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Started by upstream project "BIOFORMATS-test-repo" build number 399 originally caused by: Started by upstream project "Trigger" build number 485 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@15 [BIOFORMATS-test-folder@15] $ /bin/bash -xe /tmp/jenkins761573793211384106.sh + '[' samples = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_62991_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 -Duser.language=fr -Duser.country=FR 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] 01:33:18,919 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:33:18,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 01:33:18,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:33:18,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:33:18,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:33:18,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:33:18,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:33:18,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:33:18,924 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:33:18,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:33:18,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:33:18,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:33:19,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:33:19,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:33:19,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:33:19,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:33:19,219 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:33:19,220 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:33:19,220 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:33:19,220 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:33:19,220 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 01:33:19,221 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 01:33:19,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 297 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-05-19 01:33:19,232] [main] java.version = 1.8.0_342 [testng] 01:33:19,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:33:19,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:19,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-19_01-33-19.log] [testng] 01:33:19,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-05-19 01:33:19,289] [main] testng.directory = /data [testng] [2025-05-19 01:33:19,289] [main] testng.configDirectory = /config [testng] [2025-05-19 01:33:19,302] [main] testng.multiplier = 1.0 [testng] [2025-05-19 01:33:19,302] [main] testng.in-memory = false [testng] [2025-05-19 01:33:19,303] [main] testng.allow-missing = false [testng] [2025-05-19 01:33:19,303] [main] user.language = fr [testng] [2025-05-19 01:33:19,303] [main] user.country = FR [testng] [2025-05-19 01:33:19,303] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-05-19 01:36:28,583] [main] ---------------------------------------- [testng] [2025-05-19 01:36:28,583] [main] Total files: 165 [testng] [2025-05-19 01:36:28,583] [main] Scan time: 189.28 s (1147 ms/file) [testng] [2025-05-19 01:36:28,583] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-05-19 01:51:43,587] [pool-1-thread-1] Initializing /data/ome/embryo.lsm: [testng] 01:51:43,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:51:43,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:43,589 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-05-19_01-51-43.log] [testng] 01:51:43,589 |-INFO in ch.qos.logback.core.sift.SiftProcessor@680e5e69 - End of configuration. [testng] [2025-05-19 01:51:51,600] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm: [testng] 01:51:51,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:51:51,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:51,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-05-19_01-51-51.log] [testng] 01:51:51,601 |-INFO in ch.qos.logback.core.sift.SiftProcessor@717ae3ac - End of configuration. [testng] [2025-05-19 01:51:52,969] [pool-1-thread-11] Initializing /data/ome/compressed2ChZ.lsm: [testng] 01:51:52,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:51:52,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:52,970 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-05-19_01-51-52.log] [testng] 01:51:52,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10c2f91a - End of configuration. [testng] [2025-05-19 01:52:01,033] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 01:52:01,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:52:01,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:01,034 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-05-19_01-52-01.log] [testng] 01:52:01,034 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1aa3a9be - End of configuration. [testng] [2025-05-19 01:52:01,556] [pool-1-thread-9] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:52:01,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:52:01,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:01,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-05-19_01-52-01.log] [testng] 01:52:01,558 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5606f6ac - End of configuration. [testng] [2025-05-19 01:52:08,723] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.j2k: [testng] 01:52:08,724 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:52:08,724 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:08,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-05-19_01-52-08.log] [testng] 01:52:08,725 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73062ac4 - End of configuration. [testng] [2025-05-19 01:52:11,696] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:52:11,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:52:11,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:11,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-05-19_01-52-11.log] [testng] 01:52:11,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4976b424 - End of configuration. [testng] [2025-05-19 01:52:15,599] [pool-1-thread-6] Initializing /data/ome/tinyTest.d3d.dv: [testng] 01:52:15,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:52:15,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:15,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-05-19_01-52-15.log] [testng] 01:52:15,601 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3280a796 - End of configuration. [testng] [2025-05-19 01:52:16,884] [pool-1-thread-5] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] 01:52:16,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:52:16,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:16,884 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-05-19_01-52-16.log] [testng] 01:52:16,885 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25bcb004 - End of configuration. [testng] [2025-05-19 01:52:20,490] [pool-1-thread-4] Initializing /data/TAABA/TAABA.pattern: [testng] 01:52:20,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:52:20,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:52:20,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-05-19_01-52-20.log] [testng] 01:52:20,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@182aa0a4 - End of configuration. [testng] [2025-05-19 01:55:51,149] [pool-1-thread-3] Initializing /data/ome/011B1_Morph.HTD: [testng] 01:55:51,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:55:51,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:51,150 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-05-19_01-55-51.log] [testng] 01:55:51,151 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b0be85f - End of configuration. [testng] [2025-05-19 01:55:55,531] [pool-1-thread-2] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 01:55:55,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:55:55,531 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:55,532 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-05-19_01-55-55.log] [testng] 01:55:55,533 |-INFO in ch.qos.logback.core.sift.SiftProcessor@432a5ae2 - End of configuration. [testng] [2025-05-19 01:56:08,460] [pool-1-thread-12] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-05-19 01:56:34,076] [pool-1-thread-10] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-05-19 01:56:53,493] [pool-1-thread-6] Initializing /data/ome/worm.tiff: [testng] [2025-05-19 01:57:23,291] [pool-1-thread-7] Initializing /data/ome/Adultmidsection.lsm: [testng] [2025-05-19 01:57:31,013] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2025-05-19 01:57:47,181] [pool-1-thread-11] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2025-05-19 01:58:07,557] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-05-19 01:58:14,437] [pool-1-thread-1] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-05-19 01:58:24,046] [pool-1-thread-9] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-05-19 01:58:45,021] [pool-1-thread-10] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2025-05-19 01:59:00,649] [pool-1-thread-7] Initializing /data/ome/C1.lsm: [testng] [2025-05-19 01:59:07,232] [pool-1-thread-9] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-05-19 01:59:22,661] [pool-1-thread-8] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-05-19 01:59:24,382] [pool-1-thread-6] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-05-19 01:59:25,615] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2025-05-19 01:59:29,197] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-05-19 01:59:35,788] [pool-1-thread-9] Initializing /data/ome/cb_1.r3d: [testng] [2025-05-19 01:59:37,837] [pool-1-thread-1] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-05-19 01:59:39,660] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-05-19 01:59:47,864] [pool-1-thread-6] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-05-19 01:59:54,967] [pool-1-thread-8] Initializing /data/openjpeg/Facade.bmp: [testng] [2025-05-19 01:59:59,240] [pool-1-thread-2] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2025-05-19 02:00:03,180] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-05-19 02:00:06,713] [pool-1-thread-5] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-05-19 02:00:50,030] [pool-1-thread-1] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2025-05-19 02:01:28,222] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-05-19 02:01:28,705] [pool-1-thread-10] Initializing /data/ome/654Atemp.stk: [testng] [2025-05-19 02:01:48,647] [pool-1-thread-3] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-05-19 02:02:04,379] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2025-05-19 02:02:07,606] [pool-1-thread-8] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-05-19 02:02:14,493] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-05-19 02:02:31,598] [pool-1-thread-7] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-05-19 02:02:36,388] [pool-1-thread-8] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2025-05-19 02:02:51,702] [pool-1-thread-6] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-05-19 02:02:57,172] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] [2025-05-19 02:03:24,329] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-05-19 02:04:08,873] [pool-1-thread-3] Initializing /data/ARFTest/ARFTest.arf: [testng] [2025-05-19 02:04:25,843] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-05-19 02:04:28,305] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-05-19 02:04:29,020] [pool-1-thread-2] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-05-19 02:04:51,150] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2025-05-19 02:05:00,922] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-05-19 02:05:02,596] [pool-1-thread-5] Initializing /data/ome/anusgfpzs.lsm: [testng] [2025-05-19 02:05:22,198] [pool-1-thread-7] Initializing /data/sdub/sdub.pattern: [testng] [2025-05-19 02:08:08,705] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-05-19 02:08:12,446] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2025-05-19 02:08:16,757] [pool-1-thread-3] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2025-05-19 02:08:47,859] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3180, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 51 minutes 58 seconds Finished: SUCCESS