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Started by upstream project "BIOFORMATS-test-repo" build number 389 originally caused by: Started by upstream project "Trigger" build number 412 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins8655723334004794443.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_61544_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] 00:43:13,381 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:43:13,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 00:43:13,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:43:13,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:43:13,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:43:13,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:43:13,385 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:43:13,385 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:43:13,386 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:43:13,386 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:43:13,386 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:43:13,386 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:43:13,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:43:13,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:43:13,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:43:13,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:43:13,648 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:43:13,648 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:43:13,648 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:43:13,648 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:43:13,648 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 00:43:13,649 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 00:43:13,649 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 263 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-24 00:43:13,659] [main] java.version = 1.8.0_342 [testng] 00:43:13,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:43:13,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:43:13,708 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-24_00-43-13.log] [testng] 00:43:13,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-24 00:43:13,711] [main] testng.directory = /data [testng] [2025-03-24 00:43:13,711] [main] testng.configDirectory = /config [testng] [2025-03-24 00:43:13,723] [main] testng.multiplier = 1.0 [testng] [2025-03-24 00:43:13,724] [main] testng.in-memory = false [testng] [2025-03-24 00:43:13,724] [main] testng.allow-missing = false [testng] [2025-03-24 00:43:13,724] [main] user.language = fr [testng] [2025-03-24 00:43:13,724] [main] user.country = FR [testng] [2025-03-24 00:43:13,724] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-24 00:47:12,039] [main] ---------------------------------------- [testng] [2025-03-24 00:47:12,039] [main] Total files: 791 [testng] [2025-03-24 00:47:12,039] [main] Scan time: 238.315 s (301 ms/file) [testng] [2025-03-24 00:47:12,039] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-24 00:55:28,068] [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] 00:55:28,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:55:28,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:28,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-24_00-55-28.log] [testng] 00:55:28,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@465d8e6d - End of configuration. [testng] [2025-03-24 00:55:29,538] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: [testng] 00:55:29,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:55:29,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:29,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-24_00-55-29.log] [testng] 00:55:29,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e2ec2c8 - End of configuration. [testng] [2025-03-24 00:55:30,963] [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] 00:55:30,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:55:30,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:30,964 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-24_00-55-30.log] [testng] 00:55:30,965 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c30af60 - End of configuration. [testng] [2025-03-24 00:55:32,407] [pool-1-thread-10] Initializing /data/manuel/003003001.flex: [testng] 00:55:32,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:55:32,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:32,408 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-24_00-55-32.log] [testng] 00:55:32,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@226ef4ef - End of configuration. [testng] [2025-03-24 00:55:33,812] [pool-1-thread-9] Initializing /data/stephane/006013000.flex: [testng] 00:55:33,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:55:33,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:33,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-24_00-55-33.log] [testng] 00:55:33,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33683d78 - End of configuration. [testng] [2025-03-24 00:55:35,283] [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] 00:55:35,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:55:35,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:35,284 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-24_00-55-35.log] [testng] 00:55:35,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@434604f9 - End of configuration. [testng] [2025-03-24 00:55:36,786] [pool-1-thread-7] Initializing /data/qa-17190/002002011.flex: [testng] 00:55:36,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:55:36,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:36,788 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-24_00-55-36.log] [testng] 00:55:36,789 |-INFO in ch.qos.logback.core.sift.SiftProcessor@677a3755 - End of configuration. [testng] [2025-03-24 00:55:38,107] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: [testng] 00:55:38,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:55:38,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:38,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-24_00-55-38.log] [testng] 00:55:38,108 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20db5778 - End of configuration. [testng] [2025-03-24 00:55:39,500] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] 00:55:39,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:55:39,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:39,501 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-24_00-55-39.log] [testng] 00:55:39,501 |-INFO in ch.qos.logback.core.sift.SiftProcessor@322c01c0 - End of configuration. [testng] [2025-03-24 00:55:50,243] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] 00:55:50,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:55:50,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:55:50,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-24_00-55-50.log] [testng] 00:55:50,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ad19a11 - End of configuration. [testng] [2025-03-24 00:56:01,652] [pool-1-thread-3] Initializing /data/tony/001014000 - from flex.tif: [testng] 00:56:01,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:56:01,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:01,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-24_00-56-01.log] [testng] 00:56:01,654 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d74f88d - End of configuration. [testng] [2025-03-24 00:56:04,503] [pool-1-thread-2] Initializing /data/tony/test.tiff: [testng] 00:56:04,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:56:04,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:56:04,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-24_00-56-04.log] [testng] 00:56:04,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b7e3d18 - End of configuration. [testng] [2025-03-24 00:56:37,758] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: [testng] [2025-03-24 00:56:40,131] [pool-1-thread-2] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] [2025-03-24 00:56:55,980] [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] [2025-03-24 00:56:58,971] [pool-1-thread-7] Initializing /data/ghislain/test.flex: [testng] [2025-03-24 00:57:00,959] [pool-1-thread-6] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] [2025-03-24 00:57:16,701] [pool-1-thread-8] Initializing /data/tony/test1.flex: [testng] [2025-03-24 00:57:18,502] [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] [2025-03-24 00:57:20,235] [pool-1-thread-11] Initializing /data/qa-7469/002002.flex: [testng] [2025-03-24 00:57:22,922] [pool-1-thread-9] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2025-03-24 00:57:40,211] [pool-1-thread-3] Initializing /data/achim/003003000.flex: [testng] [2025-03-24 00:57:42,901] [pool-1-thread-6] Initializing /data/qa-18096/002003001.flex: [testng] [2025-03-24 00:57:45,499] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] [2025-03-24 00:58:05,815] [pool-1-thread-7] Initializing /data/tony/015002000.tiff: [testng] [2025-03-24 00:58:25,084] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] [2025-03-24 00:58:27,168] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2025-03-24 00:58:29,230] [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] [2025-03-24 00:58:33,869] [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] [2025-03-24 00:58:40,639] [pool-1-thread-6] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2025-03-24 00:58:48,928] [pool-1-thread-3] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2025-03-24 00:59:03,058] [pool-1-thread-1] Initializing /data/anatole/001004000.flex: [testng] [2025-03-24 00:59:06,051] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: [testng] [2025-03-24 00:59:11,104] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] [2025-03-24 00:59:28,965] [pool-1-thread-6] Initializing /data/tamjid/006003000.flex: [testng] [2025-03-24 00:59:31,099] [pool-1-thread-12] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] [2025-03-24 01:00:06,477] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] [2025-03-24 01:00:35,931] [pool-1-thread-11] Initializing /data/stephane/002007000.flex: [testng] [2025-03-24 01:00:44,284] [pool-1-thread-6] Initializing /data/qa-18096/002002001.flex: [testng] [2025-03-24 01:00:49,870] [pool-1-thread-1] Initializing /data/tamjid/006005000.flex: [testng] [2025-03-24 01:01:08,077] [pool-1-thread-11] Initializing /data/tony/003003000.tiff: [testng] [2025-03-24 01:01:14,755] [pool-1-thread-6] 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: 40 minutes 36 seconds Finished: SUCCESS