Started by upstream project "BIOFORMATS-test-repo" build number 298
originally caused by:
Started by upstream project "Trigger" build number 320
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/jenkins15987722082973600115.sh
+ '[' nikon-jp2 = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_47214_merge_ci -v /uod/idr/repos/curated/nikon-jp2:/data -v /uod/idr-scratch/merge-ci/curated/nikon-jp2:/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] 05:36:52,336 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:36:52,337 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 05:36:52,337 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:36:52,338 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:36:52,338 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:36:52,338 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:36:52,339 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:36:52,339 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:36:52,339 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:36:52,340 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:36:52,340 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:36:52,340 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:36:52,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:36:52,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:36:52,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:36:52,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:36:52,531 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:36:52,532 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:36:52,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:36:52,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:36:52,532 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 05:36:52,533 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 05:36:52,533 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-25 05:36:52,542] [main] java.version = 17.0.2
[testng] 05:36:52,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:36:52,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:36:52,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_05-36-52.log]
[testng] 05:36:52,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-12-25 05:36:52,589] [main] testng.directory = /data
[testng] [2024-12-25 05:36:52,589] [main] testng.configDirectory = /config
[testng] [2024-12-25 05:36:52,598] [main] testng.multiplier = 1.0
[testng] [2024-12-25 05:36:52,598] [main] testng.in-memory = false
[testng] [2024-12-25 05:36:52,599] [main] testng.allow-missing = false
[testng] [2024-12-25 05:36:52,599] [main] user.language = en
[testng] [2024-12-25 05:36:52,599] [main] user.country = ${user.country}
[testng] [2024-12-25 05:36:52,599] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-25 05:36:55,609] [main] ----------------------------------------
[testng] [2024-12-25 05:36:55,609] [main] Total files: 11
[testng] [2024-12-25 05:36:55,609] [main] Scan time: 3.01 s (273 ms/file)
[testng] [2024-12-25 05:36:55,610] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 11 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-25 05:37:13,677] [pool-1-thread-1] Initializing /data/kira/DapiFitcTexRed008BGR.tif:
[testng] 05:37:13,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:37:13,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:13,679 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_05-37-13.log]
[testng] 05:37:13,679 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e8a0037 - End of configuration.
[testng] [2024-12-25 05:37:16,251] [pool-1-thread-11] Initializing /data/kira/DapiFitcTexRed008R.tif:
[testng] 05:37:16,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:37:16,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:16,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-25_05-37-16.log]
[testng] 05:37:16,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a510b22 - End of configuration.
[testng] [2024-12-25 05:37:18,948] [pool-1-thread-10] Initializing /data/kira/DapiFitcTexRed006.png:
[testng] 05:37:18,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:37:18,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:18,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-25_05-37-18.log]
[testng] 05:37:18,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@131ba29a - End of configuration.
[testng] [2024-12-25 05:37:19,040] [pool-1-thread-9] Initializing /data/kira/DapiFitcTexRed008B.tif:
[testng] 05:37:19,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:37:19,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:19,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_05-37-19.log]
[testng] 05:37:19,042 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32d6ceb - End of configuration.
[testng] [2024-12-25 05:37:21,669] [pool-1-thread-8] Initializing /data/kira/DapiFitcTexRed008.jp2:
[testng] 05:37:21,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:37:21,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:21,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-25_05-37-21.log]
[testng] 05:37:21,670 |-INFO in ch.qos.logback.core.sift.SiftProcessor@350418c3 - End of configuration.
[testng] [2024-12-25 05:37:23,075] [pool-1-thread-7] Initializing /data/kira/DapiFitcTexRed005.bmp:
[testng] 05:37:23,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:37:23,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:23,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_05-37-23.log]
[testng] 05:37:23,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21687fc7 - End of configuration.
[testng] [2024-12-25 05:37:23,345] [pool-1-thread-6] Initializing /data/kira/DapiFitcTexRed004.tif:
[testng] 05:37:23,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:37:23,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:23,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-25_05-37-23.log]
[testng] 05:37:23,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23dc7c31 - End of configuration.
[testng] [2024-12-25 05:37:26,088] [pool-1-thread-5] Initializing /data/kira/DapiFitcTexRed003.jpg:
[testng] 05:37:26,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:37:26,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:26,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-25_05-37-26.log]
[testng] 05:37:26,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@aba8227 - End of configuration.
[testng] [2024-12-25 05:37:26,443] [pool-1-thread-4] Initializing /data/kira/DapiFitcTexRed001.jp2:
[testng] 05:37:26,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:37:26,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:26,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-25_05-37-26.log]
[testng] 05:37:26,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@472e3daa - End of configuration.
[testng] [2024-12-25 05:37:27,958] [pool-1-thread-3] Initializing /data/kira/DapiFitcTexRed008G.tif:
[testng] 05:37:27,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:37:27,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:27,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-25_05-37-27.log]
[testng] 05:37:27,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11af9f94 - End of configuration.
[testng] [2024-12-25 05:37:30,693] [pool-1-thread-2] Initializing /data/kira/DapiFitcTexRed007.gif:
[testng] 05:37:30,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:37:30,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:37:30,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-25_05-37-30.log]
[testng] 05:37:30,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28bc6d58 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 583, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 1 second
Finished: SUCCESS