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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@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins2927145858990534792.sh + '[' psd = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38301_merge_ci -v /uod/idr/repos/curated/psd:/data -v /uod/idr-scratch/merge-ci/curated/psd:/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] 16:47:25,282 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 16:47:25,284 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 16:47:25,284 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:47:25,285 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:47:25,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 16:47:25,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 16:47:25,287 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 16:47:25,287 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:47:25,287 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:47:25,288 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 16:47:25,288 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 16:47:25,289 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 16:47:25,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 16:47:25,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 16:47:25,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 16:47:25,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 16:47:25,480 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 16:47:25,480 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 16:47:25,480 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 16:47:25,480 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 16:47:25,480 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 16:47:25,481 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 16:47:25,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-02 16:47:25,490] [main] java.version = 11.0.16 [testng] 16:47:25,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:47:25,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:25,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-02_16-47-25.log] [testng] 16:47:25,535 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-02 16:47:25,537] [main] testng.directory = /data [testng] [2024-11-02 16:47:25,537] [main] testng.configDirectory = /config [testng] [2024-11-02 16:47:25,547] [main] testng.multiplier = 1.0 [testng] [2024-11-02 16:47:25,548] [main] testng.in-memory = false [testng] [2024-11-02 16:47:25,548] [main] testng.allow-missing = false [testng] [2024-11-02 16:47:25,548] [main] user.language = en [testng] [2024-11-02 16:47:25,548] [main] user.country = ${user.country} [testng] [2024-11-02 16:47:25,548] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-02 16:47:26,236] [main] ---------------------------------------- [testng] [2024-11-02 16:47:26,236] [main] Total files: 18 [testng] [2024-11-02 16:47:26,236] [main] Scan time: 0.688 s (38 ms/file) [testng] [2024-11-02 16:47:26,236] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-02 16:47:36,365] [pool-1-thread-1] Initializing /data/big-images/8kx8k.psd: [testng] 16:47:36,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 16:47:36,366 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:36,367 |-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_16-47-36.log] [testng] 16:47:36,368 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c97231c - End of configuration. [testng] [2024-11-02 16:47:36,800] [pool-1-thread-12] Initializing /data/misc/glossy_orbs.psd: [testng] 16:47:36,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 16:47:36,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:36,843 |-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_16-47-36.log] [testng] 16:47:36,843 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74a44f6c - End of configuration. [testng] [2024-11-02 16:47:37,293] [pool-1-thread-11] Initializing /data/ascb/607x.psd: [testng] 16:47:37,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 16:47:37,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:37,294 |-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_16-47-37.log] [testng] 16:47:37,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@594f32e7 - End of configuration. [testng] [2024-11-02 16:47:37,748] [pool-1-thread-10] Initializing /data/ascb/thin&thick fill.2.psd: [testng] 16:47:37,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 16:47:37,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:37,749 |-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_16-47-37.log] [testng] 16:47:37,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59d1f676 - End of configuration. [testng] [2024-11-02 16:47:38,283] [pool-1-thread-9] Initializing /data/qa-7632/23283078__NA_NA_27343.psd: [testng] 16:47:38,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 16:47:38,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:38,284 |-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_16-47-38.log] [testng] 16:47:38,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29a6e9bd - End of configuration. [testng] [2024-11-02 16:47:38,775] [pool-1-thread-8] Initializing /data/misc/venus_composite.psd: [testng] 16:47:38,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 16:47:38,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:38,776 |-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_16-47-38.log] [testng] 16:47:38,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a6b0ec3 - End of configuration. [testng] [2024-11-02 16:47:39,256] [pool-1-thread-7] Initializing /data/qa-4117/caspase gel-1.psd: [testng] 16:47:39,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 16:47:39,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:39,257 |-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_16-47-39.log] [testng] 16:47:39,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16e5ae62 - End of configuration. [testng] [2024-11-02 16:47:39,729] [pool-1-thread-6] Initializing /data/misc/smilie.psd: [testng] 16:47:39,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 16:47:39,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:39,730 |-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_16-47-39.log] [testng] 16:47:39,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35da5f75 - End of configuration. [testng] [2024-11-02 16:47:40,260] [pool-1-thread-5] Initializing /data/jcb/Fig5A_siHP16h.tif: [testng] 16:47:40,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 16:47:40,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:40,261 |-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_16-47-40.log] [testng] 16:47:40,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6507fe0 - End of configuration. [testng] [2024-11-02 16:47:40,738] [pool-1-thread-4] Initializing /data/cris/house.tif: [testng] 16:47:40,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 16:47:40,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:40,739 |-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_16-47-40.log] [testng] 16:47:40,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59681b1c - End of configuration. [testng] [2024-11-02 16:47:42,325] [pool-1-thread-3] Initializing /data/jcb/Fig5A_sip1506h.tif: [testng] 16:47:42,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 16:47:42,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:42,326 |-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_16-47-42.log] [testng] 16:47:42,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6742228a - End of configuration. [testng] [2024-11-02 16:47:42,829] [pool-1-thread-2] Initializing /data/misc/glossy_buttons.psd: [testng] 16:47:42,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 16:47:42,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:47:42,830 |-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_16-47-42.log] [testng] 16:47:42,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21202376 - End of configuration. [testng] [2024-11-02 16:47:48,264] [pool-1-thread-12] Initializing /data/misc/vig_drawing_1.psd: [testng] [2024-11-02 16:47:48,742] [pool-1-thread-2] Initializing /data/qa-4497/22421435_Supl Fig 4_C_Flag_12987.psd: [testng] [2024-11-02 16:47:49,230] [pool-1-thread-6] Initializing /data/simon/colour_separated_image.psd: [testng] [2024-11-02 16:47:49,687] [pool-1-thread-8] Initializing /data/ascb/423.psd: [testng] [2024-11-02 16:47:50,124] [pool-1-thread-3] Initializing /data/misc/venus_composite_8bit.psd: [testng] [2024-11-02 16:47:50,637] [pool-1-thread-5] Initializing /data/jcb/Fig5A_sicont6h.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 40 seconds Finished: SUCCESS