Started by upstream project "BIOFORMATS-test-repo" build number 266 originally caused by: Started by upstream project "Trigger" build number 289 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins7582182497431215447.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42083_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 04:49:21,629 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:49:21,630 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 04:49:21,630 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:49:21,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:49:21,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:49:21,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:49:21,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:49:21,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:49:21,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:49:21,633 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:49:21,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:49:21,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:49:21,802 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:49:21,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:49:21,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:49:21,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:49:21,832 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:49:21,832 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:49:21,832 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:49:21,833 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:49:21,833 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 04:49:21,834 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 04:49:21,834 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-24 04:49:21,843] [main] java.version = 17.0.2 [testng] 04:49:21,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:49:21,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:49:21,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-24_04-49-21.log] [testng] 04:49:21,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-24 04:49:21,898] [main] testng.directory = /data [testng] [2024-11-24 04:49:21,898] [main] testng.configDirectory = /config [testng] [2024-11-24 04:49:21,907] [main] testng.multiplier = 1.0 [testng] [2024-11-24 04:49:21,908] [main] testng.in-memory = false [testng] [2024-11-24 04:49:21,908] [main] testng.allow-missing = false [testng] [2024-11-24 04:49:21,909] [main] user.language = en [testng] [2024-11-24 04:49:21,909] [main] user.country = ${user.country} [testng] [2024-11-24 04:49:21,909] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-24 04:49:37,276] [main] ---------------------------------------- [testng] [2024-11-24 04:49:37,277] [main] Total files: 944 [testng] [2024-11-24 04:49:37,277] [main] Scan time: 15.367 s (16 ms/file) [testng] [2024-11-24 04:49:37,277] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-24 04:51:44,759] [pool-1-thread-1] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 04:51:44,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:51:44,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:44,760 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-24_04-51-44.log] [testng] 04:51:44,761 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bf4b5bb - End of configuration. [testng] [2024-11-24 04:51:46,805] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 04:51:46,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:51:46,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:46,806 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-24_04-51-46.log] [testng] 04:51:46,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6efd9437 - End of configuration. [testng] [2024-11-24 04:51:49,210] [pool-1-thread-11] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 04:51:49,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:51:49,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:49,211 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-24_04-51-49.log] [testng] 04:51:49,211 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18349045 - End of configuration. [testng] [2024-11-24 04:51:51,315] [pool-1-thread-10] Initializing /data/brian/Series002_z01.tif: [testng] 04:51:51,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:51:51,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:51,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-24_04-51-51.log] [testng] 04:51:51,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25e69bbe - End of configuration. [testng] [2024-11-24 04:51:54,430] [pool-1-thread-9] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 04:51:54,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:51:54,430 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:54,431 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-24_04-51-54.log] [testng] 04:51:54,431 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35430566 - End of configuration. [testng] [2024-11-24 04:51:56,533] [pool-1-thread-8] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 04:51:56,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:51:56,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:56,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-24_04-51-56.log] [testng] 04:51:56,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2178fc12 - End of configuration. [testng] [2024-11-24 04:51:59,399] [pool-1-thread-7] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 04:51:59,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:51:59,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:51:59,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-24_04-51-59.log] [testng] 04:51:59,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57e6d10c - End of configuration. [testng] [2024-11-24 04:52:01,730] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 04:52:01,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:52:01,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:52:01,731 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-24_04-52-01.log] [testng] 04:52:01,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6265941d - End of configuration. [testng] [2024-11-24 04:52:03,735] [pool-1-thread-5] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 04:52:03,735 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:52:03,735 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:52:03,736 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-24_04-52-03.log] [testng] 04:52:03,736 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f5d248 - End of configuration. [testng] [2024-11-24 04:52:06,109] [pool-1-thread-4] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 04:52:06,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:52:06,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:52:06,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-24_04-52-06.log] [testng] 04:52:06,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eca686c - End of configuration. [testng] [2024-11-24 04:52:08,135] [pool-1-thread-3] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 04:52:08,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:52:08,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:52:08,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-24_04-52-08.log] [testng] 04:52:08,137 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bf75dbe - End of configuration. [testng] [2024-11-24 04:52:10,391] [pool-1-thread-2] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 04:52:10,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:52:10,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:52:10,392 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-24_04-52-10.log] [testng] 04:52:10,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7874dc53 - End of configuration. [testng] [2024-11-24 04:52:32,314] [pool-1-thread-11] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] [2024-11-24 04:53:56,611] [pool-1-thread-6] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] [2024-11-24 04:53:58,798] [pool-1-thread-1] Initializing /data/primate/Leica_Image.tif: [testng] 06:50:00,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:50:00,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:50:00,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-24_06-50-00.log] [testng] 06:50:00,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35b17c06 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 120 minutes 43 seconds Finished: SUCCESS