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Started by upstream project "BIOFORMATS-test-repo" build number 370 originally caused by: Started by upstream project "Trigger" build number 396 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins5508772272663387524.sh + '[' microct = 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_58949_merge_ci -v /uod/idr/repos/curated/microct:/data -v /uod/idr-scratch/merge-ci/curated/microct:/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] 08:47:01,569 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 08:47:01,571 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 08:47:01,571 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:47:01,572 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:47:01,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:47:01,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:47:01,573 |-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] 08:47:01,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:47:01,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:47:01,573 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:47:01,573 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:47:01,574 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:47:01,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:47:01,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:47:01,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:47:01,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:47:01,834 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:47:01,834 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:47:01,834 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:47:01,834 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:47:01,835 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 08:47:01,835 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 08:47:01,835 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 262 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-10 08:47:01,845] [main] java.version = 1.8.0_342 [testng] 08:47:01,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:47:01,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:47:01,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-10_08-47-01.log] [testng] 08:47:01,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-10 08:47:01,898] [main] testng.directory = /data [testng] [2025-03-10 08:47:01,898] [main] testng.configDirectory = /config [testng] [2025-03-10 08:47:01,911] [main] testng.multiplier = 1.0 [testng] [2025-03-10 08:47:01,911] [main] testng.in-memory = false [testng] [2025-03-10 08:47:01,911] [main] testng.allow-missing = false [testng] [2025-03-10 08:47:01,911] [main] user.language = fr [testng] [2025-03-10 08:47:01,911] [main] user.country = FR [testng] [2025-03-10 08:47:01,911] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-10 08:47:07,592] [main] ---------------------------------------- [testng] [2025-03-10 08:47:07,592] [main] Total files: 53 [testng] [2025-03-10 08:47:07,592] [main] Scan time: 5.679 s (107 ms/file) [testng] [2025-03-10 08:47:07,592] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 53 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-10 08:53:03,240] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005050501-hand/hox-wt-20050505-01-hand.vff: [testng] 08:53:03,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:53:03,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:53:03,241 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-10_08-53-03.log] [testng] 08:53:03,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63b2099 - End of configuration. [testng] [2025-03-10 08:53:47,946] [pool-1-thread-12] Initializing /data/samples/hox_wt_2005041301/hox-wt-04132005.vff: [testng] 08:53:47,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:53:47,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:53:47,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-10_08-53-47.log] [testng] 08:53:47,948 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a4c1a43 - End of configuration. [testng] [2025-03-10 08:54:30,541] [pool-1-thread-11] Initializing /data/samples/hox_wt_2005041501/hox-wt-04152005.vff: [testng] 08:54:30,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:54:30,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:54:30,542 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-10_08-54-30.log] [testng] 08:54:30,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71cfd197 - End of configuration. [testng] [2025-03-10 08:55:19,209] [pool-1-thread-10] Initializing /data/samples/hox-wt-2005042601-hand/hox-wt-2005042601-hand.vff: [testng] 08:55:19,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:55:19,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:19,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-10_08-55-19.log] [testng] 08:55:19,211 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c1c5d97 - End of configuration. [testng] [2025-03-10 08:55:59,103] [pool-1-thread-9] Initializing /data/samples/Mouse_Hand_2004010700/Mouse_Hand_2004010700.vff: [testng] 08:55:59,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:55:59,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:59,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-10_08-55-59.log] [testng] 08:55:59,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63606867 - End of configuration. [testng] [2025-03-10 08:56:42,622] [pool-1-thread-8] Initializing /data/samples/hox_wt_2005040501/hox-wt-04052005-a.vff: [testng] 08:56:42,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:56:42,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:56:42,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-10_08-56-42.log] [testng] 08:56:42,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67f78624 - End of configuration. [testng] [2025-03-10 08:57:22,684] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005050902-humerus/hox-wt-20050509-02-humerus.vff: [testng] 08:57:22,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:57:22,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:57:22,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-10_08-57-22.log] [testng] 08:57:22,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ad7c655 - End of configuration. [testng] [2025-03-10 08:58:04,762] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005042201-humerus/hox-wt-2005042201-humerus.vff: [testng] 08:58:04,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:58:04,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:58:04,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-10_08-58-04.log] [testng] 08:58:04,763 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51dcbfca - End of configuration. [testng] [2025-03-10 08:58:50,879] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005050901-humerus/hox-wt-20050509-01-humerus.vff: [testng] 08:58:50,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:58:50,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:58:50,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-10_08-58-50.log] [testng] 08:58:50,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18a2475a - End of configuration. [testng] [2025-03-10 08:59:30,473] [pool-1-thread-4] Initializing /data/samples/hox-wt-2005050201-humerus/hox-wt-20050502-01-humerus.vff: [testng] 08:59:30,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:59:30,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:59:30,474 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-10_08-59-30.log] [testng] 08:59:30,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a7830b4 - End of configuration. [testng] [2025-03-10 09:00:21,278] [pool-1-thread-3] Initializing /data/samples/hox-wt-2005042101-humerus/hox-wt-2005042101-humerus.vff: [testng] 09:00:21,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 09:00:21,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:00:21,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-10_09-00-21.log] [testng] 09:00:21,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ee84a16 - End of configuration. [testng] [2025-03-10 09:00:55,633] [pool-1-thread-2] Initializing /data/samples/hox_wt_2005041401/hox-wt-04142005.vff: [testng] 09:00:55,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 09:00:55,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:00:55,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-10_09-00-55.log] [testng] 09:00:55,634 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a46a9e - End of configuration. [testng] [2025-03-10 09:09:49,410] [pool-1-thread-6] Initializing /data/samples/Ping_1_2003112000/Ping_1_2003112000.vff: [testng] [2025-03-10 09:10:52,635] [pool-1-thread-12] Initializing /data/samples/hox-wt-2005050902-hand/hox-wt-20050509-02-hand.vff: [testng] [2025-03-10 09:11:41,251] [pool-1-thread-4] Initializing /data/samples/hox-wt-2005042301-humerus/hox-wt-2005042301-humerus.vff: [testng] [2025-03-10 09:12:34,106] [pool-1-thread-10] Initializing /data/samples/hox-wt-2005042201-hand/hox-wt-2005042201-hand.vff: [testng] [2025-03-10 09:13:32,134] [pool-1-thread-2] Initializing /data/samples/hox-wt-2005050201-hand/hox-wt-20050502-01-hand.vff: [testng] [2025-03-10 09:14:15,672] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005050501-humerus/hox-wt-20050505-01-humerus.vff: [testng] [2025-03-10 09:15:07,239] [pool-1-thread-11] Initializing /data/samples/mouse_skull_93um/mouse_skull_93um.vff: [testng] [2025-03-10 09:15:48,212] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005050903-hand/hox-wt-20050509-03-hand.vff: [testng] [2025-03-10 09:16:39,332] [pool-1-thread-3] Initializing /data/samples/hox-wt-2005050903-humerus/hox-wt-20050509-03-humerus.vff: [testng] [2025-03-10 09:17:15,693] [pool-1-thread-7] Initializing /data/samples/Statuette_2003112100/Statuette_2003112100.vff: [testng] [2025-03-10 09:18:15,788] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005050904-hand/hox-wt-20050509-04-hand.vff: [testng] [2025-03-10 09:18:34,161] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005050901-hand/hox-wt-20050509-01-hand.vff: [testng] [2025-03-10 09:26:04,993] [pool-1-thread-5] Initializing /data/samples/Almond_Kiss_2003112600/Almond_Kiss_2003112600.vff: [testng] [2025-03-10 09:29:04,242] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005042301-hand/hox-wt-2005042301-hand.vff: [testng] [2025-03-10 09:29:55,732] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005050904-humerus/hox-wt-20050509-04-humerus.vff: [testng] [2025-03-10 09:30:41,364] [pool-1-thread-6] Initializing /data/samples/hox_wt_2005041101/hox-wt-04112005-a.vff: [testng] [2025-03-10 09:31:26,123] [pool-1-thread-12] Initializing /data/samples/hox-wt-2005042101-hand/hox-wt-2005042101-hand.vff: [testng] [2025-03-10 09:32:06,984] [pool-1-thread-2] Initializing /data/samples/Bat_Large_2003092500/Bat_Large_2003092500.vff: [testng] [2025-03-10 09:32:53,581] [pool-1-thread-8] Initializing /data/samples/how-wt-2005043001-humerus/how-wt-2005043001-humerus.vff: [testng] [2025-03-10 09:33:28,392] [pool-1-thread-10] Initializing /data/samples/Ping_1_2003112002/Ping_1_2003112002.vff: [testng] [2025-03-10 09:34:13,386] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005050801-humerus/hox-wt-20050508-01-humerus.vff: [testng] [2025-03-10 09:34:55,265] [pool-1-thread-3] Initializing /data/samples/Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: [testng] [2025-03-10 09:35:22,832] [pool-1-thread-4] Initializing /data/samples/hox_wt_2005040401/hox-wt-04042005-a.vff: [testng] [2025-03-10 09:36:06,797] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005042701-humerus/hox-wt-2005042701-humerus.vff: [testng] [2025-03-10 09:42:28,402] [pool-1-thread-5] Initializing /data/samples/Hersheys_Kiss_2003120100/Hersheys_Kiss_2003120100.vff: [testng] [2025-03-10 09:44:16,502] [pool-1-thread-3] Initializing /data/samples/Chick_Embryo_2003121201/Chick_Embryo_2003121201.vff: [testng] [2025-03-10 09:49:17,938] [pool-1-thread-11] Initializing /data/samples/Pepper_2003112000/Pepper_2003112000.vff: [testng] [2025-03-10 09:50:24,522] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005042601-humerus/hox-wt-2005042601-humerus.vff: [testng] [2025-03-10 09:51:32,225] [pool-1-thread-4] Initializing /data/samples/hox_wt_2005041201/hox-wt-04122005.vff: [testng] [2025-03-10 09:52:39,634] [pool-1-thread-1] Initializing /data/samples/hox_wt_2005040701/hox-wt-04072005-a.vff: [testng] [2025-03-10 09:53:40,616] [pool-1-thread-6] Initializing /data/samples/Mouse_Hand_2004011200/Mouse_Hand_2004011200.vff: [testng] [2025-03-10 09:54:27,288] [pool-1-thread-8] Initializing /data/samples/how-wt-2005043001/how-wt-2005043001-hand.vff: [testng] [2025-03-10 09:55:15,515] [pool-1-thread-12] Initializing /data/samples/hox_wt_2005042701/hox-wt-2005042701-hand.vff: [testng] [2025-03-10 09:55:50,649] [pool-1-thread-2] Initializing /data/samples/Bat_Small_2003092500/Bat_Small_2003092500.vff: [testng] [2025-03-10 09:56:27,269] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005050801-hand/hox-wt-20050508-01-hand.vff: [testng] [2025-03-10 09:57:09,294] [pool-1-thread-10] Initializing /data/samples/Chick_Embryo_2003121700/Chick_Embryo_2003121700.vff: [testng] [2025-03-10 10:01:07,963] [pool-1-thread-5] Initializing /data/samples/orig.Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: Build was aborted Calling Pipeline was cancelled Finished: ABORTED