Started by upstream project "BIOFORMATS-test-repo" build number 256
originally caused by:
Started by upstream project "Trigger" build number 280
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4
[BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins5051142026611933513.sh
+ '[' imagepro = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_40458_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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
test-automated:
[testng] File leak detector installed
[testng] 04:13:30,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:13:30,334 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 04:13:30,334 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:13:30,335 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:13:30,335 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:13:30,335 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:13:30,335 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:13:30,335 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:13:30,336 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:13:30,336 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:13:30,336 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:13:30,336 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:13:30,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:13:30,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:13:30,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:13:30,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:13:30,578 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:13:30,578 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:13:30,579 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:13:30,579 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:13:30,579 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 04:13:30,580 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 04:13:30,580 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 244 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-15 04:13:30,589] [main] java.version = 1.8.0_342
[testng] 04:13:30,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:13:30,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:30,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-15_04-13-30.log]
[testng] 04:13:30,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-11-15 04:13:30,638] [main] testng.directory = /data
[testng] [2024-11-15 04:13:30,638] [main] testng.configDirectory = /config
[testng] [2024-11-15 04:13:30,650] [main] testng.multiplier = 1.0
[testng] [2024-11-15 04:13:30,650] [main] testng.in-memory = false
[testng] [2024-11-15 04:13:30,650] [main] testng.allow-missing = false
[testng] [2024-11-15 04:13:30,650] [main] user.language = en
[testng] [2024-11-15 04:13:30,650] [main] user.country = ${user.country}
[testng] [2024-11-15 04:13:30,650] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-11-15 04:13:33,761] [main] ----------------------------------------
[testng] [2024-11-15 04:13:33,761] [main] Total files: 22
[testng] [2024-11-15 04:13:33,761] [main] Scan time: 3.111 s (141 ms/file)
[testng] [2024-11-15 04:13:33,761] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-15 04:13:47,320] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.seq:
[testng] 04:13:47,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:13:47,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:47,321 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-15_04-13-47.log]
[testng] 04:13:47,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5176f457 - End of configuration.
[testng] [2024-11-15 04:13:47,684] [pool-1-thread-12] Initializing /data/converted/clown8c.tif:
[testng] 04:13:47,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:13:47,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:47,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-15_04-13-47.log]
[testng] 04:13:47,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@576b3864 - End of configuration.
[testng] [2024-11-15 04:13:48,402] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF:
[testng] 04:13:48,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:13:48,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:48,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-15_04-13-48.log]
[testng] 04:13:48,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33f40026 - End of configuration.
[testng] [2024-11-15 04:13:49,121] [pool-1-thread-10] Initializing /data/converted/dub01.seq:
[testng] 04:13:49,121 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:13:49,121 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:49,122 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-15_04-13-49.log]
[testng] 04:13:49,122 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d4e3c63 - End of configuration.
[testng] [2024-11-15 04:13:49,438] [pool-1-thread-9] Initializing /data/xiuwen/head2.seq:
[testng] 04:13:49,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:13:49,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:49,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-15_04-13-49.log]
[testng] 04:13:49,440 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a63f653 - End of configuration.
[testng] [2024-11-15 04:13:49,787] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF:
[testng] 04:13:49,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:13:49,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:49,788 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-15_04-13-49.log]
[testng] 04:13:49,788 |-INFO in ch.qos.logback.core.sift.SiftProcessor@215dd73a - End of configuration.
[testng] [2024-11-15 04:13:50,090] [pool-1-thread-7] Initializing /data/converted/clown.ipw:
[testng] 04:13:50,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:13:50,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:50,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-15_04-13-50.log]
[testng] 04:13:50,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d6a9bd1 - End of configuration.
[testng] [2024-11-15 04:13:50,365] [pool-1-thread-6] Initializing /data/samples/HEART.SEQ:
[testng] 04:13:50,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:13:50,366 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:50,366 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-15_04-13-50.log]
[testng] 04:13:50,366 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60dce90e - End of configuration.
[testng] [2024-11-15 04:13:50,719] [pool-1-thread-5] Initializing /data/converted/mitosis-test.seq:
[testng] 04:13:50,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:13:50,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:50,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-15_04-13-50.log]
[testng] 04:13:50,722 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4243b70b - End of configuration.
[testng] [2024-11-15 04:13:51,007] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw:
[testng] 04:13:51,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:13:51,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:51,008 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-15_04-13-51.log]
[testng] 04:13:51,009 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56a65593 - End of configuration.
[testng] [2024-11-15 04:13:51,258] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif:
[testng] 04:13:51,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:13:51,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:51,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-15_04-13-51.log]
[testng] 04:13:51,259 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a77b19b - End of configuration.
[testng] [2024-11-15 04:13:52,019] [pool-1-thread-2] Initializing /data/converted/clown.tif:
[testng] 04:13:52,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:13:52,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:52,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-15_04-13-52.log]
[testng] 04:13:52,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43a82b04 - End of configuration.
[testng] [2024-11-15 04:13:56,318] [pool-1-thread-7] Initializing /data/converted/clown.seq:
[testng] [2024-11-15 04:13:56,607] [pool-1-thread-2] Initializing /data/converted/clown8c.seq:
[testng] [2024-11-15 04:13:56,887] [pool-1-thread-5] Initializing /data/converted/dub01.ipw:
[testng] [2024-11-15 04:13:57,188] [pool-1-thread-8] Initializing /data/alex/AFAset0003.ips:
[testng] [2024-11-15 04:13:57,486] [pool-1-thread-6] Initializing /data/converted/dub01.pic:
[testng] [2024-11-15 04:13:57,828] [pool-1-thread-10] Initializing /data/converted/clown8c.ipw:
[testng] [2024-11-15 04:13:58,120] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff:
[testng] [2024-11-15 04:13:58,794] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw:
[testng] [2024-11-15 04:14:00,427] [pool-1-thread-12] Initializing /data/samples/FLDUAL.TIF:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 10 seconds
Finished: SUCCESS