Started by upstream project "BIOFORMATS-test-repo" build number 366
originally caused by:
Started by upstream project "Trigger" build number 392
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3
[BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9452105968167922548.sh
+ '[' cellomics = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_58397_merge_ci -v /uod/idr/repos/curated/cellomics:/data -v /uod/idr-scratch/merge-ci/curated/cellomics:/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
[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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 03:13:00,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service.
[testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:13:00,416 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 03:13:00,416 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:13:00,418 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 03:13:00,418 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 03:13:00,419 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 03:13:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 03:13:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 03:13:00,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 03:13:00,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 03:13:00,613 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 03:13:00,613 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 03:13:00,613 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 03:13:00,614 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 03:13:00,614 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration.
[testng] 03:13:00,615 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point
[testng] 03:13:00,615 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-06 03:13:00,623] [main] java.version = 21
[testng] 03:13:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 03:13:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:13:00,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-06_03-13-00.log]
[testng] 03:13:00,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration.
[testng] [2025-03-06 03:13:00,671] [main] testng.directory = /data
[testng] [2025-03-06 03:13:00,671] [main] testng.configDirectory = /config
[testng] [2025-03-06 03:13:00,679] [main] testng.multiplier = 1.0
[testng] [2025-03-06 03:13:00,680] [main] testng.in-memory = false
[testng] [2025-03-06 03:13:00,680] [main] testng.allow-missing = false
[testng] [2025-03-06 03:13:00,680] [main] user.language = en
[testng] [2025-03-06 03:13:00,680] [main] user.country = ${user.country}
[testng] [2025-03-06 03:13:00,680] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-06 03:13:53,415] [main] ----------------------------------------
[testng] [2025-03-06 03:13:53,415] [main] Total files: 2539
[testng] [2025-03-06 03:13:53,415] [main] Scan time: 52.735 s (20 ms/file)
[testng] [2025-03-06 03:13:53,416] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 17 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-06 03:14:53,153] [pool-1-thread-1] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01:
[testng] 03:14:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 03:14:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:53,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-06_03-14-53.log]
[testng] 03:14:53,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@299d1692 - End of configuration.
[testng] [2025-03-06 03:14:54,151] [pool-1-thread-12] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01:
[testng] 03:14:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 03:14:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:54,152 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-06_03-14-54.log]
[testng] 03:14:54,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@764c4dc4 - End of configuration.
[testng] [2025-03-06 03:14:55,252] [pool-1-thread-11] Initializing /data/samples/plate-size/plate_B03f00d0.C01:
[testng] 03:14:55,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 03:14:55,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:55,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-06_03-14-55.log]
[testng] 03:14:55,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79cd3161 - End of configuration.
[testng] [2025-03-06 03:14:56,357] [pool-1-thread-10] Initializing /data/omar/FB03f00o2.C01:
[testng] 03:14:56,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 03:14:56,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:56,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-06_03-14-56.log]
[testng] 03:14:56,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fb9b4eb - End of configuration.
[testng] [2025-03-06 03:14:57,490] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01:
[testng] 03:14:57,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 03:14:57,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:57,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-06_03-14-57.log]
[testng] 03:14:57,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@696201b5 - End of configuration.
[testng] [2025-03-06 03:14:58,468] [pool-1-thread-8] Initializing /data/omar/FB03f00d1.C01:
[testng] 03:14:58,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 03:14:58,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:58,469 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-06_03-14-58.log]
[testng] 03:14:58,470 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12ff2bdf - End of configuration.
[testng] [2025-03-06 03:14:59,567] [pool-1-thread-7] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01:
[testng] 03:14:59,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 03:14:59,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:14:59,567 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-06_03-14-59.log]
[testng] 03:14:59,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cc554bb - End of configuration.
[testng] [2025-03-06 03:15:00,480] [pool-1-thread-6] Initializing /data/samples/different-field-count/plate_B03f00d0.C01:
[testng] 03:15:00,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 03:15:00,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:15:00,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-06_03-15-00.log]
[testng] 03:15:00,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@363263f1 - End of configuration.
[testng] [2025-03-06 03:15:01,400] [pool-1-thread-5] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB:
[testng] 03:15:01,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 03:15:01,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:15:01,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-06_03-15-01.log]
[testng] 03:15:01,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7772c0c7 - End of configuration.
[testng] [2025-03-06 03:15:02,240] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB:
[testng] 03:15:02,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 03:15:02,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:15:02,241 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-06_03-15-02.log]
[testng] 03:15:02,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a6957cd - End of configuration.
[testng] [2025-03-06 03:15:03,212] [pool-1-thread-3] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB:
[testng] 03:15:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 03:15:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:15:03,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-06_03-15-03.log]
[testng] 03:15:03,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@182cb748 - End of configuration.
[testng] [2025-03-06 03:15:04,143] [pool-1-thread-2] Initializing /data/omar/FB03f00o1.C01:
[testng] 03:15:04,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 03:15:04,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:15:04,144 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-06_03-15-04.log]
[testng] 03:15:04,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7df068b9 - End of configuration.
[testng] [2025-03-06 03:15:13,547] [pool-1-thread-4] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01:
[testng] [2025-03-06 03:15:19,594] [pool-1-thread-9] Initializing /data/omar/FB03f03o2.DIB:
[testng] [2025-03-06 03:15:20,233] [pool-1-thread-7] Initializing /data/omar/FB03f00d0.C01:
[testng] [2025-03-06 03:15:20,916] [pool-1-thread-1] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01:
[testng] [2025-03-06 03:15:21,769] [pool-1-thread-2] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 901, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 59 minutes 50 seconds
Finished: SUCCESS