Started by upstream project "BIOFORMATS-test-repo" build number 44
originally caused by:
Started by upstream project "Trigger" build number 51
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/jenkins18202487247152121830.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_6227_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 01:22:32,484 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:22:32,485 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service.
[testng] 01:22:32,485 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:32,486 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:32,487 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:22:32,487 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:22:32,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:22:32,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:32,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:32,489 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:22:32,490 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:22:32,490 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:22:32,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:22:32,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:22:32,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:22:32,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:22:32,705 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:22:32,705 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:22:32,705 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:22:32,706 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:22:32,706 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration.
[testng] 01:22:32,706 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point
[testng] 01:22:32,707 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 219 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-25 01:22:32,716] [main] java.version = 21
[testng] 01:22:32,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:22:32,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:32,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-25_01-22-32.log]
[testng] 01:22:32,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration.
[testng] [2024-04-25 01:22:32,766] [main] testng.directory = /data
[testng] [2024-04-25 01:22:32,766] [main] testng.configDirectory = /config
[testng] [2024-04-25 01:22:32,775] [main] testng.multiplier = 1.0
[testng] [2024-04-25 01:22:32,776] [main] testng.in-memory = false
[testng] [2024-04-25 01:22:32,776] [main] testng.allow-missing = false
[testng] [2024-04-25 01:22:32,776] [main] user.language = en
[testng] [2024-04-25 01:22:32,776] [main] user.country = ${user.country}
[testng] [2024-04-25 01:22:32,776] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-04-25 01:22:33,183] [main] ----------------------------------------
[testng] [2024-04-25 01:22:33,183] [main] Total files: 22
[testng] [2024-04-25 01:22:33,184] [main] Scan time: 0.407 s (18 ms/file)
[testng] [2024-04-25 01:22:33,184] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-04-25 01:23:27,706] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 01:23:27,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:23:27,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:27,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-25_01-23-27.log]
[testng] 01:23:27,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69102a0b - End of configuration.
[testng] [2024-04-25 01:23:29,235] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip:
[testng] 01:23:29,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:23:29,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:29,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-25_01-23-29.log]
[testng] 01:23:29,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@292e2fe9 - End of configuration.
[testng] [2024-04-25 01:23:29,541] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] 01:23:29,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:23:29,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:29,542 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-25_01-23-29.log]
[testng] 01:23:29,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78a0342e - End of configuration.
[testng] [2024-04-25 01:23:29,773] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 01:23:29,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:23:29,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:29,774 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-25_01-23-29.log]
[testng] 01:23:29,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@726f83b7 - End of configuration.
[testng] [2024-04-25 01:23:31,149] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip:
[testng] 01:23:31,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:23:31,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:31,150 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-25_01-23-31.log]
[testng] 01:23:31,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@337b7eba - End of configuration.
[testng] [2024-04-25 01:23:31,437] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] 01:23:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:23:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:31,437 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-25_01-23-31.log]
[testng] 01:23:31,438 |-INFO in ch.qos.logback.core.sift.SiftProcessor@193ac080 - End of configuration.
[testng] [2024-04-25 01:23:33,342] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip:
[testng] 01:23:33,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:23:33,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:33,343 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-25_01-23-33.log]
[testng] 01:23:33,343 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59c48302 - End of configuration.
[testng] [2024-04-25 01:23:33,755] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip:
[testng] 01:23:33,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:23:33,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:33,756 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-25_01-23-33.log]
[testng] 01:23:33,756 |-INFO in ch.qos.logback.core.sift.SiftProcessor@461603bd - End of configuration.
[testng] [2024-04-25 01:23:34,644] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip:
[testng] 01:23:34,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:23:34,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:34,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-25_01-23-34.log]
[testng] 01:23:34,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f1ad6e4 - End of configuration.
[testng] [2024-04-25 01:23:34,878] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip:
[testng] 01:23:34,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:23:34,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:34,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-25_01-23-34.log]
[testng] 01:23:34,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@260903aa - End of configuration.
[testng] [2024-04-25 01:23:41,257] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 01:23:41,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:23:41,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:41,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-25_01-23-41.log]
[testng] 01:23:41,259 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fb216bc - End of configuration.
[testng] [2024-04-25 01:23:48,296] [pool-1-thread-2] Initializing /data/imagej/xrays.zip:
[testng] 01:23:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:23:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:48,297 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-25_01-23-48.log]
[testng] 01:23:48,298 |-INFO in ch.qos.logback.core.sift.SiftProcessor@629fa43d - End of configuration.
[testng] [2024-04-25 01:23:50,639] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip:
[testng] [2024-04-25 01:23:55,841] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] [2024-04-25 01:23:58,453] [pool-1-thread-12] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-04-25 01:23:59,291] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip:
[testng] [2024-04-25 01:24:08,798] [pool-1-thread-9] Initializing /data/imagej/scala-media.zip:
[testng] [2024-04-25 01:24:09,924] [pool-1-thread-7] Initializing /data/imagej/m51.zip:
[testng] [2024-04-25 01:24:10,853] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-04-25 01:24:17,999] [pool-1-thread-9] Initializing /data/imagej/se3.zip:
[testng] [2024-04-25 01:24:24,842] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-04-25 01:24:31,052] [pool-1-thread-6] Initializing /data/imagej/fat-cells.zip:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1166, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 7 minutes 8 seconds
Finished: SUCCESS