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Started by upstream project "BIOFORMATS-test-repo" build number 123 originally caused by: Started by upstream project "Trigger" build number 140 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins15146149360957233918.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_19295_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] 1 warning 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] 02:23:15,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:23:15,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:23:15,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:23:15,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:23:15,561 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:23:15,562 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:23:15,562 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:23:15,562 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:23:15,562 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5e600dd5 - End of configuration. [testng] 02:23:15,563 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@a38c7fe - Registering current configuration as safe fallback point [testng] 02:23:15,563 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6fdbe764 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 416 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-17 02:23:15,589] [main] java.version = 17.0.2 [testng] 02:23:15,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:23:15,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:15,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-17_02-23-15.log] [testng] 02:23:15,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-17 02:23:15,654] [main] testng.directory = /data [testng] [2024-07-17 02:23:15,654] [main] testng.configDirectory = /config [testng] [2024-07-17 02:23:15,665] [main] testng.multiplier = 1.0 [testng] [2024-07-17 02:23:15,667] [main] testng.in-memory = false [testng] [2024-07-17 02:23:15,667] [main] testng.allow-missing = false [testng] [2024-07-17 02:23:15,667] [main] user.language = en [testng] [2024-07-17 02:23:15,667] [main] user.country = ${user.country} [testng] [2024-07-17 02:23:15,667] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-17 02:23:16,799] [main] ---------------------------------------- [testng] [2024-07-17 02:23:16,799] [main] Total files: 32 [testng] [2024-07-17 02:23:16,799] [main] Scan time: 1.132 s (35 ms/file) [testng] [2024-07-17 02:23:16,799] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-17 02:23:20,196] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:23:20,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:23:20,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-17_02-23-20.log] [testng] 02:23:20,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e1084f2 - End of configuration. [testng] [2024-07-17 02:23:20,287] [pool-1-thread-12] Initializing /data/keith/test2.1sc: [testng] 02:23:20,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:23:20,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-17_02-23-20.log] [testng] 02:23:20,289 |-INFO in ch.qos.logback.core.sift.SiftProcessor@698bf392 - End of configuration. [testng] [2024-07-17 02:23:20,326] [pool-1-thread-11] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:23:20,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:23:20,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,328 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-17_02-23-20.log] [testng] 02:23:20,329 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b3bc315 - End of configuration. [testng] [2024-07-17 02:23:20,349] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] 02:23:20,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:23:20,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-17_02-23-20.log] [testng] 02:23:20,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@766be0b6 - End of configuration. [testng] [2024-07-17 02:23:20,403] [pool-1-thread-9] Initializing /data/adrian/test_img.1sc: [testng] 02:23:20,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:23:20,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,404 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-17_02-23-20.log] [testng] 02:23:20,405 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34bbcb71 - End of configuration. [testng] [2024-07-17 02:23:20,452] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc: [testng] 02:23:20,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:23:20,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-17_02-23-20.log] [testng] 02:23:20,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49563241 - End of configuration. [testng] [2024-07-17 02:23:20,498] [pool-1-thread-7] Initializing /data/geert/good example1.1sc: [testng] 02:23:20,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:23:20,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,499 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-17_02-23-20.log] [testng] 02:23:20,499 |-INFO in ch.qos.logback.core.sift.SiftProcessor@350162b7 - End of configuration. [testng] [2024-07-17 02:23:20,562] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:23:20,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:23:20,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-17_02-23-20.log] [testng] 02:23:20,564 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aac21d4 - End of configuration. [testng] [2024-07-17 02:23:20,598] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:23:20,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:23:20,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,599 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-17_02-23-20.log] [testng] 02:23:20,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@463bfac - End of configuration. [testng] [2024-07-17 02:23:20,636] [pool-1-thread-4] Initializing /data/keith/test.1sc: [testng] 02:23:20,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:23:20,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-17_02-23-20.log] [testng] 02:23:20,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f731d9e - End of configuration. [testng] [2024-07-17 02:23:20,677] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc: [testng] 02:23:20,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:23:20,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-17_02-23-20.log] [testng] 02:23:20,679 |-INFO in ch.qos.logback.core.sift.SiftProcessor@309adead - End of configuration. [testng] [2024-07-17 02:23:20,727] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:23:20,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:23:20,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:23:20,729 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-17_02-23-20.log] [testng] 02:23:20,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ec6927b - End of configuration. [testng] [2024-07-17 02:23:22,681] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-07-17 02:23:22,783] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-07-17 02:23:22,813] [pool-1-thread-4] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-07-17 02:23:23,104] [pool-1-thread-10] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-07-17 02:23:23,125] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-07-17 02:23:23,145] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-07-17 02:23:23,383] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-07-17 02:23:23,489] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-07-17 02:23:23,731] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-07-17 02:23:23,798] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-07-17 02:23:23,882] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] [2024-07-17 02:23:24,217] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-07-17 02:23:24,256] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc: [testng] [2024-07-17 02:23:24,401] [pool-1-thread-2] Initializing /data/samples/Criterion.1sc: [testng] [2024-07-17 02:23:24,469] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-07-17 02:23:24,580] [pool-1-thread-12] Initializing /data/qa-29469/good.1sc: [testng] [2024-07-17 02:23:24,673] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-07-17 02:23:24,939] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-07-17 02:23:25,021] [pool-1-thread-7] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-07-17 02:23:25,309] [pool-1-thread-3] Initializing /data/qa-29469/bad3.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 19 seconds Finished: SUCCESS