Started by upstream project "BIOFORMATS-test-repo" build number 239
originally caused by:
Started by upstream project "Trigger" build number 264
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins16722957951781730490.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_37534_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] 00:32:56,617 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:32:56,618 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 00:32:56,619 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:32:56,619 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:32:56,620 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:32:56,620 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:32:56,621 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:32:56,621 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:32:56,621 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:32:56,622 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:32:56,622 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:32:56,623 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:32:56,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:32:56,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:32:56,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:32:56,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:32:56,820 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:32:56,820 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:32:56,820 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:32:56,821 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:32:56,821 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 00:32:56,822 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 00:32:56,822 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-30 00:32:56,834] [main] java.version = 17.0.2
[testng] 00:32:56,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:32:56,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:32:56,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-30_00-32-56.log]
[testng] 00:32:56,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-10-30 00:32:56,894] [main] testng.directory = /data
[testng] [2024-10-30 00:32:56,894] [main] testng.configDirectory = /config
[testng] [2024-10-30 00:32:56,902] [main] testng.multiplier = 1.0
[testng] [2024-10-30 00:32:56,903] [main] testng.in-memory = false
[testng] [2024-10-30 00:32:56,903] [main] testng.allow-missing = false
[testng] [2024-10-30 00:32:56,903] [main] user.language = en
[testng] [2024-10-30 00:32:56,904] [main] user.country = ${user.country}
[testng] [2024-10-30 00:32:56,904] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-30 00:32:57,477] [main] ----------------------------------------
[testng] [2024-10-30 00:32:57,478] [main] Total files: 22
[testng] [2024-10-30 00:32:57,478] [main] Scan time: 0.573 s (26 ms/file)
[testng] [2024-10-30 00:32:57,478] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-30 00:34:43,772] [pool-1-thread-1] Initializing /data/imagej/fat-cells.zip:
[testng] 00:34:43,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:34:43,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:43,774 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-30_00-34-43.log]
[testng] 00:34:43,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47702098 - End of configuration.
[testng] [2024-10-30 00:34:48,567] [pool-1-thread-12] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] 00:34:48,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:34:48,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:48,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-30_00-34-48.log]
[testng] 00:34:48,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2404a842 - End of configuration.
[testng] [2024-10-30 00:34:52,012] [pool-1-thread-11] Initializing /data/imagej/3D_Chromosome.zip:
[testng] 00:34:52,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:34:52,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:52,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-30_00-34-52.log]
[testng] 00:34:52,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@436c8730 - End of configuration.
[testng] [2024-10-30 00:34:54,190] [pool-1-thread-10] Initializing /data/imagej/xrays.zip:
[testng] 00:34:54,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:34:54,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:54,191 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-30_00-34-54.log]
[testng] 00:34:54,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49e61c4b - End of configuration.
[testng] [2024-10-30 00:34:55,693] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip:
[testng] 00:34:55,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:34:55,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:55,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-30_00-34-55.log]
[testng] 00:34:55,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b25825 - End of configuration.
[testng] [2024-10-30 00:35:04,119] [pool-1-thread-8] Initializing /data/imagej/m51.zip:
[testng] 00:35:04,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:35:04,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:04,120 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-30_00-35-04.log]
[testng] 00:35:04,121 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c13523 - End of configuration.
[testng] [2024-10-30 00:35:05,600] [pool-1-thread-7] Initializing /data/imagej/se3.zip:
[testng] 00:35:05,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:35:05,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:05,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-30_00-35-05.log]
[testng] 00:35:05,601 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f4d841e - End of configuration.
[testng] [2024-10-30 00:35:13,139] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] 00:35:13,139 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:35:13,139 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:13,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-30_00-35-13.log]
[testng] 00:35:13,140 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73a7d506 - End of configuration.
[testng] [2024-10-30 00:35:16,341] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 00:35:16,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:35:16,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:16,342 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-30_00-35-16.log]
[testng] 00:35:16,343 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50041011 - End of configuration.
[testng] [2024-10-30 00:35:21,502] [pool-1-thread-4] Initializing /data/imagej/RatBrain.zip:
[testng] 00:35:21,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:35:21,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:21,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-30_00-35-21.log]
[testng] 00:35:21,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3641c20 - End of configuration.
[testng] [2024-10-30 00:35:24,572] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 00:35:24,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:35:24,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:24,573 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-30_00-35-24.log]
[testng] 00:35:24,573 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fe7b522 - End of configuration.
[testng] [2024-10-30 00:35:33,643] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip:
[testng] 00:35:33,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:35:33,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:35:33,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-30_00-35-33.log]
[testng] 00:35:33,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6156bc8f - End of configuration.
[testng] [2024-10-30 00:36:00,003] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] [2024-10-30 00:36:04,371] [pool-1-thread-8] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] [2024-10-30 00:36:16,230] [pool-1-thread-4] Initializing /data/imagej/confocal-stack.zip:
[testng] [2024-10-30 00:36:27,536] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] [2024-10-30 00:36:30,615] [pool-1-thread-11] Initializing /data/samples/sdub.zip:
[testng] [2024-10-30 00:36:44,243] [pool-1-thread-11] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-10-30 00:36:47,695] [pool-1-thread-2] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-10-30 00:37:07,855] [pool-1-thread-5] Initializing /data/imagej/watershed-animation.zip:
[testng] [2024-10-30 00:37:11,793] [pool-1-thread-6] Initializing /data/imagej/FluorescentCells.zip:
[testng] [2024-10-30 00:37:16,073] [pool-1-thread-12] Initializing /data/imagej/confocal-series.zip:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1166, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 8 minutes 4 seconds
Finished: SUCCESS