Started by upstream project "BIOFORMATS-test-repo" build number 204
originally caused by:
Started by upstream project "Trigger" build number 230
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3
[BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins16887912263555818924.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_32437_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] 04:23:55,726 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:23:55,727 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 04:23:55,727 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:23:55,728 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:23:55,729 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:23:55,729 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:23:55,729 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:23:55,729 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:23:55,730 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:23:55,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:23:55,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:23:55,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:23:55,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:23:55,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:23:55,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:23:55,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:23:55,935 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:23:55,936 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:23:55,936 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:23:55,936 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:23:55,936 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 04:23:55,937 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 04:23:55,937 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 207 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-09-29 04:23:55,947] [main] java.version = 17.0.2
[testng] 04:23:55,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:23:55,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:23:55,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-29_04-23-55.log]
[testng] 04:23:55,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-09-29 04:23:55,999] [main] testng.directory = /data
[testng] [2024-09-29 04:23:55,999] [main] testng.configDirectory = /config
[testng] [2024-09-29 04:23:56,008] [main] testng.multiplier = 1.0
[testng] [2024-09-29 04:23:56,009] [main] testng.in-memory = false
[testng] [2024-09-29 04:23:56,009] [main] testng.allow-missing = false
[testng] [2024-09-29 04:23:56,009] [main] user.language = en
[testng] [2024-09-29 04:23:56,009] [main] user.country = ${user.country}
[testng] [2024-09-29 04:23:56,009] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-09-29 04:24:04,399] [main] ----------------------------------------
[testng] [2024-09-29 04:24:04,399] [main] Total files: 23
[testng] [2024-09-29 04:24:04,399] [main] Scan time: 8.39 s (364 ms/file)
[testng] [2024-09-29 04:24:04,399] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-09-29 04:24:30,434] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 04:24:30,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:24:30,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:30,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-29_04-24-30.log]
[testng] 04:24:30,437 |-INFO in ch.qos.logback.core.sift.SiftProcessor@183aada5 - End of configuration.
[testng] [2024-09-29 04:24:31,031] [pool-1-thread-12] Initializing /data/qa-17334/volume4d.nii:
[testng] 04:24:31,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:24:31,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:31,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-29_04-24-31.log]
[testng] 04:24:31,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3222e11f - End of configuration.
[testng] [2024-09-29 04:24:31,517] [pool-1-thread-11] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 04:24:31,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:24:31,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:31,518 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-29_04-24-31.log]
[testng] 04:24:31,519 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6436e93f - End of configuration.
[testng] [2024-09-29 04:24:32,030] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] 04:24:32,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:24:32,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:32,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-29_04-24-32.log]
[testng] 04:24:32,031 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c8f6f59 - End of configuration.
[testng] [2024-09-29 04:24:32,570] [pool-1-thread-9] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] 04:24:32,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:24:32,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:32,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-29_04-24-32.log]
[testng] 04:24:32,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e412d79 - End of configuration.
[testng] [2024-09-29 04:24:33,034] [pool-1-thread-8] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 04:24:33,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:24:33,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:33,036 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-29_04-24-33.log]
[testng] 04:24:33,036 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d5e77fb - End of configuration.
[testng] [2024-09-29 04:24:33,511] [pool-1-thread-7] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 04:24:33,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:24:33,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:33,512 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-29_04-24-33.log]
[testng] 04:24:33,512 |-INFO in ch.qos.logback.core.sift.SiftProcessor@446d5c89 - End of configuration.
[testng] [2024-09-29 04:24:33,985] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] 04:24:33,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:24:33,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:33,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-29_04-24-33.log]
[testng] 04:24:33,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31bf09ca - End of configuration.
[testng] [2024-09-29 04:24:34,480] [pool-1-thread-5] Initializing /data/public/NIH/minimal.hdr:
[testng] 04:24:34,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:24:34,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:34,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-29_04-24-34.log]
[testng] 04:24:34,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c0d4ea3 - End of configuration.
[testng] [2024-09-29 04:24:34,976] [pool-1-thread-4] Initializing /data/public/NIH/filtered_func_data.nii:
[testng] 04:24:34,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:24:34,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:34,977 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-29_04-24-34.log]
[testng] 04:24:34,977 |-INFO in ch.qos.logback.core.sift.SiftProcessor@540a7e8e - End of configuration.
[testng] [2024-09-29 04:24:35,409] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] 04:24:35,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:24:35,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:35,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-29_04-24-35.log]
[testng] 04:24:35,411 |-INFO in ch.qos.logback.core.sift.SiftProcessor@637d051c - End of configuration.
[testng] [2024-09-29 04:24:37,369] [pool-1-thread-2] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 04:24:37,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:24:37,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:24:37,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-29_04-24-37.log]
[testng] 04:24:37,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fdeb39c - End of configuration.
[testng] [2024-09-29 04:24:43,906] [pool-1-thread-8] Initializing /data/public/NIH/minimal.nii:
[testng] [2024-09-29 04:24:44,380] [pool-1-thread-7] Initializing /data/public/NIH/zstat1.nii:
[testng] [2024-09-29 04:24:44,916] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] [2024-09-29 04:24:47,009] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] [2024-09-29 04:24:48,366] [pool-1-thread-1] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] [2024-09-29 04:24:52,807] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] [2024-09-29 04:24:53,284] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] [2024-09-29 04:24:53,784] [pool-1-thread-9] Initializing /data/public/NIH/newsirp_final_XML.nii:
[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 38 seconds
Finished: SUCCESS