Started by upstream project "BIOFORMATS-test-repo" build number 304
originally caused by:
Started by upstream project "Trigger" build number 326
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9
[BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins7429549100882516721.sh
+ '[' analyze = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_48171_merge_ci -v /uod/idr/repos/curated/analyze:/data -v /uod/idr-scratch/merge-ci/curated/analyze:/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] 04:12:41,308 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:12:41,310 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 04:12:41,310 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:12:41,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:12:41,312 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:12:41,312 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:12:41,312 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:12:41,312 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:12:41,313 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:12:41,314 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:12:41,314 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:12:41,314 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:12:41,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:12:41,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:12:41,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:12:41,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:12:41,526 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:12:41,527 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:12:41,527 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:12:41,527 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:12:41,527 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 04:12:41,528 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 04:12:41,528 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 215 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-31 04:12:41,538] [main] java.version = 11.0.16
[testng] 04:12:41,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:12:41,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:12:41,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-31_04-12-41.log]
[testng] 04:12:41,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-12-31 04:12:41,591] [main] testng.directory = /data
[testng] [2024-12-31 04:12:41,591] [main] testng.configDirectory = /config
[testng] [2024-12-31 04:12:41,608] [main] testng.multiplier = 1.0
[testng] [2024-12-31 04:12:41,610] [main] testng.in-memory = false
[testng] [2024-12-31 04:12:41,611] [main] testng.allow-missing = false
[testng] [2024-12-31 04:12:41,611] [main] user.language = en
[testng] [2024-12-31 04:12:41,611] [main] user.country = ${user.country}
[testng] [2024-12-31 04:12:41,611] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-31 04:12:55,527] [main] ----------------------------------------
[testng] [2024-12-31 04:12:55,527] [main] Total files: 21
[testng] [2024-12-31 04:12:55,528] [main] Scan time: 13.916 s (662 ms/file)
[testng] [2024-12-31 04:12:55,528] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-31 04:13:12,023] [pool-1-thread-1] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr:
[testng] 04:13:12,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:13:12,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:12,026 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-31_04-13-12.log]
[testng] 04:13:12,026 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ab1aaf1 - End of configuration.
[testng] [2024-12-31 04:13:12,603] [pool-1-thread-12] Initializing /data/frans/brodmann.hdr:
[testng] 04:13:12,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:13:12,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:12,604 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-31_04-13-12.log]
[testng] 04:13:12,605 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32eed83b - End of configuration.
[testng] [2024-12-31 04:13:13,155] [pool-1-thread-11] Initializing /data/frans/CT_FOOT.hdr:
[testng] 04:13:13,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:13:13,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:13,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-31_04-13-13.log]
[testng] 04:13:13,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26fbd922 - End of configuration.
[testng] [2024-12-31 04:13:13,665] [pool-1-thread-10] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr:
[testng] 04:13:13,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:13:13,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:13,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-31_04-13-13.log]
[testng] 04:13:13,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c91393b - End of configuration.
[testng] [2024-12-31 04:13:14,647] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr:
[testng] 04:13:14,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:13:14,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:14,647 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-31_04-13-14.log]
[testng] 04:13:14,648 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36a52bef - End of configuration.
[testng] [2024-12-31 04:13:15,572] [pool-1-thread-8] Initializing /data/frans/CT_CHEST.hdr:
[testng] 04:13:15,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:13:15,573 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:15,573 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-31_04-13-15.log]
[testng] 04:13:15,573 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d3c6cda - End of configuration.
[testng] [2024-12-31 04:13:16,511] [pool-1-thread-7] Initializing /data/frans/CT_APERT.hdr:
[testng] 04:13:16,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:13:16,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:16,511 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-31_04-13-16.log]
[testng] 04:13:16,512 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b74ca4e - End of configuration.
[testng] [2024-12-31 04:13:17,440] [pool-1-thread-6] Initializing /data/frans/m000-MR_CHEST.gif:
[testng] 04:13:17,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:13:17,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:17,442 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-31_04-13-17.log]
[testng] 04:13:17,442 |-INFO in ch.qos.logback.core.sift.SiftProcessor@153f88b6 - End of configuration.
[testng] [2024-12-31 04:13:17,649] [pool-1-thread-5] Initializing /data/frans/CT_HAND.hdr:
[testng] 04:13:17,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:13:17,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:17,650 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-31_04-13-17.log]
[testng] 04:13:17,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68c6274e - End of configuration.
[testng] [2024-12-31 04:13:18,564] [pool-1-thread-4] Initializing /data/frans/ch2bet.hdr:
[testng] 04:13:18,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:13:18,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:18,564 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-31_04-13-18.log]
[testng] 04:13:18,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d712584 - End of configuration.
[testng] [2024-12-31 04:13:19,744] [pool-1-thread-3] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr:
[testng] 04:13:19,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:13:19,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:19,745 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-31_04-13-19.log]
[testng] 04:13:19,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8ef1ec - End of configuration.
[testng] [2024-12-31 04:13:20,536] [pool-1-thread-2] Initializing /data/frans/MR_CHEST.hdr:
[testng] 04:13:20,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:13:20,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:13:20,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-31_04-13-20.log]
[testng] 04:13:20,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cb09232 - End of configuration.
[testng] [2024-12-31 04:13:24,548] [pool-1-thread-6] Initializing /data/frans/CT_KNEE.hdr:
[testng] [2024-12-31 04:13:31,396] [pool-1-thread-3] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr:
[testng] [2024-12-31 04:13:32,202] [pool-1-thread-2] Initializing /data/frans/aal.hdr:
[testng] [2024-12-31 04:13:33,105] [pool-1-thread-7] Initializing /data/frans/CT_WHOLE.hdr:
[testng] [2024-12-31 04:13:33,899] [pool-1-thread-11] Initializing /data/frans/CT_CRANI.hdr:
[testng] [2024-12-31 04:13:34,625] [pool-1-thread-1] Initializing /data/frans/MR_SEGBRAIN.hdr:
[testng] [2024-12-31 04:13:35,515] [pool-1-thread-12] Initializing /data/frans/ch2.hdr:
[testng] [2024-12-31 04:13:36,380] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr:
[testng] [2024-12-31 04:13:37,144] [pool-1-thread-10] Initializing /data/frans/betmask.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 7 seconds
Finished: SUCCESS