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Started by upstream project "BIOFORMATS-test-repo" build number 246 originally caused by: Started by upstream project "Trigger" build number 270 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins6751949999420058766.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38818_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 03:54:48,631 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:54:48,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 03:54:48,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:54:48,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:54:48,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:54:48,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:54:48,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:54:48,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:54:48,635 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:54:48,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:54:48,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:54:48,636 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:54:48,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:54:48,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:54:48,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:54:48,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:54:48,821 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:54:48,821 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:54:48,821 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:54:48,822 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:54:48,822 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 03:54:48,823 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 03:54:48,823 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 188 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-05 03:54:48,831] [main] java.version = 11.0.16 [testng] 03:54:48,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:54:48,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:54:48,874 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-05_03-54-48.log] [testng] 03:54:48,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-05 03:54:48,878] [main] testng.directory = /data [testng] [2024-11-05 03:54:48,878] [main] testng.configDirectory = /config [testng] [2024-11-05 03:54:48,887] [main] testng.multiplier = 1.0 [testng] [2024-11-05 03:54:48,888] [main] testng.in-memory = false [testng] [2024-11-05 03:54:48,888] [main] testng.allow-missing = false [testng] [2024-11-05 03:54:48,888] [main] user.language = en [testng] [2024-11-05 03:54:48,888] [main] user.country = ${user.country} [testng] [2024-11-05 03:54:48,889] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-05 03:54:52,203] [main] ---------------------------------------- [testng] [2024-11-05 03:54:52,203] [main] Total files: 22 [testng] [2024-11-05 03:54:52,203] [main] Scan time: 3.314 s (150 ms/file) [testng] [2024-11-05 03:54:52,204] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-05 03:55:07,552] [pool-1-thread-1] Initializing /data/converted/clown8c.tif: [testng] 03:55:07,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:55:07,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:07,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-05_03-55-07.log] [testng] 03:55:07,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@628c4f57 - End of configuration. [testng] [2024-11-05 03:55:08,333] [pool-1-thread-12] Initializing /data/alex/AFAset0003.ips: [testng] 03:55:08,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:55:08,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:08,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-05_03-55-08.log] [testng] 03:55:08,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1919ec54 - End of configuration. [testng] [2024-11-05 03:55:08,671] [pool-1-thread-11] Initializing /data/converted/clown8c.ipw: [testng] 03:55:08,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:55:08,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:08,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-05_03-55-08.log] [testng] 03:55:08,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47e7dc82 - End of configuration. [testng] [2024-11-05 03:55:08,983] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 03:55:08,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:55:08,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:08,984 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-05_03-55-08.log] [testng] 03:55:08,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f25b784 - End of configuration. [testng] [2024-11-05 03:55:09,321] [pool-1-thread-9] Initializing /data/converted/mitosis-test.tif: [testng] 03:55:09,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:55:09,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:09,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-05_03-55-09.log] [testng] 03:55:09,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15240b - End of configuration. [testng] [2024-11-05 03:55:10,226] [pool-1-thread-8] Initializing /data/converted/dub01.pic: [testng] 03:55:10,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:55:10,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:10,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-05_03-55-10.log] [testng] 03:55:10,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b43939a - End of configuration. [testng] [2024-11-05 03:55:10,554] [pool-1-thread-7] Initializing /data/converted/dub01.ipw: [testng] 03:55:10,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:55:10,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:10,555 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-05_03-55-10.log] [testng] 03:55:10,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cb4eda - End of configuration. [testng] [2024-11-05 03:55:10,881] [pool-1-thread-6] Initializing /data/converted/clown.ipw: [testng] 03:55:10,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:55:10,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:10,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-05_03-55-10.log] [testng] 03:55:10,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17189322 - End of configuration. [testng] [2024-11-05 03:55:11,215] [pool-1-thread-5] Initializing /data/samples/PROBE.TIF: [testng] 03:55:11,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:55:11,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:11,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-05_03-55-11.log] [testng] 03:55:11,216 |-INFO in ch.qos.logback.core.sift.SiftProcessor@338947b - End of configuration. [testng] [2024-11-05 03:55:11,520] [pool-1-thread-4] Initializing /data/converted/mitosis-test.seq: [testng] 03:55:11,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:55:11,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:11,521 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-05_03-55-11.log] [testng] 03:55:11,522 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35e646e1 - End of configuration. [testng] [2024-11-05 03:55:11,866] [pool-1-thread-3] Initializing /data/samples/TISSUE.TIF: [testng] 03:55:11,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:55:11,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:11,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-05_03-55-11.log] [testng] 03:55:11,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@190a1859 - End of configuration. [testng] [2024-11-05 03:55:12,622] [pool-1-thread-2] Initializing /data/samples/HEART.SEQ: [testng] 03:55:12,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:55:12,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:55:12,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-05_03-55-12.log] [testng] 03:55:12,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5517552 - End of configuration. [testng] [2024-11-05 03:55:17,053] [pool-1-thread-6] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-11-05 03:55:17,879] [pool-1-thread-11] Initializing /data/converted/mitosis-test.ipw: [testng] [2024-11-05 03:55:18,218] [pool-1-thread-8] Initializing /data/converted/clown.tif: [testng] [2024-11-05 03:55:18,576] [pool-1-thread-4] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-11-05 03:55:19,374] [pool-1-thread-5] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] [2024-11-05 03:55:19,700] [pool-1-thread-7] Initializing /data/converted/dub01.seq: [testng] [2024-11-05 03:55:20,024] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] [2024-11-05 03:55:20,368] [pool-1-thread-10] Initializing /data/xiuwen/head2.seq: [testng] [2024-11-05 03:55:22,232] [pool-1-thread-1] Initializing /data/converted/clown.seq: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 8 seconds Finished: SUCCESS