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Started by upstream project "BIOFORMATS-test-repo" build number 29 originally caused by: Started by upstream project "Trigger" build number 32 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/jenkins5377219315806223231.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_3878_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] 02:22:37,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:22:37,842 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:22:37,842 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:22:37,843 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:22:37,844 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:22:37,845 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:22:37,845 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:22:37,845 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:22:37,846 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:22:37,847 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:22:37,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:22:37,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:22:38,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:22:38,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:22:38,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:22:38,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:22:38,185 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:22:38,186 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:22:38,186 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:22:38,187 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:22:38,187 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:22:38,189 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:22:38,189 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 343 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-10 02:22:38,204] [main] java.version = 17.0.2 [testng] 02:22:38,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:22:38,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:38,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-10_02-22-38.log] [testng] 02:22:38,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-04-10 02:22:38,395] [main] testng.directory = /data [testng] [2024-04-10 02:22:38,395] [main] testng.configDirectory = /config [testng] [2024-04-10 02:22:38,502] [main] testng.multiplier = 1.0 [testng] [2024-04-10 02:22:38,504] [main] testng.in-memory = false [testng] [2024-04-10 02:22:38,504] [main] testng.allow-missing = false [testng] [2024-04-10 02:22:38,504] [main] user.language = en [testng] [2024-04-10 02:22:38,504] [main] user.country = ${user.country} [testng] [2024-04-10 02:22:38,504] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-04-10 02:22:39,529] [main] ---------------------------------------- [testng] [2024-04-10 02:22:39,530] [main] Total files: 32 [testng] [2024-04-10 02:22:39,530] [main] Scan time: 1.025 s (32 ms/file) [testng] [2024-04-10 02:22:39,530] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-10 02:22:42,765] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:22:42,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:22:42,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:42,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-10_02-22-42.log] [testng] 02:22:42,768 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a15310d - End of configuration. [testng] [2024-04-10 02:22:42,828] [pool-1-thread-12] Initializing /data/keith/test2.1sc: [testng] 02:22:42,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:22:42,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:42,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-10_02-22-42.log] [testng] 02:22:42,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bad2032 - End of configuration. [testng] [2024-04-10 02:22:42,857] [pool-1-thread-11] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:22:42,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:22:42,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:42,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-10_02-22-42.log] [testng] 02:22:42,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55db36b1 - End of configuration. [testng] [2024-04-10 02:22:42,887] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] 02:22:42,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:22:42,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:42,889 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-10_02-22-42.log] [testng] 02:22:42,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@182ee732 - End of configuration. [testng] [2024-04-10 02:22:42,948] [pool-1-thread-9] Initializing /data/adrian/test_img.1sc: [testng] 02:22:42,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:22:42,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:42,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-10_02-22-42.log] [testng] 02:22:42,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aac21d4 - End of configuration. [testng] [2024-04-10 02:22:42,999] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc: [testng] 02:22:42,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:22:42,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-10_02-22-43.log] [testng] 02:22:43,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@463bfac - End of configuration. [testng] [2024-04-10 02:22:43,070] [pool-1-thread-7] Initializing /data/geert/good example1.1sc: [testng] 02:22:43,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:22:43,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-10_02-22-43.log] [testng] 02:22:43,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1589502b - End of configuration. [testng] [2024-04-10 02:22:43,164] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:22:43,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:22:43,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-10_02-22-43.log] [testng] 02:22:43,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c2c3771 - End of configuration. [testng] [2024-04-10 02:22:43,205] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:22:43,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:22:43,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,207 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-10_02-22-43.log] [testng] 02:22:43,207 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46f4e714 - End of configuration. [testng] [2024-04-10 02:22:43,245] [pool-1-thread-4] Initializing /data/keith/test.1sc: [testng] 02:22:43,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:22:43,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-10_02-22-43.log] [testng] 02:22:43,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18b76c7e - End of configuration. [testng] [2024-04-10 02:22:43,276] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc: [testng] 02:22:43,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:22:43,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-10_02-22-43.log] [testng] 02:22:43,278 |-INFO in ch.qos.logback.core.sift.SiftProcessor@486c0e67 - End of configuration. [testng] [2024-04-10 02:22:43,321] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:22:43,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:22:43,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:22:43,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-10_02-22-43.log] [testng] 02:22:43,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d31e599 - End of configuration. [testng] [2024-04-10 02:22:45,731] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-04-10 02:22:45,785] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-04-10 02:22:45,831] [pool-1-thread-4] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-04-10 02:22:45,854] [pool-1-thread-3] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-04-10 02:22:45,893] [pool-1-thread-1] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-04-10 02:22:45,911] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-04-10 02:22:45,933] [pool-1-thread-10] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-04-10 02:22:46,057] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-04-10 02:22:46,324] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-04-10 02:22:46,372] [pool-1-thread-8] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-04-10 02:22:46,454] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] [2024-04-10 02:22:46,604] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-04-10 02:22:46,626] [pool-1-thread-4] Initializing /data/samples/imagesEight.1sc: [testng] [2024-04-10 02:22:46,776] [pool-1-thread-1] Initializing /data/samples/Criterion.1sc: [testng] [2024-04-10 02:22:46,830] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-04-10 02:22:46,946] [pool-1-thread-3] Initializing /data/qa-29469/good.1sc: [testng] [2024-04-10 02:22:47,072] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-04-10 02:22:47,187] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-04-10 02:22:47,238] [pool-1-thread-4] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-04-10 02:22:47,479] [pool-1-thread-5] 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: 17 seconds Finished: SUCCESS