Started by upstream project "BIOFORMATS-test-repo" build number 4 originally caused by: Started by upstream project "Trigger" build number 5 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins15383468399109070554.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_463_merge_ci -v /uod/idr/repos/curated/pcx:/data -v /uod/idr-scratch/merge-ci/curated/pcx:/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] 00:19:38,450 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:19:38,452 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 00:19:38,452 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:19:38,453 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:19:38,453 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:19:38,454 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:19:38,454 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:19:38,454 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:19:38,454 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:19:38,455 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:19:38,455 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:19:38,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:19:38,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:19:38,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:19:38,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:19:38,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:19:38,670 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:19:38,670 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:19:38,670 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:19:38,671 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:19:38,671 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 00:19:38,671 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 00:19:38,672 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 218 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-17 00:19:38,681] [main] java.version = 17.0.2 [testng] 00:19:38,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:19:38,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:38,734 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-17_00-19-38.log] [testng] 00:19:38,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-03-17 00:19:38,737] [main] testng.directory = /data [testng] [2024-03-17 00:19:38,737] [main] testng.configDirectory = /config [testng] [2024-03-17 00:19:38,745] [main] testng.multiplier = 1.0 [testng] [2024-03-17 00:19:38,746] [main] testng.in-memory = false [testng] [2024-03-17 00:19:38,746] [main] testng.allow-missing = false [testng] [2024-03-17 00:19:38,747] [main] user.language = en [testng] [2024-03-17 00:19:38,747] [main] user.country = ${user.country} [testng] [2024-03-17 00:19:38,747] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-17 00:19:39,181] [main] ---------------------------------------- [testng] [2024-03-17 00:19:39,181] [main] Total files: 36 [testng] [2024-03-17 00:19:39,181] [main] Scan time: 0.434 s (12 ms/file) [testng] [2024-03-17 00:19:39,182] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-17 00:19:40,244] [pool-1-thread-1] Initializing /data/generated/mri-stack25.pcx: [testng] 00:19:40,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:19:40,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-17_00-19-40.log] [testng] 00:19:40,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a1ff180 - End of configuration. [testng] [2024-03-17 00:19:40,312] [pool-1-thread-12] Initializing /data/generated/mri-stack24.pcx: [testng] 00:19:40,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:19:40,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-17_00-19-40.log] [testng] 00:19:40,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@740b3ca0 - End of configuration. [testng] [2024-03-17 00:19:40,322] [pool-1-thread-11] Initializing /data/generated/mri-stack17.pcx: [testng] 00:19:40,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:19:40,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-17_00-19-40.log] [testng] 00:19:40,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6079e00b - End of configuration. [testng] [2024-03-17 00:19:40,329] [pool-1-thread-10] Initializing /data/generated/mri-stack16.pcx: [testng] 00:19:40,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:19:40,329 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-17_00-19-40.log] [testng] 00:19:40,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71ef81a5 - End of configuration. [testng] [2024-03-17 00:19:40,336] [pool-1-thread-9] Initializing /data/generated/mri-stack20.pcx: [testng] 00:19:40,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:19:40,336 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,337 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-17_00-19-40.log] [testng] 00:19:40,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18120a93 - End of configuration. [testng] [2024-03-17 00:19:40,343] [pool-1-thread-8] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] 00:19:40,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:19:40,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,344 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-17_00-19-40.log] [testng] 00:19:40,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20af35e9 - End of configuration. [testng] [2024-03-17 00:19:40,353] [pool-1-thread-7] Initializing /data/generated/mri-stack6.pcx: [testng] 00:19:40,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:19:40,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-17_00-19-40.log] [testng] 00:19:40,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2082a6ed - End of configuration. [testng] [2024-03-17 00:19:40,360] [pool-1-thread-6] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] 00:19:40,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:19:40,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,360 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-17_00-19-40.log] [testng] 00:19:40,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5df9fdb - End of configuration. [testng] [2024-03-17 00:19:40,369] [pool-1-thread-5] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] 00:19:40,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:19:40,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-17_00-19-40.log] [testng] 00:19:40,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d67eb11 - End of configuration. [testng] [2024-03-17 00:19:40,379] [pool-1-thread-4] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] 00:19:40,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:19:40,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-17_00-19-40.log] [testng] 00:19:40,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a0f473 - End of configuration. [testng] [2024-03-17 00:19:40,389] [pool-1-thread-3] Initializing /data/generated/mri-stack12.pcx: [testng] 00:19:40,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:19:40,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-17_00-19-40.log] [testng] 00:19:40,390 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e4b1267 - End of configuration. [testng] [2024-03-17 00:19:40,397] [pool-1-thread-2] Initializing /data/generated/mri-stack23.pcx: [testng] 00:19:40,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:19:40,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:19:40,398 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-17_00-19-40.log] [testng] 00:19:40,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa4df47 - End of configuration. [testng] [2024-03-17 00:19:42,222] [pool-1-thread-1] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-03-17 00:19:42,229] [pool-1-thread-3] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-03-17 00:19:42,235] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx: [testng] [2024-03-17 00:19:42,241] [pool-1-thread-11] Initializing /data/generated/mri-stack3.pcx: [testng] [2024-03-17 00:19:42,247] [pool-1-thread-2] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-03-17 00:19:42,252] [pool-1-thread-12] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-03-17 00:19:42,258] [pool-1-thread-10] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-03-17 00:19:42,263] [pool-1-thread-7] Initializing /data/generated/mri-stack15.pcx: [testng] [2024-03-17 00:19:42,269] [pool-1-thread-8] Initializing /data/generated/mri-stack14.pcx: [testng] [2024-03-17 00:19:42,273] [pool-1-thread-5] Initializing /data/generated/mri-stack26.pcx: [testng] [2024-03-17 00:19:42,278] [pool-1-thread-6] Initializing /data/generated/mri-stack10.pcx: [testng] [2024-03-17 00:19:42,283] [pool-1-thread-4] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-03-17 00:19:42,663] [pool-1-thread-6] Initializing /data/generated/mri-stack0.pcx: [testng] [2024-03-17 00:19:42,689] [pool-1-thread-10] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] [2024-03-17 00:19:42,697] [pool-1-thread-5] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-03-17 00:19:42,736] [pool-1-thread-12] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-03-17 00:19:42,772] [pool-1-thread-1] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-03-17 00:19:42,779] [pool-1-thread-3] Initializing /data/generated/mri-stack13.pcx: [testng] [2024-03-17 00:19:42,786] [pool-1-thread-11] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-03-17 00:19:42,791] [pool-1-thread-2] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-03-17 00:19:42,795] [pool-1-thread-9] Initializing /data/generated/mri-stack5.pcx: [testng] [2024-03-17 00:19:42,801] [pool-1-thread-8] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-03-17 00:19:42,821] [pool-1-thread-7] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 9 seconds Finished: SUCCESS