Started by upstream project "BIOFORMATS-test-repo" build number 31
originally caused by:
Started by upstream project "Trigger" build number 35
originally caused by:
Started by user devspace
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/jenkins13554084534221693970.sh
+ '[' leica-tcs = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_4215_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 08:30:48,207 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 08:30:48,209 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 08:30:48,209 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 08:30:48,211 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 08:30:48,212 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 08:30:48,213 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 08:30:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 08:30:48,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 08:30:48,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 08:30:48,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 08:30:48,502 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 08:30:48,502 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 08:30:48,502 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 08:30:48,503 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 08:30:48,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 291 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-12 08:30:48,514] [main] java.version = 1.8.0_342
[testng] 08:30:48,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 08:30:48,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:30:48,570 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_08-30-48.log]
[testng] 08:30:48,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-04-12 08:30:48,575] [main] testng.directory = /data
[testng] [2024-04-12 08:30:48,575] [main] testng.configDirectory = /config
[testng] [2024-04-12 08:30:48,593] [main] testng.multiplier = 1.0
[testng] [2024-04-12 08:30:48,594] [main] testng.in-memory = false
[testng] [2024-04-12 08:30:48,594] [main] testng.allow-missing = false
[testng] [2024-04-12 08:30:48,594] [main] user.language = en
[testng] [2024-04-12 08:30:48,594] [main] user.country = ${user.country}
[testng] [2024-04-12 08:30:48,594] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-04-12 08:31:00,498] [main] ----------------------------------------
[testng] [2024-04-12 08:31:00,499] [main] Total files: 944
[testng] [2024-04-12 08:31:00,499] [main] Scan time: 11.904 s (12 ms/file)
[testng] [2024-04-12 08:31:00,499] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 15 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-04-12 08:31:31,278] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3OVP.tif:
[testng] 08:31:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 08:31:31,279 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_08-31-31.log]
[testng] 08:31:31,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21f42586 - End of configuration.
[testng] [2024-04-12 08:31:31,378] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmyGRP.tif:
[testng] 08:31:31,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 08:31:31,378 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_08-31-31.log]
[testng] 08:31:31,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@164150b - End of configuration.
[testng] [2024-04-12 08:31:31,416] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF:
[testng] 08:31:31,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 08:31:31,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_08-31-31.log]
[testng] 08:31:31,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b4baa6e - End of configuration.
[testng] [2024-04-12 08:31:31,436] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif:
[testng] 08:31:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 08:31:31,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,437 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_08-31-31.log]
[testng] 08:31:31,438 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b209bf - End of configuration.
[testng] [2024-04-12 08:31:31,494] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblmysglGRP.tif:
[testng] 08:31:31,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 08:31:31,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_08-31-31.log]
[testng] 08:31:31,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69a65c49 - End of configuration.
[testng] [2024-04-12 08:31:31,533] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcatsglGRP.tif:
[testng] 08:31:31,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 08:31:31,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_08-31-31.log]
[testng] 08:31:31,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6212b984 - End of configuration.
[testng] [2024-04-12 08:31:31,564] [pool-1-thread-7] Initializing /data/martin/Series028_z00_ch00.tif:
[testng] 08:31:31,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 08:31:31,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_08-31-31.log]
[testng] 08:31:31,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a657a7f - End of configuration.
[testng] [2024-04-12 08:31:31,595] [pool-1-thread-6] Initializing /data/stjude/AntoDay4dblmy2GRP.tif:
[testng] 08:31:31,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 08:31:31,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_08-31-31.log]
[testng] 08:31:31,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2472c989 - End of configuration.
[testng] [2024-04-12 08:31:31,631] [pool-1-thread-5] Initializing /data/brian/Series002_z01.tif:
[testng] 08:31:31,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 08:31:31,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_08-31-31.log]
[testng] 08:31:31,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@237bd84e - End of configuration.
[testng] [2024-04-12 08:31:31,684] [pool-1-thread-4] Initializing /data/stjude/AntoDay1dblGRP.tif:
[testng] 08:31:31,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 08:31:31,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_08-31-31.log]
[testng] 08:31:31,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a5de889 - End of configuration.
[testng] [2024-04-12 08:31:31,713] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif:
[testng] 08:31:31,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 08:31:31,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,714 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_08-31-31.log]
[testng] 08:31:31,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@364127bc - End of configuration.
[testng] [2024-04-12 08:31:31,747] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif:
[testng] 08:31:31,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 08:31:31,747 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:31:31,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_08-31-31.log]
[testng] 08:31:31,748 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5313f6bb - End of configuration.
[testng] [2024-04-12 08:31:34,401] [pool-1-thread-5] Initializing /data/stjude/AntoDayzerocy3GRP.tif:
[testng] [2024-04-12 08:31:34,426] [pool-1-thread-10] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif:
[testng] [2024-04-12 08:31:39,423] [pool-1-thread-6] Initializing /data/brian/Series002_z00_ch00.tif:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 795, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 10 minutes 17 seconds
Finished: SUCCESS