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Started by upstream project "BIOFORMATS-test-repo" build number 108 originally caused by: Started by upstream project "Trigger" build number 120 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/jenkins9080321688323651127.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_16715_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] 02:32:56,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:32:56,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:32:56,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:32:56,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:32:56,404 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:32:56,404 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:32:56,404 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:32:56,405 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:32:56,405 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 02:32:56,406 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 02:32:56,406 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 508 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-01 02:32:56,418] [main] java.version = 1.8.0_342 [testng] 02:32:56,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:32:56,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:32:56,470 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-01_02-32-56.log] [testng] 02:32:56,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-01 02:32:56,474] [main] testng.directory = /data [testng] [2024-07-01 02:32:56,474] [main] testng.configDirectory = /config [testng] [2024-07-01 02:32:56,487] [main] testng.multiplier = 1.0 [testng] [2024-07-01 02:32:56,488] [main] testng.in-memory = false [testng] [2024-07-01 02:32:56,488] [main] testng.allow-missing = false [testng] [2024-07-01 02:32:56,488] [main] user.language = fr [testng] [2024-07-01 02:32:56,488] [main] user.country = FR [testng] [2024-07-01 02:32:56,488] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-01 02:32:57,904] [main] ---------------------------------------- [testng] [2024-07-01 02:32:57,904] [main] Total files: 53 [testng] [2024-07-01 02:32:57,904] [main] Scan time: 1.415 s (26 ms/file) [testng] [2024-07-01 02:32:57,904] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 53 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-01 02:33:27,917] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005050501-humerus/hox-wt-20050505-01-humerus.vff: [testng] 02:33:27,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:33:27,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:27,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-01_02-33-27.log] [testng] 02:33:27,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f20fbd2 - End of configuration. [testng] [2024-07-01 02:33:28,131] [pool-1-thread-12] Initializing /data/samples/hox_wt_2005042701/hox-wt-2005042701-hand.vff: [testng] 02:33:28,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:33:28,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:28,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-01_02-33-28.log] [testng] 02:33:28,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ac28d72 - End of configuration. [testng] [2024-07-01 02:33:28,659] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005042601-humerus/hox-wt-2005042601-humerus.vff: [testng] 02:33:28,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:33:28,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:28,660 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-01_02-33-28.log] [testng] 02:33:28,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@482bf30f - End of configuration. [testng] [2024-07-01 02:33:29,169] [pool-1-thread-10] Initializing /data/samples/Mouse_Hand_2004010701/Mouse_Hand_2004010701.vff: [testng] 02:33:29,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:33:29,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:29,170 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-01_02-33-29.log] [testng] 02:33:29,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ff7bee9 - End of configuration. [testng] [2024-07-01 02:33:29,836] [pool-1-thread-9] Initializing /data/samples/hox_wt_2005040701/hox-wt-04072005-a.vff: [testng] 02:33:29,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:33:29,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:29,837 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-01_02-33-29.log] [testng] 02:33:29,837 |-INFO in ch.qos.logback.core.sift.SiftProcessor@691e2ade - End of configuration. [testng] [2024-07-01 02:33:30,701] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005050903-hand/hox-wt-20050509-03-hand.vff: [testng] 02:33:30,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:33:30,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:30,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-01_02-33-30.log] [testng] 02:33:30,703 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31fab0f8 - End of configuration. [testng] [2024-07-01 02:33:31,118] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005042301-hand/hox-wt-2005042301-hand.vff: [testng] 02:33:31,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:33:31,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:31,119 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-01_02-33-31.log] [testng] 02:33:31,120 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cb0987 - End of configuration. [testng] [2024-07-01 02:33:31,526] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005050902-hand/hox-wt-20050509-02-hand.vff: [testng] 02:33:31,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:33:31,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:31,527 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-01_02-33-31.log] [testng] 02:33:31,527 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b4078b - End of configuration. [testng] [2024-07-01 02:33:31,973] [pool-1-thread-5] Initializing /data/samples/Almond_Kiss_2003112600/Almond_Kiss_2003112600.vff: [testng] 02:33:31,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:33:31,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:31,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-01_02-33-31.log] [testng] 02:33:31,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a7e3aa - End of configuration. [testng] [2024-07-01 02:33:32,669] [pool-1-thread-4] Initializing /data/samples/hox-wt-2005050501-hand/hox-wt-20050505-01-hand.vff: [testng] 02:33:32,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:33:32,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:32,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-01_02-33-32.log] [testng] 02:33:32,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35394050 - End of configuration. [testng] [2024-07-01 02:33:33,285] [pool-1-thread-3] Initializing /data/samples/hox-wt-2005042201-hand/hox-wt-2005042201-hand.vff: [testng] 02:33:33,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:33:33,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:33,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-01_02-33-33.log] [testng] 02:33:33,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44193ccd - End of configuration. [testng] [2024-07-01 02:33:33,921] [pool-1-thread-2] Initializing /data/samples/hox_wt_2005041501/hox-wt-04152005.vff: [testng] 02:33:33,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:33:33,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:33,922 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-01_02-33-33.log] [testng] 02:33:33,922 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50cb4505 - End of configuration. [testng] [2024-07-01 02:34:11,953] [pool-1-thread-6] Initializing /data/samples/hox_wt_2005041401/hox-wt-04142005.vff: [testng] [2024-07-01 02:34:14,794] [pool-1-thread-8] Initializing /data/samples/Ping_1_2003112001/Ping_1_2003112001.vff: [testng] [2024-07-01 02:34:19,237] [pool-1-thread-4] Initializing /data/samples/how-wt-2005043001/how-wt-2005043001-hand.vff: [testng] [2024-07-01 02:34:21,074] [pool-1-thread-3] Initializing /data/samples/hox-wt-2005050904-humerus/hox-wt-20050509-04-humerus.vff: [testng] [2024-07-01 02:34:22,275] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005050901-humerus/hox-wt-20050509-01-humerus.vff: [testng] [2024-07-01 02:34:22,819] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005050902-humerus/hox-wt-20050509-02-humerus.vff: [testng] [2024-07-01 02:34:23,249] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005050904-hand/hox-wt-20050509-04-hand.vff: [testng] [2024-07-01 02:34:24,599] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005050801-hand/hox-wt-20050508-01-hand.vff: [testng] [2024-07-01 02:34:25,876] [pool-1-thread-12] Initializing /data/samples/orig.Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: [testng] [2024-07-01 02:34:26,663] [pool-1-thread-2] Initializing /data/samples/hox-wt-2005050903-humerus/hox-wt-20050509-03-humerus.vff: [testng] [2024-07-01 02:34:41,444] [pool-1-thread-10] Initializing /data/samples/hox-wt-2005050201-humerus/hox-wt-20050502-01-humerus.vff: [testng] [2024-07-01 02:34:43,428] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005042201-humerus/hox-wt-2005042201-humerus.vff: [testng] [2024-07-01 02:35:03,525] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005042601-hand/hox-wt-2005042601-hand.vff: [testng] [2024-07-01 02:35:06,269] [pool-1-thread-11] Initializing /data/samples/Bat_Large_2003092500/Bat_Large_2003092500.vff: [testng] [2024-07-01 02:35:11,270] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005042301-humerus/hox-wt-2005042301-humerus.vff: [testng] [2024-07-01 02:35:12,600] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005050901-hand/hox-wt-20050509-01-hand.vff: [testng] [2024-07-01 02:35:14,323] [pool-1-thread-3] Initializing /data/samples/Mouse_Hand_2004011200/Mouse_Hand_2004011200.vff: [testng] [2024-07-01 02:35:15,588] [pool-1-thread-7] Initializing /data/samples/hox_wt_2005040501/hox-wt-04052005-a.vff: [testng] [2024-07-01 02:35:16,292] [pool-1-thread-2] Initializing /data/samples/hox-wt-2005050201-hand/hox-wt-20050502-01-hand.vff: [testng] [2024-07-01 02:35:16,919] [pool-1-thread-4] Initializing /data/samples/hox_wt_2005040401/hox-wt-04042005-a.vff: [testng] [2024-07-01 02:35:24,992] [pool-1-thread-10] Initializing /data/samples/Statuette_2003112100/Statuette_2003112100.vff: [testng] [2024-07-01 02:35:28,706] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005042101-hand/hox-wt-2005042101-hand.vff: [testng] [2024-07-01 02:35:37,987] [pool-1-thread-5] Initializing /data/samples/Bat_Small_2003092500/Bat_Small_2003092500.vff: [testng] [2024-07-01 02:35:42,355] [pool-1-thread-12] Initializing /data/samples/hox-wt-2005042101-humerus/hox-wt-2005042101-humerus.vff: [testng] [2024-07-01 02:35:51,248] [pool-1-thread-9] Initializing /data/samples/hox_wt_2005041201/hox-wt-04122005.vff: [testng] [2024-07-01 02:35:53,658] [pool-1-thread-2] Initializing /data/samples/Mouse_Hand_2004010700/Mouse_Hand_2004010700.vff: [testng] [2024-07-01 02:35:59,671] [pool-1-thread-1] Initializing /data/samples/Chick_Embryo_2003121700/Chick_Embryo_2003121700.vff: [testng] [2024-07-01 02:36:04,316] [pool-1-thread-7] Initializing /data/samples/Ping_1_2003112000/Ping_1_2003112000.vff: [testng] [2024-07-01 02:36:09,132] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005042701-humerus/hox-wt-2005042701-humerus.vff: [testng] [2024-07-01 02:36:10,605] [pool-1-thread-4] Initializing /data/samples/Hersheys_Kiss_2003120100/Hersheys_Kiss_2003120100.vff: [testng] [2024-07-01 02:36:12,505] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005050801-humerus/hox-wt-20050508-01-humerus.vff: [testng] [2024-07-01 02:36:15,851] [pool-1-thread-11] Initializing /data/samples/Chick_Embryo_2003121200/Chick_Embryo_2003121200.vff: [testng] [2024-07-01 02:36:21,559] [pool-1-thread-3] Initializing /data/samples/mouse_skull_93um/mouse_skull_93um.vff: [testng] [2024-07-01 02:36:33,531] [pool-1-thread-10] Initializing /data/samples/how-wt-2005043001-humerus/how-wt-2005043001-humerus.vff: [testng] [2024-07-01 02:36:41,648] [pool-1-thread-12] Initializing /data/samples/Mouse_ankle_2003091500/AnkleJoint21umvoxels.vff: [testng] [2024-07-01 02:36:51,152] [pool-1-thread-3] Initializing /data/samples/hox_wt_2005041101/hox-wt-04112005-a.vff: [testng] [2024-07-01 02:36:53,279] [pool-1-thread-6] Initializing /data/samples/hox_wt_2005041301/hox-wt-04132005.vff: [testng] [2024-07-01 02:36:56,546] [pool-1-thread-9] Initializing /data/samples/Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: [testng] [2024-07-01 02:37:00,186] [pool-1-thread-5] Initializing /data/samples/Chick_Embryo_2003121201/Chick_Embryo_2003121201.vff: [testng] [2024-07-01 02:37:03,055] [pool-1-thread-8] Initializing /data/samples/Ping_1_2003112002/Ping_1_2003112002.vff: [testng] [2024-07-01 02:37:06,830] [pool-1-thread-2] Initializing /data/samples/Pepper_2003112000/Pepper_2003112000.vff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2809, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 0 seconds Finished: SUCCESS