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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins13801802738138101700.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4102_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 test-automated: [testng] File leak detector installed [testng] 07:15:09,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:15:09,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:15:10,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:15:10,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:15:10,015 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:15:10,015 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:15:10,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:15:10,016 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:15:10,016 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 07:15:10,017 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 07:15:10,017 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 424 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 07:15:10,027] [main] java.version = 1.8.0_342 [testng] 07:15:10,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:15:10,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:10,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_07-15-10.log] [testng] 07:15:10,079 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 07:15:10,084] [main] testng.directory = /data [testng] [2024-04-12 07:15:10,085] [main] testng.configDirectory = /config [testng] [2024-04-12 07:15:10,108] [main] testng.multiplier = 1.0 [testng] [2024-04-12 07:15:10,109] [main] testng.in-memory = false [testng] [2024-04-12 07:15:10,109] [main] testng.allow-missing = false [testng] [2024-04-12 07:15:10,109] [main] user.language = en [testng] [2024-04-12 07:15:10,109] [main] user.country = ${user.country} [testng] [2024-04-12 07:15:10,109] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 07:15:36,753] [main] ---------------------------------------- [testng] [2024-04-12 07:15:36,753] [main] Total files: 164 [testng] [2024-04-12 07:15:36,754] [main] Scan time: 26.644 s (162 ms/file) [testng] [2024-04-12 07:15:36,754] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 07:15:49,632] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 07:15:49,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:15:49,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,634 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_07-15-49.log] [testng] 07:15:49,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48b362c1 - End of configuration. [testng] [2024-04-12 07:15:49,674] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 07:15:49,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:15:49,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,676 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_07-15-49.log] [testng] 07:15:49,676 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6774fa05 - End of configuration. [testng] [2024-04-12 07:15:49,691] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 07:15:49,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:15:49,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_07-15-49.log] [testng] 07:15:49,693 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ca82f8 - End of configuration. [testng] [2024-04-12 07:15:49,735] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] 07:15:49,735 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:15:49,735 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,736 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_07-15-49.log] [testng] 07:15:49,737 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55172f14 - End of configuration. [testng] [2024-04-12 07:15:49,798] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] 07:15:49,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:15:49,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,799 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_07-15-49.log] [testng] 07:15:49,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b02d0aa - End of configuration. [testng] [2024-04-12 07:15:49,814] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 07:15:49,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:15:49,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,815 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_07-15-49.log] [testng] 07:15:49,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e68f009 - End of configuration. [testng] [2024-04-12 07:15:49,827] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 07:15:49,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:15:49,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_07-15-49.log] [testng] 07:15:49,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e2368ea - End of configuration. [testng] [2024-04-12 07:15:49,868] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 07:15:49,869 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:15:49,869 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,870 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_07-15-49.log] [testng] 07:15:49,870 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c1d4195 - End of configuration. [testng] [2024-04-12 07:15:49,879] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 07:15:49,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:15:49,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_07-15-49.log] [testng] 07:15:49,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f41e170 - End of configuration. [testng] [2024-04-12 07:15:49,891] [pool-1-thread-4] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 07:15:49,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:15:49,892 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,892 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_07-15-49.log] [testng] 07:15:49,893 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fff58a - End of configuration. [testng] [2024-04-12 07:15:49,915] [pool-1-thread-3] Initializing /data/ome/C1.lsm: [testng] 07:15:49,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:15:49,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,916 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_07-15-49.log] [testng] 07:15:49,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d20ef99 - End of configuration. [testng] [2024-04-12 07:15:49,942] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 07:15:49,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:15:49,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:15:49,943 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_07-15-49.log] [testng] 07:15:49,943 |-INFO in ch.qos.logback.core.sift.SiftProcessor@157182b7 - End of configuration. [testng] [2024-04-12 07:15:52,310] [pool-1-thread-6] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-04-12 07:15:52,318] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-04-12 07:15:52,354] [pool-1-thread-4] Initializing /data/ome/654Atemp.stk: [testng] [2024-04-12 07:15:52,446] [pool-1-thread-10] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-04-12 07:15:52,453] [pool-1-thread-7] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-04-12 07:15:52,462] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] [2024-04-12 07:15:52,763] [pool-1-thread-5] Initializing /data/ome/embryo.lsm: [testng] [2024-04-12 07:15:52,791] [pool-1-thread-10] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-04-12 07:15:52,860] [pool-1-thread-6] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-04-12 07:15:52,938] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-04-12 07:15:53,059] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-04-12 07:15:53,265] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-04-12 07:15:53,301] [pool-1-thread-7] Initializing /data/sdub/sdub.pattern: [testng] [2024-04-12 07:15:53,499] [pool-1-thread-1] Initializing /data/ome/worm.tiff: [testng] [2024-04-12 07:15:53,566] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-04-12 07:15:53,573] [pool-1-thread-8] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-04-12 07:15:53,702] [pool-1-thread-5] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-04-12 07:15:53,831] [pool-1-thread-11] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-04-12 07:15:54,000] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-04-12 07:15:54,010] [pool-1-thread-9] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-04-12 07:15:54,080] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-04-12 07:15:54,114] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-04-12 07:15:54,569] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-04-12 07:15:54,663] [pool-1-thread-6] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-04-12 07:15:54,671] [pool-1-thread-10] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-04-12 07:15:54,821] [pool-1-thread-4] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-04-12 07:15:55,452] [pool-1-thread-5] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-04-12 07:15:55,461] [pool-1-thread-12] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-04-12 07:15:55,737] [pool-1-thread-11] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-04-12 07:15:55,863] [pool-1-thread-9] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-04-12 07:15:56,040] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-04-12 07:15:56,049] [pool-1-thread-10] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-04-12 07:15:56,181] [pool-1-thread-7] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-04-12 07:15:56,235] [pool-1-thread-2] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-04-12 07:15:57,188] [pool-1-thread-5] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-04-12 07:15:57,269] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-04-12 07:15:57,684] [pool-1-thread-11] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-04-12 07:15:57,751] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-04-12 07:15:57,797] [pool-1-thread-10] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-04-12 07:15:57,952] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-04-12 07:15:58,050] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-04-12 07:15:58,169] [pool-1-thread-8] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-04-12 07:15:58,237] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-04-12 07:15:58,393] [pool-1-thread-10] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-04-12 07:15:58,694] [pool-1-thread-1] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-04-12 07:15:58,953] [pool-1-thread-8] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-04-12 07:15:58,974] [pool-1-thread-1] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 36 seconds Finished: SUCCESS