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Started by upstream project "BIOFORMATS-test-repo" build number 330 originally caused by: Started by upstream project "Trigger" build number 353 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins6102166864597889218.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_52410_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] 01:13:49,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:13:49,733 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 01:13:49,733 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:13:49,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:13:49,734 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:13:49,734 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:13:49,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:13:49,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:13:49,735 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:13:49,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:13:49,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:13:49,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:13:49,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:13:49,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:13:50,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:13:50,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:13:50,014 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:13:50,014 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:13:50,014 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:13:50,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:13:50,015 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 01:13:50,016 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 01:13:50,016 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 281 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-27 01:13:50,029] [main] java.version = 1.8.0_342 [testng] 01:13:50,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:13:50,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:50,083 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-27_01-13-50.log] [testng] 01:13:50,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-01-27 01:13:50,087] [main] testng.directory = /data [testng] [2025-01-27 01:13:50,087] [main] testng.configDirectory = /config [testng] [2025-01-27 01:13:50,101] [main] testng.multiplier = 1.0 [testng] [2025-01-27 01:13:50,101] [main] testng.in-memory = false [testng] [2025-01-27 01:13:50,101] [main] testng.allow-missing = false [testng] [2025-01-27 01:13:50,101] [main] user.language = fr [testng] [2025-01-27 01:13:50,101] [main] user.country = FR [testng] [2025-01-27 01:13:50,102] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-27 01:14:39,471] [main] ---------------------------------------- [testng] [2025-01-27 01:14:39,472] [main] Total files: 791 [testng] [2025-01-27 01:14:39,472] [main] Scan time: 49.369 s (62 ms/file) [testng] [2025-01-27 01:14:39,472] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-27 01:19:19,800] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: [testng] 01:19:19,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:19:19,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:19,802 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-27_01-19-19.log] [testng] 01:19:19,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c4a7f8d - End of configuration. [testng] [2025-01-27 01:19:22,314] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: [testng] 01:19:22,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:19:22,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:22,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-27_01-19-22.log] [testng] 01:19:22,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e7bb1ee - End of configuration. [testng] [2025-01-27 01:19:22,911] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: [testng] 01:19:22,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:19:22,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:22,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-27_01-19-22.log] [testng] 01:19:22,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7584f855 - End of configuration. [testng] [2025-01-27 01:19:23,591] [pool-1-thread-10] Initializing /data/manuel/003003001.flex: [testng] 01:19:23,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:19:23,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:23,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-27_01-19-23.log] [testng] 01:19:23,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ea8765 - End of configuration. [testng] [2025-01-27 01:19:24,278] [pool-1-thread-9] Initializing /data/stephane/006013000.flex: [testng] 01:19:24,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:19:24,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:24,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-27_01-19-24.log] [testng] 01:19:24,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b2b146b - End of configuration. [testng] [2025-01-27 01:19:24,922] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: [testng] 01:19:24,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:19:24,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:24,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-27_01-19-24.log] [testng] 01:19:24,923 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f716b1b - End of configuration. [testng] [2025-01-27 01:19:25,563] [pool-1-thread-7] Initializing /data/qa-17190/002002011.flex: [testng] 01:19:25,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:19:25,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:25,564 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-27_01-19-25.log] [testng] 01:19:25,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@276b9c5f - End of configuration. [testng] [2025-01-27 01:19:26,039] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: [testng] 01:19:26,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:19:26,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:26,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-27_01-19-26.log] [testng] 01:19:26,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@788311b6 - End of configuration. [testng] [2025-01-27 01:19:26,373] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] 01:19:26,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:19:26,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:26,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-27_01-19-26.log] [testng] 01:19:26,374 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ed5905 - End of configuration. [testng] [2025-01-27 01:19:31,650] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] 01:19:31,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:19:31,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:31,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-27_01-19-31.log] [testng] 01:19:31,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f6363c5 - End of configuration. [testng] [2025-01-27 01:19:36,965] [pool-1-thread-3] Initializing /data/tony/001014000 - from flex.tif: [testng] 01:19:36,965 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:19:36,965 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:36,966 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-27_01-19-36.log] [testng] 01:19:36,966 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12ac92e8 - End of configuration. [testng] [2025-01-27 01:19:38,521] [pool-1-thread-2] Initializing /data/tony/test.tiff: [testng] 01:19:38,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:19:38,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:19:38,522 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-27_01-19-38.log] [testng] 01:19:38,523 |-INFO in ch.qos.logback.core.sift.SiftProcessor@169cc1 - End of configuration. [testng] [2025-01-27 01:19:50,923] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: [testng] [2025-01-27 01:19:51,819] [pool-1-thread-7] Initializing /data/ghislain/test.flex: [testng] [2025-01-27 01:19:52,606] [pool-1-thread-2] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] [2025-01-27 01:19:59,482] [pool-1-thread-6] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] [2025-01-27 01:20:01,530] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: [testng] [2025-01-27 01:20:08,054] [pool-1-thread-8] Initializing /data/tony/test1.flex: [testng] [2025-01-27 01:20:09,391] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: [testng] [2025-01-27 01:20:10,328] [pool-1-thread-9] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2025-01-27 01:20:15,283] [pool-1-thread-11] Initializing /data/qa-7469/002002.flex: [testng] [2025-01-27 01:20:17,515] [pool-1-thread-6] Initializing /data/achim/003003000.flex: [testng] [2025-01-27 01:20:18,577] [pool-1-thread-3] Initializing /data/qa-18096/002003001.flex: [testng] [2025-01-27 01:20:19,557] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] [2025-01-27 01:20:27,509] [pool-1-thread-7] Initializing /data/tony/015002000.tiff: [testng] [2025-01-27 01:20:33,312] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] [2025-01-27 01:20:40,363] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2025-01-27 01:20:42,035] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: [testng] [2025-01-27 01:20:46,292] [pool-1-thread-7] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: [testng] [2025-01-27 01:20:48,608] [pool-1-thread-3] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2025-01-27 01:20:53,223] [pool-1-thread-6] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2025-01-27 01:20:55,388] [pool-1-thread-8] Initializing /data/anatole/001004000.flex: [testng] [2025-01-27 01:21:01,650] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: [testng] [2025-01-27 01:21:05,980] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] [2025-01-27 01:21:13,137] [pool-1-thread-3] Initializing /data/tamjid/006003000.flex: [testng] [2025-01-27 01:21:14,046] [pool-1-thread-12] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] [2025-01-27 01:21:28,040] [pool-1-thread-11] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] [2025-01-27 01:21:39,176] [pool-1-thread-1] Initializing /data/stephane/002007000.flex: [testng] [2025-01-27 01:21:40,262] [pool-1-thread-3] Initializing /data/qa-18096/002002001.flex: [testng] [2025-01-27 01:21:44,980] [pool-1-thread-8] Initializing /data/tamjid/006005000.flex: [testng] [2025-01-27 01:21:52,356] [pool-1-thread-3] Initializing /data/tony/003003000.tiff: [testng] [2025-01-27 01:21:54,270] [pool-1-thread-1] Initializing /data/tony/003008000.flex: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2226, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 13 minutes 59 seconds Finished: SUCCESS