Started by upstream project "BIOFORMATS-test-repo" build number 234 originally caused by: Started by upstream project "Trigger" build number 259 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/jenkins13789947894414724804.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_36826_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] 04:06:41,779 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:06:41,781 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:06:41,781 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:06:41,782 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:06:41,783 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:06:41,783 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:06:41,783 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:06:41,783 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:06:41,784 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:06:41,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:06:41,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:06:41,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:06:42,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:06:42,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:06:42,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:06:42,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:06:42,066 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:06:42,066 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:06:42,066 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:06:42,067 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:06:42,067 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:06:42,068 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:06:42,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 284 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-25 04:06:42,079] [main] java.version = 1.8.0_342 [testng] 04:06:42,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:06:42,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:06:42,130 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-25_04-06-42.log] [testng] 04:06:42,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-25 04:06:42,134] [main] testng.directory = /data [testng] [2024-10-25 04:06:42,134] [main] testng.configDirectory = /config [testng] [2024-10-25 04:06:42,146] [main] testng.multiplier = 1.0 [testng] [2024-10-25 04:06:42,147] [main] testng.in-memory = false [testng] [2024-10-25 04:06:42,147] [main] testng.allow-missing = false [testng] [2024-10-25 04:06:42,147] [main] user.language = en [testng] [2024-10-25 04:06:42,147] [main] user.country = ${user.country} [testng] [2024-10-25 04:06:42,147] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-25 04:06:46,278] [main] ---------------------------------------- [testng] [2024-10-25 04:06:46,278] [main] Total files: 32 [testng] [2024-10-25 04:06:46,278] [main] Scan time: 4.131 s (129 ms/file) [testng] [2024-10-25 04:06:46,278] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-25 04:07:08,196] [pool-1-thread-1] Initializing /data/geert/good example1.1sc.jpg: [testng] 04:07:08,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:07:08,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:08,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-25_04-07-08.log] [testng] 04:07:08,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3583ab89 - End of configuration. [testng] [2024-10-25 04:07:08,350] [pool-1-thread-12] Initializing /data/geert/good example1.1sc: [testng] 04:07:08,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:07:08,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:08,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-25_04-07-08.log] [testng] 04:07:08,352 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4df71a96 - End of configuration. [testng] [2024-10-25 04:07:08,794] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 04:07:08,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:07:08,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:08,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-25_04-07-08.log] [testng] 04:07:08,795 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27ddbea3 - End of configuration. [testng] [2024-10-25 04:07:09,248] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] 04:07:09,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:07:09,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:09,249 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-25_04-07-09.log] [testng] 04:07:09,249 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14efa2a0 - End of configuration. [testng] [2024-10-25 04:07:09,408] [pool-1-thread-9] Initializing /data/qa-29469/bad2.1sc: [testng] 04:07:09,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:07:09,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:09,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-25_04-07-09.log] [testng] 04:07:09,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e983fd0 - End of configuration. [testng] [2024-10-25 04:07:09,863] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] 04:07:09,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:07:09,863 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:09,864 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-25_04-07-09.log] [testng] 04:07:09,864 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66dbf6c - End of configuration. [testng] [2024-10-25 04:07:11,551] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 04:07:11,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:07:11,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:11,553 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-25_04-07-11.log] [testng] 04:07:11,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76713ea7 - End of configuration. [testng] [2024-10-25 04:07:12,035] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] 04:07:12,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:07:12,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:12,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-25_04-07-12.log] [testng] 04:07:12,036 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39ddd7d0 - End of configuration. [testng] [2024-10-25 04:07:12,470] [pool-1-thread-5] Initializing /data/keith/test.1sc: [testng] 04:07:12,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:07:12,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:12,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-25_04-07-12.log] [testng] 04:07:12,471 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4526cb1e - End of configuration. [testng] [2024-10-25 04:07:12,938] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 04:07:12,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:07:12,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:12,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-25_04-07-12.log] [testng] 04:07:12,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@213dca92 - End of configuration. [testng] [2024-10-25 04:07:14,581] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 04:07:14,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:07:14,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:14,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-25_04-07-14.log] [testng] 04:07:14,582 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d760227 - End of configuration. [testng] [2024-10-25 04:07:14,997] [pool-1-thread-2] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:07:14,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:07:14,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:07:14,998 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-25_04-07-14.log] [testng] 04:07:14,998 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c1590b0 - End of configuration. [testng] [2024-10-25 04:07:19,916] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-10-25 04:07:21,666] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-10-25 04:07:22,082] [pool-1-thread-3] Initializing /data/adrian/test_img.1sc: [testng] [2024-10-25 04:07:22,516] [pool-1-thread-5] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-10-25 04:07:22,999] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-10-25 04:07:23,454] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-10-25 04:07:24,964] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-10-25 04:07:26,468] [pool-1-thread-1] Initializing /data/qa-29469/good.1sc: [testng] [2024-10-25 04:07:27,055] [pool-1-thread-12] Initializing /data/qa-29459/bad.1sc: [testng] [2024-10-25 04:07:27,480] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-10-25 04:07:31,971] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-10-25 04:07:32,543] [pool-1-thread-1] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-10-25 04:07:32,745] [pool-1-thread-6] Initializing /data/samples/Criterion.1sc: [testng] [2024-10-25 04:07:33,190] [pool-1-thread-8] Initializing /data/qa-29459/bad.jpg: [testng] [2024-10-25 04:07:33,335] [pool-1-thread-12] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-10-25 04:07:34,858] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-10-25 04:07:36,595] [pool-1-thread-9] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-10-25 04:07:37,045] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] [2024-10-25 04:07:37,472] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc: [testng] [2024-10-25 04:07:41,534] [pool-1-thread-3] Initializing /data/keith/PF020328saur v3.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 10 seconds Finished: SUCCESS