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Started by upstream project "BIOFORMATS-test-repo" build number 366 originally caused by: Started by upstream project "Trigger" build number 392 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/jenkins15071817271277031668.sh + '[' samples = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58323_merge_ci -v /uod/idr/repos/curated/samples:/data -v /uod/idr-scratch/merge-ci/curated/samples:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 00:38:36,368 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:38:36,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 00:38:36,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:36,371 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:36,372 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:38:36,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:38:36,373 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:38:36,373 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:36,374 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:36,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:38:36,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:38:36,375 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:38:36,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:38:36,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:38:36,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:38:36,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:38:36,593 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:38:36,593 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:38:36,593 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:38:36,593 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:38:36,593 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 00:38:36,594 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 00:38:36,595 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 221 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-06 00:38:36,603] [main] java.version = 21 [testng] 00:38:36,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:38:36,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:36,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-06_00-38-36.log] [testng] 00:38:36,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-06 00:38:36,653] [main] testng.directory = /data [testng] [2025-03-06 00:38:36,653] [main] testng.configDirectory = /config [testng] [2025-03-06 00:38:36,662] [main] testng.multiplier = 1.0 [testng] [2025-03-06 00:38:36,663] [main] testng.in-memory = false [testng] [2025-03-06 00:38:36,663] [main] testng.allow-missing = false [testng] [2025-03-06 00:38:36,663] [main] user.language = en [testng] [2025-03-06 00:38:36,663] [main] user.country = ${user.country} [testng] [2025-03-06 00:38:36,663] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-06 00:39:18,620] [main] ---------------------------------------- [testng] [2025-03-06 00:39:18,621] [main] Total files: 164 [testng] [2025-03-06 00:39:18,621] [main] Scan time: 41.956 s (255 ms/file) [testng] [2025-03-06 00:39:18,621] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-06 00:40:04,751] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] 00:40:04,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:40:04,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:04,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-06_00-40-04.log] [testng] 00:40:04,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd3b22f - End of configuration. [testng] [2025-03-06 00:40:04,791] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne2.j2k: [testng] 00:40:04,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:40:04,791 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:04,792 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-06_00-40-04.log] [testng] 00:40:04,792 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8dc50 - End of configuration. [testng] [2025-03-06 00:40:04,950] [pool-1-thread-11] Initializing /data/openjpeg/thumb_facade.jpg: [testng] 00:40:04,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:40:04,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:04,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-06_00-40-04.log] [testng] 00:40:04,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61f10958 - End of configuration. [testng] [2025-03-06 00:40:05,155] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 00:40:05,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:40:05,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-06_00-40-05.log] [testng] 00:40:05,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d5d5173 - End of configuration. [testng] [2025-03-06 00:40:05,190] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne2.bmp: [testng] 00:40:05,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:40:05,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,191 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-06_00-40-05.log] [testng] 00:40:05,191 |-INFO in ch.qos.logback.core.sift.SiftProcessor@239f4a52 - End of configuration. [testng] [2025-03-06 00:40:05,252] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.bmp: [testng] 00:40:05,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:40:05,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-06_00-40-05.log] [testng] 00:40:05,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b85c981 - End of configuration. [testng] [2025-03-06 00:40:05,287] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] 00:40:05,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:40:05,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,287 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-06_00-40-05.log] [testng] 00:40:05,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11587fd1 - End of configuration. [testng] [2025-03-06 00:40:05,333] [pool-1-thread-6] Initializing /data/openjpeg/Facade.bmp: [testng] 00:40:05,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:40:05,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-06_00-40-05.log] [testng] 00:40:05,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b1a2b47 - End of configuration. [testng] [2025-03-06 00:40:05,375] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 00:40:05,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:40:05,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-06_00-40-05.log] [testng] 00:40:05,376 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e63d33d - End of configuration. [testng] [2025-03-06 00:40:05,411] [pool-1-thread-4] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] 00:40:05,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:40:05,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-06_00-40-05.log] [testng] 00:40:05,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26aac36e - End of configuration. [testng] [2025-03-06 00:40:05,956] [pool-1-thread-3] Initializing /data/openjpeg/Rome.bmp: [testng] 00:40:05,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:40:05,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-06_00-40-05.log] [testng] 00:40:05,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52f57abc - End of configuration. [testng] [2025-03-06 00:40:05,992] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 00:40:05,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:40:05,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:40:05,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-06_00-40-05.log] [testng] 00:40:05,993 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75b9aa2b - End of configuration. [testng] [2025-03-06 00:40:08,487] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-03-06 00:40:08,720] [pool-1-thread-8] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-03-06 00:40:08,905] [pool-1-thread-10] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-03-06 00:40:08,948] [pool-1-thread-1] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-03-06 00:40:08,992] [pool-1-thread-7] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-03-06 00:40:09,044] [pool-1-thread-11] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-03-06 00:40:10,086] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-03-06 00:40:10,168] [pool-1-thread-6] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2025-03-06 00:40:10,574] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-03-06 00:40:11,404] [pool-1-thread-2] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-03-06 00:40:11,798] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2025-03-06 00:40:12,017] [pool-1-thread-5] Initializing /data/ome/Adultmidsection.lsm: [testng] [2025-03-06 00:40:12,359] [pool-1-thread-11] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2025-03-06 00:40:12,643] [pool-1-thread-4] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-03-06 00:40:12,700] [pool-1-thread-8] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2025-03-06 00:40:12,935] [pool-1-thread-7] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-03-06 00:40:14,114] [pool-1-thread-10] Initializing /data/openjpeg/Rome.jp2: [testng] [2025-03-06 00:40:14,565] [pool-1-thread-6] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-03-06 00:40:14,665] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-03-06 00:40:15,159] [pool-1-thread-5] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-03-06 00:40:15,332] [pool-1-thread-8] Initializing /data/sdub/sdub.pattern: [testng] [2025-03-06 00:40:17,992] [pool-1-thread-11] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2025-03-06 00:40:18,338] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-03-06 00:40:18,566] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-03-06 00:40:18,878] [pool-1-thread-6] Initializing /data/TAABA/TAABA.pattern: [testng] [2025-03-06 00:40:27,305] [pool-1-thread-1] Initializing /data/ome/011B1_Morph.HTD: [testng] [2025-03-06 00:40:28,246] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-03-06 00:40:28,378] [pool-1-thread-2] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2025-03-06 00:40:29,567] [pool-1-thread-4] Initializing /data/ome/C1.lsm: [testng] [2025-03-06 00:40:30,029] [pool-1-thread-5] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-03-06 00:40:30,631] [pool-1-thread-9] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-03-06 00:40:31,226] [pool-1-thread-10] Initializing /data/ome/654Atemp.stk: [testng] [2025-03-06 00:40:32,665] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2025-03-06 00:40:33,612] [pool-1-thread-5] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2025-03-06 00:40:34,523] [pool-1-thread-11] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2025-03-06 00:40:35,356] [pool-1-thread-4] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2025-03-06 00:40:35,772] [pool-1-thread-2] Initializing /data/ome/embryo.lsm: [testng] [2025-03-06 00:40:38,182] [pool-1-thread-3] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2025-03-06 00:40:39,037] [pool-1-thread-5] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-03-06 00:40:39,658] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2025-03-06 00:40:40,018] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-03-06 00:40:41,733] [pool-1-thread-2] Initializing /data/ome/anusgfpzs.lsm: [testng] [2025-03-06 00:40:43,296] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-03-06 00:40:43,441] [pool-1-thread-10] Initializing /data/ome/worm.tiff: [testng] [2025-03-06 00:40:44,825] [pool-1-thread-5] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-03-06 00:40:45,629] [pool-1-thread-7] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-03-06 00:40:46,373] [pool-1-thread-3] Initializing /data/ome/cb_1.r3d: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 23 seconds Finished: SUCCESS