Started by upstream project "BIOFORMATS-test-repo" build number 294
originally caused by:
Started by upstream project "Trigger" build number 313
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9
[BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins16540352071139776805.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_46429_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] 00:36:48,906 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:36:48,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 00:36:48,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:36:48,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:36:48,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:36:48,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:36:48,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:36:48,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:36:48,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:36:48,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:36:48,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:36:48,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:36:49,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:36:49,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:36:49,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:36:49,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:36:49,117 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:36:49,117 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:36:49,117 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:36:49,118 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:36:49,118 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 00:36:49,119 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 00:36:49,119 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 209 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-18 00:36:49,130] [main] java.version = 17.0.2
[testng] 00:36:49,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:36:49,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:36:49,181 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-18_00-36-49.log]
[testng] 00:36:49,183 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-12-18 00:36:49,185] [main] testng.directory = /data
[testng] [2024-12-18 00:36:49,185] [main] testng.configDirectory = /config
[testng] [2024-12-18 00:36:49,194] [main] testng.multiplier = 1.0
[testng] [2024-12-18 00:36:49,195] [main] testng.in-memory = false
[testng] [2024-12-18 00:36:49,195] [main] testng.allow-missing = false
[testng] [2024-12-18 00:36:49,195] [main] user.language = en
[testng] [2024-12-18 00:36:49,195] [main] user.country = ${user.country}
[testng] [2024-12-18 00:36:49,195] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-18 00:37:01,027] [main] ----------------------------------------
[testng] [2024-12-18 00:37:01,027] [main] Total files: 22
[testng] [2024-12-18 00:37:01,027] [main] Scan time: 11.832 s (537 ms/file)
[testng] [2024-12-18 00:37:01,027] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-18 00:42:49,649] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 00:42:49,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:42:49,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:42:49,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-18_00-42-49.log]
[testng] 00:42:49,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18724774 - End of configuration.
[testng] [2024-12-18 00:43:30,590] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 00:43:30,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:43:30,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:43:30,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-18_00-43-30.log]
[testng] 00:43:30,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6273f06a - End of configuration.
[testng] [2024-12-18 00:43:53,579] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 00:43:53,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:43:53,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:43:53,580 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-18_00-43-53.log]
[testng] 00:43:53,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41ac9d44 - End of configuration.
[testng] [2024-12-18 00:44:09,529] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 00:44:09,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:44:09,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:44:09,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-18_00-44-09.log]
[testng] 00:44:09,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e353dd - End of configuration.
[testng] [2024-12-18 00:44:23,341] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 00:44:23,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:44:23,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:44:23,342 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-18_00-44-23.log]
[testng] 00:44:23,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@84bc4d2 - End of configuration.
[testng] [2024-12-18 00:44:29,927] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 00:44:29,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:44:29,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:44:29,928 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-18_00-44-29.log]
[testng] 00:44:29,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37e05dad - End of configuration.
[testng] [2024-12-18 00:44:53,019] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 00:44:53,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:44:53,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:44:53,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-18_00-44-53.log]
[testng] 00:44:53,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5000dd6c - End of configuration.
[testng] [2024-12-18 00:45:01,599] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 00:45:01,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:45:01,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:45:01,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-18_00-45-01.log]
[testng] 00:45:01,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8cafe4 - End of configuration.
[testng] [2024-12-18 00:45:09,335] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 00:45:09,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:45:09,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:45:09,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-18_00-45-09.log]
[testng] 00:45:09,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61caa8d7 - End of configuration.
[testng] [2024-12-18 00:45:14,538] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 00:45:14,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:45:14,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:45:14,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-18_00-45-14.log]
[testng] 00:45:14,539 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b531779 - End of configuration.
[testng] [2024-12-18 00:45:32,961] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 00:45:32,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:45:32,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:45:32,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-18_00-45-32.log]
[testng] 00:45:32,962 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8584b3 - End of configuration.
[testng] [2024-12-18 00:45:49,113] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 00:45:49,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:45:49,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:45:49,114 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-18_00-45-49.log]
[testng] 00:45:49,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40215639 - End of configuration.
[testng] [2024-12-18 00:48:16,663] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-12-18 00:48:25,000] [pool-1-thread-5] Initializing /data/imagej/flybrain.zip:
[testng] [2024-12-18 00:49:03,419] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-12-18 00:49:21,175] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-12-18 00:49:47,814] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-12-18 00:50:56,949] [pool-1-thread-3] Initializing /data/imagej/se3.zip:
[testng] [2024-12-18 00:52:12,859] [pool-1-thread-12] Initializing /data/samples/sdub.zip:
[testng] [2024-12-18 00:52:20,576] [pool-1-thread-2] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-12-18 00:53:09,324] [pool-1-thread-10] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-12-18 00:53:25,308] [pool-1-thread-4] 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: 24 minutes 2 seconds
Finished: SUCCESS