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Started by upstream project "BIOFORMATS-test-repo" build number 294 originally caused by: Started by upstream project "Trigger" build number 313 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/jenkins1294447007252646081.sh + '[' avi = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46493_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] 07:09:18,804 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:09:18,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 07:09:18,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:09:18,806 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:09:18,807 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:09:18,807 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:09:18,807 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:09:18,807 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:09:18,808 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:09:18,808 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:09:18,809 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:09:18,809 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:09:18,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:09:18,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:09:18,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:09:18,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:09:18,988 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:09:18,988 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:09:18,988 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:09:18,989 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:09:18,989 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 07:09:18,990 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 07:09:18,990 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-18 07:09:18,998] [main] java.version = 17.0.2 [testng] 07:09:19,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:09:19,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:09:19,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-18_07-09-19.log] [testng] 07:09:19,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-18 07:09:19,043] [main] testng.directory = /data [testng] [2024-12-18 07:09:19,043] [main] testng.configDirectory = /config [testng] [2024-12-18 07:09:19,051] [main] testng.multiplier = 1.0 [testng] [2024-12-18 07:09:19,052] [main] testng.in-memory = false [testng] [2024-12-18 07:09:19,052] [main] testng.allow-missing = false [testng] [2024-12-18 07:09:19,052] [main] user.language = en [testng] [2024-12-18 07:09:19,052] [main] user.country = ${user.country} [testng] [2024-12-18 07:09:19,052] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-18 07:10:11,404] [main] ---------------------------------------- [testng] [2024-12-18 07:10:11,404] [main] Total files: 40 [testng] [2024-12-18 07:10:11,404] [main] Scan time: 52.352 s (1308 ms/file) [testng] [2024-12-18 07:10:11,404] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-18 07:13:52,142] [pool-1-thread-1] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] 07:13:52,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:13:52,143 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:13:52,144 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-18_07-13-52.log] [testng] 07:13:52,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68936a25 - End of configuration. [testng] [2024-12-18 07:13:53,800] [pool-1-thread-12] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] 07:13:53,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:13:53,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:13:53,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-18_07-13-53.log] [testng] 07:13:53,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7db3f7ed - End of configuration. [testng] [2024-12-18 07:13:56,954] [pool-1-thread-11] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] 07:13:56,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:13:56,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:13:56,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-18_07-13-56.log] [testng] 07:13:56,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@655cdfb9 - End of configuration. [testng] [2024-12-18 07:14:00,738] [pool-1-thread-10] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 07:14:00,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:14:00,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:00,739 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-18_07-14-00.log] [testng] 07:14:00,740 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44b35ac9 - End of configuration. [testng] [2024-12-18 07:14:02,222] [pool-1-thread-9] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] 07:14:02,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:14:02,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:02,223 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-18_07-14-02.log] [testng] 07:14:02,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76604f16 - End of configuration. [testng] [2024-12-18 07:14:04,937] [pool-1-thread-8] Initializing /data/simon/24_bit_problem.avi: [testng] 07:14:04,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:14:04,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:04,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-18_07-14-04.log] [testng] 07:14:04,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@645c5dea - End of configuration. [testng] [2024-12-18 07:14:06,919] [pool-1-thread-7] Initializing /data/kurt/40x_6um.avi: [testng] 07:14:06,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:14:06,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:06,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-18_07-14-06.log] [testng] 07:14:06,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3235878b - End of configuration. [testng] [2024-12-18 07:14:11,695] [pool-1-thread-6] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] 07:14:11,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:14:11,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:11,696 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-18_07-14-11.log] [testng] 07:14:11,696 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bf5cc19 - End of configuration. [testng] [2024-12-18 07:14:16,834] [pool-1-thread-5] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] 07:14:16,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:14:16,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:16,835 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-18_07-14-16.log] [testng] 07:14:16,836 |-INFO in ch.qos.logback.core.sift.SiftProcessor@650b3843 - End of configuration. [testng] [2024-12-18 07:14:20,732] [pool-1-thread-4] Initializing /data/kurt/40x_6um_2.avi: [testng] 07:14:20,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:14:20,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:20,733 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-18_07-14-20.log] [testng] 07:14:20,733 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49269c7b - End of configuration. [testng] [2024-12-18 07:14:27,685] [pool-1-thread-3] Initializing /data/curtis/mri-stack-bf.avi: [testng] 07:14:27,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:14:27,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:27,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-18_07-14-27.log] [testng] 07:14:27,686 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51bb249f - End of configuration. [testng] [2024-12-18 07:14:31,313] [pool-1-thread-2] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] 07:14:31,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:14:31,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:31,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-18_07-14-31.log] [testng] 07:14:31,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cfbbd8e - End of configuration. [testng] [2024-12-18 07:15:05,044] [pool-1-thread-10] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-12-18 07:15:07,740] [pool-1-thread-5] Initializing /data/william/worm.avi: [testng] [2024-12-18 07:15:10,226] [pool-1-thread-1] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [2024-12-18 07:15:12,756] [pool-1-thread-12] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] [2024-12-18 07:15:16,751] [pool-1-thread-3] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-12-18 07:15:20,402] [pool-1-thread-11] Initializing /data/ascb/TIRF.avi: [testng] [2024-12-18 07:15:21,129] [pool-1-thread-6] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-12-18 07:15:23,544] [pool-1-thread-4] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-12-18 07:15:25,585] [pool-1-thread-8] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-12-18 07:15:26,070] [pool-1-thread-7] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] [2024-12-18 07:15:28,415] [pool-1-thread-2] Initializing /data/chris/APZ04_009.avi: [testng] [2024-12-18 07:15:31,705] [pool-1-thread-9] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-12-18 07:15:51,590] [pool-1-thread-5] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-12-18 07:15:53,914] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-12-18 07:15:56,190] [pool-1-thread-3] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-12-18 07:15:57,652] [pool-1-thread-6] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-12-18 07:15:59,947] [pool-1-thread-1] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-12-18 07:16:02,636] [pool-1-thread-11] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-12-18 07:16:05,621] [pool-1-thread-4] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] [2024-12-18 07:16:08,060] [pool-1-thread-7] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2024-12-18 07:16:10,684] [pool-1-thread-10] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] [2024-12-18 07:16:11,924] [pool-1-thread-8] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-12-18 07:16:14,635] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-12-18 07:16:18,606] [pool-1-thread-2] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-12-18 07:16:41,065] [pool-1-thread-10] Initializing /data/kurt/63x_6um.avi: [testng] [2024-12-18 07:16:44,795] [pool-1-thread-5] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 8 minutes 1 second Finished: SUCCESS