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Started by upstream project "BIOFORMATS-test-repo" build number 79 originally caused by: Started by upstream project "Trigger" build number 87 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/jenkins9663098486913488250.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_12079_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 02:27:31,824 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:27:31,827 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 02:27:31,827 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:27:31,828 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:27:31,829 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:27:31,829 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:27:31,829 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:27:31,829 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:27:31,830 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:27:31,831 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:27:31,831 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:27:31,832 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:27:32,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:27:32,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:27:32,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:27:32,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:27:32,126 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:27:32,126 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:27:32,126 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:27:32,127 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:27:32,127 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 02:27:32,128 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 02:27:32,128 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 298 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-30 02:27:32,141] [main] java.version = 21 [testng] 02:27:32,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:27:32,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:32,211 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-30_02-27-32.log] [testng] 02:27:32,214 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-05-30 02:27:32,220] [main] testng.directory = /data [testng] [2024-05-30 02:27:32,220] [main] testng.configDirectory = /config [testng] [2024-05-30 02:27:32,243] [main] testng.multiplier = 1.0 [testng] [2024-05-30 02:27:32,244] [main] testng.in-memory = false [testng] [2024-05-30 02:27:32,245] [main] testng.allow-missing = false [testng] [2024-05-30 02:27:32,245] [main] user.language = en [testng] [2024-05-30 02:27:32,245] [main] user.country = ${user.country} [testng] [2024-05-30 02:27:32,245] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-30 02:27:33,330] [main] ---------------------------------------- [testng] [2024-05-30 02:27:33,330] [main] Total files: 32 [testng] [2024-05-30 02:27:33,330] [main] Scan time: 1.085 s (33 ms/file) [testng] [2024-05-30 02:27:33,331] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-30 02:27:37,613] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg: [testng] 02:27:37,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:27:37,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:37,615 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-30_02-27-37.log] [testng] 02:27:37,616 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a75cae1 - End of configuration. [testng] [2024-05-30 02:27:37,688] [pool-1-thread-12] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 02:27:37,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:27:37,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:37,691 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-30_02-27-37.log] [testng] 02:27:37,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f99cd35 - End of configuration. [testng] [2024-05-30 02:27:37,765] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] 02:27:37,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:27:37,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:37,766 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-30_02-27-37.log] [testng] 02:27:37,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@454c9ff1 - End of configuration. [testng] [2024-05-30 02:27:37,860] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 02:27:37,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:27:37,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:37,862 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-30_02-27-37.log] [testng] 02:27:37,863 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4872efef - End of configuration. [testng] [2024-05-30 02:27:37,963] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:27:37,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:27:37,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:37,964 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-30_02-27-37.log] [testng] 02:27:37,965 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49421aa - End of configuration. [testng] [2024-05-30 02:27:38,028] [pool-1-thread-8] Initializing /data/qa-29469/bad3.1sc: [testng] 02:27:38,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:27:38,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,029 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-30_02-27-38.log] [testng] 02:27:38,030 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e91734e - End of configuration. [testng] [2024-05-30 02:27:38,100] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:27:38,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:27:38,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-30_02-27-38.log] [testng] 02:27:38,103 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dfa9ee5 - End of configuration. [testng] [2024-05-30 02:27:38,158] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:27:38,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:27:38,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,159 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-30_02-27-38.log] [testng] 02:27:38,160 |-INFO in ch.qos.logback.core.sift.SiftProcessor@740ca14a - End of configuration. [testng] [2024-05-30 02:27:38,183] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc: [testng] 02:27:38,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:27:38,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-30_02-27-38.log] [testng] 02:27:38,184 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c090868 - End of configuration. [testng] [2024-05-30 02:27:38,252] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:27:38,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:27:38,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,254 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-30_02-27-38.log] [testng] 02:27:38,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5930dc88 - End of configuration. [testng] [2024-05-30 02:27:38,280] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:27:38,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:27:38,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,281 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-30_02-27-38.log] [testng] 02:27:38,281 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66d0e5c7 - End of configuration. [testng] [2024-05-30 02:27:38,413] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:27:38,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:27:38,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:27:38,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-30_02-27-38.log] [testng] 02:27:38,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@182f1328 - End of configuration. [testng] [2024-05-30 02:27:40,654] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-05-30 02:27:40,910] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-05-30 02:27:41,139] [pool-1-thread-12] Initializing /data/samples/imagesEight.1sc: [testng] [2024-05-30 02:27:41,170] [pool-1-thread-7] Initializing /data/samples/Criterion.1sc: [testng] [2024-05-30 02:27:41,710] [pool-1-thread-9] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-05-30 02:27:41,778] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-05-30 02:27:42,377] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-05-30 02:27:42,420] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-05-30 02:27:42,554] [pool-1-thread-10] Initializing /data/qa-29459/bad.jpg: [testng] [2024-05-30 02:27:42,563] [pool-1-thread-2] Initializing /data/keith/test2.1sc: [testng] [2024-05-30 02:27:42,586] [pool-1-thread-5] Initializing /data/keith/test.1sc: [testng] [2024-05-30 02:27:42,779] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-05-30 02:27:43,457] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc: [testng] [2024-05-30 02:27:43,637] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-05-30 02:27:44,082] [pool-1-thread-2] Initializing /data/qa-29469/good.1sc: [testng] [2024-05-30 02:27:44,299] [pool-1-thread-9] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-05-30 02:27:44,445] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-05-30 02:27:44,588] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-05-30 02:27:44,676] [pool-1-thread-11] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-05-30 02:27:44,861] [pool-1-thread-7] 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: 21 seconds Finished: SUCCESS