Started by upstream project "BIOFORMATS-test-repo" build number 254
originally caused by:
Started by upstream project "Trigger" build number 278
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/jenkins1670933538637871272.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_40089_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 02:55:16,594 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:55:16,596 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 02:55:16,596 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:55:16,596 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:55:16,597 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:55:16,597 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:55:16,597 |-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] 02:55:16,597 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:55:16,598 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:55:16,599 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:55:16,599 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:55:16,599 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:55:16,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:55:16,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:55:16,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:55:16,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:55:16,781 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:55:16,781 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:55:16,781 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:55:16,782 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:55:16,782 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 02:55:16,783 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 02:55:16,783 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-13 02:55:16,791] [main] java.version = 17.0.2
[testng] 02:55:16,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:55:16,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:55:16,833 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-13_02-55-16.log]
[testng] 02:55:16,834 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-11-13 02:55:16,836] [main] testng.directory = /data
[testng] [2024-11-13 02:55:16,836] [main] testng.configDirectory = /config
[testng] [2024-11-13 02:55:16,844] [main] testng.multiplier = 1.0
[testng] [2024-11-13 02:55:16,845] [main] testng.in-memory = false
[testng] [2024-11-13 02:55:16,845] [main] testng.allow-missing = false
[testng] [2024-11-13 02:55:16,845] [main] user.language = en
[testng] [2024-11-13 02:55:16,845] [main] user.country = ${user.country}
[testng] [2024-11-13 02:55:16,845] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-13 02:55:47,821] [main] ----------------------------------------
[testng] [2024-11-13 02:55:47,821] [main] Total files: 68
[testng] [2024-11-13 02:55:47,822] [main] Scan time: 30.976 s (455 ms/file)
[testng] [2024-11-13 02:55:47,822] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 60 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-13 02:56:36,964] [pool-1-thread-1] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims:
[testng] 02:56:36,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:56:36,964 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:36,966 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-13_02-56-36.log]
[testng] 02:56:36,966 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e2fa805 - End of configuration.
[testng] [2024-11-13 02:56:37,382] [pool-1-thread-12] Initializing /data/jason/imaris_5_5_demoimages/PlantCell.ims:
[testng] 02:56:37,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:56:37,382 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:37,384 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-13_02-56-37.log]
[testng] 02:56:37,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c76defd - End of configuration.
[testng] [2024-11-13 02:56:37,723] [pool-1-thread-11] Initializing /data/qa-4898/o383_1_457_CS_r1.ims:
[testng] 02:56:37,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:56:37,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:37,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-13_02-56-37.log]
[testng] 02:56:37,724 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50566609 - End of configuration.
[testng] [2024-11-13 02:56:38,239] [pool-1-thread-10] Initializing /data/gh-4193/24-5-9_RSV+AfumMscar+CFW_40x Stack_deconvolved.ims:
[testng] 02:56:38,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:56:38,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:38,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-13_02-56-38.log]
[testng] 02:56:38,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2940f60b - End of configuration.
[testng] [2024-11-13 02:56:40,026] [pool-1-thread-9] Initializing /data/generated/10-31_E_t0011.ims:
[testng] 02:56:40,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:56:40,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:40,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-13_02-56-40.log]
[testng] 02:56:40,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36f8c020 - End of configuration.
[testng] [2024-11-13 02:56:40,114] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_1T_confocal.ims:
[testng] 02:56:40,114 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:56:40,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:40,115 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-13_02-56-40.log]
[testng] 02:56:40,116 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1562d079 - End of configuration.
[testng] [2024-11-13 02:56:40,313] [pool-1-thread-7] Initializing /data/jason/imaris_5_5_demoimages/retina.ims:
[testng] 02:56:40,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:56:40,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:40,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-13_02-56-40.log]
[testng] 02:56:40,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b1bc868 - End of configuration.
[testng] [2024-11-13 02:56:40,663] [pool-1-thread-6] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims:
[testng] 02:56:40,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:56:40,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:40,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-13_02-56-40.log]
[testng] 02:56:40,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f956b16 - End of configuration.
[testng] [2024-11-13 02:56:41,022] [pool-1-thread-5] Initializing /data/public/davemason/Convallaria_3C_10T_confocal.ims:
[testng] 02:56:41,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:56:41,022 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:41,023 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-13_02-56-41.log]
[testng] 02:56:41,023 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15ff43b4 - End of configuration.
[testng] [2024-11-13 02:56:41,260] [pool-1-thread-4] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims:
[testng] 02:56:41,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:56:41,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:41,261 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-13_02-56-41.log]
[testng] 02:56:41,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c6364f - End of configuration.
[testng] [2024-11-13 02:56:41,658] [pool-1-thread-3] Initializing /data/jason/imaris_5_5_demoimages/PtK2Cell.ims:
[testng] 02:56:41,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:56:41,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:41,659 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-13_02-56-41.log]
[testng] 02:56:41,660 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26c48184 - End of configuration.
[testng] [2024-11-13 02:56:42,176] [pool-1-thread-2] Initializing /data/qa-17839/Fusion _Stack.ims:
[testng] 02:56:42,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:56:42,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:56:42,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-13_02-56-42.log]
[testng] 02:56:42,177 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e1bbd02 - End of configuration.
BUILD SUCCESSFUL
Total time: 3 minutes 12 seconds
Finished: SUCCESS