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Started by upstream project "BIOFORMATS-test-repo" build number 89 originally caused by: Started by upstream project "Trigger" build number 100 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/jenkins7470553772532599007.sh + '[' avi = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_13671_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] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 01:59:49,695 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:59:49,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 01:59:49,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:59:49,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:59:49,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:59:49,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:59:49,701 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:59:49,701 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:59:49,702 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:59:49,702 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:59:49,703 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:59:49,703 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:59:50,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:59:50,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:59:50,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:59:50,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:59:50,051 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:59:50,051 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:59:50,051 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:59:50,052 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:59:50,052 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 01:59:50,053 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 01:59:50,053 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 351 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-11 01:59:50,064] [main] java.version = 11.0.16 [testng] 01:59:50,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:59:50,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:50,116 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-11_01-59-50.log] [testng] 01:59:50,119 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-06-11 01:59:50,122] [main] testng.directory = /data [testng] [2024-06-11 01:59:50,123] [main] testng.configDirectory = /config [testng] [2024-06-11 01:59:50,151] [main] testng.multiplier = 1.0 [testng] [2024-06-11 01:59:50,153] [main] testng.in-memory = false [testng] [2024-06-11 01:59:50,154] [main] testng.allow-missing = false [testng] [2024-06-11 01:59:50,154] [main] user.language = en [testng] [2024-06-11 01:59:50,154] [main] user.country = ${user.country} [testng] [2024-06-11 01:59:50,154] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-11 01:59:51,131] [main] ---------------------------------------- [testng] [2024-06-11 01:59:51,131] [main] Total files: 40 [testng] [2024-06-11 01:59:51,131] [main] Scan time: 0.977 s (24 ms/file) [testng] [2024-06-11 01:59:51,131] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-11 02:03:44,665] [pool-1-thread-1] Initializing /data/kurt/63x_6um.avi: [testng] 02:03:44,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:03:44,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:44,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-11_02-03-44.log] [testng] 02:03:44,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e9bef77 - End of configuration. [testng] [2024-06-11 02:03:44,778] [pool-1-thread-12] Initializing /data/ascb/TIRF.avi: [testng] 02:03:44,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:03:44,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:44,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-11_02-03-44.log] [testng] 02:03:44,782 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19495784 - End of configuration. [testng] [2024-06-11 02:03:45,098] [pool-1-thread-11] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 02:03:45,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:03:45,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-11_02-03-45.log] [testng] 02:03:45,101 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c8fb472 - End of configuration. [testng] [2024-06-11 02:03:45,124] [pool-1-thread-10] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] 02:03:45,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:03:45,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-11_02-03-45.log] [testng] 02:03:45,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@173cb6da - End of configuration. [testng] [2024-06-11 02:03:45,144] [pool-1-thread-9] Initializing /data/qa-7450/MVI_3610.AVI: [testng] 02:03:45,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:03:45,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-11_02-03-45.log] [testng] 02:03:45,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50e4af4d - End of configuration. [testng] [2024-06-11 02:03:45,216] [pool-1-thread-8] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] 02:03:45,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:03:45,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-11_02-03-45.log] [testng] 02:03:45,218 |-INFO in ch.qos.logback.core.sift.SiftProcessor@153df78 - End of configuration. [testng] [2024-06-11 02:03:45,303] [pool-1-thread-7] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] 02:03:45,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:03:45,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,305 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-11_02-03-45.log] [testng] 02:03:45,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7669c3b7 - End of configuration. [testng] [2024-06-11 02:03:45,344] [pool-1-thread-6] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] 02:03:45,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:03:45,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:45,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-11_02-03-45.log] [testng] 02:03:45,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a015a1a - End of configuration. [testng] [2024-06-11 02:03:47,990] [pool-1-thread-5] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 02:03:47,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:03:47,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:47,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-11_02-03-47.log] [testng] 02:03:47,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@346e2887 - End of configuration. [testng] [2024-06-11 02:03:48,039] [pool-1-thread-4] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] 02:03:48,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:03:48,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:48,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-11_02-03-48.log] [testng] 02:03:48,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36d0c992 - End of configuration. [testng] [2024-06-11 02:03:48,074] [pool-1-thread-3] Initializing /data/chris/APZ04_009.avi: [testng] 02:03:48,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:03:48,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:48,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-11_02-03-48.log] [testng] 02:03:48,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59926fe3 - End of configuration. [testng] [2024-06-11 02:03:53,371] [pool-1-thread-2] Initializing /data/simon/24_bit_problem.avi: [testng] 02:03:53,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:03:53,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:03:53,372 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-11_02-03-53.log] [testng] 02:03:53,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f75db47 - End of configuration. [testng] [2024-06-11 02:03:55,942] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-06-11 02:03:55,970] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-06-11 02:03:56,004] [pool-1-thread-10] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-06-11 02:03:56,036] [pool-1-thread-7] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-06-11 02:03:56,098] [pool-1-thread-4] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] [2024-06-11 02:03:56,118] [pool-1-thread-12] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2024-06-11 02:03:56,161] [pool-1-thread-2] Initializing /data/william/worm.avi: [testng] [2024-06-11 02:03:56,174] [pool-1-thread-9] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [2024-06-11 02:03:56,218] [pool-1-thread-8] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-06-11 02:03:56,252] [pool-1-thread-1] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-06-11 02:03:56,816] [pool-1-thread-2] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-06-11 02:03:56,907] [pool-1-thread-1] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-06-11 02:03:56,959] [pool-1-thread-4] Initializing /data/kurt/40x_6um.avi: [testng] [2024-06-11 02:03:57,214] [pool-1-thread-9] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2024-06-11 02:03:58,384] [pool-1-thread-1] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-06-11 02:03:58,443] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-06-11 02:03:58,491] [pool-1-thread-10] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-06-11 02:03:58,560] [pool-1-thread-11] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2024-06-11 02:03:58,631] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-06-11 02:03:58,794] [pool-1-thread-10] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-06-11 02:03:59,010] [pool-1-thread-8] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] [2024-06-11 02:03:59,121] [pool-1-thread-7] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-06-11 02:03:59,376] [pool-1-thread-2] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-06-11 02:03:59,430] [pool-1-thread-10] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-06-11 02:03:59,612] [pool-1-thread-11] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-06-11 02:03:59,877] [pool-1-thread-5] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 41 seconds Finished: SUCCESS