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Started by upstream project "BIOFORMATS-test-repo" build number 386 originally caused by: Started by upstream project "Trigger" build number 408 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@14 [BIOFORMATS-test-folder@14] $ /bin/bash -xe /tmp/jenkins395702737447414962.sh + '[' samples = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61022_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 22:23:50,718 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 22:23:50,720 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 22:23:50,720 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 22:23:50,721 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 22:23:50,721 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 22:23:50,721 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 22:23:50,722 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 22:23:50,722 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 22:23:50,722 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 22:23:50,723 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 22:23:50,723 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 22:23:50,724 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 22:23:50,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 22:23:50,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 22:23:50,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 22:23:50,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 22:23:50,932 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 22:23:50,932 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 22:23:50,933 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 22:23:50,933 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 22:23:50,933 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 22:23:50,934 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 22:23:50,934 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 212 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-20 22:23:50,944] [main] java.version = 21 [testng] 22:23:50,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 22:23:50,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:23:51,005 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-20_22-23-50.log] [testng] 22:23:51,007 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-20 22:23:51,008] [main] testng.directory = /data [testng] [2025-03-20 22:23:51,008] [main] testng.configDirectory = /config [testng] [2025-03-20 22:23:51,018] [main] testng.multiplier = 1.0 [testng] [2025-03-20 22:23:51,019] [main] testng.in-memory = false [testng] [2025-03-20 22:23:51,019] [main] testng.allow-missing = false [testng] [2025-03-20 22:23:51,019] [main] user.language = en [testng] [2025-03-20 22:23:51,019] [main] user.country = ${user.country} [testng] [2025-03-20 22:23:51,019] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-20 22:25:55,463] [main] ---------------------------------------- [testng] [2025-03-20 22:25:55,463] [main] Total files: 165 [testng] [2025-03-20 22:25:55,463] [main] Scan time: 124.444 s (754 ms/file) [testng] [2025-03-20 22:25:55,463] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-20 22:28:49,089] [pool-1-thread-1] Initializing /data/ome/654Atemp.stk: [testng] 22:28:49,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 22:28:49,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:49,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-20_22-28-49.log] [testng] 22:28:49,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a206d3c - End of configuration. [testng] [2025-03-20 22:28:52,193] [pool-1-thread-12] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] 22:28:52,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 22:28:52,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:52,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-20_22-28-52.log] [testng] 22:28:52,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d5ba212 - End of configuration. [testng] [2025-03-20 22:28:52,552] [pool-1-thread-11] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] 22:28:52,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 22:28:52,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:52,553 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-20_22-28-52.log] [testng] 22:28:52,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e0e9b61 - End of configuration. [testng] [2025-03-20 22:28:55,738] [pool-1-thread-10] Initializing /data/ome/Cpharynxzs1.lsm: [testng] 22:28:55,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 22:28:55,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:55,740 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-20_22-28-55.log] [testng] 22:28:55,741 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61f10958 - End of configuration. [testng] [2025-03-20 22:28:57,170] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne1.ppm: [testng] 22:28:57,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 22:28:57,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:57,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-20_22-28-57.log] [testng] 22:28:57,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b85c981 - End of configuration. [testng] [2025-03-20 22:28:57,364] [pool-1-thread-8] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] 22:28:57,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 22:28:57,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:57,365 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-20_22-28-57.log] [testng] 22:28:57,366 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e19eb40 - End of configuration. [testng] [2025-03-20 22:28:58,626] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 22:28:58,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 22:28:58,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:58,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-20_22-28-58.log] [testng] 22:28:58,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c345ea4 - End of configuration. [testng] [2025-03-20 22:28:58,878] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] 22:28:58,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 22:28:58,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:28:58,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-20_22-28-58.log] [testng] 22:28:58,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19810e1c - End of configuration. [testng] [2025-03-20 22:29:00,319] [pool-1-thread-5] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 22:29:00,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 22:29:00,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:29:00,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-20_22-29-00.log] [testng] 22:29:00,320 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57d3551 - End of configuration. [testng] [2025-03-20 22:29:01,692] [pool-1-thread-4] Initializing /data/openjpeg/thumb_facade.jpg: [testng] 22:29:01,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 22:29:01,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:29:01,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-20_22-29-01.log] [testng] 22:29:01,693 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3490ff5c - End of configuration. [testng] [2025-03-20 22:29:01,878] [pool-1-thread-3] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 22:29:01,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 22:29:01,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:29:01,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-20_22-29-01.log] [testng] 22:29:01,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26aac36e - End of configuration. [testng] [2025-03-20 22:29:02,700] [pool-1-thread-2] Initializing /data/ome/tiffany.color.tiff: [testng] 22:29:02,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 22:29:02,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:29:02,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-20_22-29-02.log] [testng] 22:29:02,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b355ef7 - End of configuration. [testng] [2025-03-20 22:29:08,055] [pool-1-thread-9] Initializing /data/sdub/sdub.pattern: [testng] [2025-03-20 22:29:19,437] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2025-03-20 22:29:20,683] [pool-1-thread-4] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-03-20 22:29:22,292] [pool-1-thread-12] Initializing /data/ome/embryo.lsm: [testng] [2025-03-20 22:29:23,506] [pool-1-thread-6] Initializing /data/ome/worm.tiff: [testng] [2025-03-20 22:29:26,263] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-03-20 22:29:26,560] [pool-1-thread-10] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-03-20 22:29:27,216] [pool-1-thread-8] Initializing /data/ome/011B1_Morph.HTD: [testng] [2025-03-20 22:29:29,882] [pool-1-thread-5] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-03-20 22:29:33,835] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-03-20 22:29:35,255] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-03-20 22:29:36,824] [pool-1-thread-3] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-03-20 22:29:37,545] [pool-1-thread-2] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-03-20 22:29:37,835] [pool-1-thread-1] Initializing /data/ome/Adultmidsection.lsm: [testng] [2025-03-20 22:29:39,276] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-03-20 22:29:39,582] [pool-1-thread-12] Initializing /data/ome/anusgfpzs.lsm: [testng] [2025-03-20 22:29:45,948] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-03-20 22:29:47,545] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2025-03-20 22:29:48,798] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-03-20 22:29:49,723] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2025-03-20 22:29:50,559] [pool-1-thread-4] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2025-03-20 22:29:51,739] [pool-1-thread-6] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-03-20 22:29:52,899] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2025-03-20 22:29:53,197] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2025-03-20 22:29:53,630] [pool-1-thread-12] Initializing /data/openjpeg/Rome.jp2: [testng] [2025-03-20 22:29:54,455] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2025-03-20 22:29:55,760] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-03-20 22:29:56,084] [pool-1-thread-6] Initializing /data/ARFTest/ARFTest.arf: [testng] [2025-03-20 22:29:57,489] [pool-1-thread-5] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-03-20 22:30:00,054] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-03-20 22:30:00,212] [pool-1-thread-3] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-03-20 22:30:01,046] [pool-1-thread-4] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-03-20 22:30:01,962] [pool-1-thread-7] Initializing /data/ome/cb_1.r3d: [testng] [2025-03-20 22:30:02,607] [pool-1-thread-11] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-03-20 22:30:03,019] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-03-20 22:30:03,943] [pool-1-thread-6] Initializing /data/openjpeg/Facade.bmp: [testng] [2025-03-20 22:30:04,645] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2025-03-20 22:30:05,054] [pool-1-thread-12] Initializing /data/TAABA/TAABA.pattern: [testng] [2025-03-20 22:30:57,732] [pool-1-thread-10] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2025-03-20 22:31:01,880] [pool-1-thread-7] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-03-20 22:31:06,045] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2025-03-20 22:31:08,951] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-03-20 22:31:10,785] [pool-1-thread-4] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-03-20 22:31:11,067] [pool-1-thread-6] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-03-20 22:31:14,844] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-03-20 22:31:17,514] [pool-1-thread-4] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2025-03-20 22:31:19,540] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-03-20 22:31:24,371] [pool-1-thread-10] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3180, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 13 minutes 4 seconds Finished: SUCCESS