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Started by upstream project "BIOFORMATS-test-repo" build number 297 originally caused by: Started by upstream project "Trigger" build number 319 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins11362098632293041408.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47059_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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml compile-tests: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 05:50:31,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:50:31,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:50:31,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:50:31,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:50:31,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:50:31,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:50:31,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:50:31,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:50:31,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:50:31,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:50:31,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:50:31,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:50:32,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:50:32,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:50:32,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:50:32,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:50:32,157 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:50:32,157 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:50:32,157 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:50:32,157 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:50:32,158 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:50:32,158 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:50:32,158 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 256 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-24 05:50:32,168] [main] java.version = 1.8.0_342 [testng] 05:50:32,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:50:32,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:50:32,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_05-50-32.log] [testng] 05:50:32,218 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-24 05:50:32,220] [main] testng.directory = /data [testng] [2024-12-24 05:50:32,220] [main] testng.configDirectory = /config [testng] [2024-12-24 05:50:32,232] [main] testng.multiplier = 1.0 [testng] [2024-12-24 05:50:32,232] [main] testng.in-memory = false [testng] [2024-12-24 05:50:32,232] [main] testng.allow-missing = false [testng] [2024-12-24 05:50:32,232] [main] user.language = en [testng] [2024-12-24 05:50:32,232] [main] user.country = ${user.country} [testng] [2024-12-24 05:50:32,233] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-24 05:51:05,869] [main] ---------------------------------------- [testng] [2024-12-24 05:51:05,869] [main] Total files: 31 [testng] [2024-12-24 05:51:05,870] [main] Scan time: 33.636 s (1085 ms/file) [testng] [2024-12-24 05:51:05,870] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-24 05:51:47,573] [pool-1-thread-1] Initializing /data/venu/Multichannel 3a.jpg: [testng] 05:51:47,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:51:47,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:47,574 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_05-51-47.log] [testng] 05:51:47,575 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5711e2bc - End of configuration. [testng] [2024-12-24 05:51:47,844] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jbig: [testng] 05:51:47,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:51:47,845 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:47,845 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_05-51-47.log] [testng] 05:51:47,846 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ebc4dfa - End of configuration. [testng] [2024-12-24 05:51:50,215] [pool-1-thread-11] Initializing /data/vikram/Captured 3.jp2: [testng] 05:51:50,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:51:50,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:50,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_05-51-50.log] [testng] 05:51:50,216 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4396a274 - End of configuration. [testng] [2024-12-24 05:51:51,228] [pool-1-thread-10] Initializing /data/big-images/2kx2k.jpf: [testng] 05:51:51,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:51:51,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:51,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_05-51-51.log] [testng] 05:51:51,229 |-INFO in ch.qos.logback.core.sift.SiftProcessor@748d54bd - End of configuration. [testng] [2024-12-24 05:51:52,532] [pool-1-thread-9] Initializing /data/big-images/8kx8k.jpf: [testng] 05:51:52,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:51:52,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:52,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_05-51-52.log] [testng] 05:51:52,533 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c9c5cc4 - End of configuration. [testng] [2024-12-24 05:51:54,360] [pool-1-thread-8] Initializing /data/vikram/Captured 1.jp2: [testng] 05:51:54,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:51:54,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:54,360 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_05-51-54.log] [testng] 05:51:54,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5fa2da3c - End of configuration. [testng] [2024-12-24 05:51:55,497] [pool-1-thread-7] Initializing /data/misc/clown-rgb.jp2: [testng] 05:51:55,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:51:55,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:55,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_05-51-55.log] [testng] 05:51:55,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aa4a2b6 - End of configuration. [testng] [2024-12-24 05:51:56,759] [pool-1-thread-6] Initializing /data/david/multichannel-2d test.jp2: [testng] 05:51:56,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:51:56,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:56,760 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_05-51-56.log] [testng] 05:51:56,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@304222a0 - End of configuration. [testng] [2024-12-24 05:51:57,664] [pool-1-thread-5] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] 05:51:57,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:51:57,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:51:57,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_05-51-57.log] [testng] 05:51:57,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@317f1b94 - End of configuration. [testng] [2024-12-24 05:52:00,211] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] 05:52:00,211 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:52:00,211 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:52:00,212 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_05-52-00.log] [testng] 05:52:00,212 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61d9c941 - End of configuration. [testng] [2024-12-24 05:52:01,131] [pool-1-thread-3] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] 05:52:01,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:52:01,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:52:01,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_05-52-01.log] [testng] 05:52:01,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28948a32 - End of configuration. [testng] [2024-12-24 05:52:02,402] [pool-1-thread-2] Initializing /data/vikram/Captured 5.jp2: [testng] 05:52:02,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:52:02,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:52:02,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_05-52-02.log] [testng] 05:52:02,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4004581a - End of configuration. [testng] [2024-12-24 05:52:12,098] [pool-1-thread-1] Initializing /data/vikram/Captured 2.jp2: [testng] [2024-12-24 05:52:14,138] [pool-1-thread-7] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-12-24 05:52:15,265] [pool-1-thread-2] Initializing /data/david/cy5-tph.jp2: [testng] [2024-12-24 05:52:16,412] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-12-24 05:52:17,549] [pool-1-thread-11] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-12-24 05:52:20,385] [pool-1-thread-3] Initializing /data/kraig/head.jp2: [testng] [2024-12-24 05:52:21,767] [pool-1-thread-12] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] [2024-12-24 05:52:25,808] [pool-1-thread-10] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [2024-12-24 05:52:27,273] [pool-1-thread-5] Initializing /data/big-images/4kx4k.jpf: [testng] [2024-12-24 05:52:28,321] [pool-1-thread-1] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] [2024-12-24 05:52:29,863] [pool-1-thread-4] Initializing /data/venu/Multichannel 3.jp2: [testng] [2024-12-24 05:52:31,840] [pool-1-thread-8] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] [2024-12-24 05:52:36,488] [pool-1-thread-3] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] [2024-12-24 05:52:43,513] [pool-1-thread-12] Initializing /data/aryeh/flour 12.jp2: [testng] [2024-12-24 05:52:44,963] [pool-1-thread-7] Initializing /data/david/000000_000001.jpx: [testng] [2024-12-24 05:52:51,697] [pool-1-thread-10] Initializing /data/frans/flower.jp2: [testng] [2024-12-24 05:52:55,243] [pool-1-thread-12] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-12-24 05:52:56,356] [pool-1-thread-3] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [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 30 seconds Finished: SUCCESS