Started by upstream project "BIOFORMATS-test-repo" build number 384
originally caused by:
Started by user devspace
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/jenkins11462777186939818966.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_60816_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] 17:52:11,639 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 17:52:11,640 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service.
[testng] 17:52:11,640 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 17:52:11,641 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 17:52:11,641 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 17:52:11,641 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 17:52:11,642 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 17:52:11,642 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 17:52:11,642 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 17:52:11,643 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 17:52:11,643 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 17:52:11,643 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 17:52:11,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 17:52:11,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 17:52:11,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 17:52:11,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 17:52:11,825 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 17:52:11,825 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 17:52:11,825 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 17:52:11,825 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 17:52:11,825 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration.
[testng] 17:52:11,826 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point
[testng] 17:52:11,826 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 184 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-19 17:52:11,835] [main] java.version = 17.0.2
[testng] 17:52:11,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 17:52:11,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:52:11,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-19_17-52-11.log]
[testng] 17:52:11,878 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration.
[testng] [2025-03-19 17:52:11,880] [main] testng.directory = /data
[testng] [2025-03-19 17:52:11,880] [main] testng.configDirectory = /config
[testng] [2025-03-19 17:52:11,888] [main] testng.multiplier = 1.0
[testng] [2025-03-19 17:52:11,889] [main] testng.in-memory = false
[testng] [2025-03-19 17:52:11,889] [main] testng.allow-missing = false
[testng] [2025-03-19 17:52:11,889] [main] user.language = en
[testng] [2025-03-19 17:52:11,889] [main] user.country = ${user.country}
[testng] [2025-03-19 17:52:11,889] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-19 17:52:19,221] [main] ----------------------------------------
[testng] [2025-03-19 17:52:19,221] [main] Total files: 32
[testng] [2025-03-19 17:52:19,221] [main] Scan time: 7.332 s (229 ms/file)
[testng] [2025-03-19 17:52:19,221] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-19 17:52:59,250] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] 17:52:59,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 17:52:59,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:52:59,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-19_17-52-59.log]
[testng] 17:52:59,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@620b8dfc - End of configuration.
[testng] [2025-03-19 17:53:00,271] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 17:53:00,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 17:53:00,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:00,272 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-19_17-53-00.log]
[testng] 17:53:00,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39ca2012 - End of configuration.
[testng] [2025-03-19 17:53:01,312] [pool-1-thread-11] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] 17:53:01,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 17:53:01,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:01,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-19_17-53-01.log]
[testng] 17:53:01,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30b5c860 - End of configuration.
[testng] [2025-03-19 17:53:02,278] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg:
[testng] 17:53:02,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 17:53:02,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:02,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-19_17-53-02.log]
[testng] 17:53:02,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@efc4cde - End of configuration.
[testng] [2025-03-19 17:53:02,602] [pool-1-thread-9] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] 17:53:02,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 17:53:02,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:02,603 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-19_17-53-02.log]
[testng] 17:53:02,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6688d262 - End of configuration.
[testng] [2025-03-19 17:53:03,532] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] 17:53:03,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 17:53:03,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:03,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-19_17-53-03.log]
[testng] 17:53:03,533 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21a47a4f - End of configuration.
[testng] [2025-03-19 17:53:06,077] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] 17:53:06,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 17:53:06,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:06,078 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-19_17-53-06.log]
[testng] 17:53:06,078 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a362bae - End of configuration.
[testng] [2025-03-19 17:53:08,614] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc:
[testng] 17:53:08,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 17:53:08,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:08,615 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-19_17-53-08.log]
[testng] 17:53:08,615 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64338a9a - End of configuration.
[testng] [2025-03-19 17:53:09,368] [pool-1-thread-5] Initializing /data/samples/imagesEight.1sc:
[testng] 17:53:09,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 17:53:09,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:09,369 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-19_17-53-09.log]
[testng] 17:53:09,369 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d444c8f - End of configuration.
[testng] [2025-03-19 17:53:10,069] [pool-1-thread-4] Initializing /data/keith/pg020410saur3.1sc:
[testng] 17:53:10,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 17:53:10,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:10,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-19_17-53-10.log]
[testng] 17:53:10,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@717c6174 - End of configuration.
[testng] [2025-03-19 17:53:10,739] [pool-1-thread-3] Initializing /data/keith/PF020328saur v3.1sc:
[testng] 17:53:10,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 17:53:10,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:10,740 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-19_17-53-10.log]
[testng] 17:53:10,740 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e5a5331 - End of configuration.
[testng] [2025-03-19 17:53:11,370] [pool-1-thread-2] Initializing /data/keith/test.1sc:
[testng] 17:53:11,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 17:53:11,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 17:53:11,371 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-19_17-53-11.log]
[testng] 17:53:11,371 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79b795ae - End of configuration.
[testng] [2025-03-19 17:53:20,505] [pool-1-thread-4] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2025-03-19 17:53:20,936] [pool-1-thread-9] Initializing /data/david/Opened in imageJ.tiff:
[testng] [2025-03-19 17:53:24,185] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] [2025-03-19 17:53:26,589] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2025-03-19 17:53:27,324] [pool-1-thread-2] Initializing /data/geert/good example1.1sc:
[testng] [2025-03-19 17:53:28,001] [pool-1-thread-3] Initializing /data/adrian/test_img.1sc:
[testng] [2025-03-19 17:53:28,693] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2025-03-19 17:53:31,090] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc:
[testng] [2025-03-19 17:53:31,792] [pool-1-thread-12] Initializing /data/keith/test2.1sc:
[testng] [2025-03-19 17:53:32,477] [pool-1-thread-1] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2025-03-19 17:53:39,107] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc:
[testng] [2025-03-19 17:53:40,116] [pool-1-thread-3] Initializing /data/qa-29469/bad2.1sc:
[testng] [2025-03-19 17:53:41,059] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2025-03-19 17:53:42,311] [pool-1-thread-2] Initializing /data/samples/Criterion.1sc:
[testng] [2025-03-19 17:53:43,444] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2025-03-19 17:53:46,901] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2025-03-19 17:53:47,933] [pool-1-thread-1] Initializing /data/qa-29459/bad.jpg:
[testng] [2025-03-19 17:53:48,270] [pool-1-thread-7] Initializing /data/qa-29459/bad.1sc:
[testng] [2025-03-19 17:53:49,071] [pool-1-thread-8] Initializing /data/qa-16880/c-src v7.1sc:
[testng] [2025-03-19 17:53:53,936] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 6 seconds
Finished: SUCCESS