Started by upstream project "BIOFORMATS-test-repo" build number 93
originally caused by:
Started by upstream project "Trigger" build number 104
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/jenkins2807739707562466738.sh
+ '[' ventana = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_14342_merge_ci -v /uod/idr/repos/curated/ventana:/data -v /uod/idr-scratch/merge-ci/curated/ventana:/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] WARNING: An illegal reflective access operation has occurred
[testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket
[testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener
[testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
[testng] WARNING: All illegal access operations will be denied in a future release
[testng] File leak detector installed
[testng] 02:14:14,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:14:14,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 02:14:14,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:14:14,822 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:14:14,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:14:14,824 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:14:14,824 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:14:14,824 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:14:14,825 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:14:14,826 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:14:14,827 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:14:14,827 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:14:15,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:14:15,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:14:15,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:14:15,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:14:15,087 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:14:15,087 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:14:15,087 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:14:15,087 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:14:15,087 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 02:14:15,089 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 02:14:15,089 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 264 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-15 02:14:15,099] [main] java.version = 11.0.16
[testng] 02:14:15,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:14:15,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:15,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-15_02-14-15.log]
[testng] 02:14:15,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-06-15 02:14:15,158] [main] testng.directory = /data
[testng] [2024-06-15 02:14:15,158] [main] testng.configDirectory = /config
[testng] [2024-06-15 02:14:15,169] [main] testng.multiplier = 1.0
[testng] [2024-06-15 02:14:15,170] [main] testng.in-memory = false
[testng] [2024-06-15 02:14:15,170] [main] testng.allow-missing = false
[testng] [2024-06-15 02:14:15,170] [main] user.language = en
[testng] [2024-06-15 02:14:15,170] [main] user.country = ${user.country}
[testng] [2024-06-15 02:14:15,170] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-15 02:14:15,722] [main] ----------------------------------------
[testng] [2024-06-15 02:14:15,722] [main] Total files: 10
[testng] [2024-06-15 02:14:15,722] [main] Scan time: 0.551 s (55 ms/file)
[testng] [2024-06-15 02:14:15,722] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 10 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-15 02:14:21,198] [pool-1-thread-1] Initializing /data/public/openslide/OS-1.bif:
[testng] 02:14:21,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:14:21,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:21,201 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-15_02-14-21.log]
[testng] 02:14:21,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b21919f - End of configuration.
[testng] [2024-06-15 02:14:21,406] [pool-1-thread-10] Initializing /data/gh-3927/imagesc-75221/A-180000004-01-M-001.bif:
[testng] 02:14:21,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:14:21,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:21,413 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-15_02-14-21.log]
[testng] 02:14:21,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7385e7cb - End of configuration.
[testng] [2024-06-15 02:14:21,590] [pool-1-thread-9] Initializing /data/public/openslide/OS-2.bif:
[testng] 02:14:21,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:14:21,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:21,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-15_02-14-21.log]
[testng] 02:14:21,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8caf42 - End of configuration.
[testng] [2024-06-15 02:14:21,823] [pool-1-thread-8] Initializing /data/qa-11086/2.bif:
[testng] 02:14:21,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:14:21,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:21,825 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-15_02-14-21.log]
[testng] 02:14:21,826 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ec1e881 - End of configuration.
[testng] [2024-06-15 02:14:21,915] [pool-1-thread-7] Initializing /data/gh-3927/imagesc-75002/ome-bioformats-bug.bif:
[testng] 02:14:21,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:14:21,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:21,918 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-15_02-14-21.log]
[testng] 02:14:21,918 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e8fba1a - End of configuration.
[testng] [2024-06-15 02:14:22,065] [pool-1-thread-6] Initializing /data/gh3570/UMFZ-_175_06142018091319AM.bif:
[testng] 02:14:22,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:14:22,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:22,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-15_02-14-22.log]
[testng] 02:14:22,067 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7518b3c - End of configuration.
[testng] [2024-06-15 02:14:22,350] [pool-1-thread-5] Initializing /data/qa-11086/3.bif:
[testng] 02:14:22,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:14:22,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:22,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-15_02-14-22.log]
[testng] 02:14:22,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d2091e2 - End of configuration.
[testng] [2024-06-15 02:14:22,511] [pool-1-thread-4] Initializing /data/gh-3927/imagesc-75221/B-210004684-01-A-001.bif:
[testng] 02:14:22,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:14:22,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:22,513 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-15_02-14-22.log]
[testng] 02:14:22,514 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c89ea6 - End of configuration.
[testng] [2024-06-15 02:14:22,719] [pool-1-thread-3] Initializing /data/qa-11086/CASO_2_20X_HD_4_16.bif:
[testng] 02:14:22,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:14:22,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:22,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-15_02-14-22.log]
[testng] 02:14:22,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@795acb19 - End of configuration.
[testng] [2024-06-15 02:14:22,842] [pool-1-thread-2] Initializing /data/qa-27763/QuPath Bio-Formats sample file.tif:
[testng] 02:14:22,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:14:22,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:14:22,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-15_02-14-22.log]
[testng] 02:14:22,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6eaf7495 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 530, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 54 seconds
Finished: SUCCESS