Started by upstream project "BIOFORMATS-test-repo" build number 116
originally caused by:
Started by upstream project "Trigger" build number 133
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins8178341160807002999.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_18035_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] 01:22:29,316 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:22:29,317 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:22:29,317 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:29,318 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:29,319 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:22:29,319 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:22:29,319 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:22:29,319 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:29,320 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:29,320 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:22:29,321 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:22:29,321 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:22:29,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:22:29,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:22:29,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:22:29,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:22:29,513 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:22:29,513 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:22:29,513 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:22:29,514 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:22:29,514 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:22:29,515 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:22:29,515 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-10 01:22:29,524] [main] java.version = 17.0.2
[testng] 01:22:29,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:22:29,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:29,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-10_01-22-29.log]
[testng] 01:22:29,570 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-07-10 01:22:29,572] [main] testng.directory = /data
[testng] [2024-07-10 01:22:29,572] [main] testng.configDirectory = /config
[testng] [2024-07-10 01:22:29,583] [main] testng.multiplier = 1.0
[testng] [2024-07-10 01:22:29,584] [main] testng.in-memory = false
[testng] [2024-07-10 01:22:29,584] [main] testng.allow-missing = false
[testng] [2024-07-10 01:22:29,584] [main] user.language = en
[testng] [2024-07-10 01:22:29,584] [main] user.country = ${user.country}
[testng] [2024-07-10 01:22:29,584] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-07-10 01:22:30,023] [main] ----------------------------------------
[testng] [2024-07-10 01:22:30,023] [main] Total files: 22
[testng] [2024-07-10 01:22:30,024] [main] Scan time: 0.439 s (19 ms/file)
[testng] [2024-07-10 01:22:30,024] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-10 01:23:09,816] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 01:23:09,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:23:09,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:09,817 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-10_01-23-09.log]
[testng] 01:23:09,818 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41a92d1 - End of configuration.
[testng] [2024-07-10 01:23:14,793] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 01:23:14,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:23:14,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:14,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-10_01-23-14.log]
[testng] 01:23:14,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fee6804 - End of configuration.
[testng] [2024-07-10 01:23:17,115] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 01:23:17,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:23:17,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:17,116 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-10_01-23-17.log]
[testng] 01:23:17,117 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b486f6 - End of configuration.
[testng] [2024-07-10 01:23:17,392] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 01:23:17,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:23:17,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:17,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-10_01-23-17.log]
[testng] 01:23:17,393 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32bfee9e - End of configuration.
[testng] [2024-07-10 01:23:18,495] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 01:23:18,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:23:18,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:18,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-10_01-23-18.log]
[testng] 01:23:18,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5da983cb - End of configuration.
[testng] [2024-07-10 01:23:18,590] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 01:23:18,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:23:18,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:18,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-10_01-23-18.log]
[testng] 01:23:18,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54793062 - End of configuration.
[testng] [2024-07-10 01:23:22,226] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 01:23:22,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:23:22,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:22,228 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-10_01-23-22.log]
[testng] 01:23:22,228 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d1e0648 - End of configuration.
[testng] [2024-07-10 01:23:22,427] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 01:23:22,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:23:22,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:22,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-10_01-23-22.log]
[testng] 01:23:22,428 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58130b5f - End of configuration.
[testng] [2024-07-10 01:23:22,544] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 01:23:22,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:23:22,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:22,545 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-10_01-23-22.log]
[testng] 01:23:22,546 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d9530e7 - End of configuration.
[testng] [2024-07-10 01:23:22,695] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 01:23:22,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:23:22,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:22,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-10_01-23-22.log]
[testng] 01:23:22,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f096d76 - End of configuration.
[testng] [2024-07-10 01:23:23,894] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 01:23:23,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:23:23,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:23,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-10_01-23-23.log]
[testng] 01:23:23,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@509f50f - End of configuration.
[testng] [2024-07-10 01:23:24,709] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 01:23:24,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:23:24,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:24,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-10_01-23-24.log]
[testng] 01:23:24,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f976c3a - End of configuration.
[testng] [2024-07-10 01:23:28,060] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-07-10 01:23:28,297] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip:
[testng] [2024-07-10 01:23:33,436] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-07-10 01:23:35,084] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-07-10 01:23:35,794] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-07-10 01:23:38,537] [pool-1-thread-6] Initializing /data/imagej/se3.zip:
[testng] [2024-07-10 01:23:42,632] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-07-10 01:23:46,819] [pool-1-thread-5] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-07-10 01:23:54,535] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-07-10 01:23:54,881] [pool-1-thread-2] 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: 5 minutes 40 seconds
Finished: SUCCESS