From 5f679f26b6a70b8dbcf8c9ed13ea8c4a3779b54c Mon Sep 17 00:00:00 2001 From: Scaramir Date: Wed, 3 Jan 2024 19:16:01 +0100 Subject: [PATCH] Adding new/updated io.github.betaseg_cellsketch-add-labelmap_0.2.0 --- album_catalog_index.db | Bin 86016 -> 86016 bytes .../cellsketch-add-labelmap/CHANGELOG.md | 3 +- .../gradle/wrapper/gradle-wrapper.jar | Bin .../gradle/wrapper/gradle-wrapper.properties | 0 .../cellsketch-add-labelmap/gradlew | 0 .../cellsketch-add-labelmap/gradlew.bat | 178 +++++++++--------- .../cellsketch-add-labelmap/solution.py | 2 +- .../cellsketch-add-labelmap/solution.yml | 14 +- .../src/main/java/Main.java | 0 9 files changed, 100 insertions(+), 97 deletions(-) mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/CHANGELOG.md mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.jar mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.properties mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew.bat mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/solution.py mode change 100755 => 100644 solutions/io.github.betaseg/cellsketch-add-labelmap/src/main/java/Main.java diff --git a/album_catalog_index.db b/album_catalog_index.db index c71aafa9c271cc285c5338237fba8e6665ad953e..ada478a995cb3d89ba61e3d5d303ff3293dfe258 100644 GIT binary patch delta 496 zcmZozz}m2Yb%HeG?TIqZjJG!?+?zkyWkCWP?*`uGyz@2-3QXsjY`r#BB8G*5k3t8*aCVFe*=G{b0?tR@T`ES3!H|JgOT!Z_>rP1(5lVp%M=O9(K^u(EKWoqfsTLN-X~`C5Cg#RQW+}!- zCgw&ahKUA=hN;GeiN?tm+vDsQmoaiM@oO;fSMzHCLs5pGIiRs_^4-4y)2sa%TLH|( Be$M~^ delta 381 zcmZozz}m2Yb%HeG&51J3j5jwX+?&tFyMcE(@4U%&3lcU93QXsjY`r#BLXCxik3|+kCXa9O zfpgm2?2Mcito~r>&EL*NGYVF4=W(ZU$8ZO8dvQB(n{n$-4!Cd*s9uwEa^$V6K~0HZ zTlm`hTX22kH-wx&q1 z(B_8QEh3C6lUYAl^YMpq+4D1VXR%bUNHXu(?Dt^<9}@$^r2k>e0gWD$@BR(gyz+m9 zfH0OQDGyZ`_I diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/CHANGELOG.md b/solutions/io.github.betaseg/cellsketch-add-labelmap/CHANGELOG.md old mode 100755 new mode 100644 index cc1ae34..64cd127 --- a/solutions/io.github.betaseg/cellsketch-add-labelmap/CHANGELOG.md +++ b/solutions/io.github.betaseg/cellsketch-add-labelmap/CHANGELOG.md @@ -4,7 +4,8 @@ All notable changes to this project will be documented in this file. The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/), and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). -## [0.2.0] - 2023-11-11 +## [0.2.0] - 2024-01-03 +Update CellSketch version ## [0.1.0] - 2023-07-04 diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.jar b/solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.jar old mode 100755 new mode 100644 diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.properties b/solutions/io.github.betaseg/cellsketch-add-labelmap/gradle/wrapper/gradle-wrapper.properties old mode 100755 new mode 100644 diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew b/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew old mode 100755 new mode 100644 diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew.bat b/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew.bat old mode 100755 new mode 100644 index ac1b06f..107acd3 --- a/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew.bat +++ b/solutions/io.github.betaseg/cellsketch-add-labelmap/gradlew.bat @@ -1,89 +1,89 @@ -@rem -@rem Copyright 2015 the original author or authors. -@rem -@rem Licensed under the Apache License, Version 2.0 (the "License"); -@rem you may not use this file except in compliance with the License. -@rem You may obtain a copy of the License at -@rem -@rem https://www.apache.org/licenses/LICENSE-2.0 -@rem -@rem Unless required by applicable law or agreed to in writing, software -@rem distributed under the License is distributed on an "AS IS" BASIS, -@rem WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -@rem See the License for the specific language governing permissions and -@rem limitations under the License. -@rem - -@if "%DEBUG%" == "" @echo off -@rem ########################################################################## -@rem -@rem Gradle startup script for Windows -@rem -@rem ########################################################################## - -@rem Set local scope for the variables with windows NT shell -if "%OS%"=="Windows_NT" setlocal - -set DIRNAME=%~dp0 -if "%DIRNAME%" == "" set DIRNAME=. -set APP_BASE_NAME=%~n0 -set APP_HOME=%DIRNAME% - -@rem Resolve any "." and ".." in APP_HOME to make it shorter. -for %%i in ("%APP_HOME%") do set APP_HOME=%%~fi - -@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script. -set DEFAULT_JVM_OPTS="-Xmx64m" "-Xms64m" - -@rem Find java.exe -if defined JAVA_HOME goto findJavaFromJavaHome - -set JAVA_EXE=java.exe -%JAVA_EXE% -version >NUL 2>&1 -if "%ERRORLEVEL%" == "0" goto execute - -echo. -echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH. -echo. -echo Please set the JAVA_HOME variable in your environment to match the -echo location of your Java installation. - -goto fail - -:findJavaFromJavaHome -set JAVA_HOME=%JAVA_HOME:"=% -set JAVA_EXE=%JAVA_HOME%/bin/java.exe - -if exist "%JAVA_EXE%" goto execute - -echo. -echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME% -echo. -echo Please set the JAVA_HOME variable in your environment to match the -echo location of your Java installation. - -goto fail - -:execute -@rem Setup the command line - -set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar - - -@rem Execute Gradle -"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %* - -:end -@rem End local scope for the variables with windows NT shell -if "%ERRORLEVEL%"=="0" goto mainEnd - -:fail -rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of -rem the _cmd.exe /c_ return code! -if not "" == "%GRADLE_EXIT_CONSOLE%" exit 1 -exit /b 1 - -:mainEnd -if "%OS%"=="Windows_NT" endlocal - -:omega +@rem +@rem Copyright 2015 the original author or authors. +@rem +@rem Licensed under the Apache License, Version 2.0 (the "License"); +@rem you may not use this file except in compliance with the License. +@rem You may obtain a copy of the License at +@rem +@rem https://www.apache.org/licenses/LICENSE-2.0 +@rem +@rem Unless required by applicable law or agreed to in writing, software +@rem distributed under the License is distributed on an "AS IS" BASIS, +@rem WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +@rem See the License for the specific language governing permissions and +@rem limitations under the License. +@rem + +@if "%DEBUG%" == "" @echo off +@rem ########################################################################## +@rem +@rem Gradle startup script for Windows +@rem +@rem ########################################################################## + +@rem Set local scope for the variables with windows NT shell +if "%OS%"=="Windows_NT" setlocal + +set DIRNAME=%~dp0 +if "%DIRNAME%" == "" set DIRNAME=. +set APP_BASE_NAME=%~n0 +set APP_HOME=%DIRNAME% + +@rem Resolve any "." and ".." in APP_HOME to make it shorter. +for %%i in ("%APP_HOME%") do set APP_HOME=%%~fi + +@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script. +set DEFAULT_JVM_OPTS="-Xmx64m" "-Xms64m" + +@rem Find java.exe +if defined JAVA_HOME goto findJavaFromJavaHome + +set JAVA_EXE=java.exe +%JAVA_EXE% -version >NUL 2>&1 +if "%ERRORLEVEL%" == "0" goto execute + +echo. +echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH. +echo. +echo Please set the JAVA_HOME variable in your environment to match the +echo location of your Java installation. + +goto fail + +:findJavaFromJavaHome +set JAVA_HOME=%JAVA_HOME:"=% +set JAVA_EXE=%JAVA_HOME%/bin/java.exe + +if exist "%JAVA_EXE%" goto execute + +echo. +echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME% +echo. +echo Please set the JAVA_HOME variable in your environment to match the +echo location of your Java installation. + +goto fail + +:execute +@rem Setup the command line + +set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar + + +@rem Execute Gradle +"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %* + +:end +@rem End local scope for the variables with windows NT shell +if "%ERRORLEVEL%"=="0" goto mainEnd + +:fail +rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of +rem the _cmd.exe /c_ return code! +if not "" == "%GRADLE_EXIT_CONSOLE%" exit 1 +exit /b 1 + +:mainEnd +if "%OS%"=="Windows_NT" endlocal + +:omega diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.py b/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.py old mode 100755 new mode 100644 index b2fcab4..b2fa5c6 --- a/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.py +++ b/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.py @@ -66,7 +66,7 @@ def is_file_arg(arg_name): description="This solution adds a labelmap to an existing CellSketch project.", tags=["cellsketch", "segmentation", "annotation"], cite=[{ - "text": "A. Müller, D. Schmidt, C. S. Xu, S. Pang, J. V. D’Costa, S. Kretschmar, C. Münster, T. Kurth, F. Jug, M. Weigert, H. F. Hess, M. Solimena; 3D FIB-SEM reconstruction of microtubule–organelle interaction in whole primary mouse β cells. J Cell Biol 1 February 2021; 220 (2): e202010039.", + "text": "A. Müller, D. Schmidt, C. S. Xu, S. Pang, J. V. D'Costa, S. Kretschmar, C. Münster, T. Kurth, F. Jug, M. Weigert, H. F. Hess, M. Solimena; 3D FIB-SEM reconstruction of microtubule-organelle interaction in whole primary mouse β cells. J Cell Biol 1 February 2021; 220 (2): e202010039.", "doi": "https://doi.org/10.1083/jcb.202010039" }], album_api_version="0.5.5", diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.yml b/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.yml index c0887ce..5ce5a30 100644 --- a/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.yml +++ b/solutions/io.github.betaseg/cellsketch-add-labelmap/solution.yml @@ -38,13 +38,15 @@ args: name: thresholdConnectionFilamentEnds required: false type: float -changelog: null +changelog: 'Update CellSketch version + + ' cite: - doi: https://doi.org/10.1083/jcb.202010039 - text: "A. M\xFCller, D. Schmidt, C. S. Xu, S. Pang, J. V. D\u2019Costa, S. Kretschmar,\ - \ C. M\xFCnster, T. Kurth, F. Jug, M. Weigert, H. F. Hess, M. Solimena; 3D FIB-SEM\ - \ reconstruction of microtubule\u2013organelle interaction in whole primary mouse\ - \ \u03B2 cells. J Cell Biol 1 February 2021; 220 (2): e202010039." + text: "A. M\xC3\xBCller, D. Schmidt, C. S. Xu, S. Pang, J. V. D'Costa, S. Kretschmar,\ + \ C. M\xC3\xBCnster, T. Kurth, F. Jug, M. Weigert, H. F. Hess, M. Solimena; 3D\ + \ FIB-SEM reconstruction of microtubule-organelle interaction in whole primary\ + \ mouse \xCE\xB2 cells. J Cell Biol 1 February 2021; 220 (2): e202010039." description: This solution adds a labelmap to an existing CellSketch project. group: io.github.betaseg name: cellsketch-add-labelmap @@ -54,6 +56,6 @@ tags: - cellsketch - segmentation - annotation -timestamp: '2023-11-11T12:39:13.382913' +timestamp: '2024-01-03T19:16:00.579534' title: 'CellSketch: Add labelmap' version: 0.2.0 diff --git a/solutions/io.github.betaseg/cellsketch-add-labelmap/src/main/java/Main.java b/solutions/io.github.betaseg/cellsketch-add-labelmap/src/main/java/Main.java old mode 100755 new mode 100644