Started by upstream project "BIOFORMATS-test-repo" build number 240
originally caused by:
Started by upstream project "Trigger" build number 265
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/jenkins17036651406297375417.sh
+ '[' leica-scn = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_37801_merge_ci -v /uod/idr/repos/curated/leica-scn:/data -v /uod/idr-scratch/merge-ci/curated/leica-scn:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 02:45:25,651 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:45:25,652 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 02:45:25,652 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:45:25,653 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:45:25,653 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:45:25,654 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:45:25,654 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:45:25,654 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:45:25,654 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:45:25,655 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:45:25,655 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:45:25,656 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:45:25,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:45:25,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:45:25,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:45:25,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:45:25,850 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:45:25,850 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:45:25,850 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:45:25,850 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:45:25,851 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 02:45:25,851 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 02:45:25,851 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-31 02:45:25,860] [main] java.version = 21
[testng] 02:45:25,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:45:25,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:25,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-31_02-45-25.log]
[testng] 02:45:25,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-10-31 02:45:25,909] [main] testng.directory = /data
[testng] [2024-10-31 02:45:25,909] [main] testng.configDirectory = /config
[testng] [2024-10-31 02:45:25,918] [main] testng.multiplier = 1.0
[testng] [2024-10-31 02:45:25,919] [main] testng.in-memory = false
[testng] [2024-10-31 02:45:25,919] [main] testng.allow-missing = false
[testng] [2024-10-31 02:45:25,919] [main] user.language = en
[testng] [2024-10-31 02:45:25,919] [main] user.country = ${user.country}
[testng] [2024-10-31 02:45:25,919] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-31 02:45:44,967] [main] ----------------------------------------
[testng] [2024-10-31 02:45:44,967] [main] Total files: 12
[testng] [2024-10-31 02:45:44,967] [main] Scan time: 19.048 s (1587 ms/file)
[testng] [2024-10-31 02:45:44,968] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 12 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-31 02:45:56,576] [pool-1-thread-1] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46 fullresolution.jpg:
[testng] 02:45:56,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:45:56,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:56,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-31_02-45-56.log]
[testng] 02:45:56,580 |-INFO in ch.qos.logback.core.sift.SiftProcessor@168ca348 - End of configuration.
[testng] [2024-10-31 02:45:56,710] [pool-1-thread-12] Initializing /data/qa-11049/HP15.4994_2015-04-28.scn:
[testng] 02:45:56,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:45:56,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:56,712 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-31_02-45-56.log]
[testng] 02:45:56,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@489921da - End of configuration.
[testng] [2024-10-31 02:45:57,979] [pool-1-thread-11] Initializing /data/public/openslide/Leica-3/Leica-3.scn:
[testng] 02:45:57,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:45:57,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:57,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-31_02-45-57.log]
[testng] 02:45:57,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42dda8fa - End of configuration.
[testng] [2024-10-31 02:45:59,193] [pool-1-thread-10] Initializing /data/mihaela/UCLAD_0000000280_2011-02-10 13_32_55Z.scn:
[testng] 02:45:59,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:45:59,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:59,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-31_02-45-59.log]
[testng] 02:45:59,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6be2f3f2 - End of configuration.
[testng] [2024-10-31 02:46:00,056] [pool-1-thread-9] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46.scn:
[testng] 02:46:00,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:46:00,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:00,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-31_02-46-00.log]
[testng] 02:46:00,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35e5a409 - End of configuration.
[testng] [2024-10-31 02:46:00,889] [pool-1-thread-8] Initializing /data/qa-10469/Slide_907790L_DAPI_Ki67.scn:
[testng] 02:46:00,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:46:00,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:00,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-31_02-46-00.log]
[testng] 02:46:00,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61f1e33e - End of configuration.
[testng] [2024-10-31 02:46:01,992] [pool-1-thread-7] Initializing /data/public/openslide/Leica-2/Leica-2.scn:
[testng] 02:46:01,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:46:01,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:01,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-31_02-46-01.log]
[testng] 02:46:01,993 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36cec70f - End of configuration.
[testng] [2024-10-31 02:46:03,329] [pool-1-thread-6] Initializing /data/scott/Oral_Biology_13 (1).scn:
[testng] 02:46:03,331 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:46:03,331 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:03,332 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-31_02-46-03.log]
[testng] 02:46:03,333 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47cf7804 - End of configuration.
[testng] [2024-10-31 02:46:04,707] [pool-1-thread-5] Initializing /data/public/openslide/Leica-1/Leica-1.scn:
[testng] 02:46:04,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:46:04,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:04,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-31_02-46-04.log]
[testng] 02:46:04,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64b0d49c - End of configuration.
[testng] [2024-10-31 02:46:05,780] [pool-1-thread-4] Initializing /data/scott/ImageCollection_0000000418_2010-10-27 13_31_31Z.scn:
[testng] 02:46:05,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:46:05,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:05,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-31_02-46-05.log]
[testng] 02:46:05,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d0e1bf8 - End of configuration.
[testng] [2024-10-31 02:46:06,711] [pool-1-thread-3] Initializing /data/qa-17671/132223-12_022a1963-b32e-467f-8242-b51a5295951f.SCN:
[testng] 02:46:06,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:46:06,711 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:06,712 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-31_02-46-06.log]
[testng] 02:46:06,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c23491d - End of configuration.
[testng] [2024-10-31 02:46:07,537] [pool-1-thread-2] Initializing /data/michael/collection_0000008286_2012-05-23 17_20_46 opened usig LOCI.tif:
[testng] 02:46:07,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:46:07,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:07,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-31_02-46-07.log]
[testng] 02:46:07,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b83d20c - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 636, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 55 seconds
Finished: SUCCESS