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Started by upstream project "BIOFORMATS-test-repo" build number 389 originally caused by: Started by upstream project "Trigger" build number 412 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@17 [BIOFORMATS-test-folder@17] $ /bin/bash -xe /tmp/jenkins13151414680441376444.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_61517_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] 00:30:27,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:30:27,032 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 00:30:27,032 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:27,033 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:27,033 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:30:27,033 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:30:27,034 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:30:27,034 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:27,034 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:27,034 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:30:27,034 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:30:27,035 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:30:27,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:30:27,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:30:27,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:30:27,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:30:27,329 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:30:27,329 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:30:27,329 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:30:27,330 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:30:27,330 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 00:30:27,331 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 00:30:27,331 |-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] [2025-03-24 00:30:27,340] [main] java.version = 1.8.0_342 [testng] 00:30:27,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:30:27,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:27,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-24_00-30-27.log] [testng] 00:30:27,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-24 00:30:27,394] [main] testng.directory = /data [testng] [2025-03-24 00:30:27,394] [main] testng.configDirectory = /config [testng] [2025-03-24 00:30:27,406] [main] testng.multiplier = 1.0 [testng] [2025-03-24 00:30:27,406] [main] testng.in-memory = false [testng] [2025-03-24 00:30:27,407] [main] testng.allow-missing = false [testng] [2025-03-24 00:30:27,407] [main] user.language = fr [testng] [2025-03-24 00:30:27,407] [main] user.country = FR [testng] [2025-03-24 00:30:27,407] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-24 00:32:09,174] [main] ---------------------------------------- [testng] [2025-03-24 00:32:09,175] [main] Total files: 165 [testng] [2025-03-24 00:32:09,175] [main] Scan time: 101.767 s (616 ms/file) [testng] [2025-03-24 00:32:09,175] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-24 00:34:44,370] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] 00:34:44,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:34:44,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:44,372 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-24_00-34-44.log] [testng] 00:34:44,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cbc4a43 - End of configuration. [testng] [2025-03-24 00:34:44,635] [pool-1-thread-12] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 00:34:44,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:34:44,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:44,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-24_00-34-44.log] [testng] 00:34:44,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79f3cd4e - End of configuration. [testng] [2025-03-24 00:34:45,276] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 00:34:45,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:34:45,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:45,277 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-24_00-34-45.log] [testng] 00:34:45,277 |-INFO in ch.qos.logback.core.sift.SiftProcessor@621f0d6 - End of configuration. [testng] [2025-03-24 00:34:45,460] [pool-1-thread-10] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 00:34:45,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:34:45,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:45,461 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-24_00-34-45.log] [testng] 00:34:45,462 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c0e678d - End of configuration. [testng] [2025-03-24 00:34:46,232] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne1.ppm: [testng] 00:34:46,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:34:46,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:46,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-24_00-34-46.log] [testng] 00:34:46,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4539ead9 - End of configuration. [testng] [2025-03-24 00:34:46,324] [pool-1-thread-8] Initializing /data/sdub/sdub.pattern: [testng] 00:34:46,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:34:46,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:46,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-24_00-34-46.log] [testng] 00:34:46,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71f4845c - End of configuration. [testng] [2025-03-24 00:34:56,060] [pool-1-thread-7] Initializing /data/ome/worm.tiff: [testng] 00:34:56,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:34:56,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:56,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-24_00-34-56.log] [testng] 00:34:56,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f43e980 - End of configuration. [testng] [2025-03-24 00:34:58,289] [pool-1-thread-6] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] 00:34:58,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:34:58,290 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:58,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-24_00-34-58.log] [testng] 00:34:58,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd817c6 - End of configuration. [testng] [2025-03-24 00:34:59,422] [pool-1-thread-5] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 00:34:59,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:34:59,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:59,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-24_00-34-59.log] [testng] 00:34:59,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2788bab3 - End of configuration. [testng] [2025-03-24 00:35:00,890] [pool-1-thread-4] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 00:35:00,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:35:00,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:00,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-24_00-35-00.log] [testng] 00:35:00,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@653f9fd0 - End of configuration. [testng] [2025-03-24 00:35:02,384] [pool-1-thread-3] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] 00:35:02,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:35:02,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:02,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-24_00-35-02.log] [testng] 00:35:02,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d689117 - End of configuration. [testng] [2025-03-24 00:35:04,574] [pool-1-thread-2] Initializing /data/ome/C1midmusnorm.lsm: [testng] 00:35:04,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:35:04,574 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:04,575 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-24_00-35-04.log] [testng] 00:35:04,575 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55da31d9 - End of configuration. [testng] [2025-03-24 00:35:10,806] [pool-1-thread-9] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-03-24 00:35:12,778] [pool-1-thread-1] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2025-03-24 00:35:14,909] [pool-1-thread-11] Initializing /data/ome/embryo.lsm: [testng] [2025-03-24 00:35:17,337] [pool-1-thread-9] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-03-24 00:35:22,055] [pool-1-thread-10] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-03-24 00:35:22,824] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-03-24 00:35:26,485] [pool-1-thread-6] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2025-03-24 00:35:29,386] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2025-03-24 00:35:29,728] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2025-03-24 00:35:33,389] [pool-1-thread-10] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-03-24 00:35:37,957] [pool-1-thread-7] Initializing /data/ome/654Atemp.stk: [testng] [2025-03-24 00:35:43,086] [pool-1-thread-1] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2025-03-24 00:35:45,188] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-03-24 00:35:46,562] [pool-1-thread-5] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-03-24 00:35:48,792] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2025-03-24 00:35:49,970] [pool-1-thread-11] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-03-24 00:35:53,001] [pool-1-thread-3] Initializing /data/ome/anusgfpzs.lsm: [testng] [2025-03-24 00:35:54,638] [pool-1-thread-6] Initializing /data/openjpeg/Facade.bmp: [testng] [2025-03-24 00:35:54,909] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-03-24 00:35:56,912] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2025-03-24 00:36:01,200] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-03-24 00:36:03,159] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-03-24 00:36:04,542] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-03-24 00:36:04,822] [pool-1-thread-6] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-03-24 00:36:06,047] [pool-1-thread-1] Initializing /data/ARFTest/ARFTest.arf: [testng] [2025-03-24 00:36:06,839] [pool-1-thread-10] Initializing /data/ome/011B1_Morph.HTD: [testng] [2025-03-24 00:36:11,027] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-03-24 00:36:11,725] [pool-1-thread-4] Initializing /data/ome/C1.lsm: [testng] [2025-03-24 00:36:13,313] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-03-24 00:36:14,312] [pool-1-thread-3] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-03-24 00:36:15,180] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2025-03-24 00:36:15,493] [pool-1-thread-1] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-03-24 00:36:16,333] [pool-1-thread-5] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2025-03-24 00:36:17,802] [pool-1-thread-9] Initializing /data/ome/Adultmidsection.lsm: [testng] [2025-03-24 00:36:21,110] [pool-1-thread-3] Initializing /data/TAABA/TAABA.pattern: [testng] [2025-03-24 00:37:33,151] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-03-24 00:37:33,899] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-03-24 00:37:34,446] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-03-24 00:37:34,937] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-03-24 00:37:36,488] [pool-1-thread-2] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2025-03-24 00:37:39,334] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-03-24 00:37:40,374] [pool-1-thread-4] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-03-24 00:37:43,436] [pool-1-thread-7] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-03-24 00:37:47,359] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-03-24 00:37:47,912] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2025-03-24 00:37:49,946] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2025-03-24 00:37:52,092] [pool-1-thread-9] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-03-24 00:37:52,885] [pool-1-thread-5] Initializing /data/openjpeg/Rome.jp2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3180, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 14 minutes 12 seconds Finished: SUCCESS