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Started by upstream project "BIOFORMATS-test-repo" build number 97 originally caused by: Started by upstream project "Trigger" build number 108 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/jenkins8276758470362850169.sh + '[' visitech = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_14914_merge_ci -v /uod/idr/repos/curated/visitech:/data -v /uod/idr-scratch/merge-ci/curated/visitech:/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] 01:21:45,129 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:21:45,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:21:45,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:45,132 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:45,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:21:45,133 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:21:45,134 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:21:45,134 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:45,135 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:45,136 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:21:45,136 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:21:45,136 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:21:45,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:21:45,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:21:45,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:21:45,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:21:45,447 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:21:45,448 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:21:45,448 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:21:45,448 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:21:45,449 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:21:45,450 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:21:45,450 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 315 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-19 01:21:45,468] [main] java.version = 17.0.2 [testng] 01:21:45,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:21:45,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:45,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-19_01-21-45.log] [testng] 01:21:45,532 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-19 01:21:45,536] [main] testng.directory = /data [testng] [2024-06-19 01:21:45,536] [main] testng.configDirectory = /config [testng] [2024-06-19 01:21:45,550] [main] testng.multiplier = 1.0 [testng] [2024-06-19 01:21:45,551] [main] testng.in-memory = false [testng] [2024-06-19 01:21:45,551] [main] testng.allow-missing = false [testng] [2024-06-19 01:21:45,551] [main] user.language = en [testng] [2024-06-19 01:21:45,551] [main] user.country = ${user.country} [testng] [2024-06-19 01:21:45,552] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-19 01:21:46,990] [main] ---------------------------------------- [testng] [2024-06-19 01:21:46,990] [main] Total files: 45 [testng] [2024-06-19 01:21:46,990] [main] Scan time: 1.437 s (31 ms/file) [testng] [2024-06-19 01:21:46,990] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-19 01:21:52,854] [pool-1-thread-1] Initializing /data/scott/2 channel_Z_timelaps/2 channel_Z_timelaps Report.html: [testng] 01:21:52,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:21:52,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:52,856 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-19_01-21-52.log] [testng] 01:21:52,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5331793b - End of configuration. [testng] [2024-06-19 01:21:52,889] [pool-1-thread-12] Initializing /data/scott/2 Channel z no timelaps/2 chanel z no time Report.html: [testng] 01:21:52,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:21:52,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:52,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-19_01-21-52.log] [testng] 01:21:52,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a109bf2 - End of configuration. [testng] [2024-06-19 01:21:52,923] [pool-1-thread-11] Initializing /data/oliver/20x/491 Report.html: [testng] 01:21:52,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:21:52,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:52,924 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-19_01-21-52.log] [testng] 01:21:52,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@356bafd4 - End of configuration. [testng] [2024-06-19 01:21:53,026] [pool-1-thread-10] Initializing /data/brian/060916-01-561.tif: [testng] 01:21:53,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:21:53,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-19_01-21-53.log] [testng] 01:21:53,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43013d29 - End of configuration. [testng] [2024-06-19 01:21:53,153] [pool-1-thread-9] Initializing /data/scott/2 channel z 6 xy stage positions/2 chanel z 3x2 GRID Report.html: [testng] 01:21:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:21:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-19_01-21-53.log] [testng] 01:21:53,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5eec0ea6 - End of configuration. [testng] [2024-06-19 01:21:53,282] [pool-1-thread-8] Initializing /data/brian/070613reA1_2 Report.html: [testng] 01:21:53,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:21:53,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,284 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-19_01-21-53.log] [testng] 01:21:53,285 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e041a58 - End of configuration. [testng] [2024-06-19 01:21:53,313] [pool-1-thread-7] Initializing /data/brian/060916-01 Report.html: [testng] 01:21:53,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:21:53,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-19_01-21-53.log] [testng] 01:21:53,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ffe561c - End of configuration. [testng] [2024-06-19 01:21:53,356] [pool-1-thread-6] Initializing /data/scott/2 channel_Z_timelaps/525.tif: [testng] 01:21:53,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:21:53,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,359 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-19_01-21-53.log] [testng] 01:21:53,359 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75d0499a - End of configuration. [testng] [2024-06-19 01:21:53,487] [pool-1-thread-5] Initializing /data/scott/2 Channel z timelaps original/2 channel_Z_timelaps Report.html: [testng] 01:21:53,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:21:53,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-19_01-21-53.log] [testng] 01:21:53,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52cdec01 - End of configuration. [testng] [2024-06-19 01:21:53,519] [pool-1-thread-4] Initializing /data/scott/2 Channel Z timelaps repeat/2 channel_Z_timelaps 2 Report.html: [testng] 01:21:53,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:21:53,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,521 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-19_01-21-53.log] [testng] 01:21:53,522 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d3966ac - End of configuration. [testng] [2024-06-19 01:21:53,549] [pool-1-thread-3] Initializing /data/kazem/noname Report.html: [testng] 01:21:53,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:21:53,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-19_01-21-53.log] [testng] 01:21:53,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23b2588f - End of configuration. [testng] [2024-06-19 01:21:53,634] [pool-1-thread-2] Initializing /data/brian/060916-01-488.tif: [testng] 01:21:53,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:21:53,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:53,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-19_01-21-53.log] [testng] 01:21:53,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a18e3a - End of configuration. [testng] [2024-06-19 01:21:57,679] [pool-1-thread-5] Initializing /data/scott/2 channel_Z_timelaps/597.tif: [testng] [2024-06-19 01:21:57,808] [pool-1-thread-1] Initializing /data/oliver/20x/488 Report.html: [testng] [2024-06-19 01:21:57,916] [pool-1-thread-7] Initializing /data/brian/ScreenShot.jpg: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 26 seconds Finished: SUCCESS