Started by upstream project "BIOFORMATS-test-repo" build number 67
originally caused by:
Started by upstream project "Trigger" build number 75
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/jenkins7189841032988373769.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_10126_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] 02:44:26,633 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:44:26,635 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 02:44:26,635 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:26,636 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:44:26,637 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:44:26,637 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:44:26,637 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:44:26,637 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:26,638 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:44:26,639 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:44:26,639 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:44:26,639 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:44:26,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:44:26,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:44:26,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:44:26,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:44:26,876 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:44:26,876 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:44:26,876 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:44:26,877 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:44:26,877 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 02:44:26,878 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 02:44:26,878 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 240 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-18 02:44:26,887] [main] java.version = 11.0.16
[testng] 02:44:26,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:44:26,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:26,945 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-18_02-44-26.log]
[testng] 02:44:26,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-05-18 02:44:26,967] [main] testng.directory = /data
[testng] [2024-05-18 02:44:26,967] [main] testng.configDirectory = /config
[testng] [2024-05-18 02:44:26,978] [main] testng.multiplier = 1.0
[testng] [2024-05-18 02:44:26,979] [main] testng.in-memory = false
[testng] [2024-05-18 02:44:26,979] [main] testng.allow-missing = false
[testng] [2024-05-18 02:44:26,979] [main] user.language = en
[testng] [2024-05-18 02:44:26,979] [main] user.country = ${user.country}
[testng] [2024-05-18 02:44:26,980] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-18 02:44:27,801] [main] ----------------------------------------
[testng] [2024-05-18 02:44:27,801] [main] Total files: 23
[testng] [2024-05-18 02:44:27,801] [main] Scan time: 0.821 s (35 ms/file)
[testng] [2024-05-18 02:44:27,801] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-18 02:44:32,321] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] 02:44:32,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:44:32,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-18_02-44-32.log]
[testng] 02:44:32,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@527a7f35 - End of configuration.
[testng] [2024-05-18 02:44:32,351] [pool-1-thread-12] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 02:44:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:44:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-18_02-44-32.log]
[testng] 02:44:32,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fb89238 - End of configuration.
[testng] [2024-05-18 02:44:32,373] [pool-1-thread-11] Initializing /data/qa-17334/volume4d.nii:
[testng] 02:44:32,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:44:32,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-18_02-44-32.log]
[testng] 02:44:32,375 |-INFO in ch.qos.logback.core.sift.SiftProcessor@391c921b - End of configuration.
[testng] [2024-05-18 02:44:32,399] [pool-1-thread-10] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] 02:44:32,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:44:32,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-18_02-44-32.log]
[testng] 02:44:32,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74045161 - End of configuration.
[testng] [2024-05-18 02:44:32,426] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 02:44:32,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:44:32,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-18_02-44-32.log]
[testng] 02:44:32,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38c881a2 - End of configuration.
[testng] [2024-05-18 02:44:32,613] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] 02:44:32,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:44:32,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,614 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-18_02-44-32.log]
[testng] 02:44:32,614 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6637795b - End of configuration.
[testng] [2024-05-18 02:44:32,626] [pool-1-thread-7] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 02:44:32,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:44:32,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-18_02-44-32.log]
[testng] 02:44:32,627 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3910a62 - End of configuration.
[testng] [2024-05-18 02:44:32,644] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] 02:44:32,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:44:32,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-18_02-44-32.log]
[testng] 02:44:32,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d98c8be - End of configuration.
[testng] [2024-05-18 02:44:32,826] [pool-1-thread-5] Initializing /data/public/NIH/minimal.hdr:
[testng] 02:44:32,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:44:32,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-18_02-44-32.log]
[testng] 02:44:32,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@471c79dd - End of configuration.
[testng] [2024-05-18 02:44:32,838] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 02:44:32,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:44:32,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-18_02-44-32.log]
[testng] 02:44:32,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@123aff00 - End of configuration.
[testng] [2024-05-18 02:44:32,859] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 02:44:32,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:44:32,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-18_02-44-32.log]
[testng] 02:44:32,861 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71162a61 - End of configuration.
[testng] [2024-05-18 02:44:32,886] [pool-1-thread-2] Initializing /data/public/NIH/zstat1.nii:
[testng] 02:44:32,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:44:32,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:32,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-18_02-44-32.log]
[testng] 02:44:32,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46ab95c5 - End of configuration.
[testng] [2024-05-18 02:44:34,541] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] [2024-05-18 02:44:34,553] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] [2024-05-18 02:44:34,568] [pool-1-thread-4] Initializing /data/public/NIH/minimal.nii:
[testng] [2024-05-18 02:44:34,577] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] [2024-05-18 02:44:34,588] [pool-1-thread-8] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] [2024-05-18 02:44:34,665] [pool-1-thread-7] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] [2024-05-18 02:44:34,678] [pool-1-thread-11] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] [2024-05-18 02:44:34,708] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1060, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 39 seconds
Finished: SUCCESS