Started by upstream project "BIOFORMATS-test-repo" build number 201
originally caused by:
Started by upstream project "Trigger" build number 226
originally caused by:
Started by user devspace
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins15051473679434834523.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_31930_merge_ci -v /uod/idr/repos/curated/biorad-gel:/data -v /uod/idr-scratch/merge-ci/curated/biorad-gel:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 15:19:15,928 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 15:19:15,929 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service.
[testng] 15:19:15,929 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 15:19:15,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 15:19:15,930 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 15:19:15,931 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 15:19:15,931 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 15:19:15,931 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 15:19:15,931 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 15:19:15,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 15:19:15,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 15:19:15,933 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 15:19:16,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 15:19:16,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 15:19:16,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 15:19:16,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 15:19:16,111 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 15:19:16,112 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 15:19:16,112 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 15:19:16,112 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 15:19:16,112 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration.
[testng] 15:19:16,113 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point
[testng] 15:19:16,113 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 182 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-09-26 15:19:16,122] [main] java.version = 21
[testng] 15:19:16,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 15:19:16,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:16,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-26_15-19-16.log]
[testng] 15:19:16,165 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration.
[testng] [2024-09-26 15:19:16,166] [main] testng.directory = /data
[testng] [2024-09-26 15:19:16,166] [main] testng.configDirectory = /config
[testng] [2024-09-26 15:19:16,174] [main] testng.multiplier = 1.0
[testng] [2024-09-26 15:19:16,175] [main] testng.in-memory = false
[testng] [2024-09-26 15:19:16,175] [main] testng.allow-missing = false
[testng] [2024-09-26 15:19:16,175] [main] user.language = en
[testng] [2024-09-26 15:19:16,175] [main] user.country = ${user.country}
[testng] [2024-09-26 15:19:16,175] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-09-26 15:19:20,982] [main] ----------------------------------------
[testng] [2024-09-26 15:19:20,982] [main] Total files: 32
[testng] [2024-09-26 15:19:20,982] [main] Scan time: 4.807 s (150 ms/file)
[testng] [2024-09-26 15:19:20,983] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-09-26 15:19:50,780] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] 15:19:50,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 15:19:50,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:50,782 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-26_15-19-50.log]
[testng] 15:19:50,782 |-INFO in ch.qos.logback.core.sift.SiftProcessor@695b69ef - End of configuration.
[testng] [2024-09-26 15:19:51,322] [pool-1-thread-12] Initializing /data/qa-29469/bad2.1sc:
[testng] 15:19:51,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 15:19:51,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:51,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-26_15-19-51.log]
[testng] 15:19:51,324 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e312ad6 - End of configuration.
[testng] [2024-09-26 15:19:51,831] [pool-1-thread-11] Initializing /data/david/Opened in imageJ.tiff:
[testng] 15:19:51,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 15:19:51,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:51,832 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-26_15-19-51.log]
[testng] 15:19:51,833 |-INFO in ch.qos.logback.core.sift.SiftProcessor@229cd53e - End of configuration.
[testng] [2024-09-26 15:19:53,585] [pool-1-thread-10] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] 15:19:53,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 15:19:53,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:53,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-26_15-19-53.log]
[testng] 15:19:53,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d4e10d9 - End of configuration.
[testng] [2024-09-26 15:19:54,229] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] 15:19:54,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 15:19:54,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:54,230 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-26_15-19-54.log]
[testng] 15:19:54,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f40231a - End of configuration.
[testng] [2024-09-26 15:19:54,774] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] 15:19:54,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 15:19:54,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:54,776 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-26_15-19-54.log]
[testng] 15:19:54,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dff486a - End of configuration.
[testng] [2024-09-26 15:19:56,687] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] 15:19:56,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 15:19:56,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:56,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-26_15-19-56.log]
[testng] 15:19:56,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d4f6e44 - End of configuration.
[testng] [2024-09-26 15:19:57,197] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 15:19:57,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 15:19:57,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:57,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-26_15-19-57.log]
[testng] 15:19:57,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bb792c6 - End of configuration.
[testng] [2024-09-26 15:19:57,758] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] 15:19:57,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 15:19:57,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:57,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-26_15-19-57.log]
[testng] 15:19:57,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7be1c089 - End of configuration.
[testng] [2024-09-26 15:19:59,727] [pool-1-thread-4] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] 15:19:59,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 15:19:59,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:19:59,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-26_15-19-59.log]
[testng] 15:19:59,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b790b9b - End of configuration.
[testng] [2024-09-26 15:20:01,488] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc:
[testng] 15:20:01,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 15:20:01,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:20:01,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-26_15-20-01.log]
[testng] 15:20:01,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c3035a2 - End of configuration.
[testng] [2024-09-26 15:20:02,005] [pool-1-thread-2] Initializing /data/qa-29459/bad.jpg:
[testng] 15:20:02,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 15:20:02,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:20:02,006 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-26_15-20-02.log]
[testng] 15:20:02,006 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41cb5e43 - End of configuration.
[testng] [2024-09-26 15:20:06,803] [pool-1-thread-2] Initializing /data/keith/test.1sc:
[testng] [2024-09-26 15:20:07,314] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] [2024-09-26 15:20:08,923] [pool-1-thread-7] Initializing /data/keith/test2.1sc:
[testng] [2024-09-26 15:20:09,350] [pool-1-thread-12] Initializing /data/geert/bad example1.1sc:
[testng] [2024-09-26 15:20:09,802] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc:
[testng] [2024-09-26 15:20:10,353] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2024-09-26 15:20:10,851] [pool-1-thread-6] Initializing /data/keith/PF020328saur v3.1sc:
[testng] [2024-09-26 15:20:11,314] [pool-1-thread-3] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2024-09-26 15:20:15,371] [pool-1-thread-6] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2024-09-26 15:20:15,584] [pool-1-thread-7] Initializing /data/samples/imagesEight.1sc:
[testng] [2024-09-26 15:20:16,406] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2024-09-26 15:20:17,023] [pool-1-thread-9] Initializing /data/qa-29469/bad3.1sc:
[testng] [2024-09-26 15:20:17,542] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] [2024-09-26 15:20:19,226] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2024-09-26 15:20:21,040] [pool-1-thread-8] Initializing /data/geert/good example1.1sc:
[testng] [2024-09-26 15:20:21,611] [pool-1-thread-11] Initializing /data/qa-16880/c-src v7.1sc:
[testng] [2024-09-26 15:20:22,127] [pool-1-thread-3] Initializing /data/geert/bad example1.jpg:
[testng] [2024-09-26 15:20:22,297] [pool-1-thread-4] Initializing /data/keith/pg020410saur3.1sc:
[testng] [2024-09-26 15:20:22,759] [pool-1-thread-5] Initializing /data/qa-29469/good.1sc:
[testng] [2024-09-26 15:20:24,675] [pool-1-thread-6] Initializing /data/adrian/test_img.1sc:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 21 seconds
Finished: SUCCESS