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Started by upstream project "BIOFORMATS-test-repo" build number 273 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins10357347916649775042.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_43115_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] 12:33:43,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:33:43,911 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 12:33:43,911 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:33:43,912 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:33:43,912 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:33:43,913 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:33:43,913 |-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] 12:33:43,913 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:33:43,913 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:33:43,914 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:33:43,914 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:33:43,914 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:33:44,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:33:44,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:33:44,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:33:44,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:33:44,203 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:33:44,203 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:33:44,203 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:33:44,204 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:33:44,204 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 12:33:44,205 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 12:33:44,205 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 292 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 12:33:44,216] [main] java.version = 1.8.0_342 [testng] 12:33:44,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:33:44,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:33:44,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_12-33-44.log] [testng] 12:33:44,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 12:33:44,274] [main] testng.directory = /data [testng] [2024-11-29 12:33:44,274] [main] testng.configDirectory = /config [testng] [2024-11-29 12:33:44,288] [main] testng.multiplier = 1.0 [testng] [2024-11-29 12:33:44,288] [main] testng.in-memory = false [testng] [2024-11-29 12:33:44,288] [main] testng.allow-missing = false [testng] [2024-11-29 12:33:44,288] [main] user.language = en [testng] [2024-11-29 12:33:44,288] [main] user.country = ${user.country} [testng] [2024-11-29 12:33:44,288] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 12:34:09,486] [main] ---------------------------------------- [testng] [2024-11-29 12:34:09,486] [main] Total files: 31 [testng] [2024-11-29 12:34:09,486] [main] Scan time: 25.197 s (812 ms/file) [testng] [2024-11-29 12:34:09,486] [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 12:34:38,568] [pool-1-thread-1] Initializing /data/vikram/Captured 3.jp2: [testng] 12:34:38,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:34:38,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:38,569 |-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_12-34-38.log] [testng] 12:34:38,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7889fa10 - End of configuration. [testng] [2024-11-29 12:34:39,767] [pool-1-thread-12] Initializing /data/vikram/Captured 5.jp2: [testng] 12:34:39,767 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:34:39,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:39,769 |-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_12-34-39.log] [testng] 12:34:39,770 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52e83e54 - End of configuration. [testng] [2024-11-29 12:34:40,490] [pool-1-thread-11] Initializing /data/venu/Multichannel 3.jp2: [testng] 12:34:40,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:34:40,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:40,494 |-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_12-34-40.log] [testng] 12:34:40,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cc1bfe8 - End of configuration. [testng] [2024-11-29 12:34:41,283] [pool-1-thread-10] Initializing /data/david/000000_000001.jpx: [testng] 12:34:41,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:34:41,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:41,284 |-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_12-34-41.log] [testng] 12:34:41,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ba6b199 - End of configuration. [testng] [2024-11-29 12:34:42,040] [pool-1-thread-9] Initializing /data/david/cy5-tph.jp2: [testng] 12:34:42,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:34:42,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:42,040 |-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_12-34-42.log] [testng] 12:34:42,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@174b4a36 - End of configuration. [testng] [2024-11-29 12:34:42,726] [pool-1-thread-8] Initializing /data/vikram/Captured 4.jp2: [testng] 12:34:42,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:34:42,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:42,727 |-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_12-34-42.log] [testng] 12:34:42,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52dbc1ff - End of configuration. [testng] [2024-11-29 12:34:43,512] [pool-1-thread-7] Initializing /data/venu/Multichannel 3a.jpg: [testng] 12:34:43,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:34:43,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:43,512 |-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_12-34-43.log] [testng] 12:34:43,513 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21433d1c - End of configuration. [testng] [2024-11-29 12:34:43,938] [pool-1-thread-6] Initializing /data/frans/flower.jp2: [testng] 12:34:43,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:34:43,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:43,940 |-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_12-34-43.log] [testng] 12:34:43,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6946694a - End of configuration. [testng] [2024-11-29 12:34:44,773] [pool-1-thread-5] Initializing /data/misc/clown-rgb.jp2: [testng] 12:34:44,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:34:44,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:44,774 |-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_12-34-44.log] [testng] 12:34:44,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45906c04 - End of configuration. [testng] [2024-11-29 12:34:45,612] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jbig: [testng] 12:34:45,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:34:45,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:45,613 |-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_12-34-45.log] [testng] 12:34:45,613 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10c4dabc - End of configuration. [testng] [2024-11-29 12:34:47,660] [pool-1-thread-3] Initializing /data/aryeh/flour 12.jp2: [testng] 12:34:47,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:34:47,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:47,661 |-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_12-34-47.log] [testng] 12:34:47,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b2a93d - End of configuration. [testng] [2024-11-29 12:34:48,423] [pool-1-thread-2] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 12:34:48,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:34:48,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:34:48,424 |-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_12-34-48.log] [testng] 12:34:48,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6201f154 - End of configuration. [testng] [2024-11-29 12:34:56,260] [pool-1-thread-7] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-11-29 12:34:57,758] [pool-1-thread-5] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-11-29 12:34:59,168] [pool-1-thread-8] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-11-29 12:35:00,522] [pool-1-thread-12] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-11-29 12:35:01,520] [pool-1-thread-1] Initializing /data/david/multichannel-2d test.jp2: [testng] [2024-11-29 12:35:02,299] [pool-1-thread-3] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-11-29 12:35:03,920] [pool-1-thread-4] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-11-29 12:35:04,793] [pool-1-thread-2] Initializing /data/big-images/2kx2k.jpf: [testng] [2024-11-29 12:35:07,727] [pool-1-thread-10] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-11-29 12:35:10,905] [pool-1-thread-3] Initializing /data/kraig/head.jp2: [testng] [2024-11-29 12:35:11,866] [pool-1-thread-5] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-11-29 12:35:15,655] [pool-1-thread-11] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-11-29 12:35:19,173] [pool-1-thread-6] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-11-29 12:35:21,536] [pool-1-thread-5] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] [2024-11-29 12:35:22,763] [pool-1-thread-2] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-11-29 12:35:23,709] [pool-1-thread-3] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-11-29 12:35:26,239] [pool-1-thread-12] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-11-29 12:35:30,514] [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: 7 minutes 45 seconds Finished: SUCCESS