Started by upstream project "BIOFORMATS-test-repo" build number 94
originally caused by:
Started by upstream project "Trigger" build number 105
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/jenkins10776934409625146621.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_14539_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] 02:26:44,568 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:26:44,570 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:26:44,570 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:26:44,572 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:26:44,572 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:26:44,573 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:26:44,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:26:44,573 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:26:44,574 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:26:44,574 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:26:44,575 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:26:44,575 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:26:44,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:26:44,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:26:44,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:26:44,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:26:44,845 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:26:44,845 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:26:44,845 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:26:44,846 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:26:44,846 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:26:44,847 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:26:44,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 273 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-16 02:26:44,857] [main] java.version = 17.0.2
[testng] 02:26:44,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:26:44,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:44,917 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-16_02-26-44.log]
[testng] 02:26:44,918 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-06-16 02:26:44,921] [main] testng.directory = /data
[testng] [2024-06-16 02:26:44,921] [main] testng.configDirectory = /config
[testng] [2024-06-16 02:26:44,932] [main] testng.multiplier = 1.0
[testng] [2024-06-16 02:26:44,933] [main] testng.in-memory = false
[testng] [2024-06-16 02:26:44,933] [main] testng.allow-missing = false
[testng] [2024-06-16 02:26:44,933] [main] user.language = en
[testng] [2024-06-16 02:26:44,933] [main] user.country = ${user.country}
[testng] [2024-06-16 02:26:44,933] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-16 02:26:45,699] [main] ----------------------------------------
[testng] [2024-06-16 02:26:45,699] [main] Total files: 32
[testng] [2024-06-16 02:26:45,700] [main] Scan time: 0.766 s (23 ms/file)
[testng] [2024-06-16 02:26:45,700] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-16 02:26:49,037] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff:
[testng] 02:26:49,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:26:49,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-16_02-26-49.log]
[testng] 02:26:49,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b0e146 - End of configuration.
[testng] [2024-06-16 02:26:49,104] [pool-1-thread-12] Initializing /data/keith/test2.1sc:
[testng] 02:26:49,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:26:49,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-16_02-26-49.log]
[testng] 02:26:49,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@717c6174 - End of configuration.
[testng] [2024-06-16 02:26:49,127] [pool-1-thread-11] Initializing /data/keith/PF020328saur v3.1sc:
[testng] 02:26:49,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:26:49,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-16_02-26-49.log]
[testng] 02:26:49,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39644b3b - End of configuration.
[testng] [2024-06-16 02:26:49,144] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg:
[testng] 02:26:49,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:26:49,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,145 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-16_02-26-49.log]
[testng] 02:26:49,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72a76891 - End of configuration.
[testng] [2024-06-16 02:26:49,183] [pool-1-thread-9] Initializing /data/adrian/test_img.1sc:
[testng] 02:26:49,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:26:49,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-16_02-26-49.log]
[testng] 02:26:49,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ea7001d - End of configuration.
[testng] [2024-06-16 02:26:49,226] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc:
[testng] 02:26:49,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:26:49,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,227 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-16_02-26-49.log]
[testng] 02:26:49,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b3a2f01 - End of configuration.
[testng] [2024-06-16 02:26:49,262] [pool-1-thread-7] Initializing /data/geert/good example1.1sc:
[testng] 02:26:49,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:26:49,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,264 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-16_02-26-49.log]
[testng] 02:26:49,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ec6927b - End of configuration.
[testng] [2024-06-16 02:26:49,331] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 02:26:49,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:26:49,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,332 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-16_02-26-49.log]
[testng] 02:26:49,333 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18b76c7e - End of configuration.
[testng] [2024-06-16 02:26:49,353] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc:
[testng] 02:26:49,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:26:49,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-16_02-26-49.log]
[testng] 02:26:49,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@486c0e67 - End of configuration.
[testng] [2024-06-16 02:26:49,384] [pool-1-thread-4] Initializing /data/keith/test.1sc:
[testng] 02:26:49,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:26:49,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-16_02-26-49.log]
[testng] 02:26:49,386 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d31e599 - End of configuration.
[testng] [2024-06-16 02:26:49,402] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc:
[testng] 02:26:49,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:26:49,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-16_02-26-49.log]
[testng] 02:26:49,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@124acfe5 - End of configuration.
[testng] [2024-06-16 02:26:49,437] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] 02:26:49,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:26:49,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:26:49,438 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-16_02-26-49.log]
[testng] 02:26:49,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20b3b008 - End of configuration.
[testng] [2024-06-16 02:26:51,642] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2024-06-16 02:26:51,693] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2024-06-16 02:26:51,728] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] [2024-06-16 02:26:51,778] [pool-1-thread-5] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] [2024-06-16 02:26:51,797] [pool-1-thread-1] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] [2024-06-16 02:26:51,831] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] [2024-06-16 02:26:51,848] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2024-06-16 02:26:51,869] [pool-1-thread-9] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2024-06-16 02:26:52,007] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2024-06-16 02:26:52,043] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg:
[testng] [2024-06-16 02:26:52,053] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc:
[testng] [2024-06-16 02:26:52,215] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2024-06-16 02:26:52,358] [pool-1-thread-6] Initializing /data/samples/imagesEight.1sc:
[testng] [2024-06-16 02:26:52,427] [pool-1-thread-5] Initializing /data/samples/Criterion.1sc:
[testng] [2024-06-16 02:26:52,501] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] [2024-06-16 02:26:52,563] [pool-1-thread-3] Initializing /data/qa-29469/good.1sc:
[testng] [2024-06-16 02:26:52,714] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2024-06-16 02:26:52,792] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] [2024-06-16 02:26:52,903] [pool-1-thread-9] Initializing /data/qa-29469/bad2.1sc:
[testng] [2024-06-16 02:26:52,991] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 12 seconds
Finished: SUCCESS