Started by upstream project "BIOFORMATS-test-repo" build number 313 originally caused by: Started by upstream project "Trigger" build number 335 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/jenkins11725287068002528842.sh + '[' samples = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_49573_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 01:31:58,421 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:31:58,422 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 01:31:58,422 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:31:58,423 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:31:58,424 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:31:58,424 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:31:58,425 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:31:58,425 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:31:58,425 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:31:58,426 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:31:58,426 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:31:58,426 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:31:58,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:31:58,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:31:58,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:31:58,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:31:58,621 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:31:58,621 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:31:58,621 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:31:58,622 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:31:58,622 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 01:31:58,623 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 01:31:58,623 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-09 01:31:58,632] [main] java.version = 21 [testng] 01:31:58,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:31:58,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:31:58,679 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-09_01-31-58.log] [testng] 01:31:58,681 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2025-01-09 01:31:58,682] [main] testng.directory = /data [testng] [2025-01-09 01:31:58,682] [main] testng.configDirectory = /config [testng] [2025-01-09 01:31:58,691] [main] testng.multiplier = 1.0 [testng] [2025-01-09 01:31:58,692] [main] testng.in-memory = false [testng] [2025-01-09 01:31:58,692] [main] testng.allow-missing = false [testng] [2025-01-09 01:31:58,692] [main] user.language = en [testng] [2025-01-09 01:31:58,692] [main] user.country = ${user.country} [testng] [2025-01-09 01:31:58,692] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-09 01:33:11,277] [main] ---------------------------------------- [testng] [2025-01-09 01:33:11,277] [main] Total files: 164 [testng] [2025-01-09 01:33:11,277] [main] Scan time: 72.584 s (442 ms/file) [testng] [2025-01-09 01:33:11,277] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-09 01:34:26,527] [pool-1-thread-1] Initializing /data/sdub/sdub.pattern: [testng] 01:34:26,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:34:26,527 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:26,528 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-09_01-34-26.log] [testng] 01:34:26,529 |-INFO in ch.qos.logback.core.sift.SiftProcessor@111cc2b1 - End of configuration. [testng] [2025-01-09 01:34:33,262] [pool-1-thread-12] Initializing /data/ome/011B1_Morph.HTD: [testng] 01:34:33,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:34:33,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:33,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-09_01-34-33.log] [testng] 01:34:33,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27961639 - End of configuration. [testng] [2025-01-09 01:34:34,245] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 01:34:34,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:34:34,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:34,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-09_01-34-34.log] [testng] 01:34:34,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45a2c288 - End of configuration. [testng] [2025-01-09 01:34:34,297] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 01:34:34,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:34:34,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:34,298 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-09_01-34-34.log] [testng] 01:34:34,298 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2108f90a - End of configuration. [testng] [2025-01-09 01:34:34,363] [pool-1-thread-9] Initializing /data/openjpeg/thumb_facade.jpg: [testng] 01:34:34,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:34:34,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:34,364 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-09_01-34-34.log] [testng] 01:34:34,365 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a4e9a2a - End of configuration. [testng] [2025-01-09 01:34:34,480] [pool-1-thread-8] Initializing /data/openjpeg/Rome.jp2: [testng] 01:34:34,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:34:34,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:34,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-09_01-34-34.log] [testng] 01:34:34,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d530dc - End of configuration. [testng] [2025-01-09 01:34:34,803] [pool-1-thread-7] Initializing /data/openjpeg/Facade.pnm: [testng] 01:34:34,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:34:34,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:34,804 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-09_01-34-34.log] [testng] 01:34:34,804 |-INFO in ch.qos.logback.core.sift.SiftProcessor@90fceca - End of configuration. [testng] [2025-01-09 01:34:35,072] [pool-1-thread-6] Initializing /data/ome/Adultmidsection.lsm: [testng] 01:34:35,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:34:35,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:35,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-09_01-34-35.log] [testng] 01:34:35,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58a25dde - End of configuration. [testng] [2025-01-09 01:34:35,473] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 01:34:35,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:34:35,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:35,474 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-09_01-34-35.log] [testng] 01:34:35,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@654b8b60 - End of configuration. [testng] [2025-01-09 01:34:36,085] [pool-1-thread-4] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] 01:34:36,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:34:36,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:36,086 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-09_01-34-36.log] [testng] 01:34:36,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7731993f - End of configuration. [testng] [2025-01-09 01:34:37,377] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] 01:34:37,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:34:37,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:37,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-09_01-34-37.log] [testng] 01:34:37,379 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b5f9074 - End of configuration. [testng] [2025-01-09 01:34:37,508] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 01:34:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:34:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:37,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-09_01-34-37.log] [testng] 01:34:37,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c9a5357 - End of configuration. [testng] [2025-01-09 01:34:40,730] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-01-09 01:34:40,805] [pool-1-thread-11] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-01-09 01:34:40,875] [pool-1-thread-10] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-01-09 01:34:41,276] [pool-1-thread-3] Initializing /data/openjpeg/Facade.bmp: [testng] [2025-01-09 01:34:41,488] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-01-09 01:34:42,256] [pool-1-thread-2] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-01-09 01:34:43,106] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-01-09 01:34:43,275] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-01-09 01:34:43,567] [pool-1-thread-9] Initializing /data/ome/C1.lsm: [testng] [2025-01-09 01:34:44,351] [pool-1-thread-8] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-01-09 01:34:45,311] [pool-1-thread-3] Initializing /data/ome/worm.tiff: [testng] [2025-01-09 01:34:46,520] [pool-1-thread-7] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2025-01-09 01:34:47,334] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2025-01-09 01:34:47,450] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-01-09 01:34:48,055] [pool-1-thread-10] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2025-01-09 01:34:49,133] [pool-1-thread-6] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-01-09 01:34:49,728] [pool-1-thread-11] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2025-01-09 01:34:50,581] [pool-1-thread-8] Initializing /data/ome/embryo.lsm: [testng] [2025-01-09 01:34:51,257] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-01-09 01:34:51,378] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-01-09 01:34:51,607] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2025-01-09 01:34:51,898] [pool-1-thread-9] Initializing /data/ome/cb_1.r3d: [testng] [2025-01-09 01:34:53,071] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-01-09 01:34:53,279] [pool-1-thread-10] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-01-09 01:34:53,623] [pool-1-thread-2] Initializing /data/ome/654Atemp.stk: [testng] [2025-01-09 01:34:54,538] [pool-1-thread-4] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2025-01-09 01:34:55,672] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-01-09 01:34:55,780] [pool-1-thread-8] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-01-09 01:34:55,940] [pool-1-thread-11] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2025-01-09 01:34:56,614] [pool-1-thread-3] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-01-09 01:34:58,059] [pool-1-thread-5] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-01-09 01:34:59,448] [pool-1-thread-10] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-01-09 01:35:00,371] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-01-09 01:35:01,400] [pool-1-thread-8] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2025-01-09 01:35:02,224] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2025-01-09 01:35:03,625] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] [2025-01-09 01:35:04,349] [pool-1-thread-4] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-01-09 01:35:05,528] [pool-1-thread-11] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-01-09 01:35:07,339] [pool-1-thread-2] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-01-09 01:35:08,076] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-01-09 01:35:08,853] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-01-09 01:35:09,191] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-01-09 01:35:10,195] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2025-01-09 01:35:10,620] [pool-1-thread-10] Initializing /data/TAABA/TAABA.pattern: [testng] [2025-01-09 01:35:27,525] [pool-1-thread-4] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-01-09 01:35:28,173] [pool-1-thread-6] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2025-01-09 01:35:29,011] [pool-1-thread-11] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 18 seconds Finished: SUCCESS