Started by upstream project "BIOFORMATS-test-repo" build number 71
originally caused by:
Started by upstream project "Trigger" build number 79
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins12109261938656723294.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_10750_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] 04:41:00,893 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:41:00,894 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 04:41:00,894 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:41:00,895 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:41:00,895 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:41:00,896 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:41:00,896 |-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] 04:41:00,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:41:00,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:41:00,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:41:00,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:41:00,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:41:01,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:41:01,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:41:01,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:41:01,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:41:01,081 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:41:01,081 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:41:01,081 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:41:01,082 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:41:01,082 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 04:41:01,083 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 04:41:01,083 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-22 04:41:01,091] [main] java.version = 17.0.2
[testng] 04:41:01,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:41:01,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:01,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-22_04-41-01.log]
[testng] 04:41:01,137 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-05-22 04:41:01,139] [main] testng.directory = /data
[testng] [2024-05-22 04:41:01,139] [main] testng.configDirectory = /config
[testng] [2024-05-22 04:41:01,147] [main] testng.multiplier = 1.0
[testng] [2024-05-22 04:41:01,148] [main] testng.in-memory = false
[testng] [2024-05-22 04:41:01,148] [main] testng.allow-missing = false
[testng] [2024-05-22 04:41:01,148] [main] user.language = en
[testng] [2024-05-22 04:41:01,148] [main] user.country = ${user.country}
[testng] [2024-05-22 04:41:01,148] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-22 04:41:09,247] [main] ----------------------------------------
[testng] [2024-05-22 04:41:09,247] [main] Total files: 67
[testng] [2024-05-22 04:41:09,248] [main] Scan time: 8.099 s (120 ms/file)
[testng] [2024-05-22 04:41:09,248] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 59 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-22 04:41:30,748] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0010.ims:
[testng] 04:41:30,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:41:30,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-22_04-41-30.log]
[testng] 04:41:30,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60a00311 - End of configuration.
[testng] [2024-05-22 04:41:30,772] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0004.ims:
[testng] 04:41:30,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:41:30,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,773 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-22_04-41-30.log]
[testng] 04:41:30,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d846d5a - End of configuration.
[testng] [2024-05-22 04:41:30,785] [pool-1-thread-11] Initializing /data/qa-8019/wrong_num_dimensions.ims:
[testng] 04:41:30,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:41:30,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-22_04-41-30.log]
[testng] 04:41:30,787 |-INFO in ch.qos.logback.core.sift.SiftProcessor@388d1b96 - End of configuration.
[testng] [2024-05-22 04:41:30,829] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_10T_confocal.ims:
[testng] 04:41:30,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:41:30,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-22_04-41-30.log]
[testng] 04:41:30,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@245814c0 - End of configuration.
[testng] [2024-05-22 04:41:30,857] [pool-1-thread-9] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal.ims:
[testng] 04:41:30,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:41:30,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-22_04-41-30.log]
[testng] 04:41:30,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@420c5225 - End of configuration.
[testng] [2024-05-22 04:41:30,897] [pool-1-thread-8] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims:
[testng] 04:41:30,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:41:30,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-22_04-41-30.log]
[testng] 04:41:30,898 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3012e174 - End of configuration.
[testng] [2024-05-22 04:41:30,920] [pool-1-thread-7] Initializing /data/qa-17839/Fusion _Stack.ims:
[testng] 04:41:30,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:41:30,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-22_04-41-30.log]
[testng] 04:41:30,921 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49c3782e - End of configuration.
[testng] [2024-05-22 04:41:30,967] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0014.ims:
[testng] 04:41:30,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:41:30,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,968 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-22_04-41-30.log]
[testng] 04:41:30,968 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4616a4d - End of configuration.
[testng] [2024-05-22 04:41:30,981] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/PtK2Cell.ims:
[testng] 04:41:30,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:41:30,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:30,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-22_04-41-30.log]
[testng] 04:41:30,983 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62ddcf66 - End of configuration.
[testng] [2024-05-22 04:41:31,008] [pool-1-thread-4] Initializing /data/jake/p75Cherry M2 010-3~B.ims:
[testng] 04:41:31,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:41:31,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:31,009 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-22_04-41-31.log]
[testng] 04:41:31,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56bed826 - End of configuration.
[testng] [2024-05-22 04:41:31,038] [pool-1-thread-3] Initializing /data/qa-17515/Organoid=1.ims:
[testng] 04:41:31,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:41:31,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:31,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-22_04-41-31.log]
[testng] 04:41:31,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e02a12a - End of configuration.
[testng] [2024-05-22 04:41:31,185] [pool-1-thread-2] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims:
[testng] 04:41:31,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:41:31,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:41:31,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-22_04-41-31.log]
[testng] 04:41:31,186 |-INFO in ch.qos.logback.core.sift.SiftProcessor@366c7914 - End of configuration.
BUILD SUCCESSFUL
Total time: 2 minutes 40 seconds
Finished: SUCCESS