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Started by upstream project "BIOFORMATS-test-repo" build number 304 originally caused by: Started by upstream project "Trigger" build number 326 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/jenkins5235602528081498148.sh + '[' avi = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48144_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] 02:28:14,746 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:28:14,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 02:28:14,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:28:14,749 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:28:14,749 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:28:14,750 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:28:14,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:28:14,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:28:14,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:28:14,751 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:28:14,751 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:28:14,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:28:14,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:28:14,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:28:14,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:28:14,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:28:14,949 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:28:14,949 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:28:14,949 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:28:14,950 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:28:14,950 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 02:28:14,951 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 02:28:14,951 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-31 02:28:14,959] [main] java.version = 11.0.16 [testng] 02:28:14,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:28:14,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:15,004 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-31_02-28-14.log] [testng] 02:28:15,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-31 02:28:15,007] [main] testng.directory = /data [testng] [2024-12-31 02:28:15,008] [main] testng.configDirectory = /config [testng] [2024-12-31 02:28:15,018] [main] testng.multiplier = 1.0 [testng] [2024-12-31 02:28:15,019] [main] testng.in-memory = false [testng] [2024-12-31 02:28:15,019] [main] testng.allow-missing = false [testng] [2024-12-31 02:28:15,019] [main] user.language = en [testng] [2024-12-31 02:28:15,019] [main] user.country = ${user.country} [testng] [2024-12-31 02:28:15,019] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-31 02:28:20,280] [main] ---------------------------------------- [testng] [2024-12-31 02:28:20,280] [main] Total files: 40 [testng] [2024-12-31 02:28:20,280] [main] Scan time: 5.261 s (131 ms/file) [testng] [2024-12-31 02:28:20,280] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-31 02:29:17,321] [pool-1-thread-1] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] 02:29:17,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:29:17,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:17,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-31_02-29-17.log] [testng] 02:29:17,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e86829d - End of configuration. [testng] [2024-12-31 02:29:17,708] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] 02:29:17,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:29:17,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:17,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-31_02-29-17.log] [testng] 02:29:17,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19c4e753 - End of configuration. [testng] [2024-12-31 02:29:18,112] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] 02:29:18,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:29:18,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:18,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-31_02-29-18.log] [testng] 02:29:18,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642f6101 - End of configuration. [testng] [2024-12-31 02:29:18,519] [pool-1-thread-10] Initializing /data/jae/20xD_5minfor14h.avi: [testng] 02:29:18,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:29:18,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:18,520 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-31_02-29-18.log] [testng] 02:29:18,521 |-INFO in ch.qos.logback.core.sift.SiftProcessor@207249e2 - End of configuration. [testng] [2024-12-31 02:29:18,979] [pool-1-thread-9] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] 02:29:18,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:29:18,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:18,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-31_02-29-18.log] [testng] 02:29:18,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b8bec3b - End of configuration. [testng] [2024-12-31 02:29:19,373] [pool-1-thread-8] Initializing /data/kurt/40x_6um.avi: [testng] 02:29:19,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:29:19,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:19,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-31_02-29-19.log] [testng] 02:29:19,374 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43d7add7 - End of configuration. [testng] [2024-12-31 02:29:19,744] [pool-1-thread-7] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] 02:29:19,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:29:19,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:19,745 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-31_02-29-19.log] [testng] 02:29:19,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38435745 - End of configuration. [testng] [2024-12-31 02:29:20,177] [pool-1-thread-6] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 02:29:20,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:29:20,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:20,178 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-31_02-29-20.log] [testng] 02:29:20,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73c6f347 - End of configuration. [testng] [2024-12-31 02:29:20,527] [pool-1-thread-5] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 02:29:20,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:29:20,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:20,528 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-31_02-29-20.log] [testng] 02:29:20,528 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c7ad165 - End of configuration. [testng] [2024-12-31 02:29:20,906] [pool-1-thread-4] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] 02:29:20,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:29:20,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:20,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-31_02-29-20.log] [testng] 02:29:20,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22ec1ad9 - End of configuration. [testng] [2024-12-31 02:29:21,318] [pool-1-thread-3] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] 02:29:21,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:29:21,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:21,319 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-31_02-29-21.log] [testng] 02:29:21,319 |-INFO in ch.qos.logback.core.sift.SiftProcessor@628ea393 - End of configuration. [testng] [2024-12-31 02:29:21,714] [pool-1-thread-2] Initializing /data/qa-11011/M-flow10001.avi: [testng] 02:29:21,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:29:21,715 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:29:21,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-31_02-29-21.log] [testng] 02:29:21,716 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6046a3c3 - End of configuration. [testng] [2024-12-31 02:29:27,201] [pool-1-thread-3] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-12-31 02:29:27,597] [pool-1-thread-1] Initializing /data/ascb/TIRF.avi: [testng] [2024-12-31 02:29:28,241] [pool-1-thread-5] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-12-31 02:29:28,698] [pool-1-thread-6] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-12-31 02:29:29,194] [pool-1-thread-11] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [2024-12-31 02:29:29,580] [pool-1-thread-12] Initializing /data/chris/APZ04_009.avi: [testng] [2024-12-31 02:29:30,913] [pool-1-thread-4] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-12-31 02:29:31,319] [pool-1-thread-2] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-12-31 02:29:32,856] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-12-31 02:29:33,145] [pool-1-thread-7] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-12-31 02:29:33,439] [pool-1-thread-9] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-12-31 02:29:33,741] [pool-1-thread-10] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2024-12-31 02:29:37,963] [pool-1-thread-6] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2024-12-31 02:29:38,354] [pool-1-thread-3] Initializing /data/kurt/63x_6um.avi: [testng] [2024-12-31 02:29:38,716] [pool-1-thread-9] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [2024-12-31 02:29:39,161] [pool-1-thread-11] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-12-31 02:29:39,509] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-12-31 02:29:39,782] [pool-1-thread-4] Initializing /data/william/worm.avi: [testng] [2024-12-31 02:29:40,084] [pool-1-thread-7] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-12-31 02:29:40,364] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-12-31 02:29:40,645] [pool-1-thread-1] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2024-12-31 02:29:43,714] [pool-1-thread-10] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-12-31 02:29:44,046] [pool-1-thread-7] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-12-31 02:29:44,385] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-12-31 02:29:44,719] [pool-1-thread-4] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-12-31 02:29:44,991] [pool-1-thread-11] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.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 36 seconds Finished: SUCCESS