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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@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins4051805916530252603.sh + '[' afi = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38249_merge_ci -v /uod/idr/repos/curated/afi:/data -v /uod/idr-scratch/merge-ci/curated/afi:/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] 15:06:33,918 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 15:06:33,920 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 15:06:33,920 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:06:33,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:06:33,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 15:06:33,922 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 15:06:33,922 |-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] 15:06:33,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:06:33,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:06:33,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 15:06:33,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 15:06:33,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 15:06:34,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 15:06:34,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 15:06:34,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 15:06:34,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 15:06:34,164 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 15:06:34,164 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 15:06:34,164 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 15:06:34,164 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 15:06:34,165 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 15:06:34,166 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 15:06:34,166 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 243 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-02 15:06:34,180] [main] java.version = 11.0.16 [testng] 15:06:34,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 15:06:34,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:34,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-02_15-06-34.log] [testng] 15:06:34,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-02 15:06:34,250] [main] testng.directory = /data [testng] [2024-11-02 15:06:34,250] [main] testng.configDirectory = /config [testng] [2024-11-02 15:06:34,260] [main] testng.multiplier = 1.0 [testng] [2024-11-02 15:06:34,262] [main] testng.in-memory = false [testng] [2024-11-02 15:06:34,262] [main] testng.allow-missing = false [testng] [2024-11-02 15:06:34,262] [main] user.language = en [testng] [2024-11-02 15:06:34,262] [main] user.country = ${user.country} [testng] [2024-11-02 15:06:34,262] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-02 15:06:36,513] [main] ---------------------------------------- [testng] [2024-11-02 15:06:36,513] [main] Total files: 16 [testng] [2024-11-02 15:06:36,514] [main] Scan time: 2.251 s (140 ms/file) [testng] [2024-11-02 15:06:36,514] [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 15:06:55,408] [pool-1-thread-1] Initializing /data/samples/5358.afi: [testng] 15:06:55,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:06:55,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:55,411 |-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_15-06-55.log] [testng] 15:06:55,411 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54ae3410 - End of configuration. [testng] [2024-11-02 15:06:56,137] [pool-1-thread-12] Initializing /data/samples/5339.afi: [testng] 15:06:56,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 15:06:56,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:56,160 |-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_15-06-56.log] [testng] 15:06:56,160 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dc8e8ad - End of configuration. [testng] [2024-11-02 15:06:56,722] [pool-1-thread-11] Initializing /data/samples/5407.afi: [testng] 15:06:56,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 15:06:56,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:56,723 |-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_15-06-56.log] [testng] 15:06:56,724 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60071546 - End of configuration. [testng] [2024-11-02 15:06:57,302] [pool-1-thread-10] Initializing /data/samples/5371.afi: [testng] 15:06:57,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:06:57,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:57,304 |-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_15-06-57.log] [testng] 15:06:57,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bc39050 - End of configuration. [testng] [2024-11-02 15:06:58,069] [pool-1-thread-9] Initializing /data/samples/5306.afi: [testng] 15:06:58,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:06:58,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:58,070 |-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_15-06-58.log] [testng] 15:06:58,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ba8dee0 - End of configuration. [testng] [2024-11-02 15:06:58,718] [pool-1-thread-8] Initializing /data/samples/5387.afi: [testng] 15:06:58,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:06:58,719 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:58,719 |-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_15-06-58.log] [testng] 15:06:58,720 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f94794b - End of configuration. [testng] [2024-11-02 15:06:59,255] [pool-1-thread-7] Initializing /data/samples/5351.afi: [testng] 15:06:59,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 15:06:59,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:59,256 |-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_15-06-59.log] [testng] 15:06:59,257 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fd94e65 - End of configuration. [testng] [2024-11-02 15:06:59,929] [pool-1-thread-6] Initializing /data/samples/5383.afi: [testng] 15:06:59,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 15:06:59,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:06:59,930 |-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_15-06-59.log] [testng] 15:06:59,931 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b7b84e - End of configuration. [testng] [2024-11-02 15:07:00,543] [pool-1-thread-5] Initializing /data/samples/5347.afi: [testng] 15:07:00,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 15:07:00,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:07:00,544 |-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_15-07-00.log] [testng] 15:07:00,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6eaaaea6 - End of configuration. [testng] [2024-11-02 15:07:01,337] [pool-1-thread-4] Initializing /data/samples/5400.afi: [testng] 15:07:01,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:07:01,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:07:01,338 |-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_15-07-01.log] [testng] 15:07:01,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69f8b103 - End of configuration. [testng] [2024-11-02 15:07:01,980] [pool-1-thread-3] Initializing /data/samples/5446.afi: [testng] 15:07:01,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:07:01,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:07:01,981 |-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_15-07-01.log] [testng] 15:07:01,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d61a2a1 - End of configuration. [testng] [2024-11-02 15:07:02,741] [pool-1-thread-2] Initializing /data/samples/5365.afi: [testng] 15:07:02,742 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:07:02,742 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:07:02,743 |-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_15-07-02.log] [testng] 15:07:02,743 |-INFO in ch.qos.logback.core.sift.SiftProcessor@240cd427 - End of configuration. [testng] [2024-11-02 15:07:50,430] [pool-1-thread-9] Initializing /data/samples/5414.afi: [testng] [2024-11-02 15:07:51,191] [pool-1-thread-1] Initializing /data/samples/5440.afi: [testng] [2024-11-02 15:08:00,152] [pool-1-thread-3] Initializing /data/samples/5343.afi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 21 seconds Finished: SUCCESS