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deploy multi stimulus raw running speed code (LIMS release) and run jobs #2324

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ns706 opened this issue Mar 22, 2022 · 3 comments
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@ns706
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ns706 commented Mar 22, 2022

Once the LIMS changes (multi stimulus raw running speed code) have been deployed (http://stash.corp.alleninstitute.org/projects/TECH/repos/lims/commits/2ba271fbba16c0aff8d3d6989cc2074b10e0a4d1), the ecephys session data will need to run through the LIMS multi stimulus raw running speed queue. This queue uses the same module as the Multi stimulus running speed module but with a boolean filter set to false. The queue, transitions and executable have already be created in the LIMS.

The well known files created by this queue are used in the behavior ecephys create nwb module with the field named 'raw_running_speed_path'.

Acceptance criteria:

  • Ask the LIMS team to deploy the new LIMS code

  • Run all the ecephys sessions in this queue (use the reprocessing page in the LIMS to create the jobs in a 'pending state' or rerun all of the jobs in the previous queue - on finishing they will create new jobs in the next queue)

  • check to make sure the jobs run without errors

  • run the jobs behavior ecephys create nwb and make sure there are no errors

raw_running_speed.PNG

@danielsf
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We need to shepherd this PR through review to merging

http://stash.corp.alleninstitute.org/projects/TECH/repos/lims/pull-requests/838/overview

@danielsf
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Also depends on having the list of sessions for release from Corbett

The ecephys_session_ids that Wayne gave to Scott is

1044385384,1044594870,1056495334,1056720277,1055221968,
1055403683,1055240613,1055415082,1062755779,1063010385,
1062755416,1063010496,1070961372,1071301976,1067588044,
1067781390,1069192277,1069458330,1065449881,1065908084,
1070969560,1071300149,1077712208,1077891954,1084427055,
1084938101,1079018622,1079278078,1081079981,1081429294,
1081090969,1081431006,1099598937,1099869737,1104052767,
1104297538,1109680280,1109889304,1108335514,1108528422,
1116941914,1117148442,1118324999,1118512505,1119946360,
1120251466,1130113579,1130349290,1132595046,1132752601,
1131502356,1131648544,1128520325,1128719842,1139846596,
1140102579,1047969464,1048189115,1039257177,1039557143,
1047977240,1048196054,1052331749,1052530003,1046166369,
1046581736,1053718935,1053941483,1065437523,1065905010,
1064400234,1064644573,1069193611,1069461581,1077711823,
1077897245,1084428217,1084939136,1086200042,1086410738,
1087720624,1087992708,1089296550,1089572777,1086198651,
1086433081,1095142367,1095353694,1095138995,1095340643,
1093638203,1093867806,1092284153,1092468497,1098119201,
1098350754,1101263832,1101467873,1106985031,1107172157,
1104058216,1104289498,1101268690,1101473342,1106984390,
1107177016,1102575448,1102790314,1105543760,1105798776,
1115077618,1115356973,1108334384,1108531612,1122903357,
1123100019,1112302803,1112515874,1115086689,1115368723,
1121406444,1121607504,1118327332,1118508667,1124285719,
1124507277,1125713722,1125937457,1043752325,1044016459,
1044389060,1044597824,1049273528,1049514117,1052342277,
1052533639,1053709239,1053925378,1059678195,1059908979,
1061238668,1061463555,1064415305,1064639378,1072345110,
1072572100,1076265417,1076487758,1072341440,1072567062,
1079018673,1079275221,1067593545,1067790400,1082987883,
1083212839,1093642839,1093864136,1090803859,1091039376,
1099596266,1099872628,1087723305,1087993643,1090800639,
1091039902,1096620314,1096935816,1092283837,1092466205,
1113751921,1113957627,1111013640,1111216934,1152632711,
1152811536)

Corbett has not verified this list yet.

@danielsf
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danielsf commented Apr 8, 2022

The ecephys session NWB writer will calculate the running speed and running acquisition dataframes internally, without needing to rely on a separate LIMS queue (#2337)

@danielsf danielsf closed this as completed Apr 8, 2022
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