Started by upstream project "BIOFORMATS-test-repo" build number 306
originally caused by:
Started by upstream project "Trigger" build number 328
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins15769621219960904548.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_48537_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 04:33:50,712 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:33:50,713 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 04:33:50,713 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:33:50,714 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:33:50,715 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:33:50,715 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:33:50,715 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:33:50,715 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:33:50,716 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:33:50,716 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:33:50,717 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:33:50,717 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:33:50,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:33:50,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:33:50,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:33:50,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:33:50,901 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:33:50,901 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:33:50,901 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:33:50,901 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:33:50,902 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 04:33:50,902 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 04:33:50,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 186 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-01-02 04:33:50,911] [main] java.version = 21
[testng] 04:33:50,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:33:50,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:33:50,967 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-02_04-33-50.log]
[testng] 04:33:50,969 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2025-01-02 04:33:50,971] [main] testng.directory = /data
[testng] [2025-01-02 04:33:50,972] [main] testng.configDirectory = /config
[testng] [2025-01-02 04:33:50,986] [main] testng.multiplier = 1.0
[testng] [2025-01-02 04:33:50,987] [main] testng.in-memory = false
[testng] [2025-01-02 04:33:50,987] [main] testng.allow-missing = false
[testng] [2025-01-02 04:33:50,987] [main] user.language = en
[testng] [2025-01-02 04:33:50,987] [main] user.country = ${user.country}
[testng] [2025-01-02 04:33:50,987] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-01-02 04:34:09,717] [main] ----------------------------------------
[testng] [2025-01-02 04:34:09,717] [main] Total files: 23
[testng] [2025-01-02 04:34:09,717] [main] Scan time: 18.729 s (814 ms/file)
[testng] [2025-01-02 04:34:09,718] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-01-02 04:34:49,909] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] 04:34:49,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:34:49,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:34:49,911 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-02_04-34-49.log]
[testng] 04:34:49,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e854041 - End of configuration.
[testng] [2025-01-02 04:34:54,256] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] 04:34:54,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:34:54,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:34:54,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-02_04-34-54.log]
[testng] 04:34:54,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32bade10 - End of configuration.
[testng] [2025-01-02 04:34:57,343] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 04:34:57,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:34:57,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:34:57,344 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-02_04-34-57.log]
[testng] 04:34:57,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b02226 - End of configuration.
[testng] [2025-01-02 04:34:58,096] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] 04:34:58,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:34:58,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:34:58,097 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-02_04-34-58.log]
[testng] 04:34:58,098 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66451f6b - End of configuration.
[testng] [2025-01-02 04:35:03,991] [pool-1-thread-9] Initializing /data/public/NIH/minimal.hdr:
[testng] 04:35:03,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:35:03,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:03,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-02_04-35-03.log]
[testng] 04:35:03,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@320c2eee - End of configuration.
[testng] [2025-01-02 04:35:04,731] [pool-1-thread-8] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 04:35:04,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:35:04,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:04,731 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-02_04-35-04.log]
[testng] 04:35:04,732 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67d2ac7c - End of configuration.
[testng] [2025-01-02 04:35:05,450] [pool-1-thread-7] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 04:35:05,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:35:05,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:05,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-02_04-35-05.log]
[testng] 04:35:05,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75421e38 - End of configuration.
[testng] [2025-01-02 04:35:06,237] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 04:35:06,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:35:06,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:06,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-02_04-35-06.log]
[testng] 04:35:06,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5af212d8 - End of configuration.
[testng] [2025-01-02 04:35:06,999] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] 04:35:06,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:35:06,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:07,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-02_04-35-07.log]
[testng] 04:35:07,000 |-INFO in ch.qos.logback.core.sift.SiftProcessor@adc73a1 - End of configuration.
[testng] [2025-01-02 04:35:07,818] [pool-1-thread-4] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 04:35:07,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:35:07,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:07,819 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-02_04-35-07.log]
[testng] 04:35:07,819 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ee1059b - End of configuration.
[testng] [2025-01-02 04:35:10,810] [pool-1-thread-3] Initializing /data/public/NIH/zstat1.nii:
[testng] 04:35:10,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:35:10,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:10,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-02_04-35-10.log]
[testng] 04:35:10,811 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eaec444 - End of configuration.
[testng] [2025-01-02 04:35:12,037] [pool-1-thread-2] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 04:35:12,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:35:12,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:35:12,038 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-02_04-35-12.log]
[testng] 04:35:12,038 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c409991 - End of configuration.
[testng] [2025-01-02 04:35:19,338] [pool-1-thread-8] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] [2025-01-02 04:35:20,054] [pool-1-thread-2] Initializing /data/qa-17334/volume4d.nii:
[testng] [2025-01-02 04:35:20,986] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] [2025-01-02 04:35:23,259] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] [2025-01-02 04:35:24,042] [pool-1-thread-9] Initializing /data/public/NIH/minimal.nii:
[testng] [2025-01-02 04:35:24,750] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] [2025-01-02 04:35:25,472] [pool-1-thread-11] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] [2025-01-02 04:35:27,125] [pool-1-thread-7] Initializing /data/public/NIH/avg152T1_RL_nifti.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 16 seconds
Finished: SUCCESS