Started by upstream project "BIOFORMATS-test-repo" build number 89
originally caused by:
Started by upstream project "Trigger" build number 100
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins12487555925792095485.sh
+ '[' scanr = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_13711_merge_ci -v /uod/idr/repos/curated/scanr:/data -v /uod/idr-scratch/merge-ci/curated/scanr:/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] WARNING: An illegal reflective access operation has occurred
[testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket
[testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener
[testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
[testng] WARNING: All illegal access operations will be denied in a future release
[testng] File leak detector installed
[testng] 02:18:25,144 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:18:25,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 02:18:25,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:18:25,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:18:25,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:18:25,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:18:25,149 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:18:25,149 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:18:25,150 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:18:25,150 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:18:25,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:18:25,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:18:25,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:18:25,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:18:25,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:18:25,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:18:25,362 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:18:25,362 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:18:25,362 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:18:25,362 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:18:25,363 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 02:18:25,363 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 02:18:25,363 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-11 02:18:25,372] [main] java.version = 11.0.16
[testng] 02:18:25,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:18:25,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:25,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-11_02-18-25.log]
[testng] 02:18:25,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-06-11 02:18:25,442] [main] testng.directory = /data
[testng] [2024-06-11 02:18:25,442] [main] testng.configDirectory = /config
[testng] [2024-06-11 02:18:25,457] [main] testng.multiplier = 1.0
[testng] [2024-06-11 02:18:25,459] [main] testng.in-memory = false
[testng] [2024-06-11 02:18:25,459] [main] testng.allow-missing = false
[testng] [2024-06-11 02:18:25,459] [main] user.language = en
[testng] [2024-06-11 02:18:25,459] [main] user.country = ${user.country}
[testng] [2024-06-11 02:18:25,459] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-11 02:22:44,820] [main] ----------------------------------------
[testng] [2024-06-11 02:22:44,820] [main] Total files: 2169
[testng] [2024-06-11 02:22:44,820] [main] Scan time: 259.361 s (119 ms/file)
[testng] [2024-06-11 02:22:44,821] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 17 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-11 02:41:16,219] [pool-1-thread-1] Initializing /data/ruben/12-05-25_009/experiment_descriptor.xml:
[testng] 02:41:16,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:41:16,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:16,222 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-11_02-41-16.log]
[testng] 02:41:16,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@761281bd - End of configuration.
[testng] [2024-06-11 02:41:35,322] [pool-1-thread-12] Initializing /data/ruben/TestPlate_Mock_01_001/experiment_descriptor.xml:
[testng] 02:41:35,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:41:35,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:35,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-11_02-41-35.log]
[testng] 02:41:35,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50d6777f - End of configuration.
[testng] [2024-06-11 02:41:36,930] [pool-1-thread-11] Initializing /data/embl/170309_Sec13_GM130m_001/experiment_descriptor.xml:
[testng] 02:41:36,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:41:36,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:41:36,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-11_02-41-36.log]
[testng] 02:41:36,931 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8837219 - End of configuration.
[testng] [2024-06-11 02:42:45,284] [pool-1-thread-10] Initializing /data/christian/example/experiment_descriptor.xml:
[testng] 02:42:45,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:42:45,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:42:45,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-11_02-42-45.log]
[testng] 02:42:45,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@253987ee - End of configuration.
[testng] [2024-06-11 02:42:45,434] [pool-1-thread-9] Initializing /data/embl/Maik_001/experiment_descriptor.xml:
[testng] 02:42:45,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:42:45,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:42:45,435 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-11_02-42-45.log]
[testng] 02:42:45,435 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4023ab95 - End of configuration.
[testng] [2024-06-11 02:42:53,252] [pool-1-thread-8] Initializing /data/jcb/201301120/p17/experiment_descriptor.xml:
[testng] 02:42:53,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:42:53,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:42:53,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-11_02-42-53.log]
[testng] 02:42:53,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52d5e74b - End of configuration.
[testng] [2024-06-11 02:44:12,662] [pool-1-thread-7] Initializing /data/gideon/experiment_descriptor.xml:
[testng] 02:44:12,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:44:12,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:12,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-11_02-44-12.log]
[testng] 02:44:12,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ecdd26 - End of configuration.
[testng] [2024-06-11 02:44:41,487] [pool-1-thread-6] Initializing /data/ruben/20100827_004/experiment_descriptor.xml:
[testng] 02:44:41,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:44:41,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:44:41,488 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-11_02-44-41.log]
[testng] 02:44:41,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2687c0a - End of configuration.
[testng] [2024-06-11 02:46:15,416] [pool-1-thread-5] Initializing /data/ruben/161009test2/151009_002/experiment_descriptor.xml:
[testng] 02:46:15,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:46:15,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:46:15,418 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-11_02-46-15.log]
[testng] 02:46:15,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2992058b - End of configuration.
[testng] [2024-06-11 02:48:02,064] [pool-1-thread-4] Initializing /data/nadine/experiment_descriptor.xml:
[testng] 02:48:02,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:48:02,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:48:02,065 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-11_02-48-02.log]
[testng] 02:48:02,066 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32c1bd7a - End of configuration.
[testng] [2024-06-11 02:48:02,091] [pool-1-thread-3] Initializing /data/public/idr0009/0307-10--2007-05-30/experiment_descriptor.xml:
[testng] 02:48:02,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:48:02,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:48:02,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-11_02-48-02.log]
[testng] 02:48:02,093 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1334f822 - End of configuration.
[testng] [2024-06-11 02:48:51,309] [pool-1-thread-2] Initializing /data/ruben/280809_8wellLT_008/experiment_descriptor.xml:
[testng] 02:48:51,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:48:51,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:48:51,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-11_02-48-51.log]
[testng] 02:48:51,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c1bf6dd - End of configuration.
[testng] [2024-06-11 02:48:54,429] [pool-1-thread-10] Initializing /data/juergen/Experiment/experiment_descriptor.xml:
[testng] [2024-06-11 02:48:54,478] [pool-1-thread-4] Initializing /data/ruben/plate_002/experiment_descriptor.xml:
[testng] [2024-06-11 02:49:01,891] [pool-1-thread-10] Initializing /data/ruben/161009test2/151009_001/experiment_descriptor.xml:
[testng] [2024-06-11 02:51:20,307] [pool-1-thread-2] Initializing /data/jcb/201301120/p2/experiment_descriptor.xml:
[testng] [2024-06-11 02:53:09,882] [pool-1-thread-9] Initializing /data/ruben/scanr_no_labels/Peter/experiment_descriptor.xml:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 901, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 39 minutes 36 seconds
Finished: SUCCESS