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Started by upstream project "BIOFORMATS-test-repo" build number 200 originally caused by: Started by upstream project "Trigger" build number 225 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins1780068230974859923.sh + '[' avi = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_31718_merge_ci -v /uod/idr/repos/curated/avi:/data -v /uod/idr-scratch/merge-ci/curated/avi:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 07:44:37,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:44:37,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 07:44:37,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:44:37,758 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:44:37,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:44:37,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:44:37,759 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:44:37,759 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:44:37,759 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:44:37,760 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:44:37,760 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:44:37,760 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:44:37,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:44:37,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:44:37,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:44:37,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:44:37,941 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:44:37,941 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:44:37,941 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:44:37,941 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:44:37,941 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 07:44:37,942 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 07:44:37,942 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 183 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-26 07:44:37,951] [main] java.version = 21 [testng] 07:44:37,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:44:37,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:44:37,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-26_07-44-37.log] [testng] 07:44:37,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-09-26 07:44:37,997] [main] testng.directory = /data [testng] [2024-09-26 07:44:37,998] [main] testng.configDirectory = /config [testng] [2024-09-26 07:44:38,006] [main] testng.multiplier = 1.0 [testng] [2024-09-26 07:44:38,006] [main] testng.in-memory = false [testng] [2024-09-26 07:44:38,006] [main] testng.allow-missing = false [testng] [2024-09-26 07:44:38,006] [main] user.language = en [testng] [2024-09-26 07:44:38,006] [main] user.country = ${user.country} [testng] [2024-09-26 07:44:38,007] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-26 07:44:42,863] [main] ---------------------------------------- [testng] [2024-09-26 07:44:42,863] [main] Total files: 40 [testng] [2024-09-26 07:44:42,863] [main] Scan time: 4.856 s (121 ms/file) [testng] [2024-09-26 07:44:42,864] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-26 07:45:37,089] [pool-1-thread-1] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] 07:45:37,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:45:37,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:37,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-26_07-45-37.log] [testng] 07:45:37,092 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52470be1 - End of configuration. [testng] [2024-09-26 07:45:37,398] [pool-1-thread-12] Initializing /data/chris/APZ04_009.avi: [testng] 07:45:37,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:45:37,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:37,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-26_07-45-37.log] [testng] 07:45:37,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c5604c8 - End of configuration. [testng] [2024-09-26 07:45:39,952] [pool-1-thread-11] Initializing /data/jae/20xD_5minfor14h.avi: [testng] 07:45:39,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:45:39,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:39,954 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-26_07-45-39.log] [testng] 07:45:39,955 |-INFO in ch.qos.logback.core.sift.SiftProcessor@600c35d - End of configuration. [testng] [2024-09-26 07:45:40,262] [pool-1-thread-10] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 07:45:40,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:45:40,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:40,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-26_07-45-40.log] [testng] 07:45:40,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bcad9e1 - End of configuration. [testng] [2024-09-26 07:45:40,507] [pool-1-thread-9] Initializing /data/qa-7450/MVI_3610.AVI: [testng] 07:45:40,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:45:40,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:40,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-26_07-45-40.log] [testng] 07:45:40,508 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6be07daf - End of configuration. [testng] [2024-09-26 07:45:40,791] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] 07:45:40,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:45:40,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:40,792 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-26_07-45-40.log] [testng] 07:45:40,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b36ac3c - End of configuration. [testng] [2024-09-26 07:45:41,017] [pool-1-thread-7] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] 07:45:41,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:45:41,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:41,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-26_07-45-41.log] [testng] 07:45:41,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@751b013b - End of configuration. [testng] [2024-09-26 07:45:41,516] [pool-1-thread-6] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] 07:45:41,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:45:41,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:41,517 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-26_07-45-41.log] [testng] 07:45:41,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8879e50 - End of configuration. [testng] [2024-09-26 07:45:41,793] [pool-1-thread-5] Initializing /data/qa-11011/M-flow10001.avi: [testng] 07:45:41,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:45:41,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:41,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-26_07-45-41.log] [testng] 07:45:41,795 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40cd2955 - End of configuration. [testng] [2024-09-26 07:45:42,101] [pool-1-thread-4] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] 07:45:42,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:45:42,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:42,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-26_07-45-42.log] [testng] 07:45:42,103 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72db0b40 - End of configuration. [testng] [2024-09-26 07:45:42,325] [pool-1-thread-3] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] 07:45:42,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:45:42,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:42,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-26_07-45-42.log] [testng] 07:45:42,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d909fe7 - End of configuration. [testng] [2024-09-26 07:45:42,570] [pool-1-thread-2] Initializing /data/kurt/40x_6um.avi: [testng] 07:45:42,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:45:42,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:45:42,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-26_07-45-42.log] [testng] 07:45:42,571 |-INFO in ch.qos.logback.core.sift.SiftProcessor@565f4a81 - End of configuration. [testng] [2024-09-26 07:45:48,082] [pool-1-thread-3] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] [2024-09-26 07:45:48,395] [pool-1-thread-8] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-09-26 07:45:48,751] [pool-1-thread-10] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-09-26 07:45:49,109] [pool-1-thread-1] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-09-26 07:45:49,477] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-09-26 07:45:49,808] [pool-1-thread-6] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-09-26 07:45:50,185] [pool-1-thread-4] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] [2024-09-26 07:45:50,544] [pool-1-thread-5] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-09-26 07:45:52,009] [pool-1-thread-2] Initializing /data/kurt/63x_6um.avi: [testng] [2024-09-26 07:45:52,389] [pool-1-thread-11] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] [2024-09-26 07:45:53,289] [pool-1-thread-7] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-09-26 07:45:55,275] [pool-1-thread-3] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-09-26 07:45:55,579] [pool-1-thread-6] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-09-26 07:45:55,881] [pool-1-thread-10] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-09-26 07:45:56,135] [pool-1-thread-9] Initializing /data/william/worm.avi: [testng] [2024-09-26 07:45:56,372] [pool-1-thread-8] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] [2024-09-26 07:45:56,583] [pool-1-thread-1] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2024-09-26 07:45:56,824] [pool-1-thread-4] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] [2024-09-26 07:45:57,049] [pool-1-thread-12] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-09-26 07:45:57,266] [pool-1-thread-11] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-09-26 07:45:57,472] [pool-1-thread-2] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-09-26 07:45:58,977] [pool-1-thread-7] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-09-26 07:46:00,657] [pool-1-thread-12] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-09-26 07:46:01,090] [pool-1-thread-8] Initializing /data/ascb/TIRF.avi: [testng] [2024-09-26 07:46:01,693] [pool-1-thread-4] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-09-26 07:46:02,011] [pool-1-thread-10] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 30 seconds Finished: SUCCESS