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Started by upstream project "BIOFORMATS-test-repo" build number 23 originally caused by: Started by upstream project "Trigger" build number 26 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9021902740726207383.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_2894_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] 02:28:35,010 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:28:35,012 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:28:35,012 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:28:35,013 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:28:35,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:28:35,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:28:35,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:28:35,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:28:35,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:28:35,014 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:28:35,014 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:28:35,015 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:28:35,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:28:35,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:28:35,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:28:35,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:28:35,352 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:28:35,353 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:28:35,353 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:28:35,353 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:28:35,353 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:28:35,354 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:28:35,354 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 340 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-05 02:28:35,364] [main] java.version = 1.8.0_342 [testng] 02:28:35,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:28:35,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:35,587 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-05_02-28-35.log] [testng] 02:28:35,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-05 02:28:35,590] [main] testng.directory = /data [testng] [2024-04-05 02:28:35,590] [main] testng.configDirectory = /config [testng] [2024-04-05 02:28:35,603] [main] testng.multiplier = 1.0 [testng] [2024-04-05 02:28:35,603] [main] testng.in-memory = false [testng] [2024-04-05 02:28:35,603] [main] testng.allow-missing = false [testng] [2024-04-05 02:28:35,603] [main] user.language = en [testng] [2024-04-05 02:28:35,603] [main] user.country = ${user.country} [testng] [2024-04-05 02:28:35,604] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-05 02:28:36,507] [main] ---------------------------------------- [testng] [2024-04-05 02:28:36,507] [main] Total files: 32 [testng] [2024-04-05 02:28:36,508] [main] Scan time: 0.903 s (28 ms/file) [testng] [2024-04-05 02:28:36,508] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-05 02:28:39,548] [pool-1-thread-1] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:28:39,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:28:39,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,549 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-05_02-28-39.log] [testng] 02:28:39,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18d29b2 - End of configuration. [testng] [2024-04-05 02:28:39,566] [pool-1-thread-12] Initializing /data/geert/good example1.1sc.jpg: [testng] 02:28:39,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:28:39,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,567 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-05_02-28-39.log] [testng] 02:28:39,567 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3978fdae - End of configuration. [testng] [2024-04-05 02:28:39,585] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 02:28:39,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:28:39,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-05_02-28-39.log] [testng] 02:28:39,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@565cb8a7 - End of configuration. [testng] [2024-04-05 02:28:39,648] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 02:28:39,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:28:39,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-05_02-28-39.log] [testng] 02:28:39,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74c4753c - End of configuration. [testng] [2024-04-05 02:28:39,713] [pool-1-thread-9] Initializing /data/qa-29469/bad3.1sc: [testng] 02:28:39,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:28:39,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-05_02-28-39.log] [testng] 02:28:39,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@604f4ea6 - End of configuration. [testng] [2024-04-05 02:28:39,751] [pool-1-thread-8] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:28:39,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:28:39,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,751 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-05_02-28-39.log] [testng] 02:28:39,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64e6d090 - End of configuration. [testng] [2024-04-05 02:28:39,792] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 02:28:39,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:28:39,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-05_02-28-39.log] [testng] 02:28:39,793 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7777ce7e - End of configuration. [testng] [2024-04-05 02:28:39,843] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:28:39,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:28:39,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-05_02-28-39.log] [testng] 02:28:39,845 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71d53a33 - End of configuration. [testng] [2024-04-05 02:28:39,863] [pool-1-thread-5] Initializing /data/keith/test2.1sc: [testng] 02:28:39,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:28:39,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,864 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-05_02-28-39.log] [testng] 02:28:39,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@525c5166 - End of configuration. [testng] [2024-04-05 02:28:39,880] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 02:28:39,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:28:39,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-05_02-28-39.log] [testng] 02:28:39,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64862558 - End of configuration. [testng] [2024-04-05 02:28:39,912] [pool-1-thread-3] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:28:39,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:28:39,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,913 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-05_02-28-39.log] [testng] 02:28:39,913 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f4247c3 - End of configuration. [testng] [2024-04-05 02:28:39,929] [pool-1-thread-2] Initializing /data/keith/test.1sc: [testng] 02:28:39,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:28:39,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:28:39,930 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-05_02-28-39.log] [testng] 02:28:39,931 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ad0d8ac - End of configuration. [testng] [2024-04-05 02:28:41,630] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] [2024-04-05 02:28:41,660] [pool-1-thread-5] Initializing /data/samples/Criterion.1sc: [testng] [2024-04-05 02:28:41,689] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-04-05 02:28:41,753] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-04-05 02:28:41,781] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-04-05 02:28:41,808] [pool-1-thread-12] Initializing /data/qa-29459/bad.1sc: [testng] [2024-04-05 02:28:41,844] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-04-05 02:28:41,883] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc: [testng] [2024-04-05 02:28:42,053] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-04-05 02:28:42,107] [pool-1-thread-10] Initializing /data/qa-29459/bad.jpg: [testng] [2024-04-05 02:28:42,193] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-04-05 02:28:42,281] [pool-1-thread-11] Initializing /data/geert/bad example1.jpg: [testng] [2024-04-05 02:28:42,879] [pool-1-thread-10] Initializing /data/samples/imagesEight.1sc: [testng] [2024-04-05 02:28:43,036] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-04-05 02:28:43,190] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-04-05 02:28:43,357] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-04-05 02:28:43,421] [pool-1-thread-11] Initializing /data/qa-29469/good.1sc: [testng] [2024-04-05 02:28:43,624] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-04-05 02:28:43,674] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-04-05 02:28:43,706] [pool-1-thread-1] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 12 seconds Finished: SUCCESS