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@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins6837179481295061622.sh
+ '[' obf = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_2584_merge_ci -v /uod/idr/repos/curated/obf:/data -v /uod/idr-scratch/merge-ci/curated/obf:/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] 02:44:39,852 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:44:39,853 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 02:44:39,854 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:39,855 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:39,856 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:44:39,856 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:44:39,857 |-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] 02:44:39,857 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:39,857 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:39,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:44:39,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:44:39,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:44:40,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:44:40,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:44:40,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:44:40,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:44:40,102 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:44:40,102 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:44:40,103 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:44:40,103 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:44:40,103 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 02:44:40,104 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 02:44:40,104 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 247 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-02 02:44:40,117] [main] java.version = 11.0.16
[testng] 02:44:40,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:44:40,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:40,174 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-02_02-44-40.log]
[testng] 02:44:40,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-04-02 02:44:40,178] [main] testng.directory = /data
[testng] [2024-04-02 02:44:40,179] [main] testng.configDirectory = /config
[testng] [2024-04-02 02:44:40,191] [main] testng.multiplier = 1.0
[testng] [2024-04-02 02:44:40,192] [main] testng.in-memory = false
[testng] [2024-04-02 02:44:40,193] [main] testng.allow-missing = false
[testng] [2024-04-02 02:44:40,193] [main] user.language = en
[testng] [2024-04-02 02:44:40,193] [main] user.country = ${user.country}
[testng] [2024-04-02 02:44:40,193] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-04-02 02:44:42,345] [main] ----------------------------------------
[testng] [2024-04-02 02:44:42,345] [main] Total files: 12
[testng] [2024-04-02 02:44:42,345] [main] Scan time: 2.152 s (179 ms/file)
[testng] [2024-04-02 02:44:42,345] [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 02:44:51,886] [pool-1-thread-1] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf:
[testng] 02:44:51,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:44:51,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:51,889 |-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_02-44-51.log]
[testng] 02:44:51,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1961481d - End of configuration.
[testng] [2024-04-02 02:44:52,227] [pool-1-thread-11] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf:
[testng] 02:44:52,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:44:52,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:52,229 |-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_02-44-52.log]
[testng] 02:44:52,229 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b7fb3a6 - End of configuration.
[testng] [2024-04-02 02:44:53,024] [pool-1-thread-10] Initializing /data/bjoernthiel/20191106__zstack.msr:
[testng] 02:44:53,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:44:53,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:53,027 |-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_02-44-53.log]
[testng] 02:44:53,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c3c9b67 - End of configuration.
[testng] [2024-04-02 02:44:53,264] [pool-1-thread-9] Initializing /data/qa-27923/test.obf:
[testng] 02:44:53,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:44:53,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:53,265 |-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_02-44-53.log]
[testng] 02:44:53,265 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e5d9679 - End of configuration.
[testng] [2024-04-02 02:44:53,325] [pool-1-thread-8] Initializing /data/qa-16895/Measurement1.msr:
[testng] 02:44:53,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:44:53,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:53,326 |-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_02-44-53.log]
[testng] 02:44:53,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a903c79 - End of configuration.
[testng] [2024-04-02 02:44:53,401] [pool-1-thread-7] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr:
[testng] 02:44:53,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:44:53,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:53,402 |-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_02-44-53.log]
[testng] 02:44:53,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21229f14 - End of configuration.
[testng] [2024-04-02 02:44:53,494] [pool-1-thread-6] Initializing /data/qa-17111/before 1.msr:
[testng] 02:44:53,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:44:53,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:53,495 |-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_02-44-53.log]
[testng] 02:44:53,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e91e91a - End of configuration.
[testng] [2024-04-02 02:44:54,633] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6.obf:
[testng] 02:44:54,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:44:54,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:54,634 |-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_02-44-54.log]
[testng] 02:44:54,634 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45985976 - End of configuration.
[testng] [2024-04-02 02:44:55,006] [pool-1-thread-4] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr:
[testng] 02:44:55,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:44:55,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:55,007 |-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_02-44-55.log]
[testng] 02:44:55,007 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38ec52c2 - End of configuration.
[testng] [2024-04-02 02:44:55,058] [pool-1-thread-3] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf:
[testng] 02:44:55,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:44:55,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:55,059 |-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_02-44-55.log]
[testng] 02:44:55,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1395b732 - End of configuration.
[testng] [2024-04-02 02:44:55,146] [pool-1-thread-2] Initializing /data/public/ngladitz/v4/test-v4.obf:
[testng] 02:44:55,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:44:55,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:55,146 |-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_02-44-55.log]
[testng] 02:44:55,147 |-INFO in ch.qos.logback.core.sift.SiftProcessor@378272c5 - 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: 46 seconds
Finished: SUCCESS