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Started by upstream project "BIOFORMATS-test-repo" build number 310 originally caused by: Started by upstream project "Trigger" build number 332 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins15863478781471722823.sh + '[' flex = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_49105_merge_ci -v /uod/idr/repos/curated/flex:/data -v /uod/idr-scratch/merge-ci/curated/flex:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR Buildfile: /bio-formats-build/bioformats/components/test-suite/build.xml [echo] isSnapshot = true init-title: [echo] ----------=========== bio-formats-testing-framework ===========---------- init-timestamp: init: copy-resources: compile: [resolver:resolve] Resolving artifacts compile-tests: [resolver:resolve] Resolving artifacts [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 00:54:05,732 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:54:05,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:54:05,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:05,735 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:05,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:54:05,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:54:05,736 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:54:05,736 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:05,736 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:05,737 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:54:05,737 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:54:05,737 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:54:05,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:54:05,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:54:06,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:54:06,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:54:06,014 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:54:06,015 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:54:06,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:54:06,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:54:06,015 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:54:06,016 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:54:06,016 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 280 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-06 00:54:06,026] [main] java.version = 1.8.0_342 [testng] 00:54:06,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:54:06,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:06,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-06_00-54-06.log] [testng] 00:54:06,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2025-01-06 00:54:06,080] [main] testng.directory = /data [testng] [2025-01-06 00:54:06,080] [main] testng.configDirectory = /config [testng] [2025-01-06 00:54:06,092] [main] testng.multiplier = 1.0 [testng] [2025-01-06 00:54:06,092] [main] testng.in-memory = false [testng] [2025-01-06 00:54:06,093] [main] testng.allow-missing = false [testng] [2025-01-06 00:54:06,093] [main] user.language = fr [testng] [2025-01-06 00:54:06,093] [main] user.country = FR [testng] [2025-01-06 00:54:06,093] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-06 00:55:12,526] [main] ---------------------------------------- [testng] [2025-01-06 00:55:12,526] [main] Total files: 791 [testng] [2025-01-06 00:55:12,526] [main] Scan time: 66.433 s (83 ms/file) [testng] [2025-01-06 00:55:12,527] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-06 01:00:43,949] [pool-1-thread-1] Initializing /data/tony/001014000 - from flex.tif: [testng] 01:00:43,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:00:43,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:43,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-06_01-00-43.log] [testng] 01:00:43,951 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36bb22d - End of configuration. [testng] [2025-01-06 01:00:45,107] [pool-1-thread-12] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] 01:00:45,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:00:45,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:45,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-06_01-00-45.log] [testng] 01:00:45,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@283bc165 - End of configuration. [testng] [2025-01-06 01:00:50,886] [pool-1-thread-11] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] 01:00:50,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:00:50,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:50,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-06_01-00-50.log] [testng] 01:00:50,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7762a352 - End of configuration. [testng] [2025-01-06 01:00:53,285] [pool-1-thread-10] Initializing /data/tamjid/006005000.flex: [testng] 01:00:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:00:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:53,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-06_01-00-53.log] [testng] 01:00:53,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5aba6719 - End of configuration. [testng] [2025-01-06 01:00:53,923] [pool-1-thread-9] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: [testng] 01:00:53,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:00:53,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:53,924 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-06_01-00-53.log] [testng] 01:00:53,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ba4931d - End of configuration. [testng] [2025-01-06 01:00:54,567] [pool-1-thread-8] Initializing /data/tony/015002000.tiff: [testng] 01:00:54,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:00:54,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:54,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-06_01-00-54.log] [testng] 01:00:54,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d74f88d - End of configuration. [testng] [2025-01-06 01:00:56,358] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] 01:00:56,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:00:56,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:00:56,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-06_01-00-56.log] [testng] 01:00:56,359 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7403381c - End of configuration. [testng] [2025-01-06 01:01:02,301] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: [testng] 01:01:02,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:01:02,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:01:02,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-06_01-01-02.log] [testng] 01:01:02,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3db06fb9 - End of configuration. [testng] [2025-01-06 01:01:05,050] [pool-1-thread-5] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: [testng] 01:01:05,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:01:05,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:01:05,051 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-06_01-01-05.log] [testng] 01:01:05,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c1232aa - End of configuration. [testng] [2025-01-06 01:01:05,949] [pool-1-thread-4] Initializing /data/stephane/002007000.flex: [testng] 01:01:05,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:01:05,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:01:05,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-06_01-01-05.log] [testng] 01:01:05,951 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b44cad1 - End of configuration. [testng] [2025-01-06 01:01:06,665] [pool-1-thread-3] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] 01:01:06,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:01:06,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:01:06,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-06_01-01-06.log] [testng] 01:01:06,666 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8c1634 - End of configuration. [testng] [2025-01-06 01:01:12,142] [pool-1-thread-2] Initializing /data/qa-2983/004007000.flex: [testng] 01:01:12,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:01:12,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:01:12,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-06_01-01-12.log] [testng] 01:01:12,143 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e398867 - End of configuration. [testng] [2025-01-06 01:01:22,528] [pool-1-thread-11] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2025-01-06 01:01:23,439] [pool-1-thread-1] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] [2025-01-06 01:01:29,746] [pool-1-thread-10] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: [testng] [2025-01-06 01:01:30,528] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: [testng] [2025-01-06 01:01:31,339] [pool-1-thread-4] Initializing /data/tamjid/006003000.flex: [testng] [2025-01-06 01:01:32,125] [pool-1-thread-2] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] [2025-01-06 01:01:44,681] [pool-1-thread-9] Initializing /data/qa-7469/002002.flex: [testng] [2025-01-06 01:01:45,590] [pool-1-thread-5] Initializing /data/anatole/001004000.flex: [testng] [2025-01-06 01:01:51,570] [pool-1-thread-6] Initializing /data/stephane/006013000.flex: [testng] [2025-01-06 01:01:56,752] [pool-1-thread-4] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2025-01-06 01:02:00,571] [pool-1-thread-10] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: [testng] [2025-01-06 01:02:01,481] [pool-1-thread-8] Initializing /data/tamjid/006004000.flex: [testng] [2025-01-06 01:02:03,135] [pool-1-thread-9] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2025-01-06 01:02:10,499] [pool-1-thread-4] Initializing /data/qa-18096/002003001.flex: [testng] [2025-01-06 01:02:11,347] [pool-1-thread-8] Initializing /data/tony/001001000_objects.flex: [testng] [2025-01-06 01:02:13,636] [pool-1-thread-6] Initializing /data/tony/003003000.tiff: [testng] [2025-01-06 01:02:16,975] [pool-1-thread-10] Initializing /data/achim/003003000.flex: [testng] [2025-01-06 01:02:22,760] [pool-1-thread-4] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2025-01-06 01:02:24,460] [pool-1-thread-8] Initializing /data/tony/test1.flex: [testng] [2025-01-06 01:02:25,355] [pool-1-thread-5] Initializing /data/tony/test.tiff: [testng] [2025-01-06 01:02:27,928] [pool-1-thread-6] Initializing /data/ghislain/test.flex: [testng] [2025-01-06 01:02:36,361] [pool-1-thread-9] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] [2025-01-06 01:03:01,336] [pool-1-thread-8] Initializing /data/tony/003008000.flex: [testng] [2025-01-06 01:03:02,384] [pool-1-thread-5] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] [2025-01-06 01:03:03,404] [pool-1-thread-10] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: [testng] [2025-01-06 01:03:06,472] [pool-1-thread-6] Initializing /data/manuel/003003001.flex: [testng] [2025-01-06 01:03:20,412] [pool-1-thread-5] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: [testng] [2025-01-06 01:03:21,885] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] [2025-01-06 01:03:29,492] [pool-1-thread-8] Initializing /data/qa-17190/002002011.flex: [testng] [2025-01-06 01:03:39,410] [pool-1-thread-6] Initializing /data/qa-18096/002002001.flex: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2226, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 15 minutes 31 seconds Finished: SUCCESS