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Started by upstream project "BIOFORMATS-test-repo" build number 112 originally caused by: Started by upstream project "Trigger" build number 125 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/jenkins4555623543496228952.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17387_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] 01:26:18,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:26:18,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:26:18,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:26:18,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:26:19,014 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:26:19,015 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:26:19,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:26:19,016 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:26:19,016 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:26:19,018 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:26:19,018 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 556 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-05 01:26:19,036] [main] java.version = 1.8.0_342 [testng] 01:26:19,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:26:19,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:19,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-05_01-26-19.log] [testng] 01:26:19,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-05 01:26:19,112] [main] testng.directory = /data [testng] [2024-07-05 01:26:19,113] [main] testng.configDirectory = /config [testng] [2024-07-05 01:26:19,126] [main] testng.multiplier = 1.0 [testng] [2024-07-05 01:26:19,126] [main] testng.in-memory = false [testng] [2024-07-05 01:26:19,126] [main] testng.allow-missing = false [testng] [2024-07-05 01:26:19,126] [main] user.language = en [testng] [2024-07-05 01:26:19,126] [main] user.country = ${user.country} [testng] [2024-07-05 01:26:19,126] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-05 01:26:43,843] [main] ---------------------------------------- [testng] [2024-07-05 01:26:43,843] [main] Total files: 164 [testng] [2024-07-05 01:26:43,843] [main] Scan time: 24.716 s (150 ms/file) [testng] [2024-07-05 01:26:43,843] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-05 01:26:55,207] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 01:26:55,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:26:55,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-05_01-26-55.log] [testng] 01:26:55,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@91b428d - End of configuration. [testng] [2024-07-05 01:26:55,252] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 01:26:55,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:26:55,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,254 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-05_01-26-55.log] [testng] 01:26:55,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fd2b804 - End of configuration. [testng] [2024-07-05 01:26:55,273] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 01:26:55,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:26:55,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-05_01-26-55.log] [testng] 01:26:55,275 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b388115 - End of configuration. [testng] [2024-07-05 01:26:55,314] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] 01:26:55,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:26:55,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-05_01-26-55.log] [testng] 01:26:55,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bc09326 - End of configuration. [testng] [2024-07-05 01:26:55,349] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] 01:26:55,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:26:55,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,350 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-05_01-26-55.log] [testng] 01:26:55,350 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20352a06 - End of configuration. [testng] [2024-07-05 01:26:55,365] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:26:55,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:26:55,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,366 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-05_01-26-55.log] [testng] 01:26:55,366 |-INFO in ch.qos.logback.core.sift.SiftProcessor@242e8c93 - End of configuration. [testng] [2024-07-05 01:26:55,742] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 01:26:55,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:26:55,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,744 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-05_01-26-55.log] [testng] 01:26:55,744 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10420513 - End of configuration. [testng] [2024-07-05 01:26:55,825] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 01:26:55,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:26:55,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-05_01-26-55.log] [testng] 01:26:55,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76116c98 - End of configuration. [testng] [2024-07-05 01:26:55,835] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 01:26:55,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:26:55,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,836 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-05_01-26-55.log] [testng] 01:26:55,836 |-INFO in ch.qos.logback.core.sift.SiftProcessor@392c8df5 - End of configuration. [testng] [2024-07-05 01:26:55,845] [pool-1-thread-4] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 01:26:55,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:26:55,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,846 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-05_01-26-55.log] [testng] 01:26:55,847 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f4355b7 - End of configuration. [testng] [2024-07-05 01:26:55,867] [pool-1-thread-3] Initializing /data/ome/C1.lsm: [testng] 01:26:55,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:26:55,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-05_01-26-55.log] [testng] 01:26:55,868 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6924c34d - End of configuration. [testng] [2024-07-05 01:26:55,887] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 01:26:55,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:26:55,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:55,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-05_01-26-55.log] [testng] 01:26:55,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40b718e5 - End of configuration. [testng] [2024-07-05 01:26:58,589] [pool-1-thread-6] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-07-05 01:26:58,598] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-07-05 01:26:58,645] [pool-1-thread-4] Initializing /data/ome/654Atemp.stk: [testng] [2024-07-05 01:26:58,748] [pool-1-thread-10] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-07-05 01:26:58,756] [pool-1-thread-7] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-07-05 01:26:58,769] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] [2024-07-05 01:26:59,061] [pool-1-thread-10] Initializing /data/ome/embryo.lsm: [testng] [2024-07-05 01:26:59,108] [pool-1-thread-6] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-07-05 01:26:59,209] [pool-1-thread-7] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-07-05 01:26:59,484] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-07-05 01:26:59,595] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-07-05 01:26:59,885] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-07-05 01:26:59,891] [pool-1-thread-10] Initializing /data/ome/worm.tiff: [testng] [2024-07-05 01:26:59,929] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-07-05 01:26:59,933] [pool-1-thread-7] Initializing /data/sdub/sdub.pattern: [testng] [2024-07-05 01:27:00,084] [pool-1-thread-8] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-07-05 01:27:00,124] [pool-1-thread-2] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-07-05 01:27:00,181] [pool-1-thread-12] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-07-05 01:27:00,256] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-07-05 01:27:00,262] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-07-05 01:27:00,319] [pool-1-thread-11] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-07-05 01:27:00,537] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-07-05 01:27:00,775] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-07-05 01:27:00,839] [pool-1-thread-4] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-07-05 01:27:00,885] [pool-1-thread-5] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-07-05 01:27:00,945] [pool-1-thread-2] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-07-05 01:27:01,637] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-07-05 01:27:01,709] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-07-05 01:27:01,769] [pool-1-thread-11] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-07-05 01:27:01,850] [pool-1-thread-6] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-07-05 01:27:02,002] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-07-05 01:27:02,020] [pool-1-thread-7] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-07-05 01:27:02,081] [pool-1-thread-12] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-07-05 01:27:02,166] [pool-1-thread-5] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-07-05 01:27:03,667] [pool-1-thread-9] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-07-05 01:27:03,861] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-07-05 01:27:04,125] [pool-1-thread-10] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-07-05 01:27:04,226] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-07-05 01:27:04,252] [pool-1-thread-9] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-07-05 01:27:04,490] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-07-05 01:27:04,521] [pool-1-thread-11] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-07-05 01:27:04,583] [pool-1-thread-12] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-07-05 01:27:04,671] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-07-05 01:27:04,815] [pool-1-thread-8] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-07-05 01:27:05,033] [pool-1-thread-9] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-07-05 01:27:05,276] [pool-1-thread-9] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-07-05 01:27:05,299] [pool-1-thread-4] 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 39 seconds Finished: SUCCESS