Started by upstream project "BIOFORMATS-test-repo" build number 299
originally caused by:
Started by upstream project "Trigger" build number 321
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins5088046029659151569.sh
+ '[' mrw = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_47328_merge_ci -v /uod/idr/repos/curated/mrw:/data -v /uod/idr-scratch/merge-ci/curated/mrw:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 03:25:51,765 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 03:25:51,766 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 03:25:51,766 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:25:51,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:25:51,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 03:25:51,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 03:25:51,769 |-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] 03:25:51,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:25:51,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:25:51,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 03:25:51,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 03:25:51,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 03:25:51,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 03:25:51,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 03:25:51,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 03:25:51,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 03:25:51,957 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 03:25:51,957 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 03:25:51,957 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 03:25:51,958 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 03:25:51,958 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 03:25:51,958 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 03:25:51,959 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-26 03:25:51,967] [main] java.version = 21
[testng] 03:25:51,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 03:25:51,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:25:52,012 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-26_03-25-51.log]
[testng] 03:25:52,013 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-12-26 03:25:52,015] [main] testng.directory = /data
[testng] [2024-12-26 03:25:52,015] [main] testng.configDirectory = /config
[testng] [2024-12-26 03:25:52,024] [main] testng.multiplier = 1.0
[testng] [2024-12-26 03:25:52,024] [main] testng.in-memory = false
[testng] [2024-12-26 03:25:52,024] [main] testng.allow-missing = false
[testng] [2024-12-26 03:25:52,024] [main] user.language = en
[testng] [2024-12-26 03:25:52,024] [main] user.country = ${user.country}
[testng] [2024-12-26 03:25:52,024] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-26 03:25:52,463] [main] ----------------------------------------
[testng] [2024-12-26 03:25:52,464] [main] Total files: 19
[testng] [2024-12-26 03:25:52,464] [main] Scan time: 0.438 s (23 ms/file)
[testng] [2024-12-26 03:25:52,464] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 19 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-26 03:26:04,039] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw:
[testng] 03:26:04,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 03:26:04,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:04,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-26_03-26-04.log]
[testng] 03:26:04,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bccd111 - End of configuration.
[testng] [2024-12-26 03:26:04,486] [pool-1-thread-12] Initializing /data/samples/1600R PICT0005.MRW:
[testng] 03:26:04,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 03:26:04,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:04,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-26_03-26-04.log]
[testng] 03:26:04,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765e3ab8 - End of configuration.
[testng] [2024-12-26 03:26:05,018] [pool-1-thread-11] Initializing /data/samples/05-Sep-22_statua_0818.mrw:
[testng] 03:26:05,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 03:26:05,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:05,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-26_03-26-05.log]
[testng] 03:26:05,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e022fad - End of configuration.
[testng] [2024-12-26 03:26:05,472] [pool-1-thread-10] Initializing /data/samples/05-Sep-22_statua_0800.mrw:
[testng] 03:26:05,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 03:26:05,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:05,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-26_03-26-05.log]
[testng] 03:26:05,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2082a6ed - End of configuration.
[testng] [2024-12-26 03:26:06,050] [pool-1-thread-9] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw:
[testng] 03:26:06,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 03:26:06,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:06,051 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-26_03-26-06.log]
[testng] 03:26:06,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5df9fdb - End of configuration.
[testng] [2024-12-26 03:26:06,515] [pool-1-thread-8] Initializing /data/samples/3200R PICT0006.MRW:
[testng] 03:26:06,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 03:26:06,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:06,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-26_03-26-06.log]
[testng] 03:26:06,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d67eb11 - End of configuration.
[testng] [2024-12-26 03:26:07,009] [pool-1-thread-7] Initializing /data/samples/400R PICT0003.MRW:
[testng] 03:26:07,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 03:26:07,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:07,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-26_03-26-07.log]
[testng] 03:26:07,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a0f473 - End of configuration.
[testng] [2024-12-26 03:26:07,492] [pool-1-thread-6] Initializing /data/samples/05-Sep-22_statua_0837.mrw:
[testng] 03:26:07,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 03:26:07,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:07,493 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-26_03-26-07.log]
[testng] 03:26:07,494 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e4b1267 - End of configuration.
[testng] [2024-12-26 03:26:07,980] [pool-1-thread-5] Initializing /data/samples/05-Aug-21_duperele_0353.mrw:
[testng] 03:26:07,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 03:26:07,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:07,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-26_03-26-07.log]
[testng] 03:26:07,982 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa4df47 - End of configuration.
[testng] [2024-12-26 03:26:08,453] [pool-1-thread-4] Initializing /data/samples/200R PICT0002.MRW:
[testng] 03:26:08,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 03:26:08,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:08,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-26_03-26-08.log]
[testng] 03:26:08,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b12ea97 - End of configuration.
[testng] [2024-12-26 03:26:08,945] [pool-1-thread-3] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw:
[testng] 03:26:08,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 03:26:08,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:08,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-26_03-26-08.log]
[testng] 03:26:08,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@365b870d - End of configuration.
[testng] [2024-12-26 03:26:09,425] [pool-1-thread-2] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw:
[testng] 03:26:09,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 03:26:09,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:26:09,426 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-26_03-26-09.log]
[testng] 03:26:09,426 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f115d20 - End of configuration.
[testng] [2024-12-26 03:26:19,394] [pool-1-thread-9] Initializing /data/samples/800R PICT0010.MRW:
[testng] [2024-12-26 03:26:19,905] [pool-1-thread-1] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw:
[testng] [2024-12-26 03:26:20,452] [pool-1-thread-6] Initializing /data/samples/05-Sep-03_duperele_0472.mrw:
[testng] [2024-12-26 03:26:20,930] [pool-1-thread-5] Initializing /data/samples/05-Sep-14_sigma_0698.mrw:
[testng] [2024-12-26 03:26:21,405] [pool-1-thread-10] Initializing /data/samples/100R PICT0001.MRW:
[testng] [2024-12-26 03:26:21,916] [pool-1-thread-4] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw:
[testng] [2024-12-26 03:26:22,356] [pool-1-thread-3] Initializing /data/samples/05-Sep-07_nyc_0531.mrw:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1007, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 41 seconds
Finished: SUCCESS