Started by upstream project "BIOFORMATS-test-repo" build number 83
originally caused by:
Started by upstream project "Trigger" build number 93
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/jenkins8668586109517553940.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_12623_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] 01:22:45,197 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:22:45,199 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:22:45,199 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:45,200 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:22:45,201 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:22:45,201 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:22:45,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:22:45,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:45,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:22:45,203 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:22:45,203 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:22:45,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:22:45,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:22:45,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:22:45,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:22:45,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:22:45,439 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:22:45,439 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:22:45,439 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:22:45,440 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:22:45,440 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:22:45,441 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:22:45,441 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 239 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-05 01:22:45,452] [main] java.version = 17.0.2
[testng] 01:22:45,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:22:45,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:45,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-05_01-22-45.log]
[testng] 01:22:45,500 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-06-05 01:22:45,502] [main] testng.directory = /data
[testng] [2024-06-05 01:22:45,502] [main] testng.configDirectory = /config
[testng] [2024-06-05 01:22:45,510] [main] testng.multiplier = 1.0
[testng] [2024-06-05 01:22:45,511] [main] testng.in-memory = false
[testng] [2024-06-05 01:22:45,512] [main] testng.allow-missing = false
[testng] [2024-06-05 01:22:45,512] [main] user.language = en
[testng] [2024-06-05 01:22:45,512] [main] user.country = ${user.country}
[testng] [2024-06-05 01:22:45,512] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-05 01:22:45,952] [main] ----------------------------------------
[testng] [2024-06-05 01:22:45,952] [main] Total files: 22
[testng] [2024-06-05 01:22:45,952] [main] Scan time: 0.44 s (20 ms/file)
[testng] [2024-06-05 01:22:45,952] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-05 01:23:25,765] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 01:23:25,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:23:25,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:25,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-05_01-23-25.log]
[testng] 01:23:25,767 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e49fef5 - End of configuration.
[testng] [2024-06-05 01:23:31,305] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 01:23:31,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:23:31,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:31,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-05_01-23-31.log]
[testng] 01:23:31,307 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12dc94da - End of configuration.
[testng] [2024-06-05 01:23:34,051] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 01:23:34,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:23:34,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:34,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-05_01-23-34.log]
[testng] 01:23:34,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19b57930 - End of configuration.
[testng] [2024-06-05 01:23:34,366] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 01:23:34,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:23:34,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:34,368 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-05_01-23-34.log]
[testng] 01:23:34,368 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61ae5508 - End of configuration.
[testng] [2024-06-05 01:23:35,724] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 01:23:35,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:23:35,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:35,726 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-05_01-23-35.log]
[testng] 01:23:35,726 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61c43608 - End of configuration.
[testng] [2024-06-05 01:23:35,834] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 01:23:35,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:23:35,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:35,835 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-05_01-23-35.log]
[testng] 01:23:35,836 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c1c7cae - End of configuration.
[testng] [2024-06-05 01:23:39,193] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 01:23:39,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:23:39,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:39,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-05_01-23-39.log]
[testng] 01:23:39,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58130b5f - End of configuration.
[testng] [2024-06-05 01:23:39,371] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 01:23:39,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:23:39,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:39,373 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-05_01-23-39.log]
[testng] 01:23:39,373 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a94273 - End of configuration.
[testng] [2024-06-05 01:23:39,481] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 01:23:39,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:23:39,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:39,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-05_01-23-39.log]
[testng] 01:23:39,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a0069cd - End of configuration.
[testng] [2024-06-05 01:23:39,598] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 01:23:39,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:23:39,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:39,599 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-05_01-23-39.log]
[testng] 01:23:39,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a18e47 - End of configuration.
[testng] [2024-06-05 01:23:40,649] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 01:23:40,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:23:40,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:40,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-05_01-23-40.log]
[testng] 01:23:40,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5890eee9 - End of configuration.
[testng] [2024-06-05 01:23:41,395] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 01:23:41,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:23:41,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:41,396 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-05_01-23-41.log]
[testng] 01:23:41,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54469fd3 - End of configuration.
[testng] [2024-06-05 01:23:44,388] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-06-05 01:23:44,584] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip:
[testng] [2024-06-05 01:23:49,791] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-06-05 01:23:51,591] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-06-05 01:23:52,386] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-06-05 01:23:55,127] [pool-1-thread-6] Initializing /data/imagej/se3.zip:
[testng] [2024-06-05 01:23:59,048] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-06-05 01:24:02,633] [pool-1-thread-5] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-06-05 01:24:10,308] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-06-05 01:24:10,901] [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 44 seconds
Finished: SUCCESS