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Started by upstream project "BIOFORMATS-test-repo" build number 71 originally caused by: Started by upstream project "Trigger" build number 79 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/jenkins15820856831471943186.sh + '[' avi = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10719_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] 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] 04:29:19,282 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:29:19,285 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 04:29:19,285 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:29:19,291 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:29:19,292 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:29:19,292 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:29:19,292 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:29:19,292 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:29:19,293 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:29:19,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:29:19,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:29:19,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:29:19,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:29:19,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:29:19,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:29:19,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:29:19,523 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:29:19,524 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:29:19,524 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:29:19,524 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:29:19,524 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 04:29:19,525 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 04:29:19,525 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 232 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-22 04:29:19,535] [main] java.version = 17.0.2 [testng] 04:29:19,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:29:19,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:29:19,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-22_04-29-19.log] [testng] 04:29:19,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-22 04:29:19,583] [main] testng.directory = /data [testng] [2024-05-22 04:29:19,583] [main] testng.configDirectory = /config [testng] [2024-05-22 04:29:19,592] [main] testng.multiplier = 1.0 [testng] [2024-05-22 04:29:19,592] [main] testng.in-memory = false [testng] [2024-05-22 04:29:19,593] [main] testng.allow-missing = false [testng] [2024-05-22 04:29:19,593] [main] user.language = en [testng] [2024-05-22 04:29:19,593] [main] user.country = ${user.country} [testng] [2024-05-22 04:29:19,593] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-22 04:29:20,538] [main] ---------------------------------------- [testng] [2024-05-22 04:29:20,538] [main] Total files: 40 [testng] [2024-05-22 04:29:20,538] [main] Scan time: 0.945 s (23 ms/file) [testng] [2024-05-22 04:29:20,538] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-22 04:33:13,677] [pool-1-thread-1] Initializing /data/william/worm.avi: [testng] 04:33:13,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:33:13,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,679 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-22_04-33-13.log] [testng] 04:33:13,680 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a3fc31 - End of configuration. [testng] [2024-05-22 04:33:13,698] [pool-1-thread-12] Initializing /data/kurt/40x_6um.avi: [testng] 04:33:13,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:33:13,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-22_04-33-13.log] [testng] 04:33:13,700 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47483590 - End of configuration. [testng] [2024-05-22 04:33:13,769] [pool-1-thread-11] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] 04:33:13,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:33:13,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-22_04-33-13.log] [testng] 04:33:13,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@391bbeb - End of configuration. [testng] [2024-05-22 04:33:13,788] [pool-1-thread-10] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] 04:33:13,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:33:13,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-22_04-33-13.log] [testng] 04:33:13,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fb15d2e - End of configuration. [testng] [2024-05-22 04:33:13,829] [pool-1-thread-9] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 04:33:13,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:33:13,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-22_04-33-13.log] [testng] 04:33:13,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6463cb08 - End of configuration. [testng] [2024-05-22 04:33:13,870] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] 04:33:13,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:33:13,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-22_04-33-13.log] [testng] 04:33:13,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a6710df - End of configuration. [testng] [2024-05-22 04:33:13,888] [pool-1-thread-7] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] 04:33:13,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:33:13,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-22_04-33-13.log] [testng] 04:33:13,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@215029e5 - End of configuration. [testng] [2024-05-22 04:33:13,956] [pool-1-thread-6] Initializing /data/kurt/63x_6um.avi: [testng] 04:33:13,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:33:13,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:13,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-22_04-33-13.log] [testng] 04:33:13,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3364416c - End of configuration. [testng] [2024-05-22 04:33:14,020] [pool-1-thread-5] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] 04:33:14,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:33:14,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:14,021 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-22_04-33-14.log] [testng] 04:33:14,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fe887e6 - End of configuration. [testng] [2024-05-22 04:33:14,056] [pool-1-thread-4] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] 04:33:14,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:33:14,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:14,057 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-22_04-33-14.log] [testng] 04:33:14,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56207f5d - End of configuration. [testng] [2024-05-22 04:33:14,086] [pool-1-thread-3] Initializing /data/chris/APZ04_009.avi: [testng] 04:33:14,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:33:14,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:14,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-22_04-33-14.log] [testng] 04:33:14,088 |-INFO in ch.qos.logback.core.sift.SiftProcessor@425109f9 - End of configuration. [testng] [2024-05-22 04:33:17,904] [pool-1-thread-2] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] 04:33:17,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:33:17,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:33:17,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-22_04-33-17.log] [testng] 04:33:17,905 |-INFO in ch.qos.logback.core.sift.SiftProcessor@298c181c - End of configuration. [testng] [2024-05-22 04:33:19,400] [pool-1-thread-11] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-05-22 04:33:19,503] [pool-1-thread-8] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2024-05-22 04:33:19,590] [pool-1-thread-1] Initializing /data/ascb/TIRF.avi: [testng] [2024-05-22 04:33:20,147] [pool-1-thread-2] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] [2024-05-22 04:33:20,160] [pool-1-thread-4] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2024-05-22 04:33:20,467] [pool-1-thread-9] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-05-22 04:33:20,597] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-05-22 04:33:20,718] [pool-1-thread-7] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] [2024-05-22 04:33:20,964] [pool-1-thread-12] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] [2024-05-22 04:33:21,022] [pool-1-thread-10] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-05-22 04:33:21,054] [pool-1-thread-6] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [2024-05-22 04:33:21,243] [pool-1-thread-2] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-05-22 04:33:21,450] [pool-1-thread-7] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-05-22 04:33:21,539] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-05-22 04:33:21,672] [pool-1-thread-1] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-05-22 04:33:21,800] [pool-1-thread-5] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-05-22 04:33:21,963] [pool-1-thread-6] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-05-22 04:33:22,044] [pool-1-thread-11] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-05-22 04:33:22,155] [pool-1-thread-10] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [2024-05-22 04:33:22,280] [pool-1-thread-5] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-05-22 04:33:31,104] [pool-1-thread-9] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-05-22 04:33:31,164] [pool-1-thread-6] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-05-22 04:33:31,213] [pool-1-thread-12] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-05-22 04:33:31,287] [pool-1-thread-7] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-05-22 04:33:31,294] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-05-22 04:33:31,330] [pool-1-thread-1] Initializing /data/roger/spheroid1.lsm movie.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 26 seconds Finished: SUCCESS