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Started by upstream project "BIOFORMATS-test-repo" build number 69 originally caused by: Started by upstream project "Trigger" build number 77 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins3859791909164875779.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_10319_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] 01:22:26,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:26,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:26,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:26,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:26,938 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:26,939 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:26,939 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:26,940 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:26,940 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:22:26,942 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:22:26,942 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 731 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-20 01:22:26,959] [main] java.version = 1.8.0_342 [testng] 01:22:26,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:26,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:27,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-20_01-22-26.log] [testng] 01:22:27,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-20 01:22:27,044] [main] testng.directory = /data [testng] [2024-05-20 01:22:27,045] [main] testng.configDirectory = /config [testng] [2024-05-20 01:22:27,061] [main] testng.multiplier = 1.0 [testng] [2024-05-20 01:22:27,061] [main] testng.in-memory = false [testng] [2024-05-20 01:22:27,061] [main] testng.allow-missing = false [testng] [2024-05-20 01:22:27,062] [main] user.language = fr [testng] [2024-05-20 01:22:27,062] [main] user.country = FR [testng] [2024-05-20 01:22:27,062] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-20 01:22:28,703] [main] ---------------------------------------- [testng] [2024-05-20 01:22:28,703] [main] Total files: 53 [testng] [2024-05-20 01:22:28,703] [main] Scan time: 1.641 s (30 ms/file) [testng] [2024-05-20 01:22:28,703] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 53 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-20 01:22:59,752] [pool-1-thread-1] Initializing /data/samples/hox-wt-2005050501-humerus/hox-wt-20050505-01-humerus.vff: [testng] 01:22:59,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:22:59,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:59,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-20_01-22-59.log] [testng] 01:22:59,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40338135 - End of configuration. [testng] [2024-05-20 01:23:00,013] [pool-1-thread-12] Initializing /data/samples/hox_wt_2005042701/hox-wt-2005042701-hand.vff: [testng] 01:23:00,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:23:00,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-20_01-23-00.log] [testng] 01:23:00,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b24c330 - End of configuration. [testng] [2024-05-20 01:23:00,823] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005042601-humerus/hox-wt-2005042601-humerus.vff: [testng] 01:23:00,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:23:00,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:00,825 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-20_01-23-00.log] [testng] 01:23:00,826 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cdd343f - End of configuration. [testng] [2024-05-20 01:23:01,415] [pool-1-thread-10] Initializing /data/samples/Mouse_Hand_2004010701/Mouse_Hand_2004010701.vff: [testng] 01:23:01,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:23:01,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:01,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-20_01-23-01.log] [testng] 01:23:01,416 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cb0987 - End of configuration. [testng] [2024-05-20 01:23:02,399] [pool-1-thread-9] Initializing /data/samples/hox_wt_2005040701/hox-wt-04072005-a.vff: [testng] 01:23:02,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:23:02,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:02,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-20_01-23-02.log] [testng] 01:23:02,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@806b4cb - End of configuration. [testng] [2024-05-20 01:23:03,395] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005050903-hand/hox-wt-20050509-03-hand.vff: [testng] 01:23:03,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:23:03,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:03,396 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-20_01-23-03.log] [testng] 01:23:03,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e0cc418 - End of configuration. [testng] [2024-05-20 01:23:04,011] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005042301-hand/hox-wt-2005042301-hand.vff: [testng] 01:23:04,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:23:04,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:04,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-20_01-23-04.log] [testng] 01:23:04,013 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13cf0238 - End of configuration. [testng] [2024-05-20 01:23:04,477] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005050902-hand/hox-wt-20050509-02-hand.vff: [testng] 01:23:04,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:23:04,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:04,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-20_01-23-04.log] [testng] 01:23:04,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35dbe478 - End of configuration. [testng] [2024-05-20 01:23:04,886] [pool-1-thread-5] Initializing /data/samples/Almond_Kiss_2003112600/Almond_Kiss_2003112600.vff: [testng] 01:23:04,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:23:04,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:04,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-20_01-23-04.log] [testng] 01:23:04,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6aebd91b - End of configuration. [testng] [2024-05-20 01:23:05,542] [pool-1-thread-4] Initializing /data/samples/hox-wt-2005050501-hand/hox-wt-20050505-01-hand.vff: [testng] 01:23:05,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:23:05,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:05,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-20_01-23-05.log] [testng] 01:23:05,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441ac4ee - End of configuration. [testng] [2024-05-20 01:23:06,284] [pool-1-thread-3] Initializing /data/samples/hox-wt-2005042201-hand/hox-wt-2005042201-hand.vff: [testng] 01:23:06,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:23:06,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:06,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-20_01-23-06.log] [testng] 01:23:06,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39c875 - End of configuration. [testng] [2024-05-20 01:23:07,062] [pool-1-thread-2] Initializing /data/samples/hox_wt_2005041501/hox-wt-04152005.vff: [testng] 01:23:07,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:23:07,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:07,063 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-20_01-23-07.log] [testng] 01:23:07,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cdf62cd - End of configuration. [testng] [2024-05-20 01:23:44,988] [pool-1-thread-4] Initializing /data/samples/hox_wt_2005041401/hox-wt-04142005.vff: [testng] [2024-05-20 01:23:48,688] [pool-1-thread-1] Initializing /data/samples/Ping_1_2003112001/Ping_1_2003112001.vff: [testng] [2024-05-20 01:23:52,702] [pool-1-thread-3] Initializing /data/samples/how-wt-2005043001/how-wt-2005043001-hand.vff: [testng] [2024-05-20 01:23:54,989] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005050904-humerus/hox-wt-20050509-04-humerus.vff: [testng] [2024-05-20 01:23:56,431] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005050901-humerus/hox-wt-20050509-01-humerus.vff: [testng] [2024-05-20 01:23:56,910] [pool-1-thread-8] Initializing /data/samples/hox-wt-2005050902-humerus/hox-wt-20050509-02-humerus.vff: [testng] [2024-05-20 01:23:57,347] [pool-1-thread-2] Initializing /data/samples/hox-wt-2005050904-hand/hox-wt-20050509-04-hand.vff: [testng] [2024-05-20 01:23:58,682] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005050801-hand/hox-wt-20050508-01-hand.vff: [testng] [2024-05-20 01:24:00,707] [pool-1-thread-7] Initializing /data/samples/orig.Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: [testng] [2024-05-20 01:24:03,484] [pool-1-thread-12] Initializing /data/samples/hox-wt-2005050903-humerus/hox-wt-20050509-03-humerus.vff: [testng] [2024-05-20 01:24:04,366] [pool-1-thread-10] Initializing /data/samples/hox-wt-2005050201-humerus/hox-wt-20050502-01-humerus.vff: [testng] [2024-05-20 01:24:21,829] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005042201-humerus/hox-wt-2005042201-humerus.vff: [testng] [2024-05-20 01:24:48,929] [pool-1-thread-6] Initializing /data/samples/hox-wt-2005042601-hand/hox-wt-2005042601-hand.vff: [testng] [2024-05-20 01:24:51,608] [pool-1-thread-2] Initializing /data/samples/Bat_Large_2003092500/Bat_Large_2003092500.vff: [testng] [2024-05-20 01:24:54,584] [pool-1-thread-9] Initializing /data/samples/hox-wt-2005042301-humerus/hox-wt-2005042301-humerus.vff: [testng] [2024-05-20 01:24:56,373] [pool-1-thread-11] Initializing /data/samples/hox-wt-2005050901-hand/hox-wt-20050509-01-hand.vff: [testng] [2024-05-20 01:24:58,073] [pool-1-thread-8] Initializing /data/samples/Mouse_Hand_2004011200/Mouse_Hand_2004011200.vff: [testng] [2024-05-20 01:25:00,086] [pool-1-thread-12] Initializing /data/samples/hox_wt_2005040501/hox-wt-04052005-a.vff: [testng] [2024-05-20 01:25:00,684] [pool-1-thread-4] Initializing /data/samples/hox-wt-2005050201-hand/hox-wt-20050502-01-hand.vff: [testng] [2024-05-20 01:25:01,547] [pool-1-thread-10] Initializing /data/samples/hox_wt_2005040401/hox-wt-04042005-a.vff: [testng] [2024-05-20 01:25:02,502] [pool-1-thread-3] Initializing /data/samples/Statuette_2003112100/Statuette_2003112100.vff: [testng] [2024-05-20 01:25:05,894] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005042101-hand/hox-wt-2005042101-hand.vff: [testng] [2024-05-20 01:25:19,879] [pool-1-thread-1] Initializing /data/samples/Bat_Small_2003092500/Bat_Small_2003092500.vff: [testng] [2024-05-20 01:25:23,066] [pool-1-thread-7] Initializing /data/samples/hox-wt-2005042101-humerus/hox-wt-2005042101-humerus.vff: [testng] [2024-05-20 01:25:42,910] [pool-1-thread-6] Initializing /data/samples/hox_wt_2005041201/hox-wt-04122005.vff: [testng] [2024-05-20 01:25:46,689] [pool-1-thread-12] Initializing /data/samples/Mouse_Hand_2004010700/Mouse_Hand_2004010700.vff: [testng] [2024-05-20 01:25:52,850] [pool-1-thread-4] Initializing /data/samples/Chick_Embryo_2003121700/Chick_Embryo_2003121700.vff: [testng] [2024-05-20 01:25:56,821] [pool-1-thread-9] Initializing /data/samples/Hersheys_Kiss_2003120100/Hersheys_Kiss_2003120100.vff: [testng] [2024-05-20 01:26:00,177] [pool-1-thread-5] Initializing /data/samples/hox-wt-2005042701-humerus/hox-wt-2005042701-humerus.vff: [testng] [2024-05-20 01:26:01,296] [pool-1-thread-11] Initializing /data/samples/Ping_1_2003112000/Ping_1_2003112000.vff: [testng] [2024-05-20 01:26:01,975] [pool-1-thread-10] Initializing /data/samples/hox-wt-2005050801-humerus/hox-wt-20050508-01-humerus.vff: [testng] [2024-05-20 01:26:03,779] [pool-1-thread-3] Initializing /data/samples/Chick_Embryo_2003121200/Chick_Embryo_2003121200.vff: [testng] [2024-05-20 01:26:08,197] [pool-1-thread-2] Initializing /data/samples/mouse_skull_93um/mouse_skull_93um.vff: [testng] [2024-05-20 01:26:08,785] [pool-1-thread-8] Initializing /data/samples/Mouse_ankle_2003091500/AnkleJoint21umvoxels.vff: [testng] [2024-05-20 01:26:09,941] [pool-1-thread-7] Initializing /data/samples/how-wt-2005043001-humerus/how-wt-2005043001-humerus.vff: [testng] [2024-05-20 01:26:37,942] [pool-1-thread-2] Initializing /data/samples/hox_wt_2005041101/hox-wt-04112005-a.vff: [testng] [2024-05-20 01:26:42,846] [pool-1-thread-8] Initializing /data/samples/hox_wt_2005041301/hox-wt-04132005.vff: [testng] [2024-05-20 01:26:47,888] [pool-1-thread-5] Initializing /data/samples/Mouse_Hand_2004010900/Mouse_Hand_2004010900.vff: [testng] [2024-05-20 01:26:52,374] [pool-1-thread-7] Initializing /data/samples/Chick_Embryo_2003121201/Chick_Embryo_2003121201.vff: [testng] [2024-05-20 01:26:56,893] [pool-1-thread-6] Initializing /data/samples/Pepper_2003112000/Pepper_2003112000.vff: [testng] [2024-05-20 01:27:00,867] [pool-1-thread-10] Initializing /data/samples/Ping_1_2003112002/Ping_1_2003112002.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 32 seconds Finished: SUCCESS