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Started by upstream project "BIOFORMATS-test-repo" build number 130 originally caused by: Started by upstream project "Trigger" build number 147 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/jenkins1099307273064162935.sh + '[' cv7000 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20373_merge_ci -v /uod/idr/repos/curated/cv7000:/data -v /uod/idr-scratch/merge-ci/curated/cv7000:/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] 11:31:12,829 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:31:12,831 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 11:31:12,831 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:31:12,832 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:31:12,832 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:31:12,833 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:31:12,833 |-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] 11:31:12,833 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:31:12,833 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:31:12,834 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:31:12,834 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:31:12,835 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:31:13,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:31:13,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:31:13,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:31:13,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:31:13,033 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:31:13,033 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:31:13,033 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:31:13,033 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:31:13,033 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 11:31:13,034 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 11:31:13,035 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 202 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-23 11:31:13,044] [main] java.version = 11.0.16 [testng] 11:31:13,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:31:13,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:31:13,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-23_11-31-13.log] [testng] 11:31:13,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-23 11:31:13,093] [main] testng.directory = /data [testng] [2024-07-23 11:31:13,093] [main] testng.configDirectory = /config [testng] [2024-07-23 11:31:13,117] [main] testng.multiplier = 1.0 [testng] [2024-07-23 11:31:13,121] [main] testng.in-memory = false [testng] [2024-07-23 11:31:13,122] [main] testng.allow-missing = false [testng] [2024-07-23 11:31:13,122] [main] user.language = en [testng] [2024-07-23 11:31:13,122] [main] user.country = ${user.country} [testng] [2024-07-23 11:31:13,122] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-23 11:36:38,271] [main] ---------------------------------------- [testng] [2024-07-23 11:36:38,271] [main] Total files: 31992 [testng] [2024-07-23 11:36:38,271] [main] Scan time: 325.149 s (10 ms/file) [testng] [2024-07-23 11:36:38,271] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-23 11:36:55,248] [pool-1-thread-1] Initializing /data/glencoe/DW 0001_20161111_100649/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 11:36:55,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:36:55,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:55,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-23_11-36-55.log] [testng] 11:36:55,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dc270e9 - End of configuration. [testng] [2024-07-23 11:36:55,602] [pool-1-thread-12] Initializing /data/samples/sparse-channels/sparse.wpi: [testng] 11:36:55,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 11:36:55,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:55,604 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-23_11-36-55.log] [testng] 11:36:55,604 |-INFO in ch.qos.logback.core.sift.SiftProcessor@791a5818 - End of configuration. [testng] [2024-07-23 11:36:55,635] [pool-1-thread-11] Initializing /data/glencoe/DW 0002_20161111_105720/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 11:36:55,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 11:36:55,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:55,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-23_11-36-55.log] [testng] 11:36:55,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7386c655 - End of configuration. [testng] [2024-07-23 11:36:55,692] [pool-1-thread-10] Initializing /data/samples/multiple-actions-per-channel/test-plate.wpi: [testng] 11:36:55,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 11:36:55,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:55,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-23_11-36-55.log] [testng] 11:36:55,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@391a8f21 - End of configuration. [testng] [2024-07-23 11:36:56,562] [pool-1-thread-9] Initializing /data/public/idr0088/110000251230/110000251230.wpi: [testng] 11:36:56,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 11:36:56,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:56,564 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-23_11-36-56.log] [testng] 11:36:56,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5606f6ac - End of configuration. [testng] [2024-07-23 11:36:56,733] [pool-1-thread-8] Initializing /data/nih/180521-OMERO-Multi-Test_20180521_134927/Test-plate-1/Test-plate-1.wpi: [testng] 11:36:56,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 11:36:56,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:56,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-23_11-36-56.log] [testng] 11:36:56,736 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3280a796 - End of configuration. [testng] [2024-07-23 11:36:56,958] [pool-1-thread-7] Initializing /data/glencoe/DW 0003_20161111_111619/AssayPlate_Corning_#3683/AssayPlate_Corning_#3683.wpi: [testng] 11:36:56,958 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:36:56,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:56,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-23_11-36-56.log] [testng] 11:36:56,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25bcb004 - End of configuration. [testng] [2024-07-23 11:36:57,044] [pool-1-thread-6] Initializing /data/samples/multi-action-z/test-plate.wpi: [testng] 11:36:57,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:36:57,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:57,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-23_11-36-57.log] [testng] 11:36:57,046 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b0be85f - End of configuration. [testng] [2024-07-23 11:36:57,561] [pool-1-thread-5] Initializing /data/samples/extra-dirs/AssayPlate_Corning_#3683.wpi: [testng] 11:36:57,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:36:57,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:57,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-23_11-36-57.log] [testng] 11:36:57,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b835db7 - End of configuration. [testng] [2024-07-23 11:36:57,587] [pool-1-thread-4] Initializing /data/samples/channel-subset/AssayPlate_Corning_#3683.wpi: [testng] 11:36:57,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:36:57,587 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:57,588 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-23_11-36-57.log] [testng] 11:36:57,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@934532d - End of configuration. [testng] [2024-07-23 11:36:57,665] [pool-1-thread-3] Initializing /data/samples/separate-image-directory/AssayPlate_Corning_#3683.wpi: [testng] 11:36:57,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:36:57,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:57,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-23_11-36-57.log] [testng] 11:36:57,666 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b97200e - End of configuration. [testng] [2024-07-23 11:36:57,687] [pool-1-thread-2] Initializing /data/public/idr0093/020/020.wpi: [testng] 11:36:57,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:36:57,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:36:57,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-23_11-36-57.log] [testng] 11:36:57,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d9385d9 - End of configuration. [testng] 13:17:56,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:17:56,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:56,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-23_13-17-56.log] [testng] 13:17:56,704 |-INFO in ch.qos.logback.core.sift.SiftProcessor@294bb6ae - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 636, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 106 minutes 46 seconds Finished: SUCCESS