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Started by upstream project "BIOFORMATS-test-repo" build number 85 originally caused by: Started by upstream project "Trigger" build number 96 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins8503582066512838973.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_12959_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] 01:26:06,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:26:06,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:26:06,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:26:06,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:26:06,736 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:26:06,737 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:26:06,737 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:26:06,738 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:26:06,738 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:26:06,739 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:26:06,739 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 423 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-07 01:26:06,754] [main] java.version = 1.8.0_342 [testng] 01:26:06,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:26:06,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:06,833 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-07_01-26-06.log] [testng] 01:26:06,836 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-06-07 01:26:06,840] [main] testng.directory = /data [testng] [2024-06-07 01:26:06,841] [main] testng.configDirectory = /config [testng] [2024-06-07 01:26:06,865] [main] testng.multiplier = 1.0 [testng] [2024-06-07 01:26:06,866] [main] testng.in-memory = false [testng] [2024-06-07 01:26:06,866] [main] testng.allow-missing = false [testng] [2024-06-07 01:26:06,866] [main] user.language = en [testng] [2024-06-07 01:26:06,866] [main] user.country = ${user.country} [testng] [2024-06-07 01:26:06,867] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-06-07 01:26:30,933] [main] ---------------------------------------- [testng] [2024-06-07 01:26:30,933] [main] Total files: 164 [testng] [2024-06-07 01:26:30,933] [main] Scan time: 24.066 s (146 ms/file) [testng] [2024-06-07 01:26:30,933] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-07 01:26:40,778] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 01:26:40,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:26:40,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:40,780 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-07_01-26-40.log] [testng] 01:26:40,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5aabb31 - End of configuration. [testng] [2024-06-07 01:26:40,827] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 01:26:40,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:26:40,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:40,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-07_01-26-40.log] [testng] 01:26:40,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@251b584 - End of configuration. [testng] [2024-06-07 01:26:40,853] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 01:26:40,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:26:40,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:40,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-07_01-26-40.log] [testng] 01:26:40,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@701ba33c - End of configuration. [testng] [2024-06-07 01:26:40,943] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] 01:26:40,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:26:40,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:40,945 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-07_01-26-40.log] [testng] 01:26:40,945 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ce55c50 - End of configuration. [testng] [2024-06-07 01:26:40,994] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] 01:26:40,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:26:40,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:40,995 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-07_01-26-40.log] [testng] 01:26:40,995 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51b56625 - End of configuration. [testng] [2024-06-07 01:26:41,017] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:26:41,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:26:41,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-07_01-26-41.log] [testng] 01:26:41,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30ba4bc1 - End of configuration. [testng] [2024-06-07 01:26:41,073] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 01:26:41,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:26:41,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-07_01-26-41.log] [testng] 01:26:41,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10420513 - End of configuration. [testng] [2024-06-07 01:26:41,136] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 01:26:41,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:26:41,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,137 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-07_01-26-41.log] [testng] 01:26:41,138 |-INFO in ch.qos.logback.core.sift.SiftProcessor@392c8df5 - End of configuration. [testng] [2024-06-07 01:26:41,152] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 01:26:41,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:26:41,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-07_01-26-41.log] [testng] 01:26:41,154 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f4355b7 - End of configuration. [testng] [2024-06-07 01:26:41,169] [pool-1-thread-4] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 01:26:41,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:26:41,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-07_01-26-41.log] [testng] 01:26:41,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ccc195f - End of configuration. [testng] [2024-06-07 01:26:41,204] [pool-1-thread-3] Initializing /data/ome/C1.lsm: [testng] 01:26:41,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:26:41,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,205 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-07_01-26-41.log] [testng] 01:26:41,206 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40238ac3 - End of configuration. [testng] [2024-06-07 01:26:41,232] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 01:26:41,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:26:41,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:41,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-07_01-26-41.log] [testng] 01:26:41,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dcb15cf - End of configuration. [testng] [2024-06-07 01:26:43,351] [pool-1-thread-6] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-06-07 01:26:43,366] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-06-07 01:26:43,411] [pool-1-thread-4] Initializing /data/ome/654Atemp.stk: [testng] [2024-06-07 01:26:43,544] [pool-1-thread-10] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-06-07 01:26:43,554] [pool-1-thread-7] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-06-07 01:26:43,566] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] [2024-06-07 01:26:43,989] [pool-1-thread-2] Initializing /data/ome/embryo.lsm: [testng] [2024-06-07 01:26:44,032] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-06-07 01:26:44,080] [pool-1-thread-6] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-06-07 01:26:44,218] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-06-07 01:26:44,231] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-06-07 01:26:44,453] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-06-07 01:26:44,576] [pool-1-thread-7] Initializing /data/sdub/sdub.pattern: [testng] [2024-06-07 01:26:44,813] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-06-07 01:26:44,872] [pool-1-thread-11] Initializing /data/ome/worm.tiff: [testng] [2024-06-07 01:26:44,937] [pool-1-thread-3] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-06-07 01:26:44,945] [pool-1-thread-5] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-06-07 01:26:45,189] [pool-1-thread-1] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-06-07 01:26:45,263] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-06-07 01:26:45,285] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-06-07 01:26:45,300] [pool-1-thread-4] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-06-07 01:26:45,700] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-06-07 01:26:45,984] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-06-07 01:26:46,080] [pool-1-thread-6] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-06-07 01:26:46,242] [pool-1-thread-9] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-06-07 01:26:46,280] [pool-1-thread-2] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-06-07 01:26:46,318] [pool-1-thread-3] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-06-07 01:26:47,061] [pool-1-thread-1] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-06-07 01:26:47,088] [pool-1-thread-4] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-06-07 01:26:47,251] [pool-1-thread-12] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-06-07 01:26:47,701] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-06-07 01:26:47,712] [pool-1-thread-1] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-06-07 01:26:47,792] [pool-1-thread-9] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-06-07 01:26:47,936] [pool-1-thread-7] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-06-07 01:26:49,840] [pool-1-thread-2] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-06-07 01:26:49,967] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-06-07 01:26:50,099] [pool-1-thread-8] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-06-07 01:26:50,375] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-06-07 01:26:50,380] [pool-1-thread-1] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-06-07 01:26:50,439] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-06-07 01:26:50,879] [pool-1-thread-9] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-06-07 01:26:51,135] [pool-1-thread-4] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-06-07 01:26:51,319] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-06-07 01:26:51,359] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-06-07 01:26:51,838] [pool-1-thread-1] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-06-07 01:26:52,203] [pool-1-thread-10] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-06-07 01:26:52,241] [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 30 seconds Finished: SUCCESS