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Started by upstream project "BIOFORMATS-test-repo" build number 187 originally caused by: Started by upstream project "Trigger" build number 209 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins7240347376788899911.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_29530_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] 01:41:11,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:41:11,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:41:11,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:41:11,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:41:11,702 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:41:11,703 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:41:11,703 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:41:11,703 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:41:11,703 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:41:11,704 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:41:11,704 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 410 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-13 01:41:11,714] [main] java.version = 1.8.0_342 [testng] 01:41:11,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:41:11,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:11,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-13_01-41-11.log] [testng] 01:41:11,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-13 01:41:11,780] [main] testng.directory = /data [testng] [2024-09-13 01:41:11,781] [main] testng.configDirectory = /config [testng] [2024-09-13 01:41:11,799] [main] testng.multiplier = 1.0 [testng] [2024-09-13 01:41:11,799] [main] testng.in-memory = false [testng] [2024-09-13 01:41:11,799] [main] testng.allow-missing = false [testng] [2024-09-13 01:41:11,799] [main] user.language = en [testng] [2024-09-13 01:41:11,799] [main] user.country = ${user.country} [testng] [2024-09-13 01:41:11,800] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-13 01:41:39,134] [main] ---------------------------------------- [testng] [2024-09-13 01:41:39,134] [main] Total files: 164 [testng] [2024-09-13 01:41:39,134] [main] Scan time: 27.334 s (166 ms/file) [testng] [2024-09-13 01:41:39,134] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-13 01:41:56,384] [pool-1-thread-1] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] 01:41:56,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:41:56,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,386 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-13_01-41-56.log] [testng] 01:41:56,387 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29a9bb84 - End of configuration. [testng] [2024-09-13 01:41:56,529] [pool-1-thread-12] Initializing /data/ome/tiffany.color.tiff: [testng] 01:41:56,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:41:56,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-13_01-41-56.log] [testng] 01:41:56,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@309ba236 - End of configuration. [testng] [2024-09-13 01:41:56,592] [pool-1-thread-11] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 01:41:56,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:41:56,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,594 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-13_01-41-56.log] [testng] 01:41:56,594 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c0d47dc - End of configuration. [testng] [2024-09-13 01:41:56,625] [pool-1-thread-10] Initializing /data/ome/C1.lsm: [testng] 01:41:56,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:41:56,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,625 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-13_01-41-56.log] [testng] 01:41:56,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2be70232 - End of configuration. [testng] [2024-09-13 01:41:56,651] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 01:41:56,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:41:56,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-13_01-41-56.log] [testng] 01:41:56,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47fd049f - End of configuration. [testng] [2024-09-13 01:41:56,659] [pool-1-thread-8] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 01:41:56,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:41:56,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,660 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-13_01-41-56.log] [testng] 01:41:56,660 |-INFO in ch.qos.logback.core.sift.SiftProcessor@343b3632 - End of configuration. [testng] [2024-09-13 01:41:56,739] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] 01:41:56,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:41:56,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,741 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-13_01-41-56.log] [testng] 01:41:56,741 |-INFO in ch.qos.logback.core.sift.SiftProcessor@692f91cf - End of configuration. [testng] [2024-09-13 01:41:56,752] [pool-1-thread-6] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:41:56,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:41:56,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,752 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-13_01-41-56.log] [testng] 01:41:56,753 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3678757c - End of configuration. [testng] [2024-09-13 01:41:56,802] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 01:41:56,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:41:56,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-13_01-41-56.log] [testng] 01:41:56,804 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1be65882 - End of configuration. [testng] [2024-09-13 01:41:56,822] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:41:56,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:41:56,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:56,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-13_01-41-56.log] [testng] 01:41:56,824 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e73a0d0 - End of configuration. [testng] [2024-09-13 01:41:57,003] [pool-1-thread-3] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 01:41:57,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:41:57,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:57,005 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-13_01-41-57.log] [testng] 01:41:57,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d76c239 - End of configuration. [testng] [2024-09-13 01:41:57,236] [pool-1-thread-2] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] 01:41:57,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:41:57,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:57,237 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-13_01-41-57.log] [testng] 01:41:57,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4335dc84 - End of configuration. [testng] [2024-09-13 01:41:58,880] [pool-1-thread-7] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-09-13 01:41:58,898] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-09-13 01:41:58,908] [pool-1-thread-11] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-09-13 01:41:58,952] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-09-13 01:41:58,960] [pool-1-thread-8] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-09-13 01:41:58,969] [pool-1-thread-12] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-09-13 01:41:59,221] [pool-1-thread-2] Initializing /data/ome/cb_1.r3d: [testng] [2024-09-13 01:41:59,339] [pool-1-thread-9] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-09-13 01:41:59,425] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-09-13 01:41:59,485] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-09-13 01:41:59,675] [pool-1-thread-12] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-09-13 01:41:59,757] [pool-1-thread-5] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-09-13 01:41:59,764] [pool-1-thread-6] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-09-13 01:41:59,871] [pool-1-thread-11] Initializing /data/ome/worm.tiff: [testng] [2024-09-13 01:41:59,962] [pool-1-thread-9] Initializing /data/ome/embryo.lsm: [testng] [2024-09-13 01:42:00,093] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-09-13 01:42:00,604] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-09-13 01:42:00,649] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2024-09-13 01:42:00,786] [pool-1-thread-6] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-09-13 01:42:00,842] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-09-13 01:42:01,311] [pool-1-thread-9] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-09-13 01:42:01,401] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-09-13 01:42:01,782] [pool-1-thread-6] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-09-13 01:42:01,807] [pool-1-thread-2] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-09-13 01:42:02,105] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-09-13 01:42:02,375] [pool-1-thread-8] Initializing /data/ome/654Atemp.stk: [testng] [2024-09-13 01:42:02,673] [pool-1-thread-2] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-09-13 01:42:02,709] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-09-13 01:42:02,752] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-09-13 01:42:02,835] [pool-1-thread-5] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-09-13 01:42:02,854] [pool-1-thread-9] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-09-13 01:42:03,353] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-09-13 01:42:03,394] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-09-13 01:42:03,408] [pool-1-thread-12] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-09-13 01:42:03,494] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-09-13 01:42:03,607] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-09-13 01:42:03,663] [pool-1-thread-11] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-09-13 01:42:03,714] [pool-1-thread-10] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-09-13 01:42:03,730] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2024-09-13 01:42:03,763] [pool-1-thread-5] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-09-13 01:42:03,820] [pool-1-thread-6] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-09-13 01:42:03,933] [pool-1-thread-4] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-09-13 01:42:04,005] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-09-13 01:42:04,032] [pool-1-thread-8] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-09-13 01:42:05,870] [pool-1-thread-5] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-09-13 01:42:06,033] [pool-1-thread-10] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-09-13 01:42:06,121] [pool-1-thread-1] Initializing /data/sdub/sdub.pattern: [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