Started by upstream project "BIOFORMATS-test-repo" build number 78
originally caused by:
Started by upstream project "Trigger" build number 86
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9
[BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins9906354045866588195.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_11915_merge_ci -v /uod/idr/repos/curated/biorad-gel:/data -v /uod/idr-scratch/merge-ci/curated/biorad-gel:/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] 02:25:02,422 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:25:02,423 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:25:02,423 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:25:02,424 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:25:02,424 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:25:02,425 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:25:02,425 |-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] 02:25:02,425 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:25:02,426 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:25:02,426 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:25:02,426 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:25:02,427 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:25:02,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:25:02,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:25:02,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:25:02,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:25:02,641 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:25:02,642 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:25:02,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:25:02,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:25:02,642 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:25:02,643 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:25:02,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 217 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-29 02:25:02,653] [main] java.version = 17.0.2
[testng] 02:25:02,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:25:02,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:02,698 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-29_02-25-02.log]
[testng] 02:25:02,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-05-29 02:25:02,702] [main] testng.directory = /data
[testng] [2024-05-29 02:25:02,702] [main] testng.configDirectory = /config
[testng] [2024-05-29 02:25:02,711] [main] testng.multiplier = 1.0
[testng] [2024-05-29 02:25:02,712] [main] testng.in-memory = false
[testng] [2024-05-29 02:25:02,712] [main] testng.allow-missing = false
[testng] [2024-05-29 02:25:02,712] [main] user.language = en
[testng] [2024-05-29 02:25:02,712] [main] user.country = ${user.country}
[testng] [2024-05-29 02:25:02,712] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-29 02:25:03,509] [main] ----------------------------------------
[testng] [2024-05-29 02:25:03,509] [main] Total files: 32
[testng] [2024-05-29 02:25:03,510] [main] Scan time: 0.797 s (24 ms/file)
[testng] [2024-05-29 02:25:03,510] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-29 02:25:06,767] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff:
[testng] 02:25:06,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:25:06,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,769 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-29_02-25-06.log]
[testng] 02:25:06,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7864c587 - End of configuration.
[testng] [2024-05-29 02:25:06,833] [pool-1-thread-12] Initializing /data/keith/test2.1sc:
[testng] 02:25:06,833 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:25:06,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,834 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-29_02-25-06.log]
[testng] 02:25:06,835 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e00f3cb - End of configuration.
[testng] [2024-05-29 02:25:06,854] [pool-1-thread-11] Initializing /data/keith/PF020328saur v3.1sc:
[testng] 02:25:06,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:25:06,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-29_02-25-06.log]
[testng] 02:25:06,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72e1429d - End of configuration.
[testng] [2024-05-29 02:25:06,875] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg:
[testng] 02:25:06,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:25:06,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-29_02-25-06.log]
[testng] 02:25:06,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d059742 - End of configuration.
[testng] [2024-05-29 02:25:06,911] [pool-1-thread-9] Initializing /data/adrian/test_img.1sc:
[testng] 02:25:06,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:25:06,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-29_02-25-06.log]
[testng] 02:25:06,913 |-INFO in ch.qos.logback.core.sift.SiftProcessor@96d371b - End of configuration.
[testng] [2024-05-29 02:25:06,960] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc:
[testng] 02:25:06,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:25:06,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-29_02-25-06.log]
[testng] 02:25:06,962 |-INFO in ch.qos.logback.core.sift.SiftProcessor@394b5868 - End of configuration.
[testng] [2024-05-29 02:25:07,011] [pool-1-thread-7] Initializing /data/geert/good example1.1sc:
[testng] 02:25:07,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:25:07,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-29_02-25-07.log]
[testng] 02:25:07,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aae331d - End of configuration.
[testng] [2024-05-29 02:25:07,054] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 02:25:07,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:25:07,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-29_02-25-07.log]
[testng] 02:25:07,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46718697 - End of configuration.
[testng] [2024-05-29 02:25:07,088] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc:
[testng] 02:25:07,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:25:07,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-29_02-25-07.log]
[testng] 02:25:07,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ad4f8d6 - End of configuration.
[testng] [2024-05-29 02:25:07,110] [pool-1-thread-4] Initializing /data/keith/test.1sc:
[testng] 02:25:07,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:25:07,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,111 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-29_02-25-07.log]
[testng] 02:25:07,111 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27a885e3 - End of configuration.
[testng] [2024-05-29 02:25:07,129] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc:
[testng] 02:25:07,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:25:07,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,130 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-29_02-25-07.log]
[testng] 02:25:07,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3699ea97 - End of configuration.
[testng] [2024-05-29 02:25:07,166] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] 02:25:07,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:25:07,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:07,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-29_02-25-07.log]
[testng] 02:25:07,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@124f8c76 - End of configuration.
[testng] [2024-05-29 02:25:08,863] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2024-05-29 02:25:08,916] [pool-1-thread-4] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] [2024-05-29 02:25:08,933] [pool-1-thread-12] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] [2024-05-29 02:25:08,976] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] [2024-05-29 02:25:08,991] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2024-05-29 02:25:09,017] [pool-1-thread-5] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2024-05-29 02:25:09,165] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] [2024-05-29 02:25:09,365] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2024-05-29 02:25:09,394] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc:
[testng] [2024-05-29 02:25:09,409] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2024-05-29 02:25:09,532] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg:
[testng] [2024-05-29 02:25:09,544] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2024-05-29 02:25:09,699] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc:
[testng] [2024-05-29 02:25:09,726] [pool-1-thread-4] Initializing /data/samples/Criterion.1sc:
[testng] [2024-05-29 02:25:09,883] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] [2024-05-29 02:25:10,062] [pool-1-thread-7] Initializing /data/qa-29469/good.1sc:
[testng] [2024-05-29 02:25:10,103] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2024-05-29 02:25:10,160] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] [2024-05-29 02:25:10,198] [pool-1-thread-3] Initializing /data/qa-29469/bad2.1sc:
[testng] [2024-05-29 02:25:10,275] [pool-1-thread-1] Initializing /data/qa-29469/bad3.1sc:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 12 seconds
Finished: SUCCESS