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Started by upstream project "BIOFORMATS-test-repo" build number 37 originally caused by: Started by upstream project "Trigger" build number 42 originally caused by: Started by timer 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/jenkins5903697927051338833.sh + '[' jpeg2000 = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_5212_merge_ci -v /uod/idr/repos/curated/jpeg2000:/data -v /uod/idr-scratch/merge-ci/curated/jpeg2000:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 02:33:50,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:33:50,064 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 02:33:50,064 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:33:50,065 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:33:50,065 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:33:50,066 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:33:50,066 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:33:50,066 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:33:50,066 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:33:50,067 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:33:50,067 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:33:50,067 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:33:50,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:33:50,227 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:33:50,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:33:50,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:33:50,257 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:33:50,257 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:33:50,257 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:33:50,258 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:33:50,258 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 02:33:50,258 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 02:33:50,258 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-18 02:33:50,267] [main] java.version = 21 [testng] 02:33:50,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:33:50,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:50,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-18_02-33-50.log] [testng] 02:33:50,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-04-18 02:33:50,314] [main] testng.directory = /data [testng] [2024-04-18 02:33:50,314] [main] testng.configDirectory = /config [testng] [2024-04-18 02:33:50,322] [main] testng.multiplier = 1.0 [testng] [2024-04-18 02:33:50,323] [main] testng.in-memory = false [testng] [2024-04-18 02:33:50,323] [main] testng.allow-missing = false [testng] [2024-04-18 02:33:50,323] [main] user.language = en [testng] [2024-04-18 02:33:50,323] [main] user.country = ${user.country} [testng] [2024-04-18 02:33:50,323] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-18 02:33:52,462] [main] ---------------------------------------- [testng] [2024-04-18 02:33:52,462] [main] Total files: 31 [testng] [2024-04-18 02:33:52,462] [main] Scan time: 2.138 s (68 ms/file) [testng] [2024-04-18 02:33:52,462] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 30 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-18 02:33:55,292] [pool-1-thread-1] Initializing /data/david/000000_000001.jpx: [testng] 02:33:55,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:33:55,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-18_02-33-55.log] [testng] 02:33:55,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5e1aa0 - End of configuration. [testng] [2024-04-18 02:33:55,347] [pool-1-thread-12] Initializing /data/vikram/Captured 2.jp2: [testng] 02:33:55,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:33:55,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-18_02-33-55.log] [testng] 02:33:55,349 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20451ec4 - End of configuration. [testng] [2024-04-18 02:33:55,392] [pool-1-thread-11] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: [testng] 02:33:55,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:33:55,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,394 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-18_02-33-55.log] [testng] 02:33:55,394 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f7af19b - End of configuration. [testng] [2024-04-18 02:33:55,419] [pool-1-thread-10] Initializing /data/david/multichannel-2d test.jp2: [testng] 02:33:55,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:33:55,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-18_02-33-55.log] [testng] 02:33:55,420 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a9ea571 - End of configuration. [testng] [2024-04-18 02:33:55,445] [pool-1-thread-9] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: [testng] 02:33:55,446 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:33:55,446 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,447 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-18_02-33-55.log] [testng] 02:33:55,447 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bf1090b - End of configuration. [testng] [2024-04-18 02:33:55,473] [pool-1-thread-8] Initializing /data/kraig/head.jp2: [testng] 02:33:55,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:33:55,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,474 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-18_02-33-55.log] [testng] 02:33:55,475 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40799e61 - End of configuration. [testng] [2024-04-18 02:33:55,506] [pool-1-thread-7] Initializing /data/venu/Multichannel 3.jp2: [testng] 02:33:55,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:33:55,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,507 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-18_02-33-55.log] [testng] 02:33:55,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ea83688 - End of configuration. [testng] [2024-04-18 02:33:55,610] [pool-1-thread-6] Initializing /data/vikram/Captured 3.jp2: [testng] 02:33:55,610 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:33:55,610 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,611 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-18_02-33-55.log] [testng] 02:33:55,612 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e112d15 - End of configuration. [testng] [2024-04-18 02:33:55,637] [pool-1-thread-5] Initializing /data/david/multichannel-3d-MBF-type.jpx: [testng] 02:33:55,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:33:55,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-18_02-33-55.log] [testng] 02:33:55,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5bce3 - End of configuration. [testng] [2024-04-18 02:33:55,990] [pool-1-thread-4] Initializing /data/aryeh/flour 12.jp2: [testng] 02:33:55,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:33:55,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:55,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-18_02-33-55.log] [testng] 02:33:55,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3eb071 - End of configuration. [testng] [2024-04-18 02:33:56,059] [pool-1-thread-3] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: [testng] 02:33:56,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:33:56,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:56,060 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-18_02-33-56.log] [testng] 02:33:56,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@605135c4 - End of configuration. [testng] [2024-04-18 02:33:56,091] [pool-1-thread-2] Initializing /data/big-images/4kx4k.jpf: [testng] 02:33:56,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:33:56,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:56,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-18_02-33-56.log] [testng] 02:33:56,092 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25ee6e03 - End of configuration. [testng] [2024-04-18 02:33:58,511] [pool-1-thread-11] Initializing /data/big-images/2kx2k.jpf: [testng] [2024-04-18 02:33:58,525] [pool-1-thread-6] Initializing /data/misc/clown-rgb.jbig: [testng] [2024-04-18 02:33:58,558] [pool-1-thread-12] Initializing /data/misc/clown-rgb.jp2: [testng] [2024-04-18 02:33:58,570] [pool-1-thread-8] Initializing /data/frans/flower.jp2: [testng] [2024-04-18 02:33:58,633] [pool-1-thread-4] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: [testng] [2024-04-18 02:33:59,224] [pool-1-thread-6] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: [testng] [2024-04-18 02:33:59,603] [pool-1-thread-12] Initializing /data/vikram/Captured 1.jp2: [testng] [2024-04-18 02:34:00,375] [pool-1-thread-12] Initializing /data/big-images/8kx8k.jpf: [testng] [2024-04-18 02:34:03,607] [pool-1-thread-9] Initializing /data/misc/clown-rgb.jpc: [testng] [2024-04-18 02:34:03,705] [pool-1-thread-1] Initializing /data/venu/Multichannel 3a.jpg: [testng] [2024-04-18 02:34:04,262] [pool-1-thread-9] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: [testng] [2024-04-18 02:34:04,877] [pool-1-thread-1] Initializing /data/vikram/Captured 5.jp2: [testng] [2024-04-18 02:34:05,025] [pool-1-thread-6] Initializing /data/david/cy5-tph.jp2: [testng] [2024-04-18 02:34:05,615] [pool-1-thread-9] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: [testng] [2024-04-18 02:34:06,231] [pool-1-thread-1] Initializing /data/angel/052_L050071_56_x2hv.jp2: [testng] [2024-04-18 02:34:08,762] [pool-1-thread-7] Initializing /data/vikram/Captured 4.jp2: [testng] [2024-04-18 02:34:08,811] [pool-1-thread-11] Initializing /data/david/C1R1_FOS.jp2: [testng] [2024-04-18 02:34:09,836] [pool-1-thread-7] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1590, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 57 seconds Finished: SUCCESS