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Started by upstream project "BIOFORMATS-test-repo" build number 73 originally caused by: Started by upstream project "Trigger" build number 81 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins17973466290200300396.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_11095_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 test-automated: [testng] File leak detector installed [testng] 02:38:50,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:38:50,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:38:50,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:38:50,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:38:50,815 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:38:50,815 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:38:50,815 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:38:50,816 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:38:50,816 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 02:38:50,817 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 02:38:50,817 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 1026 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-24 02:38:50,827] [main] java.version = 1.8.0_342 [testng] 02:38:50,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:38:50,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:50,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-24_02-38-50.log] [testng] 02:38:50,923 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-24 02:38:50,925] [main] testng.directory = /data [testng] [2024-05-24 02:38:50,925] [main] testng.configDirectory = /config [testng] [2024-05-24 02:38:50,937] [main] testng.multiplier = 1.0 [testng] [2024-05-24 02:38:50,938] [main] testng.in-memory = false [testng] [2024-05-24 02:38:50,938] [main] testng.allow-missing = false [testng] [2024-05-24 02:38:50,938] [main] user.language = en [testng] [2024-05-24 02:38:50,938] [main] user.country = ${user.country} [testng] [2024-05-24 02:38:50,938] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-24 02:38:52,131] [main] ---------------------------------------- [testng] [2024-05-24 02:38:52,131] [main] Total files: 32 [testng] [2024-05-24 02:38:52,131] [main] Scan time: 1.193 s (37 ms/file) [testng] [2024-05-24 02:38:52,131] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-24 02:38:56,224] [pool-1-thread-1] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:38:56,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:38:56,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,227 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-24_02-38-56.log] [testng] 02:38:56,228 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49f38053 - End of configuration. [testng] [2024-05-24 02:38:56,251] [pool-1-thread-12] Initializing /data/geert/good example1.1sc.jpg: [testng] 02:38:56,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:38:56,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-24_02-38-56.log] [testng] 02:38:56,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f55cb42 - End of configuration. [testng] [2024-05-24 02:38:56,269] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 02:38:56,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:38:56,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-24_02-38-56.log] [testng] 02:38:56,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66000a5c - End of configuration. [testng] [2024-05-24 02:38:56,340] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 02:38:56,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:38:56,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,342 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-24_02-38-56.log] [testng] 02:38:56,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38df2e07 - End of configuration. [testng] [2024-05-24 02:38:56,406] [pool-1-thread-9] Initializing /data/qa-29469/bad3.1sc: [testng] 02:38:56,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:38:56,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,407 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-24_02-38-56.log] [testng] 02:38:56,408 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74af806c - End of configuration. [testng] [2024-05-24 02:38:56,441] [pool-1-thread-8] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:38:56,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:38:56,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,443 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-24_02-38-56.log] [testng] 02:38:56,443 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4387bb79 - End of configuration. [testng] [2024-05-24 02:38:56,482] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 02:38:56,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:38:56,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,484 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-24_02-38-56.log] [testng] 02:38:56,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77f22bb - End of configuration. [testng] [2024-05-24 02:38:56,541] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:38:56,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:38:56,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,542 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-24_02-38-56.log] [testng] 02:38:56,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a2c4594 - End of configuration. [testng] [2024-05-24 02:38:56,566] [pool-1-thread-5] Initializing /data/keith/test2.1sc: [testng] 02:38:56,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:38:56,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,567 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-24_02-38-56.log] [testng] 02:38:56,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57fa1044 - End of configuration. [testng] [2024-05-24 02:38:56,585] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 02:38:56,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:38:56,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-24_02-38-56.log] [testng] 02:38:56,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64becd6a - End of configuration. [testng] [2024-05-24 02:38:56,617] [pool-1-thread-3] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:38:56,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:38:56,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,618 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-24_02-38-56.log] [testng] 02:38:56,619 |-INFO in ch.qos.logback.core.sift.SiftProcessor@690edf09 - End of configuration. [testng] [2024-05-24 02:38:56,633] [pool-1-thread-2] Initializing /data/keith/test.1sc: [testng] 02:38:56,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:38:56,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:38:56,634 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-24_02-38-56.log] [testng] 02:38:56,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5231f30b - End of configuration. [testng] [2024-05-24 02:38:58,543] [pool-1-thread-3] Initializing /data/adrian/test_img.1sc: [testng] [2024-05-24 02:38:58,573] [pool-1-thread-5] Initializing /data/samples/Criterion.1sc: [testng] [2024-05-24 02:38:58,599] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-05-24 02:38:58,641] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-05-24 02:38:58,662] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-05-24 02:38:58,686] [pool-1-thread-6] Initializing /data/qa-29459/bad.1sc: [testng] [2024-05-24 02:38:58,733] [pool-1-thread-12] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-05-24 02:38:58,766] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc: [testng] [2024-05-24 02:38:58,850] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-05-24 02:38:58,985] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] [2024-05-24 02:38:59,295] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-05-24 02:38:59,485] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] [2024-05-24 02:38:59,894] [pool-1-thread-11] Initializing /data/samples/imagesEight.1sc: [testng] [2024-05-24 02:39:00,065] [pool-1-thread-12] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-05-24 02:39:00,233] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-05-24 02:39:00,290] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-05-24 02:39:00,382] [pool-1-thread-5] Initializing /data/qa-29469/good.1sc: [testng] [2024-05-24 02:39:00,492] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-05-24 02:39:00,559] [pool-1-thread-2] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-05-24 02:39:00,739] [pool-1-thread-10] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 20 seconds Finished: SUCCESS