Started by upstream project "BIOFORMATS-test-repo" build number 11
originally caused by:
Started by upstream project "Trigger" build number 14
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/jenkins4373541564577340632.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_1640_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] 00:27:58,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:27:58,135 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 00:27:58,135 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:27:58,136 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:27:58,136 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:27:58,136 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:27:58,137 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:27:58,137 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:27:58,137 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:27:58,137 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:27:58,138 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:27:58,138 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:27:58,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:27:58,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:27:58,412 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:27:58,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:27:58,421 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:27:58,421 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:27:58,421 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:27:58,422 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:27:58,422 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 00:27:58,423 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 00:27:58,423 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 286 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-03-25 00:27:58,433] [main] java.version = 1.8.0_342
[testng] 00:27:58,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:27:58,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:27:58,486 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-25_00-27-58.log]
[testng] 00:27:58,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-03-25 00:27:58,490] [main] testng.directory = /data
[testng] [2024-03-25 00:27:58,490] [main] testng.configDirectory = /config
[testng] [2024-03-25 00:27:58,502] [main] testng.multiplier = 1.0
[testng] [2024-03-25 00:27:58,502] [main] testng.in-memory = false
[testng] [2024-03-25 00:27:58,503] [main] testng.allow-missing = false
[testng] [2024-03-25 00:27:58,503] [main] user.language = fr
[testng] [2024-03-25 00:27:58,503] [main] user.country = FR
[testng] [2024-03-25 00:27:58,503] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-03-25 00:28:26,334] [main] ----------------------------------------
[testng] [2024-03-25 00:28:26,335] [main] Total files: 164
[testng] [2024-03-25 00:28:26,335] [main] Scan time: 27.831 s (169 ms/file)
[testng] [2024-03-25 00:28:26,335] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 59 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-03-25 00:28:43,097] [pool-1-thread-1] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK:
[testng] 00:28:43,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:28:43,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,098 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-25_00-28-43.log]
[testng] 00:28:43,099 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54576c97 - End of configuration.
[testng] [2024-03-25 00:28:43,183] [pool-1-thread-12] Initializing /data/openjpeg/FacadeERROPJW.bmp:
[testng] 00:28:43,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:28:43,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,185 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-25_00-28-43.log]
[testng] 00:28:43,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24b41cf9 - End of configuration.
[testng] [2024-03-25 00:28:43,206] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm:
[testng] 00:28:43,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:28:43,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-25_00-28-43.log]
[testng] 00:28:43,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c19c39 - End of configuration.
[testng] [2024-03-25 00:28:43,300] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm:
[testng] 00:28:43,300 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:28:43,300 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,301 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-25_00-28-43.log]
[testng] 00:28:43,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a2a0e - End of configuration.
[testng] [2024-03-25 00:28:43,372] [pool-1-thread-9] Initializing /data/ome/654Atemp.stk:
[testng] 00:28:43,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:28:43,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,373 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-25_00-28-43.log]
[testng] 00:28:43,374 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cb58d0b - End of configuration.
[testng] [2024-03-25 00:28:43,621] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes1.bmp:
[testng] 00:28:43,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:28:43,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-25_00-28-43.log]
[testng] 00:28:43,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cd5b03f - End of configuration.
[testng] [2024-03-25 00:28:43,640] [pool-1-thread-7] Initializing /data/ome/embryo.lsm:
[testng] 00:28:43,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:28:43,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,641 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-25_00-28-43.log]
[testng] 00:28:43,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59bc6f57 - End of configuration.
[testng] [2024-03-25 00:28:43,708] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg:
[testng] 00:28:43,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:28:43,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-25_00-28-43.log]
[testng] 00:28:43,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3e485a - End of configuration.
[testng] [2024-03-25 00:28:43,727] [pool-1-thread-5] Initializing /data/ome/Cmidmusgfp1.lsm:
[testng] 00:28:43,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:28:43,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-25_00-28-43.log]
[testng] 00:28:43,729 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e7d38e1 - End of configuration.
[testng] [2024-03-25 00:28:43,765] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm:
[testng] 00:28:43,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:28:43,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-25_00-28-43.log]
[testng] 00:28:43,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4767b840 - End of configuration.
[testng] [2024-03-25 00:28:43,778] [pool-1-thread-3] Initializing /data/ome/worm.tiff:
[testng] 00:28:43,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:28:43,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-25_00-28-43.log]
[testng] 00:28:43,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dc32415 - End of configuration.
[testng] [2024-03-25 00:28:43,908] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF:
[testng] 00:28:43,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:28:43,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:28:43,909 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-25_00-28-43.log]
[testng] 00:28:43,910 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c8e50c7 - End of configuration.
[testng] [2024-03-25 00:28:47,471] [pool-1-thread-6] Initializing /data/ome/C1.lsm:
[testng] [2024-03-25 00:28:47,524] [pool-1-thread-1] Initializing /data/ome/anusgfpzs.lsm:
[testng] [2024-03-25 00:28:47,567] [pool-1-thread-5] Initializing /data/sdub/sdub.pattern:
[testng] [2024-03-25 00:28:48,046] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Bretagne2.jpg:
[testng] [2024-03-25 00:28:48,058] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic:
[testng] [2024-03-25 00:28:48,139] [pool-1-thread-10] Initializing /data/openjpeg/Rome.ppm:
[testng] [2024-03-25 00:28:48,159] [pool-1-thread-2] Initializing /data/openjpeg/Facade.bmp:
[testng] [2024-03-25 00:28:48,604] [pool-1-thread-4] Initializing /data/ome/C1midmusnorm.lsm:
[testng] [2024-03-25 00:28:49,419] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk:
[testng] [2024-03-25 00:28:50,353] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne1.bmp:
[testng] [2024-03-25 00:28:50,381] [pool-1-thread-12] Initializing /data/openjpeg/Facade.pnm:
[testng] [2024-03-25 00:28:50,405] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.jp2:
[testng] [2024-03-25 00:28:50,587] [pool-1-thread-8] Initializing /data/openjpeg/Rome.bmp:
[testng] [2024-03-25 00:28:50,795] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff:
[testng] [2024-03-25 00:28:51,289] [pool-1-thread-6] Initializing /data/ome/cb_1.r3d:
[testng] [2024-03-25 00:28:51,543] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.j2k:
[testng] [2024-03-25 00:28:51,744] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.ppm:
[testng] [2024-03-25 00:28:51,916] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF:
[testng] [2024-03-25 00:28:52,095] [pool-1-thread-8] Initializing /data/ome/compressed2ChZ.lsm:
[testng] [2024-03-25 00:28:52,780] [pool-1-thread-2] Initializing /data/ome/tinyTest.d3d.dv:
[testng] [2024-03-25 00:28:53,020] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes2.ppm:
[testng] [2024-03-25 00:28:53,168] [pool-1-thread-2] Initializing /data/openjpeg/thumb_facade.jpg:
[testng] [2024-03-25 00:28:53,447] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne2.bmp:
[testng] [2024-03-25 00:28:53,771] [pool-1-thread-12] Initializing /data/mouse-kidney/mouse-kidney.lif:
[testng] [2024-03-25 00:28:53,948] [pool-1-thread-9] Initializing /data/ome/CHOBI_d3d.dv:
[testng] [2024-03-25 00:28:54,020] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes1.j2k:
[testng] [2024-03-25 00:28:54,137] [pool-1-thread-10] Initializing /data/ome/011B1_Morph.HTD:
[testng] [2024-03-25 00:28:55,024] [pool-1-thread-7] Initializing /data/ome/210502-0min-NFKB-4.r3d:
[testng] [2024-03-25 00:28:55,157] [pool-1-thread-8] Initializing /data/openjpeg/Rome.jp2:
[testng] [2024-03-25 00:28:55,248] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.bmp:
[testng] [2024-03-25 00:28:55,397] [pool-1-thread-1] Initializing /data/ome/C1lowmusgfp.lsm:
[testng] [2024-03-25 00:28:55,712] [pool-1-thread-9] Initializing /data/kidney_TFl/kidney_TFl.pattern:
[testng] [2024-03-25 00:28:56,207] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Cevennes2.jpg:
[testng] [2024-03-25 00:28:56,286] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes1.jpg:
[testng] [2024-03-25 00:28:56,579] [pool-1-thread-12] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF:
[testng] [2024-03-25 00:28:56,917] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.ppm:
[testng] [2024-03-25 00:28:56,941] [pool-1-thread-2] Initializing /data/ome/n2_plate18_P24_w1.tif:
[testng] [2024-03-25 00:28:57,105] [pool-1-thread-1] Initializing /data/TAABA/TAABA.pattern:
[testng] [2024-03-25 00:29:00,479] [pool-1-thread-11] Initializing /data/ome/t1_pos1-0_5x.lsm:
[testng] [2024-03-25 00:29:00,655] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne2.j2k:
[testng] [2024-03-25 00:29:00,844] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Rome.jpg:
[testng] [2024-03-25 00:29:00,966] [pool-1-thread-4] Initializing /data/ome/Cpharynxzs1.lsm:
[testng] [2024-03-25 00:29:01,290] [pool-1-thread-6] Initializing /data/openjpeg/FacadeERROPJ.bmp:
[testng] [2024-03-25 00:29:01,579] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Bretagne1.jpg:
[testng] [2024-03-25 00:29:01,686] [pool-1-thread-12] Initializing /data/10-31 E1/10-31 E1.tif:
[testng] [2024-03-25 00:29:02,181] [pool-1-thread-9] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK:
[testng] [2024-03-25 00:29:02,382] [pool-1-thread-7] 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 54 seconds
Finished: SUCCESS