Started by upstream project "BIOFORMATS-test-repo" build number 368
originally caused by:
Started by upstream project "Trigger" build number 394
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins8356100002932638011.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_58672_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.8.9-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Resolving artifacts
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.8.9-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
compile-tests:
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.8.9-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Resolving artifacts
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.8.9-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[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] 05:17:10,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 05:17:10,506 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service.
[testng] 05:17:10,506 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:17:10,507 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:17:10,507 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:17:10,508 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:17:10,508 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:17:10,508 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:17:10,508 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:17:10,509 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:17:10,509 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:17:10,509 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:17:10,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:17:10,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:17:10,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:17:10,688 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:17:10,692 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:17:10,693 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:17:10,693 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:17:10,694 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:17:10,694 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration.
[testng] 05:17:10,694 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point
[testng] 05:17:10,694 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 186 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-09 05:17:10,702] [main] java.version = 11.0.16
[testng] 05:17:10,705 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:17:10,705 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:17:10,746 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-09_05-17-10.log]
[testng] 05:17:10,747 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration.
[testng] [2025-03-09 05:17:10,749] [main] testng.directory = /data
[testng] [2025-03-09 05:17:10,749] [main] testng.configDirectory = /config
[testng] [2025-03-09 05:17:10,759] [main] testng.multiplier = 1.0
[testng] [2025-03-09 05:17:10,760] [main] testng.in-memory = false
[testng] [2025-03-09 05:17:10,760] [main] testng.allow-missing = false
[testng] [2025-03-09 05:17:10,760] [main] user.language = en
[testng] [2025-03-09 05:17:10,760] [main] user.country = ${user.country}
[testng] [2025-03-09 05:17:10,760] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-09 05:18:03,436] [main] ----------------------------------------
[testng] [2025-03-09 05:18:03,436] [main] Total files: 25
[testng] [2025-03-09 05:18:03,437] [main] Scan time: 52.676 s (2107 ms/file)
[testng] [2025-03-09 05:18:03,437] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-09 05:18:56,206] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] 05:18:56,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:18:56,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:56,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-09_05-18-56.log]
[testng] 05:18:56,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@392b25b6 - End of configuration.
[testng] [2025-03-09 05:18:56,970] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] 05:18:56,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:18:56,971 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:56,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-09_05-18-56.log]
[testng] 05:18:56,975 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66d3eac0 - End of configuration.
[testng] [2025-03-09 05:18:57,141] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] 05:18:57,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:18:57,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:57,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-09_05-18-57.log]
[testng] 05:18:57,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@603a6fee - End of configuration.
[testng] [2025-03-09 05:18:58,064] [pool-1-thread-10] Initializing /data/imagic/13008.dm2:
[testng] 05:18:58,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:18:58,065 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:58,065 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-09_05-18-58.log]
[testng] 05:18:58,066 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47d3b024 - End of configuration.
[testng] [2025-03-09 05:18:58,962] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png:
[testng] 05:18:58,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:18:58,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:58,963 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-09_05-18-58.log]
[testng] 05:18:58,963 |-INFO in ch.qos.logback.core.sift.SiftProcessor@aa71cef - End of configuration.
[testng] [2025-03-09 05:18:59,127] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng] 05:18:59,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:18:59,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:59,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-09_05-18-59.log]
[testng] 05:18:59,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5262b3ca - End of configuration.
[testng] [2025-03-09 05:18:59,294] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 05:18:59,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:18:59,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:59,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-09_05-18-59.log]
[testng] 05:18:59,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3723c2b4 - End of configuration.
[testng] [2025-03-09 05:18:59,446] [pool-1-thread-6] Initializing /data/pang/signed:
[testng] 05:18:59,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:18:59,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:18:59,447 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-09_05-18-59.log]
[testng] 05:18:59,447 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6350de90 - End of configuration.
[testng] [2025-03-09 05:19:00,398] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png:
[testng] 05:19:00,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:19:00,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:19:00,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-09_05-19-00.log]
[testng] 05:19:00,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51a24530 - End of configuration.
[testng] [2025-03-09 05:19:00,618] [pool-1-thread-4] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] 05:19:00,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:19:00,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:19:00,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-09_05-19-00.log]
[testng] 05:19:00,619 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2f44a4 - End of configuration.
[testng] [2025-03-09 05:19:01,635] [pool-1-thread-3] Initializing /data/pang/10500x-o4:
[testng] 05:19:01,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:19:01,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:19:01,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-09_05-19-01.log]
[testng] 05:19:01,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d2d12b8 - End of configuration.
[testng] [2025-03-09 05:19:02,764] [pool-1-thread-2] Initializing /data/imagic/TEM 10118.dm2:
[testng] 05:19:02,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:19:02,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:19:02,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-09_05-19-02.log]
[testng] 05:19:02,765 |-INFO in ch.qos.logback.core.sift.SiftProcessor@753e3 - End of configuration.
[testng] [2025-03-09 05:19:09,792] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] [2025-03-09 05:19:09,969] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] [2025-03-09 05:19:10,135] [pool-1-thread-7] Initializing /data/pang/grating025k.dm2:
[testng] [2025-03-09 05:19:11,060] [pool-1-thread-5] Initializing /data/pang/unproc-auto:
[testng] [2025-03-09 05:19:12,102] [pool-1-thread-8] Initializing /data/imagic/1-1.dm2:
[testng] [2025-03-09 05:19:16,196] [pool-1-thread-1] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 24 seconds
Finished: SUCCESS