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Started by upstream project "BIOFORMATS-test-repo" build number 243 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins13306142105062741805.sh + '[' visitech = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38185_merge_ci -v /uod/idr/repos/curated/visitech:/data -v /uod/idr-scratch/merge-ci/curated/visitech:/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] 14:00:39,739 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 14:00:39,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 14:00:39,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:00:39,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:00:39,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 14:00:39,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 14:00:39,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 14:00:39,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:00:39,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:00:39,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 14:00:39,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 14:00:39,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 14:00:39,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 14:00:39,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 14:00:39,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 14:00:39,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 14:00:39,961 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 14:00:39,961 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 14:00:39,962 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 14:00:39,962 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 14:00:39,962 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 14:00:39,963 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 14:00:39,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 220 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-02 14:00:39,974] [main] java.version = 11.0.16 [testng] 14:00:39,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 14:00:39,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:00:40,021 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-02_14-00-39.log] [testng] 14:00:40,022 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-02 14:00:40,024] [main] testng.directory = /data [testng] [2024-11-02 14:00:40,025] [main] testng.configDirectory = /config [testng] [2024-11-02 14:00:40,035] [main] testng.multiplier = 1.0 [testng] [2024-11-02 14:00:40,036] [main] testng.in-memory = false [testng] [2024-11-02 14:00:40,036] [main] testng.allow-missing = false [testng] [2024-11-02 14:00:40,036] [main] user.language = en [testng] [2024-11-02 14:00:40,036] [main] user.country = ${user.country} [testng] [2024-11-02 14:00:40,037] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-02 14:00:53,886] [main] ---------------------------------------- [testng] [2024-11-02 14:00:53,886] [main] Total files: 45 [testng] [2024-11-02 14:00:53,886] [main] Scan time: 13.849 s (307 ms/file) [testng] [2024-11-02 14:00:53,886] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-02 14:01:17,113] [pool-1-thread-1] Initializing /data/scott/2 Channel z timelaps original/2 channel_Z_timelaps Report.html: [testng] 14:01:17,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 14:01:17,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:17,115 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-02_14-01-17.log] [testng] 14:01:17,115 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20d3dd75 - End of configuration. [testng] [2024-11-02 14:01:17,408] [pool-1-thread-12] Initializing /data/scott/2 Channel Z timelaps repeat/2 channel_Z_timelaps 2 Report.html: [testng] 14:01:17,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 14:01:17,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:17,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-02_14-01-17.log] [testng] 14:01:17,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fadce4a - End of configuration. [testng] [2024-11-02 14:01:17,706] [pool-1-thread-11] Initializing /data/brian/ScreenShot.jpg: [testng] 14:01:17,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 14:01:17,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:17,707 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-02_14-01-17.log] [testng] 14:01:17,708 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66528834 - End of configuration. [testng] [2024-11-02 14:01:17,871] [pool-1-thread-10] Initializing /data/brian/070613reA1_2 Report.html: [testng] 14:01:17,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 14:01:17,872 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:17,873 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-02_14-01-17.log] [testng] 14:01:17,873 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2399687b - End of configuration. [testng] [2024-11-02 14:01:18,123] [pool-1-thread-9] Initializing /data/scott/2 channel_Z_timelaps/525.tif: [testng] 14:01:18,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 14:01:18,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:18,123 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-02_14-01-18.log] [testng] 14:01:18,124 |-INFO in ch.qos.logback.core.sift.SiftProcessor@666724a7 - End of configuration. [testng] [2024-11-02 14:01:19,157] [pool-1-thread-8] Initializing /data/scott/2 channel_Z_timelaps/2 channel_Z_timelaps Report.html: [testng] 14:01:19,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 14:01:19,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:19,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-02_14-01-19.log] [testng] 14:01:19,158 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11b6bc91 - End of configuration. [testng] [2024-11-02 14:01:19,418] [pool-1-thread-7] Initializing /data/brian/060916-01-561.tif: [testng] 14:01:19,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 14:01:19,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:19,419 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-02_14-01-19.log] [testng] 14:01:19,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@595f9dee - End of configuration. [testng] [2024-11-02 14:01:20,496] [pool-1-thread-6] Initializing /data/oliver/20x/491 Report.html: [testng] 14:01:20,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 14:01:20,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:20,497 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-02_14-01-20.log] [testng] 14:01:20,497 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7374e29e - End of configuration. [testng] [2024-11-02 14:01:21,072] [pool-1-thread-5] Initializing /data/brian/060916-01 Report.html: [testng] 14:01:21,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:01:21,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:21,073 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-02_14-01-21.log] [testng] 14:01:21,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23e46e2c - End of configuration. [testng] [2024-11-02 14:01:21,378] [pool-1-thread-4] Initializing /data/kazem/noname Report.html: [testng] 14:01:21,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 14:01:21,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:21,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-02_14-01-21.log] [testng] 14:01:21,379 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31f51622 - End of configuration. [testng] [2024-11-02 14:01:21,837] [pool-1-thread-3] Initializing /data/scott/2 channel z 6 xy stage positions/2 chanel z 3x2 GRID Report.html: [testng] 14:01:21,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 14:01:21,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:21,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-02_14-01-21.log] [testng] 14:01:21,838 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66f59944 - End of configuration. [testng] [2024-11-02 14:01:22,373] [pool-1-thread-2] Initializing /data/oliver/20x/488 Report.html: [testng] 14:01:22,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 14:01:22,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:01:22,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-02_14-01-22.log] [testng] 14:01:22,374 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d4a58b4 - End of configuration. [testng] [2024-11-02 14:01:27,654] [pool-1-thread-11] Initializing /data/scott/2 Channel z no timelaps/2 chanel z no time Report.html: [testng] [2024-11-02 14:01:30,873] [pool-1-thread-10] Initializing /data/brian/060916-01-488.tif: [testng] [2024-11-02 14:01:32,791] [pool-1-thread-9] Initializing /data/scott/2 channel_Z_timelaps/597.tif: [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 39 seconds Finished: SUCCESS