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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace 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/jenkins9710345233373353239.sh + '[' avi = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4158_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 test-automated: [testng] File leak detector installed [testng] 07:54:26,740 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:54:26,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 07:54:26,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:54:26,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:54:26,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:54:26,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:54:26,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:54:26,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:54:26,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:54:26,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:54:26,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:54:26,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:54:27,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:54:27,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:54:27,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:54:27,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:54:27,072 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:54:27,072 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:54:27,072 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:54:27,073 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:54:27,073 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 07:54:27,074 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 07:54:27,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 330 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 07:54:27,095] [main] java.version = 1.8.0_342 [testng] 07:54:27,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:54:27,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:54:27,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_07-54-27.log] [testng] 07:54:27,158 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 07:54:27,160] [main] testng.directory = /data [testng] [2024-04-12 07:54:27,161] [main] testng.configDirectory = /config [testng] [2024-04-12 07:54:27,248] [main] testng.multiplier = 1.0 [testng] [2024-04-12 07:54:27,248] [main] testng.in-memory = false [testng] [2024-04-12 07:54:27,248] [main] testng.allow-missing = false [testng] [2024-04-12 07:54:27,248] [main] user.language = en [testng] [2024-04-12 07:54:27,248] [main] user.country = ${user.country} [testng] [2024-04-12 07:54:27,248] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 07:54:28,246] [main] ---------------------------------------- [testng] [2024-04-12 07:54:28,247] [main] Total files: 40 [testng] [2024-04-12 07:54:28,247] [main] Scan time: 0.998 s (24 ms/file) [testng] [2024-04-12 07:54:28,247] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 07:58:44,107] [pool-1-thread-1] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] 07:58:44,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:58:44,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_07-58-44.log] [testng] 07:58:44,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f2e0468 - End of configuration. [testng] [2024-04-12 07:58:44,145] [pool-1-thread-12] Initializing /data/kurt/40x_6um_2.avi: [testng] 07:58:44,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:58:44,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_07-58-44.log] [testng] 07:58:44,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f78e5a7 - End of configuration. [testng] [2024-04-12 07:58:44,211] [pool-1-thread-11] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] 07:58:44,211 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:58:44,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_07-58-44.log] [testng] 07:58:44,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19feecb - End of configuration. [testng] [2024-04-12 07:58:44,231] [pool-1-thread-10] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] 07:58:44,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:58:44,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_07-58-44.log] [testng] 07:58:44,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cf41a82 - End of configuration. [testng] [2024-04-12 07:58:44,310] [pool-1-thread-9] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] 07:58:44,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:58:44,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_07-58-44.log] [testng] 07:58:44,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c78fa2 - End of configuration. [testng] [2024-04-12 07:58:44,319] [pool-1-thread-8] Initializing /data/chris/APZ04_009.avi: [testng] 07:58:44,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:58:44,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:44,321 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_07-58-44.log] [testng] 07:58:44,321 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bebb8ed - End of configuration. [testng] [2024-04-12 07:58:50,050] [pool-1-thread-7] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] 07:58:50,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:58:50,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,052 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_07-58-50.log] [testng] 07:58:50,053 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7283b766 - End of configuration. [testng] [2024-04-12 07:58:50,522] [pool-1-thread-6] Initializing /data/prairie/cornea dc and macs.AVI: [testng] 07:58:50,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:58:50,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,525 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_07-58-50.log] [testng] 07:58:50,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fdd6a9c - End of configuration. [testng] [2024-04-12 07:58:50,584] [pool-1-thread-5] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] 07:58:50,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:58:50,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_07-58-50.log] [testng] 07:58:50,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64c78454 - End of configuration. [testng] [2024-04-12 07:58:50,619] [pool-1-thread-4] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] 07:58:50,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:58:50,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,621 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_07-58-50.log] [testng] 07:58:50,622 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15220106 - End of configuration. [testng] [2024-04-12 07:58:50,651] [pool-1-thread-3] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] 07:58:50,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:58:50,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,652 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_07-58-50.log] [testng] 07:58:50,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@222e695e - End of configuration. [testng] [2024-04-12 07:58:50,762] [pool-1-thread-2] Initializing /data/qa-7450/MVI_3610.AVI: [testng] 07:58:50,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:58:50,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:50,764 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_07-58-50.log] [testng] 07:58:50,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66f62c59 - End of configuration. [testng] [2024-04-12 07:58:54,079] [pool-1-thread-5] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-04-12 07:58:54,094] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-04-12 07:58:54,142] [pool-1-thread-9] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [2024-04-12 07:58:54,216] [pool-1-thread-4] Initializing /data/kurt/63x_6um.avi: [testng] [2024-04-12 07:58:54,337] [pool-1-thread-3] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-04-12 07:58:54,440] [pool-1-thread-1] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-04-12 07:58:54,483] [pool-1-thread-6] Initializing /data/william/worm.avi: [testng] [2024-04-12 07:58:54,498] [pool-1-thread-2] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [2024-04-12 07:58:54,557] [pool-1-thread-10] Initializing /data/ascb/TIRF.avi: [testng] [2024-04-12 07:58:55,507] [pool-1-thread-12] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-04-12 07:58:55,628] [pool-1-thread-5] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2024-04-12 07:58:55,875] [pool-1-thread-6] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-04-12 07:58:56,414] [pool-1-thread-3] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-04-12 08:00:04,435] [pool-1-thread-5] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-04-12 08:00:04,614] [pool-1-thread-11] Initializing /data/kurt/40x_6um.avi: [testng] [2024-04-12 08:00:04,667] [pool-1-thread-9] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] [2024-04-12 08:00:04,709] [pool-1-thread-1] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-04-12 08:00:04,763] [pool-1-thread-2] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-04-12 08:00:04,889] [pool-1-thread-10] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-04-12 08:00:04,946] [pool-1-thread-12] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-04-12 08:00:05,042] [pool-1-thread-2] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2024-04-12 08:00:05,114] [pool-1-thread-9] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2024-04-12 08:00:05,881] [pool-1-thread-1] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] [2024-04-12 08:00:05,959] [pool-1-thread-4] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] [2024-04-12 08:00:06,043] [pool-1-thread-10] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-04-12 08:00:06,277] [pool-1-thread-1] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 55 seconds Finished: SUCCESS