Started by upstream project "BIOFORMATS-test-repo" build number 366
originally caused by:
Started by upstream project "Trigger" build number 392
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins13372149927313512501.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_58427_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 05:00:17,071 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 05:00:17,072 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service.
[testng] 05:00:17,072 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:00:17,073 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:00:17,073 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:00:17,073 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:00:17,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:00:17,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:00:17,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:00:17,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:00:17,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:00:17,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:00:17,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:00:17,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:00:17,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:00:17,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:00:17,256 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:00:17,256 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:00:17,256 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:00:17,256 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:00:17,256 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration.
[testng] 05:00:17,257 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point
[testng] 05:00:17,257 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 183 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-06 05:00:17,266] [main] java.version = 21
[testng] 05:00:17,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:00:17,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:17,309 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-06_05-00-17.log]
[testng] 05:00:17,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration.
[testng] [2025-03-06 05:00:17,312] [main] testng.directory = /data
[testng] [2025-03-06 05:00:17,312] [main] testng.configDirectory = /config
[testng] [2025-03-06 05:00:17,320] [main] testng.multiplier = 1.0
[testng] [2025-03-06 05:00:17,321] [main] testng.in-memory = false
[testng] [2025-03-06 05:00:17,321] [main] testng.allow-missing = false
[testng] [2025-03-06 05:00:17,321] [main] user.language = en
[testng] [2025-03-06 05:00:17,321] [main] user.country = ${user.country}
[testng] [2025-03-06 05:00:17,321] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-06 05:00:21,670] [main] ----------------------------------------
[testng] [2025-03-06 05:00:21,670] [main] Total files: 32
[testng] [2025-03-06 05:00:21,670] [main] Scan time: 4.349 s (135 ms/file)
[testng] [2025-03-06 05:00:21,671] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-06 05:00:52,100] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg:
[testng] 05:00:52,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:00:52,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:52,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-06_05-00-52.log]
[testng] 05:00:52,102 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f918bc0 - End of configuration.
[testng] [2025-03-06 05:00:52,337] [pool-1-thread-12] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] 05:00:52,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:00:52,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:52,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-06_05-00-52.log]
[testng] 05:00:52,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78b85f99 - End of configuration.
[testng] [2025-03-06 05:00:52,886] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc:
[testng] 05:00:52,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:00:52,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:52,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-06_05-00-52.log]
[testng] 05:00:52,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d4046c2 - End of configuration.
[testng] [2025-03-06 05:00:53,411] [pool-1-thread-10] Initializing /data/geert/good example1.1sc:
[testng] 05:00:53,412 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:00:53,412 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:53,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-06_05-00-53.log]
[testng] 05:00:53,413 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c769e5a - End of configuration.
[testng] [2025-03-06 05:00:53,925] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg:
[testng] 05:00:53,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:00:53,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:53,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-06_05-00-53.log]
[testng] 05:00:53,927 |-INFO in ch.qos.logback.core.sift.SiftProcessor@327d1670 - End of configuration.
[testng] [2025-03-06 05:00:54,150] [pool-1-thread-8] Initializing /data/qa-29469/bad3.1sc:
[testng] 05:00:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:00:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:54,151 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-06_05-00-54.log]
[testng] 05:00:54,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9c49573 - End of configuration.
[testng] [2025-03-06 05:00:54,691] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] 05:00:54,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:00:54,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:54,692 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-06_05-00-54.log]
[testng] 05:00:54,692 |-INFO in ch.qos.logback.core.sift.SiftProcessor@227864ce - End of configuration.
[testng] [2025-03-06 05:00:55,293] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc:
[testng] 05:00:55,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:00:55,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:55,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-06_05-00-55.log]
[testng] 05:00:55,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ef48e01 - End of configuration.
[testng] [2025-03-06 05:00:55,862] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc:
[testng] 05:00:55,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:00:55,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:55,862 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-06_05-00-55.log]
[testng] 05:00:55,863 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7670c1e4 - End of configuration.
[testng] [2025-03-06 05:00:56,440] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc:
[testng] 05:00:56,440 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:00:56,440 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:56,440 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-06_05-00-56.log]
[testng] 05:00:56,441 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58134973 - End of configuration.
[testng] [2025-03-06 05:00:56,968] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] 05:00:56,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:00:56,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:56,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-06_05-00-56.log]
[testng] 05:00:56,970 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70f3d793 - End of configuration.
[testng] [2025-03-06 05:00:59,265] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 05:00:59,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:00:59,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:00:59,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-06_05-00-59.log]
[testng] 05:00:59,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c378640 - End of configuration.
[testng] [2025-03-06 05:01:06,562] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2025-03-06 05:01:08,913] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc:
[testng] [2025-03-06 05:01:09,642] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] [2025-03-06 05:01:12,015] [pool-1-thread-12] Initializing /data/samples/imagesEight.1sc:
[testng] [2025-03-06 05:01:12,574] [pool-1-thread-7] Initializing /data/samples/Criterion.1sc:
[testng] [2025-03-06 05:01:13,334] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] [2025-03-06 05:01:15,540] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg:
[testng] [2025-03-06 05:01:15,743] [pool-1-thread-1] Initializing /data/keith/test2.1sc:
[testng] [2025-03-06 05:01:16,337] [pool-1-thread-10] Initializing /data/keith/test.1sc:
[testng] [2025-03-06 05:01:16,916] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] [2025-03-06 05:01:17,532] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2025-03-06 05:01:23,283] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2025-03-06 05:01:24,160] [pool-1-thread-10] Initializing /data/qa-29459/bad.1sc:
[testng] [2025-03-06 05:01:25,001] [pool-1-thread-1] Initializing /data/qa-16880/c-src v7.1sc:
[testng] [2025-03-06 05:01:25,729] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] [2025-03-06 05:01:28,129] [pool-1-thread-7] Initializing /data/qa-29469/good.1sc:
[testng] [2025-03-06 05:01:28,713] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2025-03-06 05:01:30,943] [pool-1-thread-2] Initializing /data/david/Opened in imageJ.tiff:
[testng] [2025-03-06 05:01:34,139] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2025-03-06 05:01:34,714] [pool-1-thread-3] Initializing /data/geert/good example1.1sc.jpg:
[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 35 seconds
Finished: SUCCESS