Started by upstream project "BIOFORMATS-test-repo" build number 66 originally caused by: Started by upstream project "Trigger" build number 74 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/jenkins898486888130715545.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_9843_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] 07:57:44,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:57:44,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:57:44,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:57:44,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:57:44,182 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:57:44,182 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:57:44,183 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:57:44,184 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:57:44,184 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 07:57:44,185 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 07:57:44,186 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 495 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-17 07:57:44,203] [main] java.version = 1.8.0_342 [testng] 07:57:44,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:57:44,211 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:57:44,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-17_07-57-44.log] [testng] 07:57:44,297 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-17 07:57:44,300] [main] testng.directory = /data [testng] [2024-05-17 07:57:44,300] [main] testng.configDirectory = /config [testng] [2024-05-17 07:57:44,322] [main] testng.multiplier = 1.0 [testng] [2024-05-17 07:57:44,323] [main] testng.in-memory = false [testng] [2024-05-17 07:57:44,323] [main] testng.allow-missing = false [testng] [2024-05-17 07:57:44,323] [main] user.language = en [testng] [2024-05-17 07:57:44,323] [main] user.country = ${user.country} [testng] [2024-05-17 07:57:44,323] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-17 07:58:07,702] [main] ---------------------------------------- [testng] [2024-05-17 07:58:07,702] [main] Total files: 164 [testng] [2024-05-17 07:58:07,702] [main] Scan time: 23.379 s (142 ms/file) [testng] [2024-05-17 07:58:07,702] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-17 07:58:21,271] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 07:58:21,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:58:21,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,273 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-17_07-58-21.log] [testng] 07:58:21,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43f02c0f - End of configuration. [testng] [2024-05-17 07:58:21,333] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 07:58:21,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:58:21,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,335 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-17_07-58-21.log] [testng] 07:58:21,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bf506d1 - End of configuration. [testng] [2024-05-17 07:58:21,358] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 07:58:21,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:58:21,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,360 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-17_07-58-21.log] [testng] 07:58:21,360 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d9f00d - End of configuration. [testng] [2024-05-17 07:58:21,397] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] 07:58:21,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:58:21,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,398 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-17_07-58-21.log] [testng] 07:58:21,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@690d26c4 - End of configuration. [testng] [2024-05-17 07:58:21,444] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] 07:58:21,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:58:21,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-17_07-58-21.log] [testng] 07:58:21,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e8144e8 - End of configuration. [testng] [2024-05-17 07:58:21,463] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 07:58:21,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:58:21,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-17_07-58-21.log] [testng] 07:58:21,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29104d0c - End of configuration. [testng] [2024-05-17 07:58:21,591] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 07:58:21,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:58:21,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-17_07-58-21.log] [testng] 07:58:21,593 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bb97311 - End of configuration. [testng] [2024-05-17 07:58:21,655] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 07:58:21,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:58:21,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,656 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-17_07-58-21.log] [testng] 07:58:21,657 |-INFO in ch.qos.logback.core.sift.SiftProcessor@757cf911 - End of configuration. [testng] [2024-05-17 07:58:21,664] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 07:58:21,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:58:21,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,665 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-17_07-58-21.log] [testng] 07:58:21,665 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34b91422 - End of configuration. [testng] [2024-05-17 07:58:21,676] [pool-1-thread-4] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 07:58:21,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:58:21,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-17_07-58-21.log] [testng] 07:58:21,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e910a0d - End of configuration. [testng] [2024-05-17 07:58:21,699] [pool-1-thread-3] Initializing /data/ome/C1.lsm: [testng] 07:58:21,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:58:21,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-17_07-58-21.log] [testng] 07:58:21,700 |-INFO in ch.qos.logback.core.sift.SiftProcessor@145c10d4 - End of configuration. [testng] [2024-05-17 07:58:21,730] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 07:58:21,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:58:21,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:58:21,731 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-17_07-58-21.log] [testng] 07:58:21,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51133498 - End of configuration. [testng] [2024-05-17 07:58:24,158] [pool-1-thread-6] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-05-17 07:58:24,168] [pool-1-thread-3] Initializing /data/ome/654Atemp.stk: [testng] [2024-05-17 07:58:24,313] [pool-1-thread-4] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-05-17 07:58:24,321] [pool-1-thread-10] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-05-17 07:58:24,335] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] [2024-05-17 07:58:24,529] [pool-1-thread-7] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-05-17 07:58:24,852] [pool-1-thread-4] Initializing /data/ome/embryo.lsm: [testng] [2024-05-17 07:58:24,968] [pool-1-thread-6] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-05-17 07:58:25,045] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-05-17 07:58:25,750] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-05-17 07:58:25,773] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-05-17 07:58:26,164] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-05-17 07:58:26,169] [pool-1-thread-1] Initializing /data/sdub/sdub.pattern: [testng] [2024-05-17 07:58:26,372] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-05-17 07:58:26,470] [pool-1-thread-11] Initializing /data/ome/worm.tiff: [testng] [2024-05-17 07:58:26,720] [pool-1-thread-2] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-05-17 07:58:26,761] [pool-1-thread-7] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-05-17 07:58:26,770] [pool-1-thread-10] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-05-17 07:58:26,871] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-05-17 07:58:26,880] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-05-17 07:58:26,902] [pool-1-thread-5] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-05-17 07:58:27,136] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-05-17 07:58:27,292] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-05-17 07:58:27,380] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-05-17 07:58:27,510] [pool-1-thread-6] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-05-17 07:58:27,560] [pool-1-thread-9] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-05-17 07:58:28,376] [pool-1-thread-3] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-05-17 07:58:28,574] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-05-17 07:58:28,702] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-05-17 07:58:28,930] [pool-1-thread-5] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-05-17 07:58:29,095] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-05-17 07:58:29,117] [pool-1-thread-1] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-05-17 07:58:29,144] [pool-1-thread-12] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-05-17 07:58:29,299] [pool-1-thread-6] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-05-17 07:58:30,817] [pool-1-thread-3] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-05-17 07:58:31,046] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-05-17 07:58:31,426] [pool-1-thread-11] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-05-17 07:58:31,445] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-05-17 07:58:31,512] [pool-1-thread-10] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-05-17 07:58:31,630] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-05-17 07:58:31,715] [pool-1-thread-1] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-05-17 07:58:31,874] [pool-1-thread-3] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-05-17 07:58:31,945] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-05-17 07:58:32,036] [pool-1-thread-7] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-05-17 07:58:32,490] [pool-1-thread-10] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-05-17 07:58:32,651] [pool-1-thread-2] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-05-17 07:58:33,036] [pool-1-thread-10] 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