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Started by upstream project "BIOFORMATS-test-repo" build number 109 originally caused by: Started by upstream project "Trigger" build number 122 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins7829804969233971613.sh + '[' obf = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17017_merge_ci -v /uod/idr/repos/curated/obf:/data -v /uod/idr-scratch/merge-ci/curated/obf:/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] 13:24:13,910 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:24:13,912 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 13:24:13,912 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:24:13,913 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:24:13,913 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:24:13,914 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:24:13,914 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:24:13,914 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:24:13,915 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:24:13,915 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:24:13,916 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:24:13,916 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:24:14,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:24:14,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:24:14,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:24:14,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:24:14,117 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:24:14,117 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:24:14,117 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:24:14,118 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:24:14,118 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 13:24:14,119 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 13:24:14,119 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-02 13:24:14,128] [main] java.version = 11.0.16 [testng] 13:24:14,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:24:14,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:14,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-02_13-24-14.log] [testng] 13:24:14,196 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-02 13:24:14,199] [main] testng.directory = /data [testng] [2024-07-02 13:24:14,199] [main] testng.configDirectory = /config [testng] [2024-07-02 13:24:14,214] [main] testng.multiplier = 1.0 [testng] [2024-07-02 13:24:14,216] [main] testng.in-memory = false [testng] [2024-07-02 13:24:14,216] [main] testng.allow-missing = false [testng] [2024-07-02 13:24:14,216] [main] user.language = en [testng] [2024-07-02 13:24:14,217] [main] user.country = ${user.country} [testng] [2024-07-02 13:24:14,217] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-02 13:24:15,819] [main] ---------------------------------------- [testng] [2024-07-02 13:24:15,819] [main] Total files: 12 [testng] [2024-07-02 13:24:15,819] [main] Scan time: 1.602 s (133 ms/file) [testng] [2024-07-02 13:24:15,819] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-02 13:24:20,584] [pool-1-thread-1] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 13:24:20,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:24:20,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:20,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-02_13-24-20.log] [testng] 13:24:20,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a08a32e - End of configuration. [testng] [2024-07-02 13:24:20,831] [pool-1-thread-11] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 13:24:20,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:24:20,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:20,832 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-02_13-24-20.log] [testng] 13:24:20,833 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4809c7bd - End of configuration. [testng] [2024-07-02 13:24:21,432] [pool-1-thread-10] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 13:24:21,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:24:21,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:21,432 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-02_13-24-21.log] [testng] 13:24:21,433 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ef39b6f - End of configuration. [testng] [2024-07-02 13:24:21,552] [pool-1-thread-9] Initializing /data/qa-27923/test.obf: [testng] 13:24:21,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:24:21,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:21,553 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-02_13-24-21.log] [testng] 13:24:21,553 |-INFO in ch.qos.logback.core.sift.SiftProcessor@262cbe8b - End of configuration. [testng] [2024-07-02 13:24:21,628] [pool-1-thread-8] Initializing /data/qa-16895/Measurement1.msr: [testng] 13:24:21,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:24:21,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:21,630 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-02_13-24-21.log] [testng] 13:24:21,630 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8e802b7 - End of configuration. [testng] [2024-07-02 13:24:21,716] [pool-1-thread-7] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 13:24:21,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:24:21,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:21,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-02_13-24-21.log] [testng] 13:24:21,718 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68d64550 - End of configuration. [testng] [2024-07-02 13:24:21,774] [pool-1-thread-6] Initializing /data/qa-17111/before 1.msr: [testng] 13:24:21,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:24:21,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:21,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-02_13-24-21.log] [testng] 13:24:21,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67c995e9 - End of configuration. [testng] [2024-07-02 13:24:22,696] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 13:24:22,697 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:24:22,697 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:22,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-02_13-24-22.log] [testng] 13:24:22,698 |-INFO in ch.qos.logback.core.sift.SiftProcessor@426e622f - End of configuration. [testng] [2024-07-02 13:24:23,037] [pool-1-thread-4] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 13:24:23,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:24:23,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:23,038 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-02_13-24-23.log] [testng] 13:24:23,038 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42287a29 - End of configuration. [testng] [2024-07-02 13:24:23,080] [pool-1-thread-3] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 13:24:23,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:24:23,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:23,081 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-02_13-24-23.log] [testng] 13:24:23,081 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dbc60b3 - End of configuration. [testng] [2024-07-02 13:24:23,156] [pool-1-thread-2] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 13:24:23,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:24:23,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:24:23,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-02_13-24-23.log] [testng] 13:24:23,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2490eed5 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 583, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 38 seconds Finished: SUCCESS