Started by upstream project "BIOFORMATS-test-repo" build number 304
originally caused by:
Started by upstream project "Trigger" build number 326
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/jenkins14686512062048416191.sh
+ '[' pcx = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_48058_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] 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] 00:34:36,428 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:34:36,429 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 00:34:36,429 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:34:36,430 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:34:36,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:34:36,431 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:34:36,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:34:36,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:34:36,432 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:34:36,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:34:36,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:34:36,433 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:34:36,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:34:36,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:34:36,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:34:36,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:34:36,630 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:34:36,631 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:34:36,631 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:34:36,631 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:34:36,631 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 00:34:36,632 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 00:34:36,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 200 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-31 00:34:36,641] [main] java.version = 11.0.16
[testng] 00:34:36,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:34:36,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:36,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-31_00-34-36.log]
[testng] 00:34:36,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-12-31 00:34:36,690] [main] testng.directory = /data
[testng] [2024-12-31 00:34:36,690] [main] testng.configDirectory = /config
[testng] [2024-12-31 00:34:36,700] [main] testng.multiplier = 1.0
[testng] [2024-12-31 00:34:36,701] [main] testng.in-memory = false
[testng] [2024-12-31 00:34:36,702] [main] testng.allow-missing = false
[testng] [2024-12-31 00:34:36,702] [main] user.language = en
[testng] [2024-12-31 00:34:36,702] [main] user.country = ${user.country}
[testng] [2024-12-31 00:34:36,702] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-31 00:34:38,008] [main] ----------------------------------------
[testng] [2024-12-31 00:34:38,008] [main] Total files: 36
[testng] [2024-12-31 00:34:38,008] [main] Scan time: 1.306 s (36 ms/file)
[testng] [2024-12-31 00:34:38,008] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 35 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-31 00:34:39,623] [pool-1-thread-1] Initializing /data/generated/mri-stack22.pcx:
[testng] 00:34:39,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:34:39,624 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,626 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-31_00-34-39.log]
[testng] 00:34:39,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cf96ae0 - End of configuration.
[testng] [2024-12-31 00:34:39,677] [pool-1-thread-12] Initializing /data/generated/mri-stack16.pcx:
[testng] 00:34:39,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:34:39,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-31_00-34-39.log]
[testng] 00:34:39,679 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2672a72c - End of configuration.
[testng] [2024-12-31 00:34:39,693] [pool-1-thread-11] Initializing /data/generated/mri-stack3.pcx:
[testng] 00:34:39,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:34:39,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-31_00-34-39.log]
[testng] 00:34:39,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c84ce5b - End of configuration.
[testng] [2024-12-31 00:34:39,708] [pool-1-thread-10] Initializing /data/generated/mri-stack6.pcx:
[testng] 00:34:39,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:34:39,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-31_00-34-39.log]
[testng] 00:34:39,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61c5e6fa - End of configuration.
[testng] [2024-12-31 00:34:39,722] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx:
[testng] 00:34:39,722 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:34:39,722 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,723 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-31_00-34-39.log]
[testng] 00:34:39,723 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ea901f - End of configuration.
[testng] [2024-12-31 00:34:39,746] [pool-1-thread-8] Initializing /data/generated/mri-stack13.pcx:
[testng] 00:34:39,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:34:39,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,747 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-31_00-34-39.log]
[testng] 00:34:39,748 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52c1735f - End of configuration.
[testng] [2024-12-31 00:34:39,760] [pool-1-thread-7] Initializing /data/generated/mri-stack18.pcx:
[testng] 00:34:39,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:34:39,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,761 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-31_00-34-39.log]
[testng] 00:34:39,761 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58201415 - End of configuration.
[testng] [2024-12-31 00:34:39,771] [pool-1-thread-6] Initializing /data/generated/mri-stack14.pcx:
[testng] 00:34:39,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:34:39,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,772 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-31_00-34-39.log]
[testng] 00:34:39,772 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c669ba1 - End of configuration.
[testng] [2024-12-31 00:34:39,784] [pool-1-thread-5] Initializing /data/generated/mri-stack26.pcx:
[testng] 00:34:39,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:34:39,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-31_00-34-39.log]
[testng] 00:34:39,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5aaf6bdb - End of configuration.
[testng] [2024-12-31 00:34:39,796] [pool-1-thread-4] Initializing /data/josh/Screenshots/nd2 color.pcx:
[testng] 00:34:39,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:34:39,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-31_00-34-39.log]
[testng] 00:34:39,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7239624e - End of configuration.
[testng] [2024-12-31 00:34:39,810] [pool-1-thread-3] Initializing /data/generated/mri-stack0.pcx:
[testng] 00:34:39,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:34:39,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-31_00-34-39.log]
[testng] 00:34:39,811 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10ec7b60 - End of configuration.
[testng] [2024-12-31 00:34:39,821] [pool-1-thread-2] Initializing /data/generated/mri-stack10.pcx:
[testng] 00:34:39,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:34:39,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:34:39,822 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-31_00-34-39.log]
[testng] 00:34:39,822 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4426443 - End of configuration.
[testng] [2024-12-31 00:34:42,744] [pool-1-thread-1] Initializing /data/generated/mri-stack23.pcx:
[testng] [2024-12-31 00:34:42,755] [pool-1-thread-8] Initializing /data/generated/mri-stack5.pcx:
[testng] [2024-12-31 00:34:42,766] [pool-1-thread-12] Initializing /data/josh/Screenshots/leica-lif.pcx:
[testng] [2024-12-31 00:34:42,783] [pool-1-thread-6] Initializing /data/josh/Screenshots/biorad color off.pcx:
[testng] [2024-12-31 00:34:42,800] [pool-1-thread-7] Initializing /data/generated/mri-stack2.pcx:
[testng] [2024-12-31 00:34:42,810] [pool-1-thread-5] Initializing /data/josh/Screenshots/fv1000color.pcx:
[testng] [2024-12-31 00:34:42,827] [pool-1-thread-9] Initializing /data/josh/Screenshots/deltavision.pcx:
[testng] [2024-12-31 00:34:42,841] [pool-1-thread-3] Initializing /data/generated/mri-stack12.pcx:
[testng] [2024-12-31 00:34:42,852] [pool-1-thread-11] Initializing /data/generated/mri-stack15.pcx:
[testng] [2024-12-31 00:34:42,861] [pool-1-thread-2] Initializing /data/generated/mri-stack7.pcx:
[testng] [2024-12-31 00:34:42,872] [pool-1-thread-10] Initializing /data/josh/Screenshots/epscolor.pcx:
[testng] [2024-12-31 00:34:42,892] [pool-1-thread-4] Initializing /data/generated/mri-stack19.pcx:
[testng] [2024-12-31 00:34:44,027] [pool-1-thread-1] Initializing /data/generated/mri-stack11.pcx:
[testng] [2024-12-31 00:34:44,044] [pool-1-thread-4] Initializing /data/generated/mri-stack17.pcx:
[testng] [2024-12-31 00:34:44,061] [pool-1-thread-8] Initializing /data/generated/mri-stack24.pcx:
[testng] [2024-12-31 00:34:44,074] [pool-1-thread-3] Initializing /data/generated/mri-stack1.pcx:
[testng] [2024-12-31 00:34:44,087] [pool-1-thread-11] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx:
[testng] [2024-12-31 00:34:44,099] [pool-1-thread-7] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx:
[testng] [2024-12-31 00:34:44,112] [pool-1-thread-2] Initializing /data/generated/mri-stack21.pcx:
[testng] [2024-12-31 00:34:44,460] [pool-1-thread-10] Initializing /data/generated/mri-stack8.pcx:
[testng] [2024-12-31 00:34:44,535] [pool-1-thread-12] Initializing /data/generated/mri-stack25.pcx:
[testng] [2024-12-31 00:34:44,612] [pool-1-thread-9] Initializing /data/generated/mri-stack9.pcx:
[testng] [2024-12-31 00:34:44,646] [pool-1-thread-5] Initializing /data/generated/mri-stack20.pcx:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1855, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 11 seconds
Finished: SUCCESS