Started by upstream project "BIOFORMATS-test-repo" build number 22 originally caused by: Started by upstream project "Trigger" build number 25 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins8707079530039458776.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_2730_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 02:22:56,809 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:22:56,810 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:22:56,810 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:22:57,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:22:57,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:22:57,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:22:57,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:22:57,334 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:22:57,334 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:22:57,334 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:22:57,335 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:22:57,335 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@428640fa - End of configuration. [testng] 02:22:57,337 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6bd61f98 - Registering current configuration as safe fallback point [testng] 02:22:57,337 |-INFO in ch.qos.logback.classic.util.ContextInitializer@48aca48b - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 530 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-04 02:22:57,358] [main] java.version = 21 [testng] 02:22:57,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:22:57,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:57,442 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-04_02-22-57.log] [testng] 02:22:57,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-04-04 02:22:57,449] [main] testng.directory = /data [testng] [2024-04-04 02:22:57,450] [main] testng.configDirectory = /config [testng] [2024-04-04 02:22:57,470] [main] testng.multiplier = 1.0 [testng] [2024-04-04 02:22:57,472] [main] testng.in-memory = false [testng] [2024-04-04 02:22:57,473] [main] testng.allow-missing = false [testng] [2024-04-04 02:22:57,473] [main] user.language = en [testng] [2024-04-04 02:22:57,473] [main] user.country = ${user.country} [testng] [2024-04-04 02:22:57,473] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-04 02:22:58,768] [main] ---------------------------------------- [testng] [2024-04-04 02:22:58,768] [main] Total files: 32 [testng] [2024-04-04 02:22:58,768] [main] Scan time: 1.295 s (40 ms/file) [testng] [2024-04-04 02:22:58,769] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-04 02:23:02,837] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg: [testng] 02:23:02,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:23:02,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:02,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-04_02-23-02.log] [testng] 02:23:02,841 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45439703 - End of configuration. [testng] [2024-04-04 02:23:02,899] [pool-1-thread-12] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 02:23:02,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:23:02,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:02,902 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-04_02-23-02.log] [testng] 02:23:02,903 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70f3d793 - End of configuration. [testng] [2024-04-04 02:23:02,935] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] 02:23:02,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:23:02,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:02,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-04_02-23-02.log] [testng] 02:23:02,937 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d4e10d9 - End of configuration. [testng] [2024-04-04 02:23:02,999] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 02:23:02,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:23:03,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-04_02-23-03.log] [testng] 02:23:03,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e73a547 - End of configuration. [testng] [2024-04-04 02:23:03,085] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:23:03,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:23:03,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,086 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-04_02-23-03.log] [testng] 02:23:03,087 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b87af8d - End of configuration. [testng] [2024-04-04 02:23:03,131] [pool-1-thread-8] Initializing /data/qa-29469/bad3.1sc: [testng] 02:23:03,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:23:03,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-04_02-23-03.log] [testng] 02:23:03,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74483aa6 - End of configuration. [testng] [2024-04-04 02:23:03,180] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:23:03,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:23:03,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,181 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-04_02-23-03.log] [testng] 02:23:03,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60f66772 - End of configuration. [testng] [2024-04-04 02:23:03,225] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:23:03,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:23:03,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,228 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-04_02-23-03.log] [testng] 02:23:03,229 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d2daa66 - End of configuration. [testng] [2024-04-04 02:23:03,254] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc: [testng] 02:23:03,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:23:03,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,256 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-04_02-23-03.log] [testng] 02:23:03,257 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65abf03e - End of configuration. [testng] [2024-04-04 02:23:03,344] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:23:03,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:23:03,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,347 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-04_02-23-03.log] [testng] 02:23:03,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@740ca14a - End of configuration. [testng] [2024-04-04 02:23:03,368] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:23:03,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:23:03,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,371 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-04_02-23-03.log] [testng] 02:23:03,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c090868 - End of configuration. [testng] [2024-04-04 02:23:03,498] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:23:03,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:23:03,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:03,499 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-04_02-23-03.log] [testng] 02:23:03,500 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5930dc88 - End of configuration. [testng] [2024-04-04 02:23:06,068] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-04-04 02:23:06,148] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-04-04 02:23:06,263] [pool-1-thread-7] Initializing /data/samples/imagesEight.1sc: [testng] [2024-04-04 02:23:06,294] [pool-1-thread-12] Initializing /data/samples/Criterion.1sc: [testng] [2024-04-04 02:23:06,549] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-04-04 02:23:06,625] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-04-04 02:23:06,806] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-04-04 02:23:07,084] [pool-1-thread-5] Initializing /data/keith/test.1sc: [testng] [2024-04-04 02:23:07,101] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-04-04 02:23:07,178] [pool-1-thread-2] Initializing /data/qa-29459/bad.jpg: [testng] [2024-04-04 02:23:07,194] [pool-1-thread-10] Initializing /data/keith/test2.1sc: [testng] [2024-04-04 02:23:07,330] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-04-04 02:23:07,616] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc: [testng] [2024-04-04 02:23:07,848] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-04-04 02:23:08,008] [pool-1-thread-10] Initializing /data/qa-29469/good.1sc: [testng] [2024-04-04 02:23:08,069] [pool-1-thread-5] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-04-04 02:23:08,184] [pool-1-thread-12] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-04-04 02:23:08,401] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-04-04 02:23:08,612] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-04-04 02:23:08,670] [pool-1-thread-9] 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: 22 seconds Finished: SUCCESS