Started by upstream project "BIOFORMATS-test-repo" build number 78
originally caused by:
Started by upstream project "Trigger" build number 86
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins16410189378015486203.sh
+ '[' gatan-dm2 = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_11848_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] 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] 01:43:34,992 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:43:34,994 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:43:34,994 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:43:34,995 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:43:34,995 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:43:34,996 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:43:34,996 |-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] 01:43:34,996 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:43:34,996 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:43:34,998 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:43:34,999 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:43:34,999 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:43:35,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:43:35,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:43:35,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:43:35,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:43:35,213 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:43:35,213 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:43:35,214 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:43:35,214 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:43:35,214 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:43:35,215 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:43:35,215 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 219 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-29 01:43:35,225] [main] java.version = 17.0.2
[testng] 01:43:35,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:43:35,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:35,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-29_01-43-35.log]
[testng] 01:43:35,275 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-05-29 01:43:35,277] [main] testng.directory = /data
[testng] [2024-05-29 01:43:35,277] [main] testng.configDirectory = /config
[testng] [2024-05-29 01:43:35,287] [main] testng.multiplier = 1.0
[testng] [2024-05-29 01:43:35,288] [main] testng.in-memory = false
[testng] [2024-05-29 01:43:35,288] [main] testng.allow-missing = false
[testng] [2024-05-29 01:43:35,288] [main] user.language = en
[testng] [2024-05-29 01:43:35,288] [main] user.country = ${user.country}
[testng] [2024-05-29 01:43:35,289] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-29 01:43:36,172] [main] ----------------------------------------
[testng] [2024-05-29 01:43:36,172] [main] Total files: 25
[testng] [2024-05-29 01:43:36,172] [main] Scan time: 0.883 s (35 ms/file)
[testng] [2024-05-29 01:43:36,172] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-29 01:43:37,412] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png:
[testng] 01:43:37,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:43:37,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-29_01-43-37.log]
[testng] 01:43:37,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@585ce2cd - End of configuration.
[testng] [2024-05-29 01:43:37,425] [pool-1-thread-12] Initializing /data/imagic/13008.dm2:
[testng] 01:43:37,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:43:37,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-29_01-43-37.log]
[testng] 01:43:37,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ff9cc15 - End of configuration.
[testng] [2024-05-29 01:43:37,448] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png:
[testng] 01:43:37,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:43:37,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-29_01-43-37.log]
[testng] 01:43:37,450 |-INFO in ch.qos.logback.core.sift.SiftProcessor@769ecc81 - End of configuration.
[testng] [2024-05-29 01:43:37,455] [pool-1-thread-10] Initializing /data/imagic/not read correctly/Zucchini_preview.png:
[testng] 01:43:37,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:43:37,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-29_01-43-37.log]
[testng] 01:43:37,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ef58ccc - End of configuration.
[testng] [2024-05-29 01:43:37,462] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Zucchini.dm2:
[testng] 01:43:37,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:43:37,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-29_01-43-37.log]
[testng] 01:43:37,464 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ec571e0 - End of configuration.
[testng] [2024-05-29 01:43:37,480] [pool-1-thread-8] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2:
[testng] 01:43:37,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:43:37,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-29_01-43-37.log]
[testng] 01:43:37,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43b32c40 - End of configuration.
[testng] [2024-05-29 01:43:37,496] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png:
[testng] 01:43:37,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:43:37,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,497 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-29_01-43-37.log]
[testng] 01:43:37,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29fa9e9e - End of configuration.
[testng] [2024-05-29 01:43:37,502] [pool-1-thread-6] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png:
[testng] 01:43:37,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:43:37,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,503 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-29_01-43-37.log]
[testng] 01:43:37,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50c2cd4d - End of configuration.
[testng] [2024-05-29 01:43:37,508] [pool-1-thread-5] Initializing /data/imagic/1-1.dm2:
[testng] 01:43:37,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:43:37,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-29_01-43-37.log]
[testng] 01:43:37,510 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2661ce21 - End of configuration.
[testng] [2024-05-29 01:43:37,541] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png:
[testng] 01:43:37,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:43:37,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-29_01-43-37.log]
[testng] 01:43:37,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@542e4b67 - End of configuration.
[testng] [2024-05-29 01:43:37,552] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png:
[testng] 01:43:37,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:43:37,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-29_01-43-37.log]
[testng] 01:43:37,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2dfb49 - End of configuration.
[testng] [2024-05-29 01:43:37,560] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon.dm2:
[testng] 01:43:37,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:43:37,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:37,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-29_01-43-37.log]
[testng] 01:43:37,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22ea119d - End of configuration.
[testng] [2024-05-29 01:43:38,994] [pool-1-thread-2] Initializing /data/pang/10500x-o4:
[testng] [2024-05-29 01:43:39,010] [pool-1-thread-3] Initializing /data/pang/signed:
[testng] [2024-05-29 01:43:39,024] [pool-1-thread-7] Initializing /data/pang/grating025k.dm2:
[testng] [2024-05-29 01:43:39,034] [pool-1-thread-1] Initializing /data/pang/unproc-auto:
[testng] [2024-05-29 01:43:39,048] [pool-1-thread-10] Initializing /data/pang/DLMeD2E1_010500x03.dm2:
[testng] [2024-05-29 01:43:39,061] [pool-1-thread-9] Initializing /data/imagic/TEM 10118.dm2:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 9 seconds
Finished: SUCCESS