Started by upstream project "BIOFORMATS-test-repo" build number 285
originally caused by:
Started by upstream project "Trigger" build number 304
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8
[BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins11187518436859012208.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_44959_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] 00:37:03,099 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:37:03,101 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 00:37:03,101 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:37:03,102 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:37:03,103 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:37:03,103 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:37:03,103 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:37:03,103 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:37:03,104 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:37:03,104 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:37:03,104 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:37:03,104 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:37:03,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:37:03,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:37:03,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:37:03,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:37:03,389 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:37:03,389 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:37:03,389 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:37:03,389 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:37:03,390 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 00:37:03,391 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 00:37:03,391 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 287 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-09 00:37:03,403] [main] java.version = 1.8.0_342
[testng] 00:37:03,406 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:37:03,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:37:03,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-09_00-37-03.log]
[testng] 00:37:03,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-12-09 00:37:03,457] [main] testng.directory = /data
[testng] [2024-12-09 00:37:03,457] [main] testng.configDirectory = /config
[testng] [2024-12-09 00:37:03,470] [main] testng.multiplier = 1.0
[testng] [2024-12-09 00:37:03,470] [main] testng.in-memory = false
[testng] [2024-12-09 00:37:03,471] [main] testng.allow-missing = false
[testng] [2024-12-09 00:37:03,471] [main] user.language = fr
[testng] [2024-12-09 00:37:03,471] [main] user.country = FR
[testng] [2024-12-09 00:37:03,471] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-12-09 00:37:33,533] [main] ----------------------------------------
[testng] [2024-12-09 00:37:33,533] [main] Total files: 164
[testng] [2024-12-09 00:37:33,534] [main] Scan time: 30.062 s (183 ms/file)
[testng] [2024-12-09 00:37:33,534] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 59 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-09 00:38:29,301] [pool-1-thread-1] Initializing /data/mouse-kidney/mouse-kidney.lif:
[testng] 00:38:29,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:38:29,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:29,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-09_00-38-29.log]
[testng] 00:38:29,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1069d977 - End of configuration.
[testng] [2024-12-09 00:38:29,593] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne1.j2k:
[testng] 00:38:29,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:38:29,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:29,594 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-09_00-38-29.log]
[testng] 00:38:29,594 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75b1a85e - End of configuration.
[testng] [2024-12-09 00:38:29,955] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.j2k:
[testng] 00:38:29,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:38:29,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:29,955 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-09_00-38-29.log]
[testng] 00:38:29,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6aeb1a10 - End of configuration.
[testng] [2024-12-09 00:38:30,357] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk:
[testng] 00:38:30,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:38:30,358 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:30,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-09_00-38-30.log]
[testng] 00:38:30,359 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d81323e - End of configuration.
[testng] [2024-12-09 00:38:31,018] [pool-1-thread-9] Initializing /data/ome/t0_pos1-0_5x.lsm:
[testng] 00:38:31,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:38:31,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:31,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-09_00-38-31.log]
[testng] 00:38:31,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2501a9fb - End of configuration.
[testng] [2024-12-09 00:38:31,866] [pool-1-thread-8] Initializing /data/ome/C1midmusnorm.lsm:
[testng] 00:38:31,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:38:31,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:31,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-09_00-38-31.log]
[testng] 00:38:31,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fac0149 - End of configuration.
[testng] [2024-12-09 00:38:32,425] [pool-1-thread-7] Initializing /data/openjpeg/Facade.bmp:
[testng] 00:38:32,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:38:32,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:32,426 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-09_00-38-32.log]
[testng] 00:38:32,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@699ed949 - End of configuration.
[testng] [2024-12-09 00:38:32,513] [pool-1-thread-6] Initializing /data/TAABA/TAABA.pattern:
[testng] 00:38:32,513 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:38:32,513 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:32,514 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-09_00-38-32.log]
[testng] 00:38:32,514 |-INFO in ch.qos.logback.core.sift.SiftProcessor@284792a4 - End of configuration.
[testng] [2024-12-09 00:38:58,420] [pool-1-thread-5] Initializing /data/ome/tiffany.color.tiff:
[testng] 00:38:58,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:38:58,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:38:58,421 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-09_00-38-58.log]
[testng] 00:38:58,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5757863 - End of configuration.
[testng] [2024-12-09 00:39:00,601] [pool-1-thread-4] Initializing /data/ome/cb_1.r3d:
[testng] 00:39:00,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:39:00,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:39:00,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-09_00-39-00.log]
[testng] 00:39:00,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a6141c - End of configuration.
[testng] [2024-12-09 00:39:00,906] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Bretagne1.jpg:
[testng] 00:39:00,907 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:39:00,907 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:39:00,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-09_00-39-00.log]
[testng] 00:39:00,908 |-INFO in ch.qos.logback.core.sift.SiftProcessor@673aa7f2 - End of configuration.
[testng] [2024-12-09 00:39:01,022] [pool-1-thread-2] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK:
[testng] 00:39:01,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:39:01,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:39:01,023 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-09_00-39-01.log]
[testng] 00:39:01,023 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c892d31 - End of configuration.
[testng] [2024-12-09 00:39:06,152] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.j2k:
[testng] [2024-12-09 00:39:07,102] [pool-1-thread-1] Initializing /data/ome/Adultmidsection.lsm:
[testng] [2024-12-09 00:39:08,723] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.bmp:
[testng] [2024-12-09 00:39:08,866] [pool-1-thread-3] Initializing /data/openjpeg/Rome.bmp:
[testng] [2024-12-09 00:39:10,046] [pool-1-thread-12] Initializing /data/openjpeg/thumb_facade.jpg:
[testng] [2024-12-09 00:39:10,309] [pool-1-thread-8] Initializing /data/ome/654Atemp.stk:
[testng] [2024-12-09 00:39:13,980] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Bretagne2.jpg:
[testng] [2024-12-09 00:39:14,108] [pool-1-thread-3] Initializing /data/ome/compressed2ChZ.lsm:
[testng] [2024-12-09 00:39:14,738] [pool-1-thread-7] Initializing /data/ome/011B1_Morph.HTD:
[testng] [2024-12-09 00:39:16,439] [pool-1-thread-2] Initializing /data/ome/worm.tiff:
[testng] [2024-12-09 00:39:17,774] [pool-1-thread-12] Initializing /data/openjpeg/Rome.jp2:
[testng] [2024-12-09 00:39:18,232] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne2.ppm:
[testng] [2024-12-09 00:39:18,298] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne1.ppm:
[testng] [2024-12-09 00:39:19,470] [pool-1-thread-9] Initializing /data/ome/anusgfpzs.lsm:
[testng] [2024-12-09 00:39:20,579] [pool-1-thread-10] Initializing /data/ome/C1.lsm:
[testng] [2024-12-09 00:39:21,033] [pool-1-thread-1] Initializing /data/ome/embryo.lsm:
[testng] [2024-12-09 00:39:23,158] [pool-1-thread-5] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF:
[testng] [2024-12-09 00:39:25,017] [pool-1-thread-3] Initializing /data/ome/Cmidmusgfp1.lsm:
[testng] [2024-12-09 00:39:28,086] [pool-1-thread-12] Initializing /data/ome/C1lowmusgfp.lsm:
[testng] [2024-12-09 00:39:29,073] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Cevennes2.jpg:
[testng] [2024-12-09 00:39:29,243] [pool-1-thread-8] Initializing /data/ome/arwen0205_raw00201.pic:
[testng] [2024-12-09 00:39:30,145] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Speedway.jpg:
[testng] [2024-12-09 00:39:31,271] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.bmp:
[testng] [2024-12-09 00:39:31,501] [pool-1-thread-2] Initializing /data/openjpeg/FacadeERROPJW.bmp:
[testng] [2024-12-09 00:39:33,372] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF:
[testng] [2024-12-09 00:39:34,286] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif:
[testng] [2024-12-09 00:39:35,463] [pool-1-thread-3] Initializing /data/ome/t1_pos1-0_5x.lsm:
[testng] [2024-12-09 00:39:35,993] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Rome.jpg:
[testng] [2024-12-09 00:39:36,112] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm:
[testng] [2024-12-09 00:39:36,185] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.bmp:
[testng] [2024-12-09 00:39:36,403] [pool-1-thread-4] Initializing /data/ome/tinyTest.d3d.dv:
[testng] [2024-12-09 00:39:37,766] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm:
[testng] [2024-12-09 00:39:38,019] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes2.jp2:
[testng] [2024-12-09 00:39:39,439] [pool-1-thread-4] Initializing /data/ome/Cpharynxzs1.lsm:
[testng] [2024-12-09 00:39:40,052] [pool-1-thread-2] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg:
[testng] [2024-12-09 00:39:40,748] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif:
[testng] [2024-12-09 00:39:42,044] [pool-1-thread-1] Initializing /data/ome/CHOBI_d3d.dv:
[testng] [2024-12-09 00:39:42,427] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes1.jpg:
[testng] [2024-12-09 00:39:43,655] [pool-1-thread-3] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK:
[testng] [2024-12-09 00:39:44,503] [pool-1-thread-2] Initializing /data/sdub/sdub.pattern:
[testng] [2024-12-09 00:39:52,802] [pool-1-thread-5] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF:
[testng] [2024-12-09 00:39:53,780] [pool-1-thread-12] Initializing /data/openjpeg/Facade.pnm:
[testng] [2024-12-09 00:39:53,939] [pool-1-thread-1] Initializing /data/kidney_TFl/kidney_TFl.pattern:
[testng] [2024-12-09 00:39:56,474] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.bmp:
[testng] [2024-12-09 00:39:57,468] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm:
[testng] [2024-12-09 00:39:59,466] [pool-1-thread-12] Initializing /data/ome/210502-0min-NFKB-4.r3d:
[testng] [2024-12-09 00:40:00,490] [pool-1-thread-4] 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 32 seconds
Finished: SUCCESS