Started by upstream project "BIOFORMATS-test-repo" build number 258
originally caused by:
Started by upstream project "Trigger" build number 282
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6
[BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins10551624829165853813.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_40745_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 02:49:28,541 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:49:28,542 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 02:49:28,542 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:49:28,543 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:49:28,543 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:49:28,544 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:49:28,544 |-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] 02:49:28,544 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:49:28,545 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:49:28,545 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:49:28,545 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:49:28,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:49:28,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:49:28,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:49:28,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:49:28,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:49:28,743 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:49:28,743 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:49:28,743 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:49:28,743 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:49:28,744 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 02:49:28,744 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 02:49:28,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 199 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-17 02:49:28,753] [main] java.version = 17.0.2
[testng] 02:49:28,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:49:28,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:28,807 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-17_02-49-28.log]
[testng] 02:49:28,809 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-11-17 02:49:28,811] [main] testng.directory = /data
[testng] [2024-11-17 02:49:28,811] [main] testng.configDirectory = /config
[testng] [2024-11-17 02:49:28,820] [main] testng.multiplier = 1.0
[testng] [2024-11-17 02:49:28,821] [main] testng.in-memory = false
[testng] [2024-11-17 02:49:28,821] [main] testng.allow-missing = false
[testng] [2024-11-17 02:49:28,821] [main] user.language = en
[testng] [2024-11-17 02:49:28,822] [main] user.country = ${user.country}
[testng] [2024-11-17 02:49:28,822] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-17 02:49:52,122] [main] ----------------------------------------
[testng] [2024-11-17 02:49:52,122] [main] Total files: 68
[testng] [2024-11-17 02:49:52,122] [main] Scan time: 23.3 s (342 ms/file)
[testng] [2024-11-17 02:49:52,122] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 60 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-17 02:50:28,321] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims:
[testng] 02:50:28,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:50:28,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:28,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-17_02-50-28.log]
[testng] 02:50:28,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73357716 - End of configuration.
[testng] [2024-11-17 02:50:28,558] [pool-1-thread-12] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved.ims:
[testng] 02:50:28,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:50:28,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:28,559 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-17_02-50-28.log]
[testng] 02:50:28,559 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cc4c871 - End of configuration.
[testng] [2024-11-17 02:50:28,838] [pool-1-thread-11] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims:
[testng] 02:50:28,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:50:28,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:28,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-17_02-50-28.log]
[testng] 02:50:28,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3268fd3a - End of configuration.
[testng] [2024-11-17 02:50:29,260] [pool-1-thread-10] Initializing /data/oliver/Stack2_u16Bit.ims:
[testng] 02:50:29,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:50:29,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:29,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-17_02-50-29.log]
[testng] 02:50:29,262 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45be539d - End of configuration.
[testng] [2024-11-17 02:50:29,508] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/retina.ims:
[testng] 02:50:29,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:50:29,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:29,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-17_02-50-29.log]
[testng] 02:50:29,510 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b3de18a - End of configuration.
[testng] [2024-11-17 02:50:29,919] [pool-1-thread-8] Initializing /data/jcb/fig 6B GFP-AP-2d.ims:
[testng] 02:50:29,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:50:29,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:29,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-17_02-50-29.log]
[testng] 02:50:29,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dbdb659 - End of configuration.
[testng] [2024-11-17 02:50:30,231] [pool-1-thread-7] Initializing /data/public/eliana/retina_large.ims:
[testng] 02:50:30,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:50:30,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:30,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-17_02-50-30.log]
[testng] 02:50:30,232 |-INFO in ch.qos.logback.core.sift.SiftProcessor@617a6337 - End of configuration.
[testng] [2024-11-17 02:50:30,442] [pool-1-thread-6] Initializing /data/niko/imaris-testfile_5x5x5.ims:
[testng] 02:50:30,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:50:30,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:30,443 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-17_02-50-30.log]
[testng] 02:50:30,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ef860ff - End of configuration.
[testng] [2024-11-17 02:50:30,733] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims:
[testng] 02:50:30,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:50:30,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:30,734 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-17_02-50-30.log]
[testng] 02:50:30,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d1801fe - End of configuration.
[testng] [2024-11-17 02:50:31,026] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0004.ims:
[testng] 02:50:31,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:50:31,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:31,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-17_02-50-31.log]
[testng] 02:50:31,027 |-INFO in ch.qos.logback.core.sift.SiftProcessor@670262f1 - End of configuration.
[testng] [2024-11-17 02:50:31,099] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims:
[testng] 02:50:31,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:50:31,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:31,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-17_02-50-31.log]
[testng] 02:50:31,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c277aef - End of configuration.
[testng] [2024-11-17 02:50:31,338] [pool-1-thread-2] Initializing /data/generated/10-31_E_t0005.ims:
[testng] 02:50:31,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:50:31,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:31,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-17_02-50-31.log]
[testng] 02:50:31,339 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d964030 - End of configuration.
BUILD SUCCESSFUL
Total time: 3 minutes 26 seconds
Finished: SUCCESS