Started by upstream project "BIOFORMATS-test-repo" build number 131
originally caused by:
Started by upstream project "Trigger" build number 148
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins9759285191847510583.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_20495_merge_ci -v /uod/idr/repos/curated/zip:/data -v /uod/idr-scratch/merge-ci/curated/zip:/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] 01:21:50,496 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:21:50,497 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:21:50,497 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:50,498 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:50,499 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:21:50,499 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:21:50,500 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:21:50,500 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:50,500 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:50,501 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:21:50,502 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:21:50,502 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:21:50,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:21:50,717 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:21:50,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:21:50,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:21:50,749 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:21:50,750 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:21:50,750 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:21:50,750 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:21:50,750 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:21:50,752 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:21:50,752 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 252 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-24 01:21:50,761] [main] java.version = 17.0.2
[testng] 01:21:50,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:21:50,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:50,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-24_01-21-50.log]
[testng] 01:21:50,813 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-07-24 01:21:50,815] [main] testng.directory = /data
[testng] [2024-07-24 01:21:50,815] [main] testng.configDirectory = /config
[testng] [2024-07-24 01:21:50,827] [main] testng.multiplier = 1.0
[testng] [2024-07-24 01:21:50,828] [main] testng.in-memory = false
[testng] [2024-07-24 01:21:50,828] [main] testng.allow-missing = false
[testng] [2024-07-24 01:21:50,828] [main] user.language = en
[testng] [2024-07-24 01:21:50,828] [main] user.country = ${user.country}
[testng] [2024-07-24 01:21:50,828] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-07-24 01:21:51,195] [main] ----------------------------------------
[testng] [2024-07-24 01:21:51,195] [main] Total files: 22
[testng] [2024-07-24 01:21:51,195] [main] Scan time: 0.367 s (16 ms/file)
[testng] [2024-07-24 01:21:51,195] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-24 01:22:35,338] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 01:22:35,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:22:35,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:35,340 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-24_01-22-35.log]
[testng] 01:22:35,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bf45c7 - End of configuration.
[testng] [2024-07-24 01:22:40,508] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 01:22:40,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:22:40,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:40,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-24_01-22-40.log]
[testng] 01:22:40,510 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fe45072 - End of configuration.
[testng] [2024-07-24 01:22:42,955] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 01:22:42,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:22:42,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:42,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-24_01-22-42.log]
[testng] 01:22:42,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@eecbcfa - End of configuration.
[testng] [2024-07-24 01:22:43,236] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 01:22:43,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:22:43,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:43,237 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-24_01-22-43.log]
[testng] 01:22:43,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54793062 - End of configuration.
[testng] [2024-07-24 01:22:44,336] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 01:22:44,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:22:44,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:44,337 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-24_01-22-44.log]
[testng] 01:22:44,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d1e0648 - End of configuration.
[testng] [2024-07-24 01:22:44,427] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 01:22:44,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:22:44,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:44,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-24_01-22-44.log]
[testng] 01:22:44,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4efc63df - End of configuration.
[testng] [2024-07-24 01:22:47,897] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 01:22:47,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:22:47,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:47,899 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-24_01-22-47.log]
[testng] 01:22:47,899 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51ffc66a - End of configuration.
[testng] [2024-07-24 01:22:48,081] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 01:22:48,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:22:48,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:48,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-24_01-22-48.log]
[testng] 01:22:48,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c2eaf8f - End of configuration.
[testng] [2024-07-24 01:22:48,186] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 01:22:48,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:22:48,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:48,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-24_01-22-48.log]
[testng] 01:22:48,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bf01ab3 - End of configuration.
[testng] [2024-07-24 01:22:48,302] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 01:22:48,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:22:48,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:48,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-24_01-22-48.log]
[testng] 01:22:48,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11486c30 - End of configuration.
[testng] [2024-07-24 01:22:49,407] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 01:22:49,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:22:49,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:49,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-24_01-22-49.log]
[testng] 01:22:49,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b0acfc9 - End of configuration.
[testng] [2024-07-24 01:22:50,197] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 01:22:50,198 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:22:50,198 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:50,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-24_01-22-50.log]
[testng] 01:22:50,199 |-INFO in ch.qos.logback.core.sift.SiftProcessor@183b1266 - End of configuration.
[testng] [2024-07-24 01:22:53,915] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-07-24 01:22:54,156] [pool-1-thread-6] Initializing /data/imagej/flybrain.zip:
[testng] [2024-07-24 01:23:01,178] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-07-24 01:23:03,207] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-07-24 01:23:03,732] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-07-24 01:23:07,208] [pool-1-thread-9] Initializing /data/imagej/se3.zip:
[testng] [2024-07-24 01:23:11,286] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-07-24 01:23:15,530] [pool-1-thread-5] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-07-24 01:23:22,679] [pool-1-thread-2] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-07-24 01:23:23,046] [pool-1-thread-7] Initializing /data/imagej/confocal-stack.zip:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1166, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 6 minutes 1 second
Finished: SUCCESS