Started by upstream project "BIOFORMATS-test-repo" build number 238
originally caused by:
Started by upstream project "Trigger" build number 263
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6
[BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins15291414199296961559.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_37497_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] 03:44:08,500 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 03:44:08,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 03:44:08,502 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:44:08,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:44:08,503 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 03:44:08,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 03:44:08,504 |-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] 03:44:08,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:44:08,504 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:44:08,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 03:44:08,505 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 03:44:08,506 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 03:44:08,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 03:44:08,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 03:44:08,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 03:44:08,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 03:44:08,699 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 03:44:08,699 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 03:44:08,699 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 03:44:08,699 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 03:44:08,700 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 03:44:08,700 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 03:44:08,700 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 196 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-29 03:44:08,709] [main] java.version = 11.0.16
[testng] 03:44:08,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 03:44:08,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:08,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-29_03-44-08.log]
[testng] 03:44:08,755 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-10-29 03:44:08,757] [main] testng.directory = /data
[testng] [2024-10-29 03:44:08,757] [main] testng.configDirectory = /config
[testng] [2024-10-29 03:44:08,766] [main] testng.multiplier = 1.0
[testng] [2024-10-29 03:44:08,768] [main] testng.in-memory = false
[testng] [2024-10-29 03:44:08,768] [main] testng.allow-missing = false
[testng] [2024-10-29 03:44:08,768] [main] user.language = en
[testng] [2024-10-29 03:44:08,768] [main] user.country = ${user.country}
[testng] [2024-10-29 03:44:08,768] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-29 03:44:20,733] [main] ----------------------------------------
[testng] [2024-10-29 03:44:20,733] [main] Total files: 23
[testng] [2024-10-29 03:44:20,733] [main] Scan time: 11.965 s (520 ms/file)
[testng] [2024-10-29 03:44:20,733] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-29 03:44:50,361] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 03:44:50,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 03:44:50,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:50,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-29_03-44-50.log]
[testng] 03:44:50,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d86e747 - End of configuration.
[testng] [2024-10-29 03:44:51,002] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 03:44:51,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 03:44:51,002 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:51,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-29_03-44-51.log]
[testng] 03:44:51,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bac0eee - End of configuration.
[testng] [2024-10-29 03:44:53,843] [pool-1-thread-11] Initializing /data/qa-17334/volume4d.nii:
[testng] 03:44:53,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 03:44:53,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:53,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-29_03-44-53.log]
[testng] 03:44:53,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35d551d9 - End of configuration.
[testng] [2024-10-29 03:44:54,521] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 03:44:54,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 03:44:54,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:54,522 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-29_03-44-54.log]
[testng] 03:44:54,522 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60572624 - End of configuration.
[testng] [2024-10-29 03:44:55,153] [pool-1-thread-9] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] 03:44:55,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 03:44:55,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:55,154 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-29_03-44-55.log]
[testng] 03:44:55,154 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2daa849d - End of configuration.
[testng] [2024-10-29 03:44:55,731] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 03:44:55,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 03:44:55,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:55,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-29_03-44-55.log]
[testng] 03:44:55,732 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20ca8ff4 - End of configuration.
[testng] [2024-10-29 03:44:56,333] [pool-1-thread-7] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 03:44:56,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 03:44:56,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:56,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-29_03-44-56.log]
[testng] 03:44:56,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bf1d6ac - End of configuration.
[testng] [2024-10-29 03:44:58,850] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 03:44:58,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 03:44:58,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:58,851 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-29_03-44-58.log]
[testng] 03:44:58,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fd98929 - End of configuration.
[testng] [2024-10-29 03:44:59,529] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 03:44:59,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 03:44:59,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:44:59,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-29_03-44-59.log]
[testng] 03:44:59,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cd0fe98 - End of configuration.
[testng] [2024-10-29 03:45:00,170] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 03:45:00,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 03:45:00,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:45:00,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-29_03-45-00.log]
[testng] 03:45:00,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f0a1d62 - End of configuration.
[testng] [2024-10-29 03:45:00,790] [pool-1-thread-3] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] 03:45:00,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 03:45:00,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:45:00,791 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-29_03-45-00.log]
[testng] 03:45:00,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ac26724 - End of configuration.
[testng] [2024-10-29 03:45:01,376] [pool-1-thread-2] Initializing /data/public/NIH/minimal.nii:
[testng] 03:45:01,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 03:45:01,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:45:01,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-29_03-45-01.log]
[testng] 03:45:01,377 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481ed33 - End of configuration.
[testng] [2024-10-29 03:45:06,910] [pool-1-thread-11] Initializing /data/public/NIH/minimal.hdr:
[testng] [2024-10-29 03:45:07,609] [pool-1-thread-2] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] [2024-10-29 03:45:08,217] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] [2024-10-29 03:45:08,950] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] [2024-10-29 03:45:11,872] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2024-10-29 03:45:14,989] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] [2024-10-29 03:45:20,168] [pool-1-thread-5] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-10-29 03:45:20,825] [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: 1 minute 54 seconds
Finished: SUCCESS