:35 +0x25 main.main() /workspace/philosopher/main.go:25 +0x90 Process 'PhilosopherFilter' finished, exit code: 2 Process returned non-zero exit code, stopping ~~~~~~~~~~~~~~~~~~~~ Cancelling 431 remaining tasks