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Started by upstream project "BIOFORMATS-test-repo" build number 25 originally caused by: Started by upstream project "Trigger" build number 28 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins4748121858023310398.sh + '[' afi = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_3169_merge_ci -v /uod/idr/repos/curated/afi:/data -v /uod/idr-scratch/merge-ci/curated/afi:/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] 01:50:00,035 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:50:00,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 01:50:00,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:50:00,038 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:50:00,039 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:50:00,039 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:50:00,040 |-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] 01:50:00,040 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:50:00,040 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:50:00,041 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:50:00,042 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:50:00,042 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:50:00,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:50:00,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:50:00,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:50:00,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:50:00,269 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:50:00,270 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:50:00,270 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:50:00,270 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:50:00,270 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 01:50:00,271 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 01:50:00,271 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 231 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-06 01:50:00,281] [main] java.version = 11.0.16 [testng] 01:50:00,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:50:00,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:00,328 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-06_01-50-00.log] [testng] 01:50:00,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-04-06 01:50:00,332] [main] testng.directory = /data [testng] [2024-04-06 01:50:00,333] [main] testng.configDirectory = /config [testng] [2024-04-06 01:50:00,343] [main] testng.multiplier = 1.0 [testng] [2024-04-06 01:50:00,344] [main] testng.in-memory = false [testng] [2024-04-06 01:50:00,344] [main] testng.allow-missing = false [testng] [2024-04-06 01:50:00,344] [main] user.language = en [testng] [2024-04-06 01:50:00,344] [main] user.country = ${user.country} [testng] [2024-04-06 01:50:00,345] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-06 01:50:00,968] [main] ---------------------------------------- [testng] [2024-04-06 01:50:00,969] [main] Total files: 16 [testng] [2024-04-06 01:50:00,969] [main] Scan time: 0.623 s (38 ms/file) [testng] [2024-04-06 01:50:00,969] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-06 01:50:10,605] [pool-1-thread-1] Initializing /data/samples/5371.afi: [testng] 01:50:10,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:50:10,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:10,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-06_01-50-10.log] [testng] 01:50:10,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@112bd2f1 - End of configuration. [testng] [2024-04-06 01:50:10,707] [pool-1-thread-12] Initializing /data/samples/5440.afi: [testng] 01:50:10,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:50:10,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:10,731 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-06_01-50-10.log] [testng] 01:50:10,732 |-INFO in ch.qos.logback.core.sift.SiftProcessor@244de6f1 - End of configuration. [testng] [2024-04-06 01:50:10,862] [pool-1-thread-11] Initializing /data/samples/5358.afi: [testng] 01:50:10,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:50:10,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:10,863 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-06_01-50-10.log] [testng] 01:50:10,864 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dd60371 - End of configuration. [testng] [2024-04-06 01:50:10,930] [pool-1-thread-10] Initializing /data/samples/5339.afi: [testng] 01:50:10,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:50:10,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:10,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-06_01-50-10.log] [testng] 01:50:10,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@248bf495 - End of configuration. [testng] [2024-04-06 01:50:11,009] [pool-1-thread-9] Initializing /data/samples/5306.afi: [testng] 01:50:11,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:50:11,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-06_01-50-11.log] [testng] 01:50:11,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a8fb03a - End of configuration. [testng] [2024-04-06 01:50:11,076] [pool-1-thread-8] Initializing /data/samples/5414.afi: [testng] 01:50:11,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:50:11,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-06_01-50-11.log] [testng] 01:50:11,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48209e57 - End of configuration. [testng] [2024-04-06 01:50:11,161] [pool-1-thread-7] Initializing /data/samples/5387.afi: [testng] 01:50:11,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:50:11,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,162 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-06_01-50-11.log] [testng] 01:50:11,163 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b52277 - End of configuration. [testng] [2024-04-06 01:50:11,235] [pool-1-thread-6] Initializing /data/samples/5407.afi: [testng] 01:50:11,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:50:11,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-06_01-50-11.log] [testng] 01:50:11,236 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cb198bf - End of configuration. [testng] [2024-04-06 01:50:11,298] [pool-1-thread-5] Initializing /data/samples/5383.afi: [testng] 01:50:11,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:50:11,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,298 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-06_01-50-11.log] [testng] 01:50:11,299 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5089478b - End of configuration. [testng] [2024-04-06 01:50:11,344] [pool-1-thread-4] Initializing /data/samples/5446.afi: [testng] 01:50:11,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:50:11,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-06_01-50-11.log] [testng] 01:50:11,345 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c33812f - End of configuration. [testng] [2024-04-06 01:50:11,409] [pool-1-thread-3] Initializing /data/samples/5347.afi: [testng] 01:50:11,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:50:11,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-06_01-50-11.log] [testng] 01:50:11,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b128357 - End of configuration. [testng] [2024-04-06 01:50:11,494] [pool-1-thread-2] Initializing /data/samples/5351.afi: [testng] 01:50:11,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:50:11,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:50:11,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-06_01-50-11.log] [testng] 01:50:11,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c17ea8c - End of configuration. [testng] [2024-04-06 01:50:58,408] [pool-1-thread-8] Initializing /data/samples/5400.afi: [testng] [2024-04-06 01:50:59,799] [pool-1-thread-9] Initializing /data/samples/5343.afi: [testng] [2024-04-06 01:51:02,162] [pool-1-thread-11] Initializing /data/samples/5365.afi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 56 seconds Finished: SUCCESS