Started by upstream project "BIOFORMATS-test-repo" build number 265
originally caused by:
Started by upstream project "Trigger" build number 288
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/jenkins8829733501880993572.sh
+ '[' afi = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_41857_merge_ci -v /uod/idr/repos/curated/afi:/data -v /uod/idr-scratch/merge-ci/curated/afi:/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] WARNING: An illegal reflective access operation has occurred
[testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket
[testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener
[testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
[testng] WARNING: All illegal access operations will be denied in a future release
[testng] File leak detector installed
[testng] 02:02:16,070 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:02:16,072 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 02:02:16,072 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:02:16,073 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:02:16,074 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:02:16,074 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:02:16,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:02:16,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:02:16,075 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:02:16,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:02:16,076 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:02:16,076 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:02:16,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:02:16,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:02:16,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:02:16,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:02:16,327 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:02:16,327 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:02:16,328 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:02:16,328 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:02:16,328 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 02:02:16,329 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 02:02:16,329 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 254 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-23 02:02:16,338] [main] java.version = 11.0.16
[testng] 02:02:16,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:02:16,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:16,386 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-23_02-02-16.log]
[testng] 02:02:16,388 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-11-23 02:02:16,390] [main] testng.directory = /data
[testng] [2024-11-23 02:02:16,390] [main] testng.configDirectory = /config
[testng] [2024-11-23 02:02:16,401] [main] testng.multiplier = 1.0
[testng] [2024-11-23 02:02:16,402] [main] testng.in-memory = false
[testng] [2024-11-23 02:02:16,403] [main] testng.allow-missing = false
[testng] [2024-11-23 02:02:16,403] [main] user.language = en
[testng] [2024-11-23 02:02:16,403] [main] user.country = ${user.country}
[testng] [2024-11-23 02:02:16,403] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-23 02:02:19,049] [main] ----------------------------------------
[testng] [2024-11-23 02:02:19,049] [main] Total files: 16
[testng] [2024-11-23 02:02:19,050] [main] Scan time: 2.646 s (165 ms/file)
[testng] [2024-11-23 02:02:19,050] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 15 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-23 02:02:39,934] [pool-1-thread-1] Initializing /data/samples/5358.afi:
[testng] 02:02:39,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:02:39,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:39,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-23_02-02-39.log]
[testng] 02:02:39,937 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33f73d81 - End of configuration.
[testng] [2024-11-23 02:02:40,656] [pool-1-thread-12] Initializing /data/samples/5339.afi:
[testng] 02:02:40,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:02:40,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:40,657 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-23_02-02-40.log]
[testng] 02:02:40,658 |-INFO in ch.qos.logback.core.sift.SiftProcessor@451660c3 - End of configuration.
[testng] [2024-11-23 02:02:41,382] [pool-1-thread-11] Initializing /data/samples/5407.afi:
[testng] 02:02:41,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:02:41,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:41,383 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-23_02-02-41.log]
[testng] 02:02:41,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@561b854f - End of configuration.
[testng] [2024-11-23 02:02:42,088] [pool-1-thread-10] Initializing /data/samples/5371.afi:
[testng] 02:02:42,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:02:42,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:42,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-23_02-02-42.log]
[testng] 02:02:42,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31bf09ca - End of configuration.
[testng] [2024-11-23 02:02:42,802] [pool-1-thread-9] Initializing /data/samples/5306.afi:
[testng] 02:02:42,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:02:42,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:42,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-23_02-02-42.log]
[testng] 02:02:42,803 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30e384ad - End of configuration.
[testng] [2024-11-23 02:02:43,523] [pool-1-thread-8] Initializing /data/samples/5387.afi:
[testng] 02:02:43,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:02:43,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:43,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-23_02-02-43.log]
[testng] 02:02:43,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79ee3e9d - End of configuration.
[testng] [2024-11-23 02:02:44,221] [pool-1-thread-7] Initializing /data/samples/5351.afi:
[testng] 02:02:44,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:02:44,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:44,222 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-23_02-02-44.log]
[testng] 02:02:44,222 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ee4f07a - End of configuration.
[testng] [2024-11-23 02:02:44,927] [pool-1-thread-6] Initializing /data/samples/5383.afi:
[testng] 02:02:44,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:02:44,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:44,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-23_02-02-44.log]
[testng] 02:02:44,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31da059f - End of configuration.
[testng] [2024-11-23 02:02:45,613] [pool-1-thread-5] Initializing /data/samples/5347.afi:
[testng] 02:02:45,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:02:45,613 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:45,614 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-23_02-02-45.log]
[testng] 02:02:45,614 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5517ae99 - End of configuration.
[testng] [2024-11-23 02:02:46,342] [pool-1-thread-4] Initializing /data/samples/5400.afi:
[testng] 02:02:46,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:02:46,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:46,343 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-23_02-02-46.log]
[testng] 02:02:46,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44a8ec3b - End of configuration.
[testng] [2024-11-23 02:02:47,129] [pool-1-thread-3] Initializing /data/samples/5446.afi:
[testng] 02:02:47,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:02:47,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:47,130 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-23_02-02-47.log]
[testng] 02:02:47,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dde17da - End of configuration.
[testng] [2024-11-23 02:02:47,976] [pool-1-thread-2] Initializing /data/samples/5365.afi:
[testng] 02:02:47,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:02:47,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:02:47,977 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-23_02-02-47.log]
[testng] 02:02:47,978 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bc39050 - End of configuration.
[testng] [2024-11-23 02:03:35,941] [pool-1-thread-1] Initializing /data/samples/5414.afi:
[testng] [2024-11-23 02:03:36,758] [pool-1-thread-9] Initializing /data/samples/5440.afi:
[testng] [2024-11-23 02:03:44,574] [pool-1-thread-3] Initializing /data/samples/5343.afi:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 795, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 25 seconds
Finished: SUCCESS