Started by upstream project "BIOFORMATS-test-repo" build number 298
originally caused by:
Started by upstream project "Trigger" build number 320
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins18241367258019120557.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_47217_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] 05:45:28,033 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:45:28,035 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 05:45:28,035 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:45:28,036 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:45:28,036 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:45:28,036 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:45:28,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:45:28,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:45:28,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:45:28,038 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:45:28,038 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:45:28,038 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:45:28,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:45:28,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:45:28,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:45:28,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:45:28,230 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:45:28,231 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:45:28,231 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:45:28,231 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:45:28,231 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 05:45:28,232 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 05:45:28,232 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-25 05:45:28,241] [main] java.version = 17.0.2
[testng] 05:45:28,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:45:28,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:45:28,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_05-45-28.log]
[testng] 05:45:28,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-12-25 05:45:28,288] [main] testng.directory = /data
[testng] [2024-12-25 05:45:28,288] [main] testng.configDirectory = /config
[testng] [2024-12-25 05:45:28,296] [main] testng.multiplier = 1.0
[testng] [2024-12-25 05:45:28,297] [main] testng.in-memory = false
[testng] [2024-12-25 05:45:28,297] [main] testng.allow-missing = false
[testng] [2024-12-25 05:45:28,297] [main] user.language = en
[testng] [2024-12-25 05:45:28,297] [main] user.country = ${user.country}
[testng] [2024-12-25 05:45:28,297] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-25 05:45:49,894] [main] ----------------------------------------
[testng] [2024-12-25 05:45:49,894] [main] Total files: 23
[testng] [2024-12-25 05:45:49,894] [main] Scan time: 21.597 s (939 ms/file)
[testng] [2024-12-25 05:45:49,895] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-25 05:46:42,438] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 05:46:42,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:46:42,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:42,440 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_05-46-42.log]
[testng] 05:46:42,440 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cbe6790 - End of configuration.
[testng] [2024-12-25 05:46:43,620] [pool-1-thread-12] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] 05:46:43,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:46:43,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:43,622 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-25_05-46-43.log]
[testng] 05:46:43,622 |-INFO in ch.qos.logback.core.sift.SiftProcessor@233e9178 - End of configuration.
[testng] [2024-12-25 05:46:44,846] [pool-1-thread-11] Initializing /data/public/NIH/minimal.nii:
[testng] 05:46:44,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:46:44,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:44,847 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-25_05-46-44.log]
[testng] 05:46:44,848 |-INFO in ch.qos.logback.core.sift.SiftProcessor@769ecc81 - End of configuration.
[testng] [2024-12-25 05:46:45,970] [pool-1-thread-10] Initializing /data/qa-17334/volume4d.nii:
[testng] 05:46:45,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:46:45,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:45,971 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-25_05-46-45.log]
[testng] 05:46:45,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77c969d - End of configuration.
[testng] [2024-12-25 05:46:47,066] [pool-1-thread-9] Initializing /data/public/NIH/zstat1.nii:
[testng] 05:46:47,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:46:47,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:47,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_05-46-47.log]
[testng] 05:46:47,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e9ef8ab - End of configuration.
[testng] [2024-12-25 05:46:48,176] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 05:46:48,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:46:48,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:48,177 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-25_05-46-48.log]
[testng] 05:46:48,177 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d5fed2e - End of configuration.
[testng] [2024-12-25 05:46:49,344] [pool-1-thread-7] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] 05:46:49,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:46:49,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:49,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_05-46-49.log]
[testng] 05:46:49,345 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50e857fd - End of configuration.
[testng] [2024-12-25 05:46:50,538] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 05:46:50,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:46:50,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:50,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-25_05-46-50.log]
[testng] 05:46:50,539 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ef7ee08 - End of configuration.
[testng] [2024-12-25 05:46:51,833] [pool-1-thread-5] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 05:46:51,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:46:51,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:51,834 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-25_05-46-51.log]
[testng] 05:46:51,834 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6091627b - End of configuration.
[testng] [2024-12-25 05:46:52,997] [pool-1-thread-4] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 05:46:52,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:46:52,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:52,998 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-25_05-46-52.log]
[testng] 05:46:52,998 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43b32c40 - End of configuration.
[testng] [2024-12-25 05:46:54,111] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 05:46:54,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:46:54,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:54,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-25_05-46-54.log]
[testng] 05:46:54,112 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29fa9e9e - End of configuration.
[testng] [2024-12-25 05:46:55,347] [pool-1-thread-2] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] 05:46:55,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:46:55,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:55,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-25_05-46-55.log]
[testng] 05:46:55,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50c2cd4d - End of configuration.
[testng] [2024-12-25 05:47:11,443] [pool-1-thread-11] Initializing /data/public/NIH/minimal.hdr:
[testng] [2024-12-25 05:47:12,675] [pool-1-thread-4] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] [2024-12-25 05:47:13,895] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] [2024-12-25 05:47:15,045] [pool-1-thread-10] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] [2024-12-25 05:47:23,453] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] [2024-12-25 05:47:24,782] [pool-1-thread-8] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] [2024-12-25 05:47:29,821] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] [2024-12-25 05:47:34,638] [pool-1-thread-5] Initializing /data/public/NIH/filtered_func_data.nii:
[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 49 seconds
Finished: SUCCESS