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Started by upstream project "BIOFORMATS-test-repo" build number 301 originally caused by: Started by upstream project "Trigger" build number 323 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins1114649701780166846.sh + '[' avi = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47649_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] 03:35:27,651 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:35:27,653 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 03:35:27,653 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:35:27,654 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:35:27,654 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:35:27,655 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:35:27,655 |-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] 03:35:27,655 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:35:27,655 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:35:27,656 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:35:27,656 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:35:27,657 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:35:27,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:35:27,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:35:27,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:35:27,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:35:27,846 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:35:27,846 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:35:27,846 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:35:27,847 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:35:27,847 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 03:35:27,848 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 03:35:27,848 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 193 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-28 03:35:27,856] [main] java.version = 11.0.16 [testng] 03:35:27,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:35:27,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:27,900 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-28_03-35-27.log] [testng] 03:35:27,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-28 03:35:27,904] [main] testng.directory = /data [testng] [2024-12-28 03:35:27,904] [main] testng.configDirectory = /config [testng] [2024-12-28 03:35:27,913] [main] testng.multiplier = 1.0 [testng] [2024-12-28 03:35:27,914] [main] testng.in-memory = false [testng] [2024-12-28 03:35:27,915] [main] testng.allow-missing = false [testng] [2024-12-28 03:35:27,915] [main] user.language = en [testng] [2024-12-28 03:35:27,915] [main] user.country = ${user.country} [testng] [2024-12-28 03:35:27,915] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-28 03:35:36,253] [main] ---------------------------------------- [testng] [2024-12-28 03:35:36,253] [main] Total files: 40 [testng] [2024-12-28 03:35:36,254] [main] Scan time: 8.338 s (208 ms/file) [testng] [2024-12-28 03:35:36,254] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-28 03:37:02,782] [pool-1-thread-1] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] 03:37:02,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:37:02,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:02,784 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-28_03-37-02.log] [testng] 03:37:02,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26b5a54f - End of configuration. [testng] [2024-12-28 03:37:03,663] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] 03:37:03,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:37:03,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:03,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-28_03-37-03.log] [testng] 03:37:03,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65889890 - End of configuration. [testng] [2024-12-28 03:37:04,324] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] 03:37:04,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:37:04,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:04,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-28_03-37-04.log] [testng] 03:37:04,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6792290f - End of configuration. [testng] [2024-12-28 03:37:04,857] [pool-1-thread-10] Initializing /data/jae/20xD_5minfor14h.avi: [testng] 03:37:04,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:37:04,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:04,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-28_03-37-04.log] [testng] 03:37:04,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e3364b8 - End of configuration. [testng] [2024-12-28 03:37:05,478] [pool-1-thread-9] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] 03:37:05,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:37:05,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:05,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-28_03-37-05.log] [testng] 03:37:05,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a4df874 - End of configuration. [testng] [2024-12-28 03:37:06,302] [pool-1-thread-8] Initializing /data/kurt/40x_6um.avi: [testng] 03:37:06,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:37:06,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:06,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-28_03-37-06.log] [testng] 03:37:06,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b4b39cc - End of configuration. [testng] [2024-12-28 03:37:06,698] [pool-1-thread-7] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] 03:37:06,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:37:06,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:06,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-28_03-37-06.log] [testng] 03:37:06,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33c48640 - End of configuration. [testng] [2024-12-28 03:37:07,409] [pool-1-thread-6] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 03:37:07,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:37:07,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:07,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-28_03-37-07.log] [testng] 03:37:07,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e0ceabd - End of configuration. [testng] [2024-12-28 03:37:08,166] [pool-1-thread-5] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 03:37:08,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:37:08,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:08,167 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-28_03-37-08.log] [testng] 03:37:08,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b36c67e - End of configuration. [testng] [2024-12-28 03:37:08,710] [pool-1-thread-4] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] 03:37:08,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:37:08,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:08,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-28_03-37-08.log] [testng] 03:37:08,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@775fe479 - End of configuration. [testng] [2024-12-28 03:37:09,380] [pool-1-thread-3] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] 03:37:09,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:37:09,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:09,381 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-28_03-37-09.log] [testng] 03:37:09,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26d8fb23 - End of configuration. [testng] [2024-12-28 03:37:09,685] [pool-1-thread-2] Initializing /data/qa-11011/M-flow10001.avi: [testng] 03:37:09,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:37:09,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:37:09,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-28_03-37-09.log] [testng] 03:37:09,687 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7057f0a1 - End of configuration. [testng] [2024-12-28 03:37:16,462] [pool-1-thread-5] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-12-28 03:37:16,844] [pool-1-thread-1] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2024-12-28 03:37:17,532] [pool-1-thread-3] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-12-28 03:37:19,216] [pool-1-thread-6] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-12-28 03:37:19,643] [pool-1-thread-4] Initializing /data/ascb/TIRF.avi: [testng] [2024-12-28 03:37:20,352] [pool-1-thread-11] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-12-28 03:37:20,892] [pool-1-thread-12] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-12-28 03:37:21,447] [pool-1-thread-7] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [2024-12-28 03:37:21,844] [pool-1-thread-9] Initializing /data/chris/APZ04_009.avi: [testng] [2024-12-28 03:37:27,471] [pool-1-thread-8] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-12-28 03:37:28,034] [pool-1-thread-2] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-12-28 03:37:28,676] [pool-1-thread-10] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-12-28 03:37:34,774] [pool-1-thread-12] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2024-12-28 03:37:35,304] [pool-1-thread-5] Initializing /data/kurt/63x_6um.avi: [testng] [2024-12-28 03:37:35,692] [pool-1-thread-2] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-12-28 03:37:35,993] [pool-1-thread-7] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [2024-12-28 03:37:36,348] [pool-1-thread-4] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-12-28 03:37:36,938] [pool-1-thread-6] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-12-28 03:37:37,258] [pool-1-thread-8] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-12-28 03:37:37,650] [pool-1-thread-11] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2024-12-28 03:37:37,958] [pool-1-thread-10] Initializing /data/william/worm.avi: [testng] [2024-12-28 03:37:38,777] [pool-1-thread-1] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-12-28 03:37:42,897] [pool-1-thread-6] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-12-28 03:37:43,564] [pool-1-thread-10] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-12-28 03:37:44,023] [pool-1-thread-2] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-12-28 03:37:44,518] [pool-1-thread-4] 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: 2 minutes 27 seconds Finished: SUCCESS