Started by upstream project "BIOFORMATS-test-repo" build number 239
originally caused by:
Started by upstream project "Trigger" build number 264
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/jenkins7228870008771331782.sh
+ '[' leica-tcs = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_37655_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 03:36:46,448 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 03:36:46,450 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 03:36:46,450 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:36:46,450 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:36:46,451 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 03:36:46,451 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 03:36:46,451 |-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] 03:36:46,451 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:36:46,452 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:36:46,452 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 03:36:46,453 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 03:36:46,453 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 03:36:46,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 03:36:46,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 03:36:46,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 03:36:46,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 03:36:46,637 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 03:36:46,637 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 03:36:46,637 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 03:36:46,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 03:36:46,638 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 03:36:46,638 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 03:36:46,639 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 186 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-30 03:36:46,647] [main] java.version = 17.0.2
[testng] 03:36:46,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 03:36:46,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:36:46,689 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-30_03-36-46.log]
[testng] 03:36:46,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-10-30 03:36:46,692] [main] testng.directory = /data
[testng] [2024-10-30 03:36:46,692] [main] testng.configDirectory = /config
[testng] [2024-10-30 03:36:46,700] [main] testng.multiplier = 1.0
[testng] [2024-10-30 03:36:46,701] [main] testng.in-memory = false
[testng] [2024-10-30 03:36:46,701] [main] testng.allow-missing = false
[testng] [2024-10-30 03:36:46,701] [main] user.language = en
[testng] [2024-10-30 03:36:46,701] [main] user.country = ${user.country}
[testng] [2024-10-30 03:36:46,701] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-30 03:37:01,580] [main] ----------------------------------------
[testng] [2024-10-30 03:37:01,580] [main] Total files: 944
[testng] [2024-10-30 03:37:01,581] [main] Scan time: 14.878 s (15 ms/file)
[testng] [2024-10-30 03:37:01,581] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 15 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-30 03:38:20,054] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3GRP.tif:
[testng] 03:38:20,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 03:38:20,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:20,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-30_03-38-20.log]
[testng] 03:38:20,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62213b07 - End of configuration.
[testng] [2024-10-30 03:38:21,323] [pool-1-thread-12] Initializing /data/brian/Series002_z00_ch00.tif:
[testng] 03:38:21,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 03:38:21,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:21,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-30_03-38-21.log]
[testng] 03:38:21,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@326191 - End of configuration.
[testng] [2024-10-30 03:38:22,286] [pool-1-thread-11] Initializing /data/martin/Series028_z00_ch00.tif:
[testng] 03:38:22,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 03:38:22,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:22,287 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-30_03-38-22.log]
[testng] 03:38:22,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da7d7c2 - End of configuration.
[testng] [2024-10-30 03:38:23,788] [pool-1-thread-10] Initializing /data/stjude/AntoDay4dblmy2GRP.tif:
[testng] 03:38:23,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 03:38:23,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:23,788 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-30_03-38-23.log]
[testng] 03:38:23,789 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dd85a58 - End of configuration.
[testng] [2024-10-30 03:38:24,977] [pool-1-thread-9] Initializing /data/brian/Series002_z01.tif:
[testng] 03:38:24,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 03:38:24,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:24,978 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-30_03-38-24.log]
[testng] 03:38:24,978 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f40e557 - End of configuration.
[testng] [2024-10-30 03:38:26,580] [pool-1-thread-8] Initializing /data/primate/Leica_Image.tif:
[testng] 03:38:26,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 03:38:26,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:26,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-30_03-38-26.log]
[testng] 03:38:26,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5aa0721d - End of configuration.
[testng] [2024-10-30 03:38:27,547] [pool-1-thread-7] Initializing /data/stjude/AntoDayzerocy3OVP.tif:
[testng] 03:38:27,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 03:38:27,548 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:27,548 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-30_03-38-27.log]
[testng] 03:38:27,549 |-INFO in ch.qos.logback.core.sift.SiftProcessor@121c8b03 - End of configuration.
[testng] [2024-10-30 03:38:28,614] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblmysglGRP.tif:
[testng] 03:38:28,614 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 03:38:28,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:28,615 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-30_03-38-28.log]
[testng] 03:38:28,615 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e8a4f - End of configuration.
[testng] [2024-10-30 03:38:29,674] [pool-1-thread-5] Initializing /data/stjude/Antoday1dblcatsglGRP.tif:
[testng] 03:38:29,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 03:38:29,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:29,675 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-30_03-38-29.log]
[testng] 03:38:29,675 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f50f29e - End of configuration.
[testng] [2024-10-30 03:38:30,647] [pool-1-thread-4] Initializing /data/stjude/AntoDay4dblmyGRP.tif:
[testng] 03:38:30,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 03:38:30,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:30,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-30_03-38-30.log]
[testng] 03:38:30,648 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4697ea3b - End of configuration.
[testng] [2024-10-30 03:38:31,696] [pool-1-thread-3] Initializing /data/stjude/AntoDay1dblGRP.tif:
[testng] 03:38:31,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 03:38:31,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:31,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-30_03-38-31.log]
[testng] 03:38:31,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b196d81 - End of configuration.
[testng] [2024-10-30 03:38:32,770] [pool-1-thread-2] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF:
[testng] 03:38:32,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 03:38:32,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:38:32,771 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-30_03-38-32.log]
[testng] 03:38:32,771 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fd8fba9 - End of configuration.
[testng] [2024-10-30 03:38:40,588] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif:
[testng] [2024-10-30 03:38:41,920] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif:
[testng] [2024-10-30 03:38:44,442] [pool-1-thread-9] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif:
[testng] 04:56:33,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:56:33,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:56:33,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-30_04-56-33.log]
[testng] 04:56:33,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78422efb - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 795, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 79 minutes 51 seconds
Finished: SUCCESS