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Started by upstream project "BIOFORMATS-test-repo" build number 106 originally caused by: Started by upstream project "Trigger" build number 118 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins1710147766212851396.sh + '[' obf = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_16525_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] 02:47:27,278 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:47:27,280 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:47:27,280 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:47:27,281 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:47:27,281 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:47:27,281 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:47:27,282 |-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] 02:47:27,282 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:47:27,282 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:47:27,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:47:27,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:47:27,283 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:47:27,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:47:27,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:47:27,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:47:27,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:47:27,492 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:47:27,493 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:47:27,493 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:47:27,494 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:47:27,494 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:47:27,495 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:47:27,495 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-29 02:47:27,505] [main] java.version = 11.0.16 [testng] 02:47:27,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:47:27,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:27,555 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-29_02-47-27.log] [testng] 02:47:27,556 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-06-29 02:47:27,559] [main] testng.directory = /data [testng] [2024-06-29 02:47:27,559] [main] testng.configDirectory = /config [testng] [2024-06-29 02:47:27,571] [main] testng.multiplier = 1.0 [testng] [2024-06-29 02:47:27,573] [main] testng.in-memory = false [testng] [2024-06-29 02:47:27,573] [main] testng.allow-missing = false [testng] [2024-06-29 02:47:27,573] [main] user.language = en [testng] [2024-06-29 02:47:27,573] [main] user.country = ${user.country} [testng] [2024-06-29 02:47:27,573] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-29 02:47:29,353] [main] ---------------------------------------- [testng] [2024-06-29 02:47:29,353] [main] Total files: 12 [testng] [2024-06-29 02:47:29,353] [main] Scan time: 1.779 s (148 ms/file) [testng] [2024-06-29 02:47:29,353] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-29 02:47:34,647] [pool-1-thread-1] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 02:47:34,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:47:34,648 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:34,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-29_02-47-34.log] [testng] 02:47:34,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39bbf105 - End of configuration. [testng] [2024-06-29 02:47:34,904] [pool-1-thread-11] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 02:47:34,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:47:34,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:34,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-29_02-47-34.log] [testng] 02:47:34,905 |-INFO in ch.qos.logback.core.sift.SiftProcessor@228dd2f5 - End of configuration. [testng] [2024-06-29 02:47:35,514] [pool-1-thread-10] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 02:47:35,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:47:35,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:35,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-29_02-47-35.log] [testng] 02:47:35,515 |-INFO in ch.qos.logback.core.sift.SiftProcessor@255c9c8d - End of configuration. [testng] [2024-06-29 02:47:35,638] [pool-1-thread-9] Initializing /data/qa-27923/test.obf: [testng] 02:47:35,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:47:35,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:35,639 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-29_02-47-35.log] [testng] 02:47:35,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fd8df6a - End of configuration. [testng] [2024-06-29 02:47:35,694] [pool-1-thread-8] Initializing /data/qa-16895/Measurement1.msr: [testng] 02:47:35,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:47:35,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:35,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-29_02-47-35.log] [testng] 02:47:35,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38e2ce2f - End of configuration. [testng] [2024-06-29 02:47:35,763] [pool-1-thread-7] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 02:47:35,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:47:35,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:35,764 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-29_02-47-35.log] [testng] 02:47:35,765 |-INFO in ch.qos.logback.core.sift.SiftProcessor@413c03f1 - End of configuration. [testng] [2024-06-29 02:47:35,812] [pool-1-thread-6] Initializing /data/qa-17111/before 1.msr: [testng] 02:47:35,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:47:35,812 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:35,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-29_02-47-35.log] [testng] 02:47:35,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd16555 - End of configuration. [testng] [2024-06-29 02:47:36,896] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 02:47:36,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:47:36,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:36,897 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-29_02-47-36.log] [testng] 02:47:36,897 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24d949ca - End of configuration. [testng] [2024-06-29 02:47:37,242] [pool-1-thread-4] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 02:47:37,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:47:37,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:37,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-29_02-47-37.log] [testng] 02:47:37,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bf73968 - End of configuration. [testng] [2024-06-29 02:47:37,289] [pool-1-thread-3] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 02:47:37,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:47:37,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:37,290 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-29_02-47-37.log] [testng] 02:47:37,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f6ae1e3 - End of configuration. [testng] [2024-06-29 02:47:37,398] [pool-1-thread-2] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 02:47:37,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:47:37,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:37,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-29_02-47-37.log] [testng] 02:47:37,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f2626ba - 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: 41 seconds Finished: SUCCESS