Started by upstream project "BIOFORMATS-test-repo" build number 286
originally caused by:
Started by upstream project "Trigger" build number 305
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3
[BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins3596190022349473522.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_45242_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] 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] 06:04:42,919 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 06:04:42,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 06:04:42,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 06:04:42,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 06:04:42,922 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 06:04:42,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 06:04:42,923 |-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] 06:04:42,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 06:04:42,924 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 06:04:42,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 06:04:42,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 06:04:42,925 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 06:04:43,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 06:04:43,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 06:04:43,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 06:04:43,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 06:04:43,120 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 06:04:43,120 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 06:04:43,120 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 06:04:43,120 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 06:04:43,120 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 06:04:43,121 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 06:04:43,121 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-10 06:04:43,130] [main] java.version = 11.0.16
[testng] 06:04:43,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 06:04:43,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:04:43,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-10_06-04-43.log]
[testng] 06:04:43,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-12-10 06:04:43,178] [main] testng.directory = /data
[testng] [2024-12-10 06:04:43,178] [main] testng.configDirectory = /config
[testng] [2024-12-10 06:04:43,188] [main] testng.multiplier = 1.0
[testng] [2024-12-10 06:04:43,189] [main] testng.in-memory = false
[testng] [2024-12-10 06:04:43,189] [main] testng.allow-missing = false
[testng] [2024-12-10 06:04:43,189] [main] user.language = en
[testng] [2024-12-10 06:04:43,189] [main] user.country = ${user.country}
[testng] [2024-12-10 06:04:43,189] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-10 06:05:13,461] [main] ----------------------------------------
[testng] [2024-12-10 06:05:13,462] [main] Total files: 23
[testng] [2024-12-10 06:05:13,462] [main] Scan time: 30.272 s (1316 ms/file)
[testng] [2024-12-10 06:05:13,462] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-10 06:06:24,607] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 06:06:24,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 06:06:24,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:24,610 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-10_06-06-24.log]
[testng] 06:06:24,610 |-INFO in ch.qos.logback.core.sift.SiftProcessor@91dff78 - End of configuration.
[testng] [2024-12-10 06:06:26,367] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 06:06:26,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 06:06:26,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:26,368 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-10_06-06-26.log]
[testng] 06:06:26,368 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75ee0834 - End of configuration.
[testng] [2024-12-10 06:06:32,188] [pool-1-thread-11] Initializing /data/qa-17334/volume4d.nii:
[testng] 06:06:32,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 06:06:32,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:32,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-10_06-06-32.log]
[testng] 06:06:32,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e49da5f - End of configuration.
[testng] [2024-12-10 06:06:33,514] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 06:06:33,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 06:06:33,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:33,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-10_06-06-33.log]
[testng] 06:06:33,515 |-INFO in ch.qos.logback.core.sift.SiftProcessor@501ff8a5 - End of configuration.
[testng] [2024-12-10 06:06:34,848] [pool-1-thread-9] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] 06:06:34,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 06:06:34,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:34,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-10_06-06-34.log]
[testng] 06:06:34,850 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41fa81de - End of configuration.
[testng] [2024-12-10 06:06:36,172] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 06:06:36,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 06:06:36,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:36,173 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-10_06-06-36.log]
[testng] 06:06:36,173 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19c27a86 - End of configuration.
[testng] [2024-12-10 06:06:37,590] [pool-1-thread-7] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 06:06:37,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 06:06:37,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:37,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-10_06-06-37.log]
[testng] 06:06:37,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@306304b9 - End of configuration.
[testng] [2024-12-10 06:06:43,219] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 06:06:43,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 06:06:43,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:43,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-10_06-06-43.log]
[testng] 06:06:43,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d39b66d - End of configuration.
[testng] [2024-12-10 06:06:45,175] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 06:06:45,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 06:06:45,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:45,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-10_06-06-45.log]
[testng] 06:06:45,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35ce9a97 - End of configuration.
[testng] [2024-12-10 06:06:46,894] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 06:06:46,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 06:06:46,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:46,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-10_06-06-46.log]
[testng] 06:06:46,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@516639ac - End of configuration.
[testng] [2024-12-10 06:06:48,265] [pool-1-thread-3] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] 06:06:48,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 06:06:48,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:48,265 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-10_06-06-48.log]
[testng] 06:06:48,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8f0d8da - End of configuration.
[testng] [2024-12-10 06:06:49,855] [pool-1-thread-2] Initializing /data/public/NIH/minimal.nii:
[testng] 06:06:49,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 06:06:49,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 06:06:49,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-10_06-06-49.log]
[testng] 06:06:49,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57ae7c6f - End of configuration.
[testng] [2024-12-10 06:07:03,071] [pool-1-thread-2] Initializing /data/public/NIH/minimal.hdr:
[testng] [2024-12-10 06:07:05,441] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] [2024-12-10 06:07:07,142] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] [2024-12-10 06:07:08,583] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] [2024-12-10 06:07:15,218] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2024-12-10 06:07:21,596] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] [2024-12-10 06:07:30,683] [pool-1-thread-6] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-12-10 06:07:31,917] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1060, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 3 minutes 54 seconds
Finished: SUCCESS