Started by upstream project "BIOFORMATS-test-repo" build number 26
originally caused by:
Started by upstream project "Trigger" build number 29
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins12685409174805570961.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_3401_merge_ci -v /uod/idr/repos/curated/nifti:/data -v /uod/idr-scratch/merge-ci/curated/nifti:/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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket
[testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket
[testng] File leak detector installed
[testng] 02:44:30,305 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:44:30,307 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:44:30,307 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:30,308 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:30,308 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:44:30,308 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:44:30,309 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:44:30,309 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:30,309 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:30,310 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:44:30,310 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:44:30,310 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:44:30,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:44:30,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:44:30,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:44:30,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:44:30,498 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:44:30,498 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:44:30,498 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:44:30,498 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:44:30,498 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:44:30,499 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:44:30,500 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-07 02:44:30,508] [main] java.version = 17.0.2
[testng] 02:44:30,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:44:30,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:30,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-07_02-44-30.log]
[testng] 02:44:30,553 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-04-07 02:44:30,555] [main] testng.directory = /data
[testng] [2024-04-07 02:44:30,555] [main] testng.configDirectory = /config
[testng] [2024-04-07 02:44:30,564] [main] testng.multiplier = 1.0
[testng] [2024-04-07 02:44:30,565] [main] testng.in-memory = false
[testng] [2024-04-07 02:44:30,565] [main] testng.allow-missing = false
[testng] [2024-04-07 02:44:30,565] [main] user.language = en
[testng] [2024-04-07 02:44:30,565] [main] user.country = ${user.country}
[testng] [2024-04-07 02:44:30,565] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-04-07 02:44:31,318] [main] ----------------------------------------
[testng] [2024-04-07 02:44:31,318] [main] Total files: 23
[testng] [2024-04-07 02:44:31,319] [main] Scan time: 0.753 s (32 ms/file)
[testng] [2024-04-07 02:44:31,319] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-04-07 02:44:35,847] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 02:44:35,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:44:35,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:35,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-07_02-44-35.log]
[testng] 02:44:35,850 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c6ff5ba - End of configuration.
[testng] [2024-04-07 02:44:36,070] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] 02:44:36,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:44:36,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-07_02-44-36.log]
[testng] 02:44:36,073 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59ba4406 - End of configuration.
[testng] [2024-04-07 02:44:36,271] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] 02:44:36,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:44:36,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,272 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-07_02-44-36.log]
[testng] 02:44:36,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ab98fa7 - End of configuration.
[testng] [2024-04-07 02:44:36,284] [pool-1-thread-10] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 02:44:36,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:44:36,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-07_02-44-36.log]
[testng] 02:44:36,285 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59fcacd1 - End of configuration.
[testng] [2024-04-07 02:44:36,308] [pool-1-thread-9] Initializing /data/qa-17334/volume4d.nii:
[testng] 02:44:36,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:44:36,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,309 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-07_02-44-36.log]
[testng] 02:44:36,309 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5749324e - End of configuration.
[testng] [2024-04-07 02:44:36,335] [pool-1-thread-8] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] 02:44:36,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:44:36,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-07_02-44-36.log]
[testng] 02:44:36,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b918d77 - End of configuration.
[testng] [2024-04-07 02:44:36,356] [pool-1-thread-7] Initializing /data/public/NIH/minimal.hdr:
[testng] 02:44:36,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:44:36,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,357 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-07_02-44-36.log]
[testng] 02:44:36,357 |-INFO in ch.qos.logback.core.sift.SiftProcessor@552d763c - End of configuration.
[testng] [2024-04-07 02:44:36,368] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 02:44:36,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:44:36,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,368 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-07_02-44-36.log]
[testng] 02:44:36,369 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ba4c793 - End of configuration.
[testng] [2024-04-07 02:44:36,394] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 02:44:36,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:44:36,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-07_02-44-36.log]
[testng] 02:44:36,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ea6005b - End of configuration.
[testng] [2024-04-07 02:44:36,406] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 02:44:36,406 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:44:36,406 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,406 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-07_02-44-36.log]
[testng] 02:44:36,407 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4240dfa7 - End of configuration.
[testng] [2024-04-07 02:44:36,422] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 02:44:36,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:44:36,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-07_02-44-36.log]
[testng] 02:44:36,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@551a2ce9 - End of configuration.
[testng] [2024-04-07 02:44:36,438] [pool-1-thread-2] Initializing /data/public/NIH/minimal.nii:
[testng] 02:44:36,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:44:36,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:36,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-07_02-44-36.log]
[testng] 02:44:36,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e7f2fb3 - End of configuration.
[testng] [2024-04-07 02:44:37,852] [pool-1-thread-7] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] [2024-04-07 02:44:37,913] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2024-04-07 02:44:37,924] [pool-1-thread-8] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] [2024-04-07 02:44:37,944] [pool-1-thread-3] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] [2024-04-07 02:44:40,545] [pool-1-thread-5] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-04-07 02:44:40,559] [pool-1-thread-11] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] [2024-04-07 02:44:40,569] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] [2024-04-07 02:44:40,579] [pool-1-thread-9] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1060, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 40 seconds
Finished: SUCCESS