Started by upstream project "BIOFORMATS-test-repo" build number 281
originally caused by:
Started by upstream project "Trigger" build number 301
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins4841122834102907408.sh
+ '[' minc = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_44345_merge_ci -v /uod/idr/repos/curated/minc:/data -v /uod/idr-scratch/merge-ci/curated/minc:/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] 01:40:45,704 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:40:45,706 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 01:40:45,706 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:40:45,707 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:40:45,707 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:40:45,707 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:40:45,708 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:40:45,708 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:40:45,708 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:40:45,708 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:40:45,708 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:40:45,709 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:40:45,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:40:45,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:40:45,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:40:45,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:40:45,959 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:40:45,959 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:40:45,959 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:40:45,960 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:40:45,960 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 01:40:45,960 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 01:40:45,960 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 252 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-06 01:40:45,970] [main] java.version = 1.8.0_342
[testng] 01:40:45,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:40:45,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:40:46,016 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_01-40-45.log]
[testng] 01:40:46,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-12-06 01:40:46,020] [main] testng.directory = /data
[testng] [2024-12-06 01:40:46,020] [main] testng.configDirectory = /config
[testng] [2024-12-06 01:40:46,031] [main] testng.multiplier = 1.0
[testng] [2024-12-06 01:40:46,032] [main] testng.in-memory = false
[testng] [2024-12-06 01:40:46,032] [main] testng.allow-missing = false
[testng] [2024-12-06 01:40:46,032] [main] user.language = en
[testng] [2024-12-06 01:40:46,032] [main] user.country = ${user.country}
[testng] [2024-12-06 01:40:46,032] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-12-06 01:40:46,788] [main] ----------------------------------------
[testng] [2024-12-06 01:40:46,788] [main] Total files: 15
[testng] [2024-12-06 01:40:46,788] [main] Scan time: 0.756 s (50 ms/file)
[testng] [2024-12-06 01:40:46,788] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 15 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-06 01:40:59,673] [pool-1-thread-1] Initializing /data/bigbrain/full16_400um_2009b_sym.mnc:
[testng] 01:40:59,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:40:59,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:40:59,674 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_01-40-59.log]
[testng] 01:40:59,674 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7feec3a - End of configuration.
[testng] [2024-12-06 01:41:02,996] [pool-1-thread-12] Initializing /data/samples/ICBM/icbm_template_6.00mm.mnc:
[testng] 01:41:02,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:41:02,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:02,997 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_01-41-02.log]
[testng] 01:41:02,997 |-INFO in ch.qos.logback.core.sift.SiftProcessor@402ba85d - End of configuration.
[testng] [2024-12-06 01:41:03,538] [pool-1-thread-11] Initializing /data/daren/test_32bit_float.mnc:
[testng] 01:41:03,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:41:03,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:03,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_01-41-03.log]
[testng] 01:41:03,539 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2619406d - End of configuration.
[testng] [2024-12-06 01:41:04,313] [pool-1-thread-10] Initializing /data/samples/ICBM/icbm_template_2.00mm.mnc:
[testng] 01:41:04,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:41:04,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:04,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_01-41-04.log]
[testng] 01:41:04,315 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b2de213 - End of configuration.
[testng] [2024-12-06 01:41:05,291] [pool-1-thread-9] Initializing /data/samples/ICBM/icbm_template_3.00mm.mnc:
[testng] 01:41:05,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:41:05,291 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:05,292 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_01-41-05.log]
[testng] 01:41:05,292 |-INFO in ch.qos.logback.core.sift.SiftProcessor@320f0d24 - End of configuration.
[testng] [2024-12-06 01:41:05,652] [pool-1-thread-8] Initializing /data/samples/ICBM/icbm_template_4.00mm.mnc:
[testng] 01:41:05,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:41:05,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:05,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_01-41-05.log]
[testng] 01:41:05,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33c0feb0 - End of configuration.
[testng] [2024-12-06 01:41:06,016] [pool-1-thread-7] Initializing /data/qa-17215/IBSR01.mnc:
[testng] 01:41:06,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:41:06,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:06,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_01-41-06.log]
[testng] 01:41:06,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46a9207f - End of configuration.
[testng] [2024-12-06 01:41:06,454] [pool-1-thread-6] Initializing /data/bigbrain/pm6479o.mnc:
[testng] 01:41:06,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:41:06,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:06,455 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_01-41-06.log]
[testng] 01:41:06,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d588b24 - End of configuration.
[testng] [2024-12-06 01:41:07,387] [pool-1-thread-5] Initializing /data/samples/N3/average_305_mask_1mm.mnc:
[testng] 01:41:07,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:41:07,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:07,388 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_01-41-07.log]
[testng] 01:41:07,388 |-INFO in ch.qos.logback.core.sift.SiftProcessor@703476e1 - End of configuration.
[testng] [2024-12-06 01:41:07,727] [pool-1-thread-4] Initializing /data/samples/ICBM/icbm_template_one.00mm.mnc:
[testng] 01:41:07,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:41:07,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:07,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_01-41-07.log]
[testng] 01:41:07,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6753c6b5 - End of configuration.
[testng] [2024-12-06 01:41:08,099] [pool-1-thread-3] Initializing /data/samples/ICBM/icbm_template_zero.50mm.mnc:
[testng] 01:41:08,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:41:08,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:08,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_01-41-08.log]
[testng] 01:41:08,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44ffa229 - End of configuration.
[testng] [2024-12-06 01:41:08,893] [pool-1-thread-2] Initializing /data/bigbrain/8-bit_full_400um_2009b_sym.mnc:
[testng] 01:41:08,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:41:08,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:41:08,894 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_01-41-08.log]
[testng] 01:41:08,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ba8322d - End of configuration.
BUILD SUCCESSFUL
Total time: 51 seconds
Finished: SUCCESS