![[Jenkins]](/jenkins/static/316c2b55/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 387 originally caused by: Started by upstream project "Trigger" build number 410 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins5343116356351098234.sh + '[' tillvision = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61231_merge_ci -v /uod/idr/repos/curated/tillvision:/data -v /uod/idr-scratch/merge-ci/curated/tillvision:/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] 01:28:51,217 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:28:51,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service. [testng] 01:28:51,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:28:51,220 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:28:51,220 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:28:51,220 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:28:51,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:28:51,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:28:51,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:28:51,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:28:51,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:28:51,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:28:51,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:28:51,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:28:51,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:28:51,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:28:51,417 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:28:51,417 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:28:51,417 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:28:51,417 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:28:51,417 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration. [testng] 01:28:51,418 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point [testng] 01:28:51,419 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-22 01:28:51,427] [main] java.version = 11.0.16 [testng] 01:28:51,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:28:51,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:51,475 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-22_01-28-51.log] [testng] 01:28:51,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration. [testng] [2025-03-22 01:28:51,479] [main] testng.directory = /data [testng] [2025-03-22 01:28:51,479] [main] testng.configDirectory = /config [testng] [2025-03-22 01:28:51,491] [main] testng.multiplier = 1.0 [testng] [2025-03-22 01:28:51,492] [main] testng.in-memory = false [testng] [2025-03-22 01:28:51,493] [main] testng.allow-missing = false [testng] [2025-03-22 01:28:51,493] [main] user.language = en [testng] [2025-03-22 01:28:51,493] [main] user.country = ${user.country} [testng] [2025-03-22 01:28:51,493] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-22 01:30:02,336] [main] ---------------------------------------- [testng] [2025-03-22 01:30:02,336] [main] Total files: 46 [testng] [2025-03-22 01:30:02,336] [main] Scan time: 70.843 s (1540 ms/file) [testng] [2025-03-22 01:30:02,336] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 25 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-22 01:33:20,731] [pool-1-thread-1] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif: [testng] 01:33:20,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:33:20,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:20,734 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-22_01-33-20.log] [testng] 01:33:20,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@430f6b2 - End of configuration. [testng] [2025-03-22 01:33:31,790] [pool-1-thread-12] Initializing /data/gerhard/test.vws: [testng] 01:33:31,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:33:31,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:31,791 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-22_01-33-31.log] [testng] 01:33:31,792 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66c92a37 - End of configuration. [testng] [2025-03-22 01:33:35,565] [pool-1-thread-11] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif: [testng] 01:33:35,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:33:35,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:35,568 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-22_01-33-35.log] [testng] 01:33:35,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16826ae7 - End of configuration. [testng] [2025-03-22 01:33:45,293] [pool-1-thread-10] Initializing /data/andreas/090811E1.vws: [testng] 01:33:45,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:33:45,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:45,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-22_01-33-45.log] [testng] 01:33:45,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f31f5df - End of configuration. [testng] [2025-03-22 01:34:04,018] [pool-1-thread-9] Initializing /data/venu/060310/drug addition _BAM.vws: [testng] 01:34:04,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:34:04,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:04,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-22_01-34-04.log] [testng] 01:34:04,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ec9bcf4 - End of configuration. [testng] [2025-03-22 01:34:06,478] [pool-1-thread-8] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws: [testng] 01:34:06,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:34:06,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:06,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-22_01-34-06.log] [testng] 01:34:06,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35e6aa83 - End of configuration. [testng] [2025-03-22 01:34:08,962] [pool-1-thread-7] Initializing /data/andreas/090812E4.vws: [testng] 01:34:08,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:34:08,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:08,963 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-22_01-34-08.log] [testng] 01:34:08,963 |-INFO in ch.qos.logback.core.sift.SiftProcessor@678cffd9 - End of configuration. [testng] [2025-03-22 01:34:16,666] [pool-1-thread-6] Initializing /data/ian/working_tillvision_vws/20120322.vws: [testng] 01:34:16,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:34:16,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:16,667 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-22_01-34-16.log] [testng] 01:34:16,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bf2783e - End of configuration. [testng] [2025-03-22 01:34:23,913] [pool-1-thread-5] Initializing /data/christian/080807epi/080807epi2.vws: [testng] 01:34:23,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:34:23,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:23,914 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-22_01-34-23.log] [testng] 01:34:23,915 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bd13bee - End of configuration. [testng] [2025-03-22 01:34:27,422] [pool-1-thread-4] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif: [testng] 01:34:27,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:34:27,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:27,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-22_01-34-27.log] [testng] 01:34:27,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@207ca128 - End of configuration. [testng] [2025-03-22 01:34:39,424] [pool-1-thread-3] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif: [testng] 01:34:39,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:34:39,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:39,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-22_01-34-39.log] [testng] 01:34:39,425 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69a167a3 - End of configuration. [testng] [2025-03-22 01:34:47,768] [pool-1-thread-2] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws: [testng] 01:34:47,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:34:47,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:47,769 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-22_01-34-47.log] [testng] 01:34:47,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3929702b - End of configuration. [testng] [2025-03-22 01:35:25,137] [pool-1-thread-12] Initializing /data/imagesc-84715/working.vws: [testng] [2025-03-22 01:35:42,198] [pool-1-thread-11] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws: [testng] [2025-03-22 01:35:47,979] [pool-1-thread-3] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws: [testng] [2025-03-22 01:35:52,609] [pool-1-thread-1] Initializing /data/stephan/two sequences.vws: [testng] [2025-03-22 01:35:56,686] [pool-1-thread-4] Initializing /data/samples/fibre.vws: [testng] [2025-03-22 01:36:31,316] [pool-1-thread-4] Initializing /data/imagesc-84715/not working.vws: [testng] [2025-03-22 01:36:42,285] [pool-1-thread-5] Initializing /data/christian/080807ionophore/080807ionophore3.vws: [testng] [2025-03-22 01:37:45,657] [pool-1-thread-8] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws: [testng] [2025-03-22 01:37:49,457] [pool-1-thread-9] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws: [testng] [2025-03-22 01:38:15,456] [pool-1-thread-12] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws: [testng] [2025-03-22 01:38:29,119] [pool-1-thread-5] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws: [testng] [2025-03-22 01:38:43,595] [pool-1-thread-4] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws: [testng] [2025-03-22 01:38:53,714] [pool-1-thread-3] Initializing /data/ian/non_working_tillvision_vws/20120404.vws: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1325, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 52 minutes 41 seconds Finished: SUCCESS