Started by upstream project "BIOFORMATS-test-repo" build number 106
originally caused by:
Started by upstream project "Trigger" build number 118
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins17339438095498534352.sh
+ '[' sis = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_16455_merge_ci -v /uod/idr/repos/curated/sis:/data -v /uod/idr-scratch/merge-ci/curated/sis:/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] 01:55:04,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:55:04,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 01:55:04,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:55:04,416 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:55:04,417 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:55:04,417 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:55:04,418 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:55:04,418 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:55:04,418 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:55:04,419 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:55:04,419 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:55:04,420 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:55:04,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:55:04,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:55:04,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:55:04,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:55:04,658 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:55:04,658 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:55:04,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:55:04,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:55:04,658 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 01:55:04,659 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 01:55:04,659 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 241 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-29 01:55:04,670] [main] java.version = 11.0.16
[testng] 01:55:04,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:55:04,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:04,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-29_01-55-04.log]
[testng] 01:55:04,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-06-29 01:55:04,737] [main] testng.directory = /data
[testng] [2024-06-29 01:55:04,737] [main] testng.configDirectory = /config
[testng] [2024-06-29 01:55:04,753] [main] testng.multiplier = 1.0
[testng] [2024-06-29 01:55:04,755] [main] testng.in-memory = false
[testng] [2024-06-29 01:55:04,755] [main] testng.allow-missing = false
[testng] [2024-06-29 01:55:04,755] [main] user.language = en
[testng] [2024-06-29 01:55:04,755] [main] user.country = ${user.country}
[testng] [2024-06-29 01:55:04,755] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-29 01:55:06,044] [main] ----------------------------------------
[testng] [2024-06-29 01:55:06,044] [main] Total files: 13
[testng] [2024-06-29 01:55:06,045] [main] Scan time: 1.289 s (99 ms/file)
[testng] [2024-06-29 01:55:06,045] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 11 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-29 01:55:08,949] [pool-1-thread-1] Initializing /data/glen/CG 3.31 20K.tif:
[testng] 01:55:08,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:55:08,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:08,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-29_01-55-08.log]
[testng] 01:55:08,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8c6cbc - End of configuration.
[testng] [2024-06-29 01:55:09,038] [pool-1-thread-11] Initializing /data/glen/CG 3.31 10K.tif:
[testng] 01:55:09,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:55:09,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-29_01-55-09.log]
[testng] 01:55:09,042 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7aede80f - End of configuration.
[testng] [2024-06-29 01:55:09,105] [pool-1-thread-10] Initializing /data/dimitri/ELN-ARM_00049_38.tif:
[testng] 01:55:09,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:55:09,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-29_01-55-09.log]
[testng] 01:55:09,108 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6091627b - End of configuration.
[testng] [2024-06-29 01:55:09,185] [pool-1-thread-9] Initializing /data/strand/FS44-1-254.tif:
[testng] 01:55:09,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:55:09,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-29_01-55-09.log]
[testng] 01:55:09,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50c2cd4d - End of configuration.
[testng] [2024-06-29 01:55:09,325] [pool-1-thread-8] Initializing /data/glen/CG 3.31 15K.tif:
[testng] 01:55:09,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:55:09,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,327 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-29_01-55-09.log]
[testng] 01:55:09,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63b671ec - End of configuration.
[testng] [2024-06-29 01:55:09,437] [pool-1-thread-7] Initializing /data/glen/L1468a-2_4_15000X.tif:
[testng] 01:55:09,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:55:09,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-29_01-55-09.log]
[testng] 01:55:09,440 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22ea119d - End of configuration.
[testng] [2024-06-29 01:55:09,549] [pool-1-thread-6] Initializing /data/pki/Tv2.tif:
[testng] 01:55:09,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:55:09,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-29_01-55-09.log]
[testng] 01:55:09,552 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f1ef9b0 - End of configuration.
[testng] [2024-06-29 01:55:09,621] [pool-1-thread-5] Initializing /data/russell/Arbacia 2week ADL.tif:
[testng] 01:55:09,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:55:09,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-29_01-55-09.log]
[testng] 01:55:09,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bcd21ea - End of configuration.
[testng] [2024-06-29 01:55:09,717] [pool-1-thread-4] Initializing /data/glen/L1500k P_4_7500X.tif:
[testng] 01:55:09,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:55:09,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,719 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-29_01-55-09.log]
[testng] 01:55:09,719 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e8e8eb5 - End of configuration.
[testng] [2024-06-29 01:55:09,788] [pool-1-thread-3] Initializing /data/strand/MIA.tif:
[testng] 01:55:09,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:55:09,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-29_01-55-09.log]
[testng] 01:55:09,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26587460 - End of configuration.
[testng] [2024-06-29 01:55:09,897] [pool-1-thread-2] Initializing /data/glen/L1500k P_3_7500X.tif:
[testng] 01:55:09,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:55:09,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:55:09,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-29_01-55-09.log]
[testng] 01:55:09,899 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d8dfc9b - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 583, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 14 seconds
Finished: SUCCESS