Started by upstream project "BIOFORMATS-test-repo" build number 294
originally caused by:
Started by upstream project "Trigger" build number 313
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins4276439271420637310.sh
+ '[' cellomics = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_46511_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] 1 warning
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] 10:37:34,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 10:37:34,375 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 10:37:34,375 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 10:37:34,376 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 10:37:34,376 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 10:37:34,376 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 10:37:34,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 10:37:34,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 10:37:34,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 10:37:34,378 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 10:37:34,378 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 10:37:34,378 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 10:37:34,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 10:37:34,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 10:37:34,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 10:37:34,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 10:37:34,567 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 10:37:34,567 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 10:37:34,567 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 10:37:34,567 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 10:37:34,567 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 10:37:34,568 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 10:37:34,568 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-18 10:37:34,577] [main] java.version = 17.0.2
[testng] 10:37:34,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 10:37:34,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:37:34,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-18_10-37-34.log]
[testng] 10:37:34,622 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-12-18 10:37:34,623] [main] testng.directory = /data
[testng] [2024-12-18 10:37:34,624] [main] testng.configDirectory = /config
[testng] [2024-12-18 10:37:34,632] [main] testng.multiplier = 1.0
[testng] [2024-12-18 10:37:34,633] [main] testng.in-memory = false
[testng] [2024-12-18 10:37:34,633] [main] testng.allow-missing = false
[testng] [2024-12-18 10:37:34,633] [main] user.language = en
[testng] [2024-12-18 10:37:34,633] [main] user.country = ${user.country}
[testng] [2024-12-18 10:37:34,634] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-18 10:38:21,933] [main] ----------------------------------------
[testng] [2024-12-18 10:38:21,933] [main] Total files: 2539
[testng] [2024-12-18 10:38:21,933] [main] Scan time: 47.299 s (18 ms/file)
[testng] [2024-12-18 10:38:21,934] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 17 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-18 10:39:08,480] [pool-1-thread-1] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01:
[testng] 10:39:08,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 10:39:08,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:08,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-18_10-39-08.log]
[testng] 10:39:08,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c298b0a - End of configuration.
[testng] [2024-12-18 10:39:09,403] [pool-1-thread-12] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB:
[testng] 10:39:09,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 10:39:09,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:09,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-18_10-39-09.log]
[testng] 10:39:09,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45749ad8 - End of configuration.
[testng] [2024-12-18 10:39:10,257] [pool-1-thread-11] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01:
[testng] 10:39:10,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 10:39:10,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:10,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-18_10-39-10.log]
[testng] 10:39:10,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2413bd1c - End of configuration.
[testng] [2024-12-18 10:39:10,941] [pool-1-thread-10] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB:
[testng] 10:39:10,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 10:39:10,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:10,942 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-18_10-39-10.log]
[testng] 10:39:10,942 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47439c0 - End of configuration.
[testng] [2024-12-18 10:39:11,766] [pool-1-thread-9] Initializing /data/omar/FB03f00o2.C01:
[testng] 10:39:11,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 10:39:11,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:11,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-18_10-39-11.log]
[testng] 10:39:11,767 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38404d94 - End of configuration.
[testng] [2024-12-18 10:39:12,719] [pool-1-thread-8] Initializing /data/samples/plate-size/plate_B03f00d0.C01:
[testng] 10:39:12,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 10:39:12,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:12,720 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-18_10-39-12.log]
[testng] 10:39:12,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@232506f8 - End of configuration.
[testng] [2024-12-18 10:39:13,601] [pool-1-thread-7] Initializing /data/omar/FB03f00d1.C01:
[testng] 10:39:13,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 10:39:13,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:13,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-18_10-39-13.log]
[testng] 10:39:13,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c5b9c75 - End of configuration.
[testng] [2024-12-18 10:39:14,293] [pool-1-thread-6] Initializing /data/omar/FB03f00d0.C01:
[testng] 10:39:14,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 10:39:14,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:14,293 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-18_10-39-14.log]
[testng] 10:39:14,294 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43d182e2 - End of configuration.
[testng] [2024-12-18 10:39:14,978] [pool-1-thread-5] Initializing /data/samples/different-field-count/plate_B03f00d0.C01:
[testng] 10:39:14,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 10:39:14,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:14,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-18_10-39-14.log]
[testng] 10:39:14,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53da0100 - End of configuration.
[testng] [2024-12-18 10:39:15,634] [pool-1-thread-4] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01:
[testng] 10:39:15,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 10:39:15,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:15,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-18_10-39-15.log]
[testng] 10:39:15,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2db44267 - End of configuration.
[testng] [2024-12-18 10:39:16,282] [pool-1-thread-3] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01:
[testng] 10:39:16,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 10:39:16,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:16,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-18_10-39-16.log]
[testng] 10:39:16,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11028e96 - End of configuration.
[testng] [2024-12-18 10:39:17,270] [pool-1-thread-2] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB:
[testng] 10:39:17,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 10:39:17,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 10:39:17,271 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-18_10-39-17.log]
[testng] 10:39:17,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3696316c - End of configuration.
[testng] [2024-12-18 10:39:27,124] [pool-1-thread-10] Initializing /data/omar/FB03f00o1.C01:
[testng] [2024-12-18 10:39:36,004] [pool-1-thread-11] Initializing /data/omar/FB03f03o2.DIB:
[testng] [2024-12-18 10:39:37,495] [pool-1-thread-7] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01:
[testng] [2024-12-18 10:39:39,032] [pool-1-thread-6] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01:
[testng] [2024-12-18 10:39:40,410] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 901, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 56 minutes 57 seconds
Finished: SUCCESS