Started by upstream project "BIOFORMATS-test-repo" build number 110
originally caused by:
Started by upstream project "Trigger" build number 123
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/jenkins9046670265259285578.sh
+ '[' ultraview = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_17120_merge_ci -v /uod/idr/repos/curated/ultraview:/data -v /uod/idr-scratch/merge-ci/curated/ultraview:/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] 01:59:12,715 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:59:12,717 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:59:12,717 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:59:12,718 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:59:12,718 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:59:12,719 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:59:12,719 |-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] 01:59:12,719 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:59:12,720 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:59:12,721 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:59:12,721 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:59:12,722 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:59:12,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:59:12,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:59:13,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:59:13,009 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:59:13,015 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:59:13,015 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:59:13,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:59:13,015 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:59:13,016 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:59:13,016 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:59:13,016 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 296 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-03 01:59:13,026] [main] java.version = 17.0.2
[testng] 01:59:13,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:59:13,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:13,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-03_01-59-13.log]
[testng] 01:59:13,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-07-03 01:59:13,091] [main] testng.directory = /data
[testng] [2024-07-03 01:59:13,092] [main] testng.configDirectory = /config
[testng] [2024-07-03 01:59:13,117] [main] testng.multiplier = 1.0
[testng] [2024-07-03 01:59:13,118] [main] testng.in-memory = false
[testng] [2024-07-03 01:59:13,118] [main] testng.allow-missing = false
[testng] [2024-07-03 01:59:13,118] [main] user.language = en
[testng] [2024-07-03 01:59:13,118] [main] user.country = ${user.country}
[testng] [2024-07-03 01:59:13,118] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-07-03 01:59:16,317] [main] ----------------------------------------
[testng] [2024-07-03 01:59:16,318] [main] Total files: 19
[testng] [2024-07-03 01:59:16,318] [main] Scan time: 3.198 s (168 ms/file)
[testng] [2024-07-03 01:59:16,318] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 18 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-03 01:59:18,620] [pool-1-thread-1] Initializing /data/kate/GreenOnlyNoZnoT/GreenOnlyNoZnoT.htm:
[testng] 01:59:18,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:59:18,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,621 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-03_01-59-18.log]
[testng] 01:59:18,622 |-INFO in ch.qos.logback.core.sift.SiftProcessor@445b41ac - End of configuration.
[testng] [2024-07-03 01:59:18,651] [pool-1-thread-12] Initializing /data/todd/movement-1.htm:
[testng] 01:59:18,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:59:18,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-03_01-59-18.log]
[testng] 01:59:18,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46bbdd71 - End of configuration.
[testng] [2024-07-03 01:59:18,699] [pool-1-thread-11] Initializing /data/chad/20080107130850/IREN200820080107130850.HTM:
[testng] 01:59:18,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:59:18,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-03_01-59-18.log]
[testng] 01:59:18,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@96a38ef - End of configuration.
[testng] [2024-07-03 01:59:18,725] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/DIC_200820080724115245/CHAD200820080724115245.HTM:
[testng] 01:59:18,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:59:18,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-03_01-59-18.log]
[testng] 01:59:18,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53b54999 - End of configuration.
[testng] [2024-07-03 01:59:18,752] [pool-1-thread-9] Initializing /data/chad/DIC_IREN200820080107120042/IREN200820080107120042.HTM:
[testng] 01:59:18,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:59:18,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-03_01-59-18.log]
[testng] 01:59:18,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48896159 - End of configuration.
[testng] [2024-07-03 01:59:18,776] [pool-1-thread-8] Initializing /data/chad/UltraViewSamples/series 3/RAJE200820080619090142.HTM:
[testng] 01:59:18,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:59:18,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,777 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-03_01-59-18.log]
[testng] 01:59:18,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bdd236e - End of configuration.
[testng] [2024-07-03 01:59:18,800] [pool-1-thread-7] Initializing /data/chad/DIC/EZRA200820080626102637.HTM:
[testng] 01:59:18,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:59:18,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-03_01-59-18.log]
[testng] 01:59:18,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ada30f - End of configuration.
[testng] [2024-07-03 01:59:18,823] [pool-1-thread-6] Initializing /data/kate/GreenRed6ZnoT/GreenRed5ZNoT.htm:
[testng] 01:59:18,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:59:18,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,825 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-03_01-59-18.log]
[testng] 01:59:18,825 |-INFO in ch.qos.logback.core.sift.SiftProcessor@616a11e9 - End of configuration.
[testng] [2024-07-03 01:59:18,845] [pool-1-thread-5] Initializing /data/chad/UltraViewExample/works/CHAD200920090331181355.HTM:
[testng] 01:59:18,845 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:59:18,845 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,846 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-03_01-59-18.log]
[testng] 01:59:18,846 |-INFO in ch.qos.logback.core.sift.SiftProcessor@253e7eaa - End of configuration.
[testng] [2024-07-03 01:59:18,862] [pool-1-thread-4] Initializing /data/helio/2 copy Cnn g-tubGFP 111221#20/2 copy Cnn g-tubGFP 111221#20.htm:
[testng] 01:59:18,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:59:18,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,863 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-03_01-59-18.log]
[testng] 01:59:18,863 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6254bb7 - End of configuration.
[testng] [2024-07-03 01:59:18,878] [pool-1-thread-3] Initializing /data/kate/Neutrophils#18/tiffs/Neutrophils#18.htm:
[testng] 01:59:18,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:59:18,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-03_01-59-18.log]
[testng] 01:59:18,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a0dd0d0 - End of configuration.
[testng] [2024-07-03 01:59:18,920] [pool-1-thread-2] Initializing /data/kate/Neutrophils#18/Neutrophils#18.htm:
[testng] 01:59:18,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:59:18,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:59:18,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-03_01-59-18.log]
[testng] 01:59:18,921 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d8cfc10 - End of configuration.
[testng] [2024-07-03 01:59:23,827] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/Bug/CHAD200820080724120123.HTM:
[testng] [2024-07-03 01:59:23,839] [pool-1-thread-9] Initializing /data/kate/GreenRedNoZnoT/GreenRedNoZNoT.htm:
[testng] [2024-07-03 01:59:23,855] [pool-1-thread-12] Initializing /data/kate/GreenRed6Z3T/GreenRed5Z5T.htm:
[testng] [2024-07-03 01:59:23,885] [pool-1-thread-5] Initializing /data/kate/GreenRedNoZ3T/GreenRedNoZ5T.htm:
[testng] [2024-07-03 01:59:23,910] [pool-1-thread-6] Initializing /data/chad/UltraViewExample/doesNot/CHAD200920090331181253.HTM:
[testng] [2024-07-03 01:59:23,933] [pool-1-thread-11] Initializing /data/chad/UltraViewExamples/Works/CHAD200820080724121453.HTM:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 954, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 49 seconds
Finished: SUCCESS