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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins13554084534221693970.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4215_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 test-automated: [testng] File leak detector installed [testng] 08:30:48,207 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 08:30:48,209 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 08:30:48,209 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:30:48,213 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:30:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:30:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:30:48,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:30:48,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:30:48,502 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:30:48,502 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 08:30:48,503 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 08:30:48,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 291 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 08:30:48,514] [main] java.version = 1.8.0_342 [testng] 08:30:48,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:30:48,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:30:48,570 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_08-30-48.log] [testng] 08:30:48,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 08:30:48,575] [main] testng.directory = /data [testng] [2024-04-12 08:30:48,575] [main] testng.configDirectory = /config [testng] [2024-04-12 08:30:48,593] [main] testng.multiplier = 1.0 [testng] [2024-04-12 08:30:48,594] [main] testng.in-memory = false [testng] [2024-04-12 08:30:48,594] [main] testng.allow-missing = false [testng] [2024-04-12 08:30:48,594] [main] user.language = en [testng] [2024-04-12 08:30:48,594] [main] user.country = ${user.country} [testng] [2024-04-12 08:30:48,594] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 08:31:00,498] [main] ---------------------------------------- [testng] [2024-04-12 08:31:00,499] [main] Total files: 944 [testng] [2024-04-12 08:31:00,499] [main] Scan time: 11.904 s (12 ms/file) [testng] [2024-04-12 08:31:00,499] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 08:31:31,278] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 08:31:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:31:31,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_08-31-31.log] [testng] 08:31:31,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21f42586 - End of configuration. [testng] [2024-04-12 08:31:31,378] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 08:31:31,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:31:31,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_08-31-31.log] [testng] 08:31:31,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@164150b - End of configuration. [testng] [2024-04-12 08:31:31,416] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 08:31:31,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:31:31,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_08-31-31.log] [testng] 08:31:31,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b4baa6e - End of configuration. [testng] [2024-04-12 08:31:31,436] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 08:31:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:31:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,437 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_08-31-31.log] [testng] 08:31:31,438 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b209bf - End of configuration. [testng] [2024-04-12 08:31:31,494] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 08:31:31,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:31:31,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_08-31-31.log] [testng] 08:31:31,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69a65c49 - End of configuration. [testng] [2024-04-12 08:31:31,533] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 08:31:31,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:31:31,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_08-31-31.log] [testng] 08:31:31,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6212b984 - End of configuration. [testng] [2024-04-12 08:31:31,564] [pool-1-thread-7] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 08:31:31,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:31:31,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_08-31-31.log] [testng] 08:31:31,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a657a7f - End of configuration. [testng] [2024-04-12 08:31:31,595] [pool-1-thread-6] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 08:31:31,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:31:31,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_08-31-31.log] [testng] 08:31:31,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2472c989 - End of configuration. [testng] [2024-04-12 08:31:31,631] [pool-1-thread-5] Initializing /data/brian/Series002_z01.tif: [testng] 08:31:31,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:31:31,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_08-31-31.log] [testng] 08:31:31,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@237bd84e - End of configuration. [testng] [2024-04-12 08:31:31,684] [pool-1-thread-4] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 08:31:31,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:31:31,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_08-31-31.log] [testng] 08:31:31,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a5de889 - End of configuration. [testng] [2024-04-12 08:31:31,713] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 08:31:31,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:31:31,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_08-31-31.log] [testng] 08:31:31,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@364127bc - End of configuration. [testng] [2024-04-12 08:31:31,747] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 08:31:31,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:31:31,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:31:31,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_08-31-31.log] [testng] 08:31:31,748 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5313f6bb - End of configuration. [testng] [2024-04-12 08:31:34,401] [pool-1-thread-5] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] [2024-04-12 08:31:34,426] [pool-1-thread-10] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] [2024-04-12 08:31:39,423] [pool-1-thread-6] Initializing /data/brian/Series002_z00_ch00.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 minutes 17 seconds Finished: SUCCESS