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Started by upstream project "BIOFORMATS-test-repo" build number 121 originally caused by: Started by upstream project "Trigger" build number 138 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/jenkins2026500630415752466.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_18863_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] 01:26:08,981 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:26:08,985 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:26:08,985 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:26:08,988 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:26:08,988 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:26:08,988 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:26:08,989 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:26:08,989 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:26:08,990 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:26:08,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:26:08,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:26:08,991 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:26:09,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:26:09,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:26:09,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:26:09,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:26:09,307 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:26:09,307 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:26:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:26:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:26:09,307 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:26:09,308 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:26:09,308 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 318 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-15 01:26:09,319] [main] java.version = 1.8.0_342 [testng] 01:26:09,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:26:09,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:09,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-15_01-26-09.log] [testng] 01:26:09,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-15 01:26:09,382] [main] testng.directory = /data [testng] [2024-07-15 01:26:09,382] [main] testng.configDirectory = /config [testng] [2024-07-15 01:26:09,395] [main] testng.multiplier = 1.0 [testng] [2024-07-15 01:26:09,395] [main] testng.in-memory = false [testng] [2024-07-15 01:26:09,395] [main] testng.allow-missing = false [testng] [2024-07-15 01:26:09,396] [main] user.language = fr [testng] [2024-07-15 01:26:09,396] [main] user.country = FR [testng] [2024-07-15 01:26:09,396] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-15 01:26:39,879] [main] ---------------------------------------- [testng] [2024-07-15 01:26:39,879] [main] Total files: 164 [testng] [2024-07-15 01:26:39,879] [main] Scan time: 30.483 s (185 ms/file) [testng] [2024-07-15 01:26:39,879] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-15 01:26:53,829] [pool-1-thread-1] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:26:53,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:26:53,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:53,830 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-15_01-26-53.log] [testng] 01:26:53,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@777e5c66 - End of configuration. [testng] [2024-07-15 01:26:53,869] [pool-1-thread-12] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 01:26:53,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:26:53,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:53,871 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-15_01-26-53.log] [testng] 01:26:53,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@409f62 - End of configuration. [testng] [2024-07-15 01:26:53,888] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] 01:26:53,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:26:53,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:53,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-15_01-26-53.log] [testng] 01:26:53,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bd8e4df - End of configuration. [testng] [2024-07-15 01:26:53,973] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] 01:26:53,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:26:53,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:53,975 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-15_01-26-53.log] [testng] 01:26:53,976 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c454bf8 - End of configuration. [testng] [2024-07-15 01:26:54,013] [pool-1-thread-9] Initializing /data/ome/654Atemp.stk: [testng] 01:26:54,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:26:54,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-15_01-26-54.log] [testng] 01:26:54,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19bb9c57 - End of configuration. [testng] [2024-07-15 01:26:54,164] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 01:26:54,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:26:54,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,165 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-15_01-26-54.log] [testng] 01:26:54,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d4db31d - End of configuration. [testng] [2024-07-15 01:26:54,197] [pool-1-thread-7] Initializing /data/ome/embryo.lsm: [testng] 01:26:54,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:26:54,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-15_01-26-54.log] [testng] 01:26:54,199 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d294c6 - End of configuration. [testng] [2024-07-15 01:26:54,243] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] 01:26:54,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:26:54,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,245 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-15_01-26-54.log] [testng] 01:26:54,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@176a4f33 - End of configuration. [testng] [2024-07-15 01:26:54,274] [pool-1-thread-5] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 01:26:54,274 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:26:54,274 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,275 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-15_01-26-54.log] [testng] 01:26:54,276 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5287034e - End of configuration. [testng] [2024-07-15 01:26:54,302] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 01:26:54,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:26:54,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-15_01-26-54.log] [testng] 01:26:54,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f12186 - End of configuration. [testng] [2024-07-15 01:26:54,315] [pool-1-thread-3] Initializing /data/ome/worm.tiff: [testng] 01:26:54,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:26:54,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-15_01-26-54.log] [testng] 01:26:54,317 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65733956 - End of configuration. [testng] [2024-07-15 01:26:54,390] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 01:26:54,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:26:54,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:54,392 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-15_01-26-54.log] [testng] 01:26:54,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3e485a - End of configuration. [testng] [2024-07-15 01:26:56,654] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] [2024-07-15 01:26:56,679] [pool-1-thread-1] Initializing /data/sdub/sdub.pattern: [testng] [2024-07-15 01:26:56,830] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-07-15 01:26:56,842] [pool-1-thread-10] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-07-15 01:26:56,868] [pool-1-thread-7] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-07-15 01:26:56,874] [pool-1-thread-2] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-07-15 01:26:56,964] [pool-1-thread-9] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-07-15 01:26:57,143] [pool-1-thread-5] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-07-15 01:26:57,160] [pool-1-thread-4] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-07-15 01:26:57,280] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-07-15 01:26:57,337] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-07-15 01:26:57,349] [pool-1-thread-6] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-07-15 01:26:58,009] [pool-1-thread-5] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-07-15 01:26:58,017] [pool-1-thread-9] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-07-15 01:26:58,222] [pool-1-thread-12] Initializing /data/ome/cb_1.r3d: [testng] [2024-07-15 01:26:58,335] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2024-07-15 01:26:58,391] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-07-15 01:26:58,518] [pool-1-thread-11] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-07-15 01:26:58,822] [pool-1-thread-5] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-07-15 01:26:59,002] [pool-1-thread-1] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-07-15 01:26:59,393] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-07-15 01:26:59,475] [pool-1-thread-1] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-07-15 01:26:59,830] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-07-15 01:26:59,836] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-07-15 01:26:59,860] [pool-1-thread-1] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-07-15 01:26:59,872] [pool-1-thread-4] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-07-15 01:26:59,957] [pool-1-thread-11] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-07-15 01:27:00,496] [pool-1-thread-5] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-07-15 01:27:00,544] [pool-1-thread-6] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-07-15 01:27:00,683] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-07-15 01:27:00,689] [pool-1-thread-10] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-07-15 01:27:00,891] [pool-1-thread-2] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-07-15 01:27:00,931] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-07-15 01:27:01,073] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-07-15 01:27:01,141] [pool-1-thread-10] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-07-15 01:27:01,281] [pool-1-thread-8] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-07-15 01:27:03,049] [pool-1-thread-1] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-07-15 01:27:03,088] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-07-15 01:27:03,115] [pool-1-thread-3] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-07-15 01:27:03,195] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-07-15 01:27:03,264] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-07-15 01:27:03,450] [pool-1-thread-5] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-07-15 01:27:03,508] [pool-1-thread-4] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-07-15 01:27:03,563] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-07-15 01:27:03,663] [pool-1-thread-1] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-07-15 01:27:04,393] [pool-1-thread-10] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-07-15 01:27:04,666] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Speedway.jpg: [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 49 seconds Finished: SUCCESS