Started by upstream project "BIOFORMATS-test-repo" build number 386
originally caused by:
Started by upstream project "Trigger" build number 408
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins12406435717692888290.sh
+ '[' jpeg2000 = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_61148_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/5.8.9-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/5.8.9-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/5.8.9-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/5.8.9-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
[javac] warning: [options] bootstrap class path not set in conjunction with -source 8
[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 02:38:04,354 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 02:38:04,355 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service.
[testng] 02:38:04,355 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:38:04,356 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:38:04,356 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:38:04,357 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:38:04,357 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:38:04,357 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:38:04,357 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:38:04,358 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:38:04,358 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:38:04,358 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:38:04,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:38:04,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:38:04,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:38:04,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:38:04,531 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:38:04,531 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:38:04,531 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:38:04,531 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:38:04,532 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@47d9a273 - End of configuration.
[testng] 02:38:04,532 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4659191b - Registering current configuration as safe fallback point
[testng] 02:38:04,532 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 175 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-21 02:38:04,541] [main] java.version = 21
[testng] 02:38:04,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:38:04,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:04,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-21_02-38-04.log]
[testng] 02:38:04,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration.
[testng] [2025-03-21 02:38:04,585] [main] testng.directory = /data
[testng] [2025-03-21 02:38:04,585] [main] testng.configDirectory = /config
[testng] [2025-03-21 02:38:04,593] [main] testng.multiplier = 1.0
[testng] [2025-03-21 02:38:04,593] [main] testng.in-memory = false
[testng] [2025-03-21 02:38:04,593] [main] testng.allow-missing = false
[testng] [2025-03-21 02:38:04,593] [main] user.language = en
[testng] [2025-03-21 02:38:04,593] [main] user.country = ${user.country}
[testng] [2025-03-21 02:38:04,593] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-21 02:39:30,920] [main] ----------------------------------------
[testng] [2025-03-21 02:39:30,920] [main] Total files: 31
[testng] [2025-03-21 02:39:30,921] [main] Scan time: 86.327 s (2784 ms/file)
[testng] [2025-03-21 02:39:30,921] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 30 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-21 02:41:21,740] [pool-1-thread-1] Initializing /data/david/000000_000001.jpx:
[testng] 02:41:21,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:41:21,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:21,742 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-21_02-41-21.log]
[testng] 02:41:21,742 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bfa91b6 - End of configuration.
[testng] [2025-03-21 02:41:25,098] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2:
[testng] 02:41:25,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:41:25,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:25,099 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-21_02-41-25.log]
[testng] 02:41:25,099 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58878737 - End of configuration.
[testng] [2025-03-21 02:41:28,325] [pool-1-thread-11] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff:
[testng] 02:41:28,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:41:28,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:28,328 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-21_02-41-28.log]
[testng] 02:41:28,328 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3af3720e - End of configuration.
[testng] [2025-03-21 02:41:36,296] [pool-1-thread-10] Initializing /data/david/multichannel-2d test.jp2:
[testng] 02:41:36,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:41:36,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:36,297 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-21_02-41-36.log]
[testng] 02:41:36,297 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11eebadc - End of configuration.
[testng] [2025-03-21 02:41:39,529] [pool-1-thread-9] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2:
[testng] 02:41:39,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:41:39,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:39,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-21_02-41-39.log]
[testng] 02:41:39,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1aa4d982 - End of configuration.
[testng] [2025-03-21 02:41:42,713] [pool-1-thread-8] Initializing /data/kraig/head.jp2:
[testng] 02:41:42,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:41:42,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:42,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-21_02-41-42.log]
[testng] 02:41:42,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@474d1fdf - End of configuration.
[testng] [2025-03-21 02:41:45,854] [pool-1-thread-7] Initializing /data/venu/Multichannel 3.jp2:
[testng] 02:41:45,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:41:45,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:45,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-21_02-41-45.log]
[testng] 02:41:45,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b3a2f01 - End of configuration.
[testng] [2025-03-21 02:41:49,029] [pool-1-thread-6] Initializing /data/vikram/Captured 3.jp2:
[testng] 02:41:49,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:41:49,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:49,030 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-21_02-41-49.log]
[testng] 02:41:49,030 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21bad1a1 - End of configuration.
[testng] [2025-03-21 02:41:52,192] [pool-1-thread-5] Initializing /data/david/multichannel-3d-MBF-type.jpx:
[testng] 02:41:52,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:41:52,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:52,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-21_02-41-52.log]
[testng] 02:41:52,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6052dbd0 - End of configuration.
[testng] [2025-03-21 02:41:55,726] [pool-1-thread-4] Initializing /data/aryeh/flour 12.jp2:
[testng] 02:41:55,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:41:55,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:55,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-21_02-41-55.log]
[testng] 02:41:55,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f06ac30 - End of configuration.
[testng] [2025-03-21 02:41:59,019] [pool-1-thread-3] Initializing /data/david/multichannel-2d test-non MBF-type.jp2:
[testng] 02:41:59,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:41:59,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:59,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-21_02-41-59.log]
[testng] 02:41:59,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67628b32 - End of configuration.
[testng] [2025-03-21 02:42:02,063] [pool-1-thread-2] Initializing /data/big-images/4kx4k.jpf:
[testng] 02:42:02,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:42:02,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:42:02,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-21_02-42-02.log]
[testng] 02:42:02,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@de3f435 - End of configuration.
[testng] [2025-03-21 02:42:26,479] [pool-1-thread-8] Initializing /data/big-images/2kx2k.jpf:
[testng] [2025-03-21 02:42:29,552] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jbig:
[testng] [2025-03-21 02:42:37,092] [pool-1-thread-6] Initializing /data/misc/clown-rgb.jp2:
[testng] [2025-03-21 02:42:40,195] [pool-1-thread-12] Initializing /data/frans/flower.jp2:
[testng] [2025-03-21 02:42:43,225] [pool-1-thread-9] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2:
[testng] [2025-03-21 02:42:46,370] [pool-1-thread-1] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx:
[testng] [2025-03-21 02:42:49,693] [pool-1-thread-7] Initializing /data/vikram/Captured 1.jp2:
[testng] [2025-03-21 02:42:57,678] [pool-1-thread-11] Initializing /data/big-images/8kx8k.jpf:
[testng] [2025-03-21 02:43:09,492] [pool-1-thread-6] Initializing /data/misc/clown-rgb.jpc:
[testng] [2025-03-21 02:43:16,112] [pool-1-thread-7] Initializing /data/venu/Multichannel 3a.jpg:
[testng] [2025-03-21 02:43:16,924] [pool-1-thread-8] Initializing /data/mike/LCM-4-3-color-cleaned.tiff:
[testng] [2025-03-21 02:43:24,644] [pool-1-thread-2] Initializing /data/vikram/Captured 5.jp2:
[testng] [2025-03-21 02:43:27,938] [pool-1-thread-9] Initializing /data/david/cy5-tph.jp2:
[testng] [2025-03-21 02:43:35,226] [pool-1-thread-4] Initializing /data/mike/LCM-4-3-color-cleaned.jp2:
[testng] [2025-03-21 02:43:38,505] [pool-1-thread-12] Initializing /data/angel/052_L050071_56_x2hv.jp2:
[testng] [2025-03-21 02:43:44,879] [pool-1-thread-7] Initializing /data/vikram/Captured 4.jp2:
[testng] [2025-03-21 02:43:48,251] [pool-1-thread-6] Initializing /data/david/C1R1_FOS.jp2:
[testng] [2025-03-21 02:43:58,833] [pool-1-thread-2] Initializing /data/angel/002_L050071_32_01_09_x2.jp2:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1590, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 10 minutes 3 seconds
Finished: SUCCESS