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Started by upstream project "BIOFORMATS-test-repo" build number 222 originally caused by: Started by upstream project "Trigger" build number 249 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins16787554858531292983.sh + '[' psd = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35321_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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 19:38:18,739 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 19:38:18,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 19:38:18,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 19:38:18,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 19:38:18,741 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 19:38:18,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 19:38:18,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 19:38:18,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 19:38:18,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 19:38:18,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 19:38:18,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 19:38:18,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 19:38:18,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 19:38:18,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 19:38:18,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 19:38:18,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 19:38:18,967 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 19:38:18,967 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 19:38:18,967 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 19:38:18,967 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 19:38:18,967 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 19:38:18,968 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 19:38:18,968 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 226 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-16 19:38:18,976] [main] java.version = 17.0.2 [testng] 19:38:18,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 19:38:18,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:38:19,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-16_19-38-18.log] [testng] 19:38:19,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-16 19:38:19,021] [main] testng.directory = /data [testng] [2024-10-16 19:38:19,021] [main] testng.configDirectory = /config [testng] [2024-10-16 19:38:19,029] [main] testng.multiplier = 1.0 [testng] [2024-10-16 19:38:19,030] [main] testng.in-memory = false [testng] [2024-10-16 19:38:19,030] [main] testng.allow-missing = false [testng] [2024-10-16 19:38:19,030] [main] user.language = en [testng] [2024-10-16 19:38:19,030] [main] user.country = ${user.country} [testng] [2024-10-16 19:38:19,030] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-16 19:38:24,573] [main] ---------------------------------------- [testng] [2024-10-16 19:38:24,573] [main] Total files: 18 [testng] [2024-10-16 19:38:24,573] [main] Scan time: 5.543 s (307 ms/file) [testng] [2024-10-16 19:38:24,573] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-16 19:39:20,027] [pool-1-thread-1] Initializing /data/ascb/607x.psd: [testng] 19:39:20,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 19:39:20,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:20,029 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-16_19-39-20.log] [testng] 19:39:20,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178fdc9c - End of configuration. [testng] [2024-10-16 19:39:22,167] [pool-1-thread-12] Initializing /data/misc/venus_composite_8bit.psd: [testng] 19:39:22,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 19:39:22,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:22,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-16_19-39-22.log] [testng] 19:39:22,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32ee1b2a - End of configuration. [testng] [2024-10-16 19:39:25,175] [pool-1-thread-11] Initializing /data/jcb/Fig5A_siHP16h.tif: [testng] 19:39:25,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 19:39:25,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:25,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-16_19-39-25.log] [testng] 19:39:25,177 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b08b3c9 - End of configuration. [testng] [2024-10-16 19:39:28,412] [pool-1-thread-10] Initializing /data/misc/vig_drawing_1.psd: [testng] 19:39:28,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 19:39:28,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:28,413 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-16_19-39-28.log] [testng] 19:39:28,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f1ef9b0 - End of configuration. [testng] [2024-10-16 19:39:31,252] [pool-1-thread-9] Initializing /data/misc/glossy_buttons.psd: [testng] 19:39:31,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 19:39:31,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:31,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-16_19-39-31.log] [testng] 19:39:31,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bcd21ea - End of configuration. [testng] [2024-10-16 19:39:33,514] [pool-1-thread-8] Initializing /data/cris/house.tif: [testng] 19:39:33,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 19:39:33,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:33,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-16_19-39-33.log] [testng] 19:39:33,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cc3d36e - End of configuration. [testng] [2024-10-16 19:39:42,749] [pool-1-thread-7] Initializing /data/jcb/Fig5A_sip1506h.tif: [testng] 19:39:42,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 19:39:42,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:42,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-16_19-39-42.log] [testng] 19:39:42,750 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c311bb3 - End of configuration. [testng] [2024-10-16 19:39:45,727] [pool-1-thread-6] Initializing /data/big-images/8kx8k.psd: [testng] 19:39:45,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 19:39:45,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:45,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-16_19-39-45.log] [testng] 19:39:45,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6df5ad27 - End of configuration. [testng] [2024-10-16 19:39:46,856] [pool-1-thread-5] Initializing /data/misc/venus_composite.psd: [testng] 19:39:46,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 19:39:46,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:46,857 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-16_19-39-46.log] [testng] 19:39:46,857 |-INFO in ch.qos.logback.core.sift.SiftProcessor@99aaa86 - End of configuration. [testng] [2024-10-16 19:39:49,042] [pool-1-thread-4] Initializing /data/simon/colour_separated_image.psd: [testng] 19:39:49,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 19:39:49,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:49,043 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-16_19-39-49.log] [testng] 19:39:49,043 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26587460 - End of configuration. [testng] [2024-10-16 19:39:51,678] [pool-1-thread-3] Initializing /data/misc/smilie.psd: [testng] 19:39:51,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 19:39:51,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:51,679 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-16_19-39-51.log] [testng] 19:39:51,680 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2825e4ae - End of configuration. [testng] [2024-10-16 19:39:54,474] [pool-1-thread-2] Initializing /data/qa-4117/caspase gel-1.psd: [testng] 19:39:54,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 19:39:54,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:39:54,475 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-16_19-39-54.log] [testng] 19:39:54,476 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1149438 - End of configuration. [testng] [2024-10-16 19:40:15,780] [pool-1-thread-4] Initializing /data/qa-7632/23283078__NA_NA_27343.psd: [testng] [2024-10-16 19:40:19,375] [pool-1-thread-9] Initializing /data/ascb/423.psd: [testng] [2024-10-16 19:40:21,508] [pool-1-thread-3] Initializing /data/qa-4497/22421435_Supl Fig 4_C_Flag_12987.psd: [testng] [2024-10-16 19:40:23,683] [pool-1-thread-7] Initializing /data/misc/glossy_orbs.psd: [testng] [2024-10-16 19:40:26,557] [pool-1-thread-5] Initializing /data/jcb/Fig5A_sicont6h.tif: [testng] [2024-10-16 19:40:30,111] [pool-1-thread-12] Initializing /data/ascb/thin&thick fill.2.psd: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 40 seconds Finished: SUCCESS