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Started by upstream project "BIOFORMATS-test-repo" build number 220 originally caused by: Started by upstream project "Trigger" build number 247 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins8979209626318965567.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_34890_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] 01:42:32,179 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:42:32,181 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:42:32,181 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:42:32,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:42:32,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:42:32,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:42:32,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:42:32,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:42:32,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:42:32,183 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:42:32,183 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:42:32,183 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:42:32,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:42:32,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:42:32,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:42:32,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:42:32,436 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:42:32,436 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:42:32,436 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:42:32,437 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:42:32,437 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:42:32,438 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:42:32,438 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 255 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-14 01:42:32,447] [main] java.version = 1.8.0_342 [testng] 01:42:32,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:42:32,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:42:32,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-14_01-42-32.log] [testng] 01:42:32,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-14 01:42:32,497] [main] testng.directory = /data [testng] [2024-10-14 01:42:32,497] [main] testng.configDirectory = /config [testng] [2024-10-14 01:42:32,509] [main] testng.multiplier = 1.0 [testng] [2024-10-14 01:42:32,509] [main] testng.in-memory = false [testng] [2024-10-14 01:42:32,509] [main] testng.allow-missing = false [testng] [2024-10-14 01:42:32,509] [main] user.language = fr [testng] [2024-10-14 01:42:32,509] [main] user.country = FR [testng] [2024-10-14 01:42:32,509] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-14 01:43:13,787] [main] ---------------------------------------- [testng] [2024-10-14 01:43:13,787] [main] Total files: 164 [testng] [2024-10-14 01:43:13,787] [main] Scan time: 41.278 s (251 ms/file) [testng] [2024-10-14 01:43:13,787] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-14 01:44:11,451] [pool-1-thread-1] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] 01:44:11,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:44:11,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:11,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-14_01-44-11.log] [testng] 01:44:11,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cbc4a43 - End of configuration. [testng] [2024-10-14 01:44:11,624] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:44:11,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:44:11,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:11,626 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-14_01-44-11.log] [testng] 01:44:11,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2923db50 - End of configuration. [testng] [2024-10-14 01:44:11,853] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.j2k: [testng] 01:44:11,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:44:11,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:11,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-14_01-44-11.log] [testng] 01:44:11,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d988bfd - End of configuration. [testng] [2024-10-14 01:44:12,126] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] 01:44:12,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:44:12,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:12,127 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-14_01-44-12.log] [testng] 01:44:12,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b833a77 - End of configuration. [testng] [2024-10-14 01:44:12,532] [pool-1-thread-9] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] 01:44:12,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:44:12,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:12,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-14_01-44-12.log] [testng] 01:44:12,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@700c1a6e - End of configuration. [testng] [2024-10-14 01:44:12,813] [pool-1-thread-8] Initializing /data/ome/C1midmusnorm.lsm: [testng] 01:44:12,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:44:12,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:12,814 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-14_01-44-12.log] [testng] 01:44:12,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47c59bbd - End of configuration. [testng] [2024-10-14 01:44:13,094] [pool-1-thread-7] Initializing /data/openjpeg/Facade.bmp: [testng] 01:44:13,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:44:13,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:13,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-14_01-44-13.log] [testng] 01:44:13,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@368ec061 - End of configuration. [testng] [2024-10-14 01:44:13,148] [pool-1-thread-6] Initializing /data/TAABA/TAABA.pattern: [testng] 01:44:13,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:44:13,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:13,149 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-14_01-44-13.log] [testng] 01:44:13,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67c84dc2 - End of configuration. [testng] [2024-10-14 01:44:37,990] [pool-1-thread-5] Initializing /data/ome/tiffany.color.tiff: [testng] 01:44:37,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:44:37,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:37,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-14_01-44-37.log] [testng] 01:44:37,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21dcd91b - End of configuration. [testng] [2024-10-14 01:44:38,883] [pool-1-thread-4] Initializing /data/ome/cb_1.r3d: [testng] 01:44:38,883 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:44:38,883 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:38,884 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-14_01-44-38.log] [testng] 01:44:38,884 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6aeb1a10 - End of configuration. [testng] [2024-10-14 01:44:39,057] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] 01:44:39,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:44:39,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:39,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-14_01-44-39.log] [testng] 01:44:39,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23254bfb - End of configuration. [testng] [2024-10-14 01:44:39,147] [pool-1-thread-2] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:44:39,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:44:39,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:39,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-14_01-44-39.log] [testng] 01:44:39,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32ad4035 - End of configuration. [testng] [2024-10-14 01:44:42,787] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-10-14 01:44:43,034] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-10-14 01:44:43,094] [pool-1-thread-1] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-10-14 01:44:43,556] [pool-1-thread-7] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-10-14 01:44:43,797] [pool-1-thread-8] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-10-14 01:44:43,976] [pool-1-thread-12] Initializing /data/ome/654Atemp.stk: [testng] [2024-10-14 01:44:44,891] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-10-14 01:44:44,991] [pool-1-thread-9] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-10-14 01:44:45,979] [pool-1-thread-10] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-10-14 01:44:46,922] [pool-1-thread-3] Initializing /data/ome/worm.tiff: [testng] [2024-10-14 01:44:47,658] [pool-1-thread-7] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-10-14 01:44:47,978] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-10-14 01:44:48,026] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-10-14 01:44:48,532] [pool-1-thread-1] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-10-14 01:44:49,247] [pool-1-thread-2] Initializing /data/ome/C1.lsm: [testng] [2024-10-14 01:44:49,867] [pool-1-thread-5] Initializing /data/ome/embryo.lsm: [testng] [2024-10-14 01:44:50,933] [pool-1-thread-10] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2024-10-14 01:44:51,542] [pool-1-thread-8] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-10-14 01:44:52,896] [pool-1-thread-2] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-10-14 01:44:53,218] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-10-14 01:44:53,934] [pool-1-thread-7] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-10-14 01:44:54,277] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-10-14 01:44:54,382] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-10-14 01:44:55,004] [pool-1-thread-3] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-10-14 01:44:55,199] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-10-14 01:44:56,586] [pool-1-thread-10] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-10-14 01:44:57,593] [pool-1-thread-8] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-10-14 01:44:58,559] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-10-14 01:44:58,709] [pool-1-thread-2] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-10-14 01:44:58,986] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2024-10-14 01:45:00,139] [pool-1-thread-3] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-10-14 01:45:00,333] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-10-14 01:45:01,395] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-10-14 01:45:01,823] [pool-1-thread-1] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-10-14 01:45:02,777] [pool-1-thread-2] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-10-14 01:45:02,933] [pool-1-thread-8] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-10-14 01:45:03,780] [pool-1-thread-3] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-10-14 01:45:03,990] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-10-14 01:45:04,140] [pool-1-thread-4] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-10-14 01:45:05,358] [pool-1-thread-10] Initializing /data/sdub/sdub.pattern: [testng] [2024-10-14 01:45:10,929] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-10-14 01:45:11,537] [pool-1-thread-3] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-10-14 01:45:11,660] [pool-1-thread-5] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-10-14 01:45:13,719] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-10-14 01:45:13,883] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-10-14 01:45:15,269] [pool-1-thread-3] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-10-14 01:45:16,315] [pool-1-thread-8] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 3 seconds Finished: SUCCESS