Started by upstream project "BIOFORMATS-test-repo" build number 105
originally caused by:
Started by upstream project "Trigger" build number 117
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/jenkins12244162033579278438.sh
+ '[' metaxpress = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_16249_merge_ci -v /uod/idr/repos/curated/metaxpress:/data -v /uod/idr-scratch/merge-ci/curated/metaxpress:/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
test-automated:
[testng] File leak detector installed
[testng] 01:35:03,559 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:35:03,561 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 01:35:03,561 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:35:03,562 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:35:03,562 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:35:03,562 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:35:03,562 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:35:03,563 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:35:03,563 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:35:03,563 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:35:03,563 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:35:03,563 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:35:03,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:35:03,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:35:03,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:35:03,814 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:35:03,822 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:35:03,822 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:35:03,822 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:35:03,822 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:35:03,822 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 01:35:03,823 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 01:35:03,823 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 260 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-06-28 01:35:03,833] [main] java.version = 1.8.0_342
[testng] 01:35:03,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:35:03,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:03,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-28_01-35-03.log]
[testng] 01:35:03,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-06-28 01:35:03,884] [main] testng.directory = /data
[testng] [2024-06-28 01:35:03,885] [main] testng.configDirectory = /config
[testng] [2024-06-28 01:35:03,897] [main] testng.multiplier = 1.0
[testng] [2024-06-28 01:35:03,897] [main] testng.in-memory = false
[testng] [2024-06-28 01:35:03,897] [main] testng.allow-missing = false
[testng] [2024-06-28 01:35:03,897] [main] user.language = en
[testng] [2024-06-28 01:35:03,897] [main] user.country = ${user.country}
[testng] [2024-06-28 01:35:03,897] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-06-28 01:42:03,156] [main] ----------------------------------------
[testng] [2024-06-28 01:42:03,156] [main] Total files: 1231
[testng] [2024-06-28 01:42:03,156] [main] Scan time: 419.258 s (340 ms/file)
[testng] [2024-06-28 01:42:03,157] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 10 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-06-28 01:46:39,491] [pool-1-thread-1] Initializing /data/public/idr0005/Primary_001/2011-04-19-plate-1.HTD:
[testng] 01:46:39,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:46:39,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:46:39,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-28_01-46-39.log]
[testng] 01:46:39,493 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26094894 - End of configuration.
[testng] [2024-06-28 01:46:40,644] [pool-1-thread-10] Initializing /data/public/idr0008/Plate10_Actinome1/Act1_Plate10-SP-A8.HTD:
[testng] 01:46:40,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:46:40,644 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:46:40,645 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-28_01-46-40.log]
[testng] 01:46:40,646 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7aadc6b6 - End of configuration.
[testng] [2024-06-28 01:46:49,181] [pool-1-thread-9] Initializing /data/public/idr0006/plate 11001_Plate_136/TimePoint_1/plate 11001.HTD:
[testng] 01:46:49,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:46:49,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:46:49,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-28_01-46-49.log]
[testng] 01:46:49,183 |-INFO in ch.qos.logback.core.sift.SiftProcessor@561abec1 - End of configuration.
[testng] [2024-06-28 01:47:07,427] [pool-1-thread-8] Initializing /data/qa-4207/NSC.HTD:
[testng] 01:47:07,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:47:07,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:07,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-28_01-47-07.log]
[testng] 01:47:07,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@391e9fd0 - End of configuration.
[testng] [2024-06-28 01:47:07,949] [pool-1-thread-7] Initializing /data/samples/thumb-test/2011-04-19-plate-1.HTD:
[testng] 01:47:07,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:47:07,950 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:07,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-28_01-47-07.log]
[testng] 01:47:07,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ef1f0c3 - End of configuration.
[testng] [2024-06-28 01:47:08,952] [pool-1-thread-6] Initializing /data/samples/multi-channel-missing-corner/multi-channel.HTD:
[testng] 01:47:08,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:47:08,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:08,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-28_01-47-08.log]
[testng] 01:47:08,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6696915e - End of configuration.
[testng] [2024-06-28 01:47:09,530] [pool-1-thread-5] Initializing /data/samples/multi-z/2011-04-19-plate-1.HTD:
[testng] 01:47:09,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:47:09,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:09,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-28_01-47-09.log]
[testng] 01:47:09,531 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31e468b0 - End of configuration.
[testng] [2024-06-28 01:47:10,627] [pool-1-thread-4] Initializing /data/samples/single-site-test/single-site.HTD:
[testng] 01:47:10,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:47:10,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:10,628 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-28_01-47-10.log]
[testng] 01:47:10,629 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78b1c21f - End of configuration.
[testng] [2024-06-28 01:47:10,714] [pool-1-thread-3] Initializing /data/samples/multi-channel-test/multi-channel.HTD:
[testng] 01:47:10,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:47:10,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:10,716 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-28_01-47-10.log]
[testng] 01:47:10,716 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1519cc6b - End of configuration.
[testng] [2024-06-28 01:47:10,808] [pool-1-thread-2] Initializing /data/public/idr0081/BSF018292-1A/BSF018292-1A.HTD:
[testng] 01:47:10,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:47:10,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:10,809 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-28_01-47-10.log]
[testng] 01:47:10,809 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7850d01e - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 530, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 32 minutes 8 seconds
Finished: SUCCESS