Started by upstream project "BIOFORMATS-test-repo" build number 4
originally caused by:
Started by upstream project "Trigger" build number 5
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/jenkins14392370320892421743.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_484_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] 00:22:53,851 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:22:53,852 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 00:22:53,852 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:22:53,853 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:22:53,854 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:22:53,854 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:22:53,854 |-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] 00:22:53,854 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:22:53,855 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:22:53,855 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:22:53,855 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:22:53,856 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:22:54,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:22:54,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:22:54,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:22:54,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:22:54,068 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:22:54,068 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:22:54,069 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:22:54,069 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:22:54,069 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 00:22:54,070 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 00:22:54,070 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 215 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-03-17 00:22:54,079] [main] java.version = 17.0.2
[testng] 00:22:54,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:22:54,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:22:54,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-17_00-22-54.log]
[testng] 00:22:54,131 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-03-17 00:22:54,133] [main] testng.directory = /data
[testng] [2024-03-17 00:22:54,133] [main] testng.configDirectory = /config
[testng] [2024-03-17 00:22:54,142] [main] testng.multiplier = 1.0
[testng] [2024-03-17 00:22:54,142] [main] testng.in-memory = false
[testng] [2024-03-17 00:22:54,143] [main] testng.allow-missing = false
[testng] [2024-03-17 00:22:54,143] [main] user.language = en
[testng] [2024-03-17 00:22:54,143] [main] user.country = ${user.country}
[testng] [2024-03-17 00:22:54,143] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-03-17 00:22:54,488] [main] ----------------------------------------
[testng] [2024-03-17 00:22:54,488] [main] Total files: 22
[testng] [2024-03-17 00:22:54,488] [main] Scan time: 0.345 s (15 ms/file)
[testng] [2024-03-17 00:22:54,488] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-03-17 00:24:04,874] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 00:24:04,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:24:04,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:04,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-17_00-24-04.log]
[testng] 00:24:04,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3714301e - End of configuration.
[testng] [2024-03-17 00:24:11,699] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 00:24:11,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:24:11,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:11,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-17_00-24-11.log]
[testng] 00:24:11,700 |-INFO in ch.qos.logback.core.sift.SiftProcessor@139e39f9 - End of configuration.
[testng] [2024-03-17 00:24:15,455] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 00:24:15,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:24:15,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:15,457 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-17_00-24-15.log]
[testng] 00:24:15,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72db820e - End of configuration.
[testng] [2024-03-17 00:24:16,911] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 00:24:16,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:24:16,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:16,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-17_00-24-16.log]
[testng] 00:24:16,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49b5e6bb - End of configuration.
[testng] [2024-03-17 00:24:18,880] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 00:24:18,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:24:18,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:18,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-17_00-24-18.log]
[testng] 00:24:18,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481ffd45 - End of configuration.
[testng] [2024-03-17 00:24:19,466] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 00:24:19,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:24:19,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:19,468 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-17_00-24-19.log]
[testng] 00:24:19,468 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e883053 - End of configuration.
[testng] [2024-03-17 00:24:24,292] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 00:24:24,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:24:24,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:24,293 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-17_00-24-24.log]
[testng] 00:24:24,293 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c2eaf8f - End of configuration.
[testng] [2024-03-17 00:24:25,213] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 00:24:25,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:24:25,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:25,214 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-17_00-24-25.log]
[testng] 00:24:25,214 |-INFO in ch.qos.logback.core.sift.SiftProcessor@509f50f - End of configuration.
[testng] [2024-03-17 00:24:26,138] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 00:24:26,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:24:26,138 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:26,139 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-17_00-24-26.log]
[testng] 00:24:26,139 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4644f4c5 - End of configuration.
[testng] [2024-03-17 00:24:26,796] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 00:24:26,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:24:26,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:26,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-17_00-24-26.log]
[testng] 00:24:26,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@487e20d9 - End of configuration.
[testng] [2024-03-17 00:24:28,756] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 00:24:28,756 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:24:28,756 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:28,757 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-17_00-24-28.log]
[testng] 00:24:28,757 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5076499b - End of configuration.
[testng] [2024-03-17 00:24:30,480] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 00:24:30,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:24:30,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:24:30,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-17_00-24-30.log]
[testng] 00:24:30,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75084d66 - End of configuration.
[testng] [2024-03-17 00:24:40,546] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-03-17 00:24:41,542] [pool-1-thread-5] Initializing /data/imagej/flybrain.zip:
[testng] [2024-03-17 00:24:47,107] [pool-1-thread-6] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-03-17 00:24:48,863] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-03-17 00:24:52,508] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-03-17 00:24:55,984] [pool-1-thread-9] Initializing /data/imagej/se3.zip:
[testng] [2024-03-17 00:25:05,078] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-03-17 00:25:08,054] [pool-1-thread-6] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-03-17 00:25:13,685] [pool-1-thread-3] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-03-17 00:25:14,301] [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: 6 minutes 42 seconds
Finished: SUCCESS