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Started by upstream project "BIOFORMATS-test-repo" build number 272 originally caused by: Started by upstream project "Trigger" build number 294 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/jenkins12588128897759967619.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42951_merge_ci -v /uod/idr/repos/curated/jpeg2000:/data -v /uod/idr-scratch/merge-ci/curated/jpeg2000:/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] 04:12:02,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:12:02,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:12:02,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:12:02,768 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:12:02,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:12:02,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:12:02,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:12:02,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:12:02,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:12:02,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:12:02,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:12:02,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:12:02,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:12:02,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:12:03,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:12:03,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:12:03,026 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:12:03,026 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:12:03,026 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:12:03,026 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:12:03,027 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:12:03,027 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:12:03,027 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 257 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 04:12:03,037] [main] java.version = 1.8.0_342 [testng] 04:12:03,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:12:03,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:03,084 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_04-12-03.log] [testng] 04:12:03,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 04:12:03,088] [main] testng.directory = /data [testng] [2024-11-29 04:12:03,088] [main] testng.configDirectory = /config [testng] [2024-11-29 04:12:03,100] [main] testng.multiplier = 1.0 [testng] [2024-11-29 04:12:03,100] [main] testng.in-memory = false [testng] [2024-11-29 04:12:03,100] [main] testng.allow-missing = false [testng] [2024-11-29 04:12:03,100] [main] user.language = en [testng] [2024-11-29 04:12:03,100] [main] user.country = ${user.country} [testng] [2024-11-29 04:12:03,100] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 04:12:19,345] [main] ---------------------------------------- [testng] [2024-11-29 04:12:19,345] [main] Total files: 31 [testng] [2024-11-29 04:12:19,345] [main] Scan time: 16.245 s (524 ms/file) [testng] [2024-11-29 04:12:19,345] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 04:12:38,634] [pool-1-thread-1] Initializing /data/vikram/Captured 3.jp2: [testng] 04:12:38,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:12:38,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:38,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_04-12-38.log] [testng] 04:12:38,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73c8c66d - End of configuration. [testng] [2024-11-29 04:12:39,087] [pool-1-thread-12] Initializing /data/vikram/Captured 5.jp2: [testng] 04:12:39,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:12:39,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:39,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-29_04-12-39.log] [testng] 04:12:39,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c2007ed - End of configuration. [testng] [2024-11-29 04:12:39,549] [pool-1-thread-11] Initializing /data/venu/Multichannel 3.jp2: [testng] 04:12:39,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:12:39,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:39,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_04-12-39.log] [testng] 04:12:39,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ebd4e08 - End of configuration. [testng] [2024-11-29 04:12:40,160] [pool-1-thread-10] Initializing /data/david/000000_000001.jpx: [testng] 04:12:40,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:12:40,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:40,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_04-12-40.log] [testng] 04:12:40,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ed5ed8c - End of configuration. [testng] [2024-11-29 04:12:40,760] [pool-1-thread-9] Initializing /data/david/cy5-tph.jp2: [testng] 04:12:40,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:12:40,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:40,762 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_04-12-40.log] [testng] 04:12:40,762 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52dbc1ff - End of configuration. [testng] [2024-11-29 04:12:41,325] [pool-1-thread-8] Initializing /data/vikram/Captured 4.jp2: [testng] 04:12:41,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:12:41,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:41,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_04-12-41.log] [testng] 04:12:41,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@492f208 - End of configuration. [testng] [2024-11-29 04:12:41,847] [pool-1-thread-7] Initializing /data/venu/Multichannel 3a.jpg: [testng] 04:12:41,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:12:41,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:41,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_04-12-41.log] [testng] 04:12:41,849 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75567d3c - End of configuration. [testng] [2024-11-29 04:12:41,973] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] 04:12:41,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:12:41,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:41,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_04-12-41.log] [testng] 04:12:41,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ef025e - End of configuration. [testng] [2024-11-29 04:12:42,631] [pool-1-thread-5] Initializing /data/misc/clown-rgb.jp2: [testng] 04:12:42,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:12:42,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:42,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_04-12-42.log] [testng] 04:12:42,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@294b678a - End of configuration. [testng] [2024-11-29 04:12:43,046] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jbig: [testng] 04:12:43,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:12:43,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:43,047 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_04-12-43.log] [testng] 04:12:43,048 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11b332d9 - End of configuration. [testng] [2024-11-29 04:12:44,561] [pool-1-thread-3] Initializing /data/aryeh/flour 12.jp2: [testng] 04:12:44,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:12:44,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:44,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_04-12-44.log] [testng] 04:12:44,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72dc91e0 - End of configuration. [testng] [2024-11-29 04:12:45,128] [pool-1-thread-2] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 04:12:45,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:12:45,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:12:45,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_04-12-45.log] [testng] 04:12:45,129 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25664de7 - End of configuration. [testng] [2024-11-29 04:12:50,119] [pool-1-thread-7] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-11-29 04:12:50,652] [pool-1-thread-5] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-11-29 04:12:51,211] [pool-1-thread-1] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-11-29 04:12:52,503] [pool-1-thread-3] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-11-29 04:12:52,971] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-11-29 04:12:53,993] [pool-1-thread-8] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-11-29 04:12:55,408] [pool-1-thread-4] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-11-29 04:12:57,298] [pool-1-thread-10] Initializing /data/big-images/2kx2k.jpf: [testng] [2024-11-29 04:12:58,214] [pool-1-thread-2] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-11-29 04:12:58,617] [pool-1-thread-5] Initializing /data/kraig/head.jp2: [testng] [2024-11-29 04:12:59,872] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-11-29 04:13:04,220] [pool-1-thread-5] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-11-29 04:13:04,888] [pool-1-thread-11] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-11-29 04:13:06,142] [pool-1-thread-12] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] [2024-11-29 04:13:08,788] [pool-1-thread-6] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-11-29 04:13:13,018] [pool-1-thread-8] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-11-29 04:13:13,909] [pool-1-thread-10] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-11-29 04:13:15,553] [pool-1-thread-4] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1590, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 6 minutes 40 seconds Finished: SUCCESS