Started by upstream project "BIOFORMATS-test-repo" build number 64
originally caused by:
Started by upstream project "Trigger" build number 71
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8
[BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins15091039783693712738.sh
+ '[' zip = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_9507_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] 01:21:47,501 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:21:47,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:21:47,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:47,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:47,503 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:21:47,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:21:47,504 |-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] 01:21:47,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:47,505 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:47,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:21:47,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:21:47,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:21:47,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:21:47,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:21:47,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:21:47,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:21:47,719 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:21:47,720 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:21:47,720 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:21:47,720 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:21:47,720 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:21:47,721 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:21:47,721 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 216 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-15 01:21:47,730] [main] java.version = 17.0.2
[testng] 01:21:47,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:21:47,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:47,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-15_01-21-47.log]
[testng] 01:21:47,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-05-15 01:21:47,799] [main] testng.directory = /data
[testng] [2024-05-15 01:21:47,799] [main] testng.configDirectory = /config
[testng] [2024-05-15 01:21:47,808] [main] testng.multiplier = 1.0
[testng] [2024-05-15 01:21:47,809] [main] testng.in-memory = false
[testng] [2024-05-15 01:21:47,811] [main] testng.allow-missing = false
[testng] [2024-05-15 01:21:47,812] [main] user.language = en
[testng] [2024-05-15 01:21:47,813] [main] user.country = ${user.country}
[testng] [2024-05-15 01:21:47,813] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-15 01:21:48,195] [main] ----------------------------------------
[testng] [2024-05-15 01:21:48,195] [main] Total files: 22
[testng] [2024-05-15 01:21:48,195] [main] Scan time: 0.382 s (17 ms/file)
[testng] [2024-05-15 01:21:48,195] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 22 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-15 01:22:29,873] [pool-1-thread-1] Initializing /data/imagej/4D-Stack(256x256x20x10).zip:
[testng] 01:22:29,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:22:29,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:29,875 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-15_01-22-29.log]
[testng] 01:22:29,875 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f71e76e - End of configuration.
[testng] [2024-05-15 01:22:35,233] [pool-1-thread-12] Initializing /data/imagej/fat-cells.zip:
[testng] 01:22:35,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:22:35,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:35,234 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-15_01-22-35.log]
[testng] 01:22:35,235 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fa3eb9b - End of configuration.
[testng] [2024-05-15 01:22:37,655] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip:
[testng] 01:22:37,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:22:37,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:37,656 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-15_01-22-37.log]
[testng] 01:22:37,657 |-INFO in ch.qos.logback.core.sift.SiftProcessor@255e6859 - End of configuration.
[testng] [2024-05-15 01:22:37,937] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip:
[testng] 01:22:37,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:22:37,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:37,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-15_01-22-37.log]
[testng] 01:22:37,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47b92663 - End of configuration.
[testng] [2024-05-15 01:22:39,012] [pool-1-thread-9] Initializing /data/imagej/xrays.zip:
[testng] 01:22:39,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:22:39,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:39,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-15_01-22-39.log]
[testng] 01:22:39,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42be334b - End of configuration.
[testng] [2024-05-15 01:22:39,104] [pool-1-thread-8] Initializing /data/imagej/confocal-series.zip:
[testng] 01:22:39,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:22:39,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:39,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-15_01-22-39.log]
[testng] 01:22:39,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49b5e6bb - End of configuration.
[testng] [2024-05-15 01:22:42,410] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip:
[testng] 01:22:42,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:22:42,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:42,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-15_01-22-42.log]
[testng] 01:22:42,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@674419ed - End of configuration.
[testng] [2024-05-15 01:22:42,590] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip:
[testng] 01:22:42,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:22:42,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:42,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-15_01-22-42.log]
[testng] 01:22:42,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@eecbcfa - End of configuration.
[testng] [2024-05-15 01:22:42,699] [pool-1-thread-5] Initializing /data/imagej/m51.zip:
[testng] 01:22:42,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:22:42,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:42,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-15_01-22-42.log]
[testng] 01:22:42,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bd11776 - End of configuration.
[testng] [2024-05-15 01:22:42,828] [pool-1-thread-4] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip:
[testng] 01:22:42,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:22:42,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:42,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-15_01-22-42.log]
[testng] 01:22:42,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c1c7cae - End of configuration.
[testng] [2024-05-15 01:22:43,899] [pool-1-thread-3] Initializing /data/imagej/hela-cells.zip:
[testng] 01:22:43,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:22:43,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:43,900 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-15_01-22-43.log]
[testng] 01:22:43,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58130b5f - End of configuration.
[testng] [2024-05-15 01:22:44,662] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip:
[testng] 01:22:44,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:22:44,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:22:44,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-15_01-22-44.log]
[testng] 01:22:44,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d9530e7 - End of configuration.
[testng] [2024-05-15 01:22:47,878] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip:
[testng] [2024-05-15 01:22:48,084] [pool-1-thread-6] Initializing /data/imagej/flybrain.zip:
[testng] [2024-05-15 01:22:53,876] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip:
[testng] [2024-05-15 01:22:55,380] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip:
[testng] [2024-05-15 01:22:56,196] [pool-1-thread-11] Initializing /data/imagej/gel-electrophoresis.zip:
[testng] [2024-05-15 01:22:59,226] [pool-1-thread-9] Initializing /data/imagej/se3.zip:
[testng] [2024-05-15 01:23:03,604] [pool-1-thread-7] Initializing /data/samples/sdub.zip:
[testng] [2024-05-15 01:23:07,867] [pool-1-thread-5] Initializing /data/imagej/blood-brain-barrier.zip:
[testng] [2024-05-15 01:23:16,023] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip:
[testng] [2024-05-15 01:23:16,409] [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 47 seconds
Finished: SUCCESS