Started by upstream project "BIOFORMATS-test-repo" build number 231
originally caused by:
Started by upstream project "Trigger" build number 256
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9
[BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins1036407499918002985.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_36348_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] 05:30:21,895 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:30:21,897 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 05:30:21,897 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:30:21,898 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:30:21,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:30:21,899 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:30:21,899 |-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] 05:30:21,899 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:30:21,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:30:21,900 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:30:21,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:30:21,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:30:22,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:30:22,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:30:22,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:30:22,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:30:22,099 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:30:22,099 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:30:22,099 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:30:22,100 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:30:22,100 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 05:30:22,100 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 05:30:22,101 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-22 05:30:22,109] [main] java.version = 11.0.16
[testng] 05:30:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:30:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:30:22,154 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-22_05-30-22.log]
[testng] 05:30:22,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-10-22 05:30:22,158] [main] testng.directory = /data
[testng] [2024-10-22 05:30:22,158] [main] testng.configDirectory = /config
[testng] [2024-10-22 05:30:22,168] [main] testng.multiplier = 1.0
[testng] [2024-10-22 05:30:22,169] [main] testng.in-memory = false
[testng] [2024-10-22 05:30:22,169] [main] testng.allow-missing = false
[testng] [2024-10-22 05:30:22,169] [main] user.language = en
[testng] [2024-10-22 05:30:22,169] [main] user.country = ${user.country}
[testng] [2024-10-22 05:30:22,169] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-22 05:30:46,077] [main] ----------------------------------------
[testng] [2024-10-22 05:30:46,077] [main] Total files: 23
[testng] [2024-10-22 05:30:46,077] [main] Scan time: 23.908 s (1039 ms/file)
[testng] [2024-10-22 05:30:46,078] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-22 05:31:28,650] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 05:31:28,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:31:28,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:28,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-22_05-31-28.log]
[testng] 05:31:28,654 |-INFO in ch.qos.logback.core.sift.SiftProcessor@668e5b0d - End of configuration.
[testng] [2024-10-22 05:31:29,569] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 05:31:29,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:31:29,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:29,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-22_05-31-29.log]
[testng] 05:31:29,571 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34aaa8c2 - End of configuration.
[testng] [2024-10-22 05:31:32,993] [pool-1-thread-11] Initializing /data/qa-17334/volume4d.nii:
[testng] 05:31:32,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:31:32,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:32,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-22_05-31-32.log]
[testng] 05:31:32,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642dbb8a - End of configuration.
[testng] [2024-10-22 05:31:34,026] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 05:31:34,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:31:34,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:34,026 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-22_05-31-34.log]
[testng] 05:31:34,027 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35d551d9 - End of configuration.
[testng] [2024-10-22 05:31:34,804] [pool-1-thread-9] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] 05:31:34,804 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:31:34,804 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:34,805 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-22_05-31-34.log]
[testng] 05:31:34,805 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35008859 - End of configuration.
[testng] [2024-10-22 05:31:35,513] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 05:31:35,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:31:35,514 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:35,514 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-22_05-31-35.log]
[testng] 05:31:35,514 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35643adf - End of configuration.
[testng] [2024-10-22 05:31:37,001] [pool-1-thread-7] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 05:31:37,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:31:37,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:37,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-22_05-31-37.log]
[testng] 05:31:37,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20ca8ff4 - End of configuration.
[testng] [2024-10-22 05:31:40,757] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 05:31:40,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:31:40,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:40,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-22_05-31-40.log]
[testng] 05:31:40,758 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18c727d1 - End of configuration.
[testng] [2024-10-22 05:31:41,553] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 05:31:41,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:31:41,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:41,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-22_05-31-41.log]
[testng] 05:31:41,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178bdbd2 - End of configuration.
[testng] [2024-10-22 05:31:43,074] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 05:31:43,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:31:43,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:43,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-22_05-31-43.log]
[testng] 05:31:43,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48bdc9b8 - End of configuration.
[testng] [2024-10-22 05:31:43,806] [pool-1-thread-3] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] 05:31:43,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:31:43,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:43,807 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-22_05-31-43.log]
[testng] 05:31:43,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fa4057 - End of configuration.
[testng] [2024-10-22 05:31:44,549] [pool-1-thread-2] Initializing /data/public/NIH/minimal.nii:
[testng] 05:31:44,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:31:44,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:31:44,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-22_05-31-44.log]
[testng] 05:31:44,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@489ecc87 - End of configuration.
[testng] [2024-10-22 05:31:52,678] [pool-1-thread-2] Initializing /data/public/NIH/minimal.hdr:
[testng] [2024-10-22 05:31:53,547] [pool-1-thread-11] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] [2024-10-22 05:31:59,209] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2024-10-22 05:32:00,017] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] [2024-10-22 05:32:00,744] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] [2024-10-22 05:32:03,775] [pool-1-thread-6] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] [2024-10-22 05:32:11,156] [pool-1-thread-5] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-10-22 05:32:13,173] [pool-1-thread-10] 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: 2 minutes 45 seconds
Finished: SUCCESS