Started by upstream project "BIOFORMATS-test-repo" build number 127
originally caused by:
Started by upstream project "Trigger" build number 144
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8
[BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins9200216737380588778.sh
+ '[' obf = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_19969_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] 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] 02:38:52,077 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:38:52,079 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:38:52,079 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:38:52,080 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:38:52,080 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:38:52,080 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:38:52,081 |-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] 02:38:52,081 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:38:52,081 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:38:52,081 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:38:52,082 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:38:52,082 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:38:52,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:38:52,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:38:52,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:38:52,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:38:52,268 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:38:52,268 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:38:52,268 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:38:52,268 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:38:52,268 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:38:52,269 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:38:52,270 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 189 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-21 02:38:52,279] [main] java.version = 17.0.2
[testng] 02:38:52,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:38:52,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:52,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-21_02-38-52.log]
[testng] 02:38:52,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-07-21 02:38:52,325] [main] testng.directory = /data
[testng] [2024-07-21 02:38:52,326] [main] testng.configDirectory = /config
[testng] [2024-07-21 02:38:52,334] [main] testng.multiplier = 1.0
[testng] [2024-07-21 02:38:52,335] [main] testng.in-memory = false
[testng] [2024-07-21 02:38:52,335] [main] testng.allow-missing = false
[testng] [2024-07-21 02:38:52,335] [main] user.language = en
[testng] [2024-07-21 02:38:52,335] [main] user.country = ${user.country}
[testng] [2024-07-21 02:38:52,335] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-07-21 02:38:53,845] [main] ----------------------------------------
[testng] [2024-07-21 02:38:53,845] [main] Total files: 12
[testng] [2024-07-21 02:38:53,845] [main] Scan time: 1.509 s (125 ms/file)
[testng] [2024-07-21 02:38:53,845] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 11 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-21 02:38:58,643] [pool-1-thread-1] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr:
[testng] 02:38:58,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:38:58,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:58,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-21_02-38-58.log]
[testng] 02:38:58,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b4b1653 - End of configuration.
[testng] [2024-07-21 02:38:58,692] [pool-1-thread-11] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr:
[testng] 02:38:58,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:38:58,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:58,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-21_02-38-58.log]
[testng] 02:38:58,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ed41278 - End of configuration.
[testng] [2024-07-21 02:38:58,735] [pool-1-thread-10] Initializing /data/qa-27923/test.obf:
[testng] 02:38:58,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:38:58,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:58,737 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-21_02-38-58.log]
[testng] 02:38:58,737 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36e22405 - End of configuration.
[testng] [2024-07-21 02:38:58,837] [pool-1-thread-9] Initializing /data/public/ngladitz/v6/test-v6.obf:
[testng] 02:38:58,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:38:58,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:58,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-21_02-38-58.log]
[testng] 02:38:58,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49bf70e9 - End of configuration.
[testng] [2024-07-21 02:38:59,171] [pool-1-thread-8] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf:
[testng] 02:38:59,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:38:59,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:59,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-21_02-38-59.log]
[testng] 02:38:59,173 |-INFO in ch.qos.logback.core.sift.SiftProcessor@783366a - End of configuration.
[testng] [2024-07-21 02:38:59,254] [pool-1-thread-7] Initializing /data/qa-16895/Measurement1.msr:
[testng] 02:38:59,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:38:59,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:59,254 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-21_02-38-59.log]
[testng] 02:38:59,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7211de1b - End of configuration.
[testng] [2024-07-21 02:38:59,312] [pool-1-thread-6] Initializing /data/public/ngladitz/v4/test-v4.obf:
[testng] 02:38:59,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:38:59,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:59,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-21_02-38-59.log]
[testng] 02:38:59,313 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27d62cc - End of configuration.
[testng] [2024-07-21 02:38:59,452] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf:
[testng] 02:38:59,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:38:59,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:38:59,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-21_02-38-59.log]
[testng] 02:38:59,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f20a9da - End of configuration.
[testng] [2024-07-21 02:39:00,059] [pool-1-thread-4] Initializing /data/qa-17111/before 1.msr:
[testng] 02:39:00,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:39:00,059 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:39:00,060 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-21_02-39-00.log]
[testng] 02:39:00,060 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d7ab064 - End of configuration.
[testng] [2024-07-21 02:39:00,953] [pool-1-thread-3] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf:
[testng] 02:39:00,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:39:00,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:39:00,954 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-21_02-39-00.log]
[testng] 02:39:00,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26cadb1f - End of configuration.
[testng] [2024-07-21 02:39:01,166] [pool-1-thread-2] Initializing /data/bjoernthiel/20191106__zstack.msr:
[testng] 02:39:01,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:39:01,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:39:01,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-21_02-39-01.log]
[testng] 02:39:01,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d5d19e - 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: 39 seconds
Finished: SUCCESS