Started by upstream project "BIOFORMATS-test-repo" build number 219
originally caused by:
Started by upstream project "Trigger" build number 246
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/jenkins4682149140888653258.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_34830_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] 05:45:30,943 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:45:30,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 05:45:30,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:45:30,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:45:30,946 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:45:30,946 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:45:30,946 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:45:30,946 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:45:30,947 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:45:30,947 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:45:30,948 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:45:30,948 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:45:31,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:45:31,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:45:31,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:45:31,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:45:31,134 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:45:31,134 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:45:31,135 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:45:31,135 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:45:31,135 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 05:45:31,136 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 05:45:31,136 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 189 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-13 05:45:31,144] [main] java.version = 17.0.2
[testng] 05:45:31,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:45:31,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:45:31,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-13_05-45-31.log]
[testng] 05:45:31,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-10-13 05:45:31,190] [main] testng.directory = /data
[testng] [2024-10-13 05:45:31,191] [main] testng.configDirectory = /config
[testng] [2024-10-13 05:45:31,200] [main] testng.multiplier = 1.0
[testng] [2024-10-13 05:45:31,200] [main] testng.in-memory = false
[testng] [2024-10-13 05:45:31,200] [main] testng.allow-missing = false
[testng] [2024-10-13 05:45:31,200] [main] user.language = en
[testng] [2024-10-13 05:45:31,201] [main] user.country = ${user.country}
[testng] [2024-10-13 05:45:31,201] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-13 05:45:35,829] [main] ----------------------------------------
[testng] [2024-10-13 05:45:35,829] [main] Total files: 32
[testng] [2024-10-13 05:45:35,829] [main] Scan time: 4.628 s (144 ms/file)
[testng] [2024-10-13 05:45:35,829] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-13 05:46:01,949] [pool-1-thread-1] Initializing /data/samples/Criterion.1sc:
[testng] 05:46:01,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:46:01,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:01,951 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-13_05-46-01.log]
[testng] 05:46:01,951 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d036179 - End of configuration.
[testng] [2024-10-13 05:46:02,672] [pool-1-thread-12] Initializing /data/qa-29459/bad.jpg:
[testng] 05:46:02,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:46:02,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:02,674 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-13_05-46-02.log]
[testng] 05:46:02,674 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8fc004b - End of configuration.
[testng] [2024-10-13 05:46:02,827] [pool-1-thread-11] Initializing /data/david/Opened in imageJ.tiff:
[testng] 05:46:02,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:46:02,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:02,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-13_05-46-02.log]
[testng] 05:46:02,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e280cd3 - End of configuration.
[testng] [2024-10-13 05:46:04,411] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] 05:46:04,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:46:04,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:04,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-13_05-46-04.log]
[testng] 05:46:04,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e1080e5 - End of configuration.
[testng] [2024-10-13 05:46:06,031] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] 05:46:06,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:46:06,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:06,032 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-13_05-46-06.log]
[testng] 05:46:06,032 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1961b56a - End of configuration.
[testng] [2024-10-13 05:46:07,622] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 05:46:07,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:46:07,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:07,623 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-13_05-46-07.log]
[testng] 05:46:07,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@edbdead - End of configuration.
[testng] [2024-10-13 05:46:08,128] [pool-1-thread-7] Initializing /data/samples/imagesEight.1sc:
[testng] 05:46:08,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:46:08,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:08,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-13_05-46-08.log]
[testng] 05:46:08,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19b532 - End of configuration.
[testng] [2024-10-13 05:46:08,559] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] 05:46:08,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:46:08,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:08,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-13_05-46-08.log]
[testng] 05:46:08,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3591a901 - End of configuration.
[testng] [2024-10-13 05:46:10,140] [pool-1-thread-5] Initializing /data/keith/test2.1sc:
[testng] 05:46:10,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:46:10,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:10,141 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-13_05-46-10.log]
[testng] 05:46:10,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a6713e - End of configuration.
[testng] [2024-10-13 05:46:10,553] [pool-1-thread-4] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] 05:46:10,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:46:10,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:10,554 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-13_05-46-10.log]
[testng] 05:46:10,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e421d6b - End of configuration.
[testng] [2024-10-13 05:46:10,979] [pool-1-thread-3] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] 05:46:10,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:46:10,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:10,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-13_05-46-10.log]
[testng] 05:46:10,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7112b02a - End of configuration.
[testng] [2024-10-13 05:46:12,480] [pool-1-thread-2] Initializing /data/geert/bad example1.1sc:
[testng] 05:46:12,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:46:12,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:46:12,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-13_05-46-12.log]
[testng] 05:46:12,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a838257 - End of configuration.
[testng] [2024-10-13 05:46:17,974] [pool-1-thread-12] Initializing /data/qa-29469/good.1sc:
[testng] [2024-10-13 05:46:18,504] [pool-1-thread-1] Initializing /data/adrian/test_img.1sc:
[testng] [2024-10-13 05:46:18,966] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2024-10-13 05:46:19,452] [pool-1-thread-5] Initializing /data/qa-29459/bad.1sc:
[testng] [2024-10-13 05:46:19,905] [pool-1-thread-4] Initializing /data/qa-29469/bad3.1sc:
[testng] [2024-10-13 05:46:20,374] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2024-10-13 05:46:20,546] [pool-1-thread-2] Initializing /data/keith/pg020410saur3.1sc:
[testng] [2024-10-13 05:46:25,218] [pool-1-thread-2] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] [2024-10-13 05:46:25,833] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2024-10-13 05:46:26,743] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2024-10-13 05:46:27,331] [pool-1-thread-4] Initializing /data/keith/test.1sc:
[testng] [2024-10-13 05:46:27,788] [pool-1-thread-1] Initializing /data/keith/PF020328saur v3.1sc:
[testng] [2024-10-13 05:46:28,260] [pool-1-thread-11] Initializing /data/qa-16880/c-src v7.1sc:
[testng] [2024-10-13 05:46:28,737] [pool-1-thread-3] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2024-10-13 05:46:28,900] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] [2024-10-13 05:46:29,449] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2024-10-13 05:46:30,896] [pool-1-thread-6] Initializing /data/geert/good example1.1sc:
[testng] [2024-10-13 05:46:31,292] [pool-1-thread-9] Initializing /data/geert/bad example1.jpg:
[testng] [2024-10-13 05:46:31,439] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc:
[testng] [2024-10-13 05:46:34,185] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 19 seconds
Finished: SUCCESS