Started by upstream project "BIOFORMATS-test-repo" build number 227
originally caused by:
Started by upstream project "Trigger" build number 252
originally caused by:
Started by user devspace
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/jenkins6218970573717989497.sh
+ '[' analyze = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_35656_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
test-automated:
[testng] File leak detector installed
[testng] 11:45:08,837 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 11:45:08,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 11:45:08,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 11:45:08,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 11:45:08,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 11:45:08,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 11:45:08,841 |-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] 11:45:08,841 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 11:45:08,841 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 11:45:08,841 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 11:45:08,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 11:45:08,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 11:45:09,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 11:45:09,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 11:45:09,078 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 11:45:09,078 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 11:45:09,086 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 11:45:09,086 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 11:45:09,086 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 11:45:09,086 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 11:45:09,087 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 11:45:09,087 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 11:45:09,087 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 246 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-18 11:45:09,097] [main] java.version = 1.8.0_342
[testng] 11:45:09,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 11:45:09,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:45:09,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_11-45-09.log]
[testng] 11:45:09,144 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-10-18 11:45:09,146] [main] testng.directory = /data
[testng] [2024-10-18 11:45:09,146] [main] testng.configDirectory = /config
[testng] [2024-10-18 11:45:09,157] [main] testng.multiplier = 1.0
[testng] [2024-10-18 11:45:09,157] [main] testng.in-memory = false
[testng] [2024-10-18 11:45:09,157] [main] testng.allow-missing = false
[testng] [2024-10-18 11:45:09,157] [main] user.language = en
[testng] [2024-10-18 11:45:09,157] [main] user.country = ${user.country}
[testng] [2024-10-18 11:45:09,158] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-10-18 11:47:26,246] [main] ----------------------------------------
[testng] [2024-10-18 11:47:26,246] [main] Total files: 21
[testng] [2024-10-18 11:47:26,246] [main] Scan time: 137.088 s (6528 ms/file)
[testng] [2024-10-18 11:47:26,246] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-18 11:49:22,037] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif:
[testng] 11:49:22,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 11:49:22,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:22,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_11-49-22.log]
[testng] 11:49:22,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50dc0757 - End of configuration.
[testng] [2024-10-18 11:49:22,199] [pool-1-thread-12] Initializing /data/frans/betmask.hdr:
[testng] 11:49:22,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 11:49:22,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:22,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-18_11-49-22.log]
[testng] 11:49:22,201 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a7890c6 - End of configuration.
[testng] [2024-10-18 11:49:22,415] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr:
[testng] 11:49:22,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 11:49:22,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:22,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_11-49-22.log]
[testng] 11:49:22,416 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35041726 - End of configuration.
[testng] [2024-10-18 11:49:22,622] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr:
[testng] 11:49:22,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 11:49:22,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:22,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_11-49-22.log]
[testng] 11:49:22,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59149c41 - End of configuration.
[testng] [2024-10-18 11:49:22,886] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr:
[testng] 11:49:22,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 11:49:22,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:22,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_11-49-22.log]
[testng] 11:49:22,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@425e85f3 - End of configuration.
[testng] [2024-10-18 11:49:23,104] [pool-1-thread-8] Initializing /data/frans/aal.hdr:
[testng] 11:49:23,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 11:49:23,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:23,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_11-49-23.log]
[testng] 11:49:23,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f623a5b - End of configuration.
[testng] [2024-10-18 11:49:23,335] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr:
[testng] 11:49:23,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 11:49:23,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:23,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_11-49-23.log]
[testng] 11:49:23,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bee1669 - End of configuration.
[testng] [2024-10-18 11:49:23,546] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr:
[testng] 11:49:23,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 11:49:23,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:23,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_11-49-23.log]
[testng] 11:49:23,547 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a4a49ba - End of configuration.
[testng] [2024-10-18 11:49:23,761] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr:
[testng] 11:49:23,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 11:49:23,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:23,762 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_11-49-23.log]
[testng] 11:49:23,762 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50839e29 - End of configuration.
[testng] [2024-10-18 11:49:23,997] [pool-1-thread-4] Initializing /data/frans/ch2.hdr:
[testng] 11:49:23,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 11:49:23,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:23,998 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_11-49-23.log]
[testng] 11:49:23,999 |-INFO in ch.qos.logback.core.sift.SiftProcessor@597cc3e7 - End of configuration.
[testng] [2024-10-18 11:49:24,218] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr:
[testng] 11:49:24,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 11:49:24,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:24,219 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_11-49-24.log]
[testng] 11:49:24,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a1fc117 - End of configuration.
[testng] [2024-10-18 11:49:24,725] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr:
[testng] 11:49:24,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 11:49:24,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 11:49:24,726 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_11-49-24.log]
[testng] 11:49:24,726 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eff42c7 - End of configuration.
[testng] [2024-10-18 11:49:27,222] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr:
[testng] [2024-10-18 11:49:29,640] [pool-1-thread-11] Initializing /data/frans/CT_CHEST.hdr:
[testng] [2024-10-18 11:49:29,828] [pool-1-thread-12] Initializing /data/frans/brodmann.hdr:
[testng] [2024-10-18 11:49:30,024] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr:
[testng] [2024-10-18 11:49:30,281] [pool-1-thread-7] Initializing /data/frans/CT_HAND.hdr:
[testng] [2024-10-18 11:49:30,467] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr:
[testng] [2024-10-18 11:49:30,658] [pool-1-thread-3] Initializing /data/frans/CT_APERT.hdr:
[testng] [2024-10-18 11:49:30,821] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr:
[testng] [2024-10-18 11:49:31,001] [pool-1-thread-6] Initializing /data/frans/ch2bet.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 4 minutes 27 seconds
Finished: SUCCESS