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@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins15299392891990186902.sh
+ '[' cellh5 = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_14428_merge_ci -v /uod/idr/repos/curated/cellh5:/data -v /uod/idr-scratch/merge-ci/curated/cellh5:/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] 01:23:08,261 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:23:08,262 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 01:23:08,262 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:23:08,263 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:23:08,264 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:23:08,264 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:23:08,264 |-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] 01:23:08,264 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:23:08,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:23:08,265 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:23:08,265 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:23:08,266 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:23:08,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:23:08,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:23:08,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:23:08,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:23:08,479 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:23:08,480 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:23:08,480 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:23:08,480 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:23:08,480 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 01:23:08,481 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 01:23:08,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 216 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-16 01:23:08,490] [main] java.version = 17.0.2
[testng] 01:23:08,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:23:08,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:23:08,542 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-16_01-23-08.log]
[testng] 01:23:08,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-06-16 01:23:08,546] [main] testng.directory = /data
[testng] [2024-06-16 01:23:08,546] [main] testng.configDirectory = /config
[testng] [2024-06-16 01:23:08,557] [main] testng.multiplier = 1.0
[testng] [2024-06-16 01:23:08,558] [main] testng.in-memory = false
[testng] [2024-06-16 01:23:08,558] [main] testng.allow-missing = false
[testng] [2024-06-16 01:23:08,558] [main] user.language = en
[testng] [2024-06-16 01:23:08,558] [main] user.country = ${user.country}
[testng] [2024-06-16 01:23:08,558] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-06-16 01:23:08,920] [main] ----------------------------------------
[testng] [2024-06-16 01:23:08,920] [main] Total files: 11
[testng] [2024-06-16 01:23:08,920] [main] Scan time: 0.362 s (32 ms/file)
[testng] [2024-06-16 01:23:08,920] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 10 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-16 01:28:28,178] [pool-1-thread-1] Initializing /data/public/samples/full/0037.ch5:
[testng] 01:28:28,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:28:28,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,180 |-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_01-28-28.log]
[testng] 01:28:28,181 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2b9b58 - End of configuration.
[testng] [2024-06-16 01:28:28,260] [pool-1-thread-10] Initializing /data/public/samples/full/0046.ch5:
[testng] 01:28:28,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:28:28,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,261 |-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_01-28-28.log]
[testng] 01:28:28,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44747a8f - End of configuration.
[testng] [2024-06-16 01:28:28,325] [pool-1-thread-9] Initializing /data/public/samples/full/0041.ch5:
[testng] 01:28:28,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:28:28,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,326 |-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_01-28-28.log]
[testng] 01:28:28,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bb822a6 - End of configuration.
[testng] [2024-06-16 01:28:28,590] [pool-1-thread-8] Initializing /data/public/samples/reduced/0038.ch5:
[testng] 01:28:28,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:28:28,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,591 |-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_01-28-28.log]
[testng] 01:28:28,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69204ea0 - End of configuration.
[testng] [2024-06-16 01:28:28,823] [pool-1-thread-7] Initializing /data/public/samples/full/0039.ch5:
[testng] 01:28:28,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:28:28,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,824 |-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_01-28-28.log]
[testng] 01:28:28,824 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ce1e609 - End of configuration.
[testng] [2024-06-16 01:28:28,988] [pool-1-thread-6] Initializing /data/public/samples/full/0042.ch5:
[testng] 01:28:28,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:28:28,988 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:28,989 |-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_01-28-28.log]
[testng] 01:28:28,989 |-INFO in ch.qos.logback.core.sift.SiftProcessor@459bbc11 - End of configuration.
[testng] [2024-06-16 01:28:29,118] [pool-1-thread-5] Initializing /data/public/samples/full/0013.ch5:
[testng] 01:28:29,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:28:29,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:29,119 |-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_01-28-29.log]
[testng] 01:28:29,119 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70a0cd92 - End of configuration.
[testng] [2024-06-16 01:28:29,399] [pool-1-thread-4] Initializing /data/public/idr0013/00001_01.ch5:
[testng] 01:28:29,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:28:29,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:29,400 |-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_01-28-29.log]
[testng] 01:28:29,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@538ab115 - End of configuration.
[testng] [2024-06-16 01:28:29,548] [pool-1-thread-3] Initializing /data/public/samples/full/0040.ch5:
[testng] 01:28:29,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:28:29,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:29,549 |-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_01-28-29.log]
[testng] 01:28:29,549 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11e0a4c2 - End of configuration.
[testng] [2024-06-16 01:28:29,642] [pool-1-thread-2] Initializing /data/public/samples/full/0045.ch5:
[testng] 01:28:29,642 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:28:29,642 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:28:29,643 |-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_01-28-29.log]
[testng] 01:28:29,643 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17a8f748 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 530, Failures: 0, Skips: 10
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 21 minutes 36 seconds
Finished: SUCCESS