Started by upstream project "BIOFORMATS-test-repo" build number 28
originally caused by:
Started by upstream project "Trigger" build number 31
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins9695663559502641484.sh
+ '[' scanr = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_3706_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] 02:19:43,211 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:19:43,213 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
[testng] 02:19:43,213 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:19:43,214 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:19:43,215 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:19:43,216 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:19:43,216 |-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] 02:19:43,216 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:19:43,217 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:19:43,218 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:19:43,218 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:19:43,219 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:19:43,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:19:43,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:19:43,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:19:43,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:19:43,504 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:19:43,505 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:19:43,505 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:19:43,505 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:19:43,505 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
[testng] 02:19:43,506 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
[testng] 02:19:43,506 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 289 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-04-09 02:19:43,522] [main] java.version = 11.0.16
[testng] 02:19:43,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:19:43,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:19:43,580 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-09_02-19-43.log]
[testng] 02:19:43,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
[testng] [2024-04-09 02:19:43,587] [main] testng.directory = /data
[testng] [2024-04-09 02:19:43,587] [main] testng.configDirectory = /config
[testng] [2024-04-09 02:19:43,603] [main] testng.multiplier = 1.0
[testng] [2024-04-09 02:19:43,606] [main] testng.in-memory = false
[testng] [2024-04-09 02:19:43,606] [main] testng.allow-missing = false
[testng] [2024-04-09 02:19:43,606] [main] user.language = en
[testng] [2024-04-09 02:19:43,606] [main] user.country = ${user.country}
[testng] [2024-04-09 02:19:43,606] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-04-09 02:24:04,940] [main] ----------------------------------------
[testng] [2024-04-09 02:24:04,941] [main] Total files: 2169
[testng] [2024-04-09 02:24:04,941] [main] Scan time: 261.333 s (120 ms/file)
[testng] [2024-04-09 02:24:04,941] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 17 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-04-09 02:45:15,674] [pool-1-thread-1] Initializing /data/embl/Maik_001/experiment_descriptor.xml:
[testng] 02:45:15,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:45:15,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:15,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-09_02-45-15.log]
[testng] 02:45:15,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71210200 - End of configuration.
[testng] [2024-04-09 02:45:26,603] [pool-1-thread-12] Initializing /data/ruben/161009test2/151009_001/experiment_descriptor.xml:
[testng] 02:45:26,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:45:26,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:45:26,605 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-09_02-45-26.log]
[testng] 02:45:26,605 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e667db3 - End of configuration.
[testng] [2024-04-09 02:49:22,317] [pool-1-thread-11] Initializing /data/ruben/scanr_no_labels/Peter/experiment_descriptor.xml:
[testng] 02:49:22,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:49:22,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:22,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-09_02-49-22.log]
[testng] 02:49:22,320 |-INFO in ch.qos.logback.core.sift.SiftProcessor@341ee31 - End of configuration.
[testng] [2024-04-09 02:49:23,457] [pool-1-thread-10] Initializing /data/gideon/experiment_descriptor.xml:
[testng] 02:49:23,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:49:23,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:23,458 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-09_02-49-23.log]
[testng] 02:49:23,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fd02f63 - End of configuration.
[testng] [2024-04-09 02:50:04,952] [pool-1-thread-9] Initializing /data/ruben/plate_002/experiment_descriptor.xml:
[testng] 02:50:04,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:50:04,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:04,954 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-09_02-50-04.log]
[testng] 02:50:04,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8f81877 - End of configuration.
[testng] [2024-04-09 02:50:05,040] [pool-1-thread-8] Initializing /data/jcb/201301120/p17/experiment_descriptor.xml:
[testng] 02:50:05,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:50:05,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:50:05,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-09_02-50-05.log]
[testng] 02:50:05,042 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bf1090b - End of configuration.
[testng] [2024-04-09 02:52:12,202] [pool-1-thread-7] Initializing /data/ruben/12-05-25_009/experiment_descriptor.xml:
[testng] 02:52:12,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:52:12,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:52:12,203 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-09_02-52-12.log]
[testng] 02:52:12,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17c0f395 - End of configuration.
[testng] [2024-04-09 02:52:47,148] [pool-1-thread-6] Initializing /data/public/idr0009/0307-10--2007-05-30/experiment_descriptor.xml:
[testng] 02:52:47,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:52:47,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:52:47,150 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-09_02-52-47.log]
[testng] 02:52:47,150 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fff0961 - End of configuration.
[testng] [2024-04-09 02:54:16,674] [pool-1-thread-5] Initializing /data/juergen/Experiment/experiment_descriptor.xml:
[testng] 02:54:16,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:54:16,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:54:16,676 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-09_02-54-16.log]
[testng] 02:54:16,676 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b3f3fdd - End of configuration.
[testng] [2024-04-09 02:54:16,940] [pool-1-thread-4] Initializing /data/ruben/TestPlate_Mock_01_001/experiment_descriptor.xml:
[testng] 02:54:16,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:54:16,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:54:16,941 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-09_02-54-16.log]
[testng] 02:54:16,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@713e41 - End of configuration.
[testng] [2024-04-09 02:54:37,325] [pool-1-thread-3] Initializing /data/ruben/20100827_004/experiment_descriptor.xml:
[testng] 02:54:37,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:54:37,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:54:37,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-09_02-54-37.log]
[testng] 02:54:37,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6313251e - End of configuration.
[testng] [2024-04-09 02:57:58,865] [pool-1-thread-2] Initializing /data/jcb/201301120/p2/experiment_descriptor.xml:
[testng] 02:57:58,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:57:58,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:57:58,866 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-09_02-57-58.log]
[testng] 02:57:58,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13ae794d - End of configuration.
[testng] [2024-04-09 02:59:59,050] [pool-1-thread-5] Initializing /data/embl/170309_Sec13_GM130m_001/experiment_descriptor.xml:
[testng] [2024-04-09 03:01:28,312] [pool-1-thread-9] Initializing /data/christian/example/experiment_descriptor.xml:
[testng] [2024-04-09 03:01:29,733] [pool-1-thread-9] Initializing /data/nadine/experiment_descriptor.xml:
[testng] [2024-04-09 03:01:31,350] [pool-1-thread-1] Initializing /data/ruben/280809_8wellLT_008/experiment_descriptor.xml:
[testng] [2024-04-09 03:01:41,927] [pool-1-thread-9] Initializing /data/ruben/161009test2/151009_002/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: 49 minutes 46 seconds
Finished: SUCCESS