Started by upstream project "BIOFORMATS-test-repo" build number 20
originally caused by:
Started by upstream project "Trigger" build number 23
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins9422131072351584001.sh
+ '[' perkinelmer-densitometer = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_2500_merge_ci -v /uod/idr/repos/curated/perkinelmer-densitometer:/data -v /uod/idr-scratch/merge-ci/curated/perkinelmer-densitometer:/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] 01:44:37,767 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:44:37,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 01:44:37,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:44:37,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:44:37,770 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:44:37,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:44:37,771 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:44:37,771 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:44:37,771 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:44:37,772 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:44:37,772 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:44:37,773 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:44:37,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:44:37,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:44:37,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:44:37,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:44:37,965 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:44:37,965 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:44:37,965 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:44:37,965 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:44:37,965 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 01:44:37,966 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 01:44:37,966 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-02 01:44:37,975] [main] java.version = 11.0.16
[testng] 01:44:37,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:44:37,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:38,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-02_01-44-37.log]
[testng] 01:44:38,022 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-04-02 01:44:38,024] [main] testng.directory = /data
[testng] [2024-04-02 01:44:38,024] [main] testng.configDirectory = /config
[testng] [2024-04-02 01:44:38,034] [main] testng.multiplier = 1.0
[testng] [2024-04-02 01:44:38,036] [main] testng.in-memory = false
[testng] [2024-04-02 01:44:38,036] [main] testng.allow-missing = false
[testng] [2024-04-02 01:44:38,036] [main] user.language = en
[testng] [2024-04-02 01:44:38,036] [main] user.country = ${user.country}
[testng] [2024-04-02 01:44:38,036] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-04-02 01:44:39,753] [main] ----------------------------------------
[testng] [2024-04-02 01:44:39,753] [main] Total files: 19
[testng] [2024-04-02 01:44:39,753] [main] Scan time: 1.717 s (90 ms/file)
[testng] [2024-04-02 01:44:39,753] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 11 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-04-02 01:44:41,046] [pool-1-thread-1] Initializing /data/ascb/PT1173A001.hdr:
[testng] 01:44:41,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:44:41,048 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-02_01-44-41.log]
[testng] 01:44:41,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55c62b2f - End of configuration.
[testng] [2024-04-02 01:44:41,074] [pool-1-thread-11] Initializing /data/ascb/DP1190.hdr:
[testng] 01:44:41,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:44:41,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-02_01-44-41.log]
[testng] 01:44:41,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@96a38ef - End of configuration.
[testng] [2024-04-02 01:44:41,089] [pool-1-thread-10] Initializing /data/ascb/Y7616001.hdr:
[testng] 01:44:41,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:44:41,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,090 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-02_01-44-41.log]
[testng] 01:44:41,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53b54999 - End of configuration.
[testng] [2024-04-02 01:44:41,109] [pool-1-thread-9] Initializing /data/ascb/1/T8710001.hdr:
[testng] 01:44:41,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:44:41,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-02_01-44-41.log]
[testng] 01:44:41,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48896159 - End of configuration.
[testng] [2024-04-02 01:44:41,126] [pool-1-thread-8] Initializing /data/ascb/U8092001.tif:
[testng] 01:44:41,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:44:41,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,127 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-02_01-44-41.log]
[testng] 01:44:41,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65a1780c - End of configuration.
[testng] [2024-04-02 01:44:41,208] [pool-1-thread-7] Initializing /data/ascb/2/V8701001.hdr:
[testng] 01:44:41,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:44:41,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-02_01-44-41.log]
[testng] 01:44:41,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40ede438 - End of configuration.
[testng] [2024-04-02 01:44:41,228] [pool-1-thread-6] Initializing /data/ascb/U8092001.hdr:
[testng] 01:44:41,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:44:41,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-02_01-44-41.log]
[testng] 01:44:41,229 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ada30f - End of configuration.
[testng] [2024-04-02 01:44:41,271] [pool-1-thread-5] Initializing /data/ascb/PT1173A001.tif:
[testng] 01:44:41,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:44:41,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,272 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-02_01-44-41.log]
[testng] 01:44:41,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3614bfc6 - End of configuration.
[testng] [2024-04-02 01:44:41,336] [pool-1-thread-4] Initializing /data/ascb/3/PT118001.hdr:
[testng] 01:44:41,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:44:41,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-02_01-44-41.log]
[testng] 01:44:41,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e17e546 - End of configuration.
[testng] [2024-04-02 01:44:41,352] [pool-1-thread-3] Initializing /data/ascb/DP1190.tif:
[testng] 01:44:41,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:44:41,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-02_01-44-41.log]
[testng] 01:44:41,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73c58df6 - End of configuration.
[testng] [2024-04-02 01:44:41,402] [pool-1-thread-2] Initializing /data/ascb/Y7616001.tif:
[testng] 01:44:41,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:44:41,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:44:41,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-02_01-44-41.log]
[testng] 01:44:41,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b9c0a99 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 583, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 9 seconds
Finished: SUCCESS