Started by upstream project "BIOFORMATS-test-repo" build number 234
originally caused by:
Started by upstream project "Trigger" build number 259
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/jenkins2702353207622805579.sh
+ '[' tillvision = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_36766_merge_ci -v /uod/idr/repos/curated/tillvision:/data -v /uod/idr-scratch/merge-ci/curated/tillvision:/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] 02:31:27,328 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:31:27,330 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 02:31:27,330 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:31:27,331 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:31:27,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:31:27,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:31:27,331 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:31:27,331 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:31:27,332 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:31:27,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:31:27,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:31:27,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:31:27,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:31:27,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:31:27,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:31:27,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:31:27,589 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:31:27,589 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:31:27,590 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:31:27,590 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:31:27,590 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 02:31:27,591 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 02:31:27,591 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 259 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-25 02:31:27,601] [main] java.version = 1.8.0_342
[testng] 02:31:27,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:31:27,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:31:27,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-25_02-31-27.log]
[testng] 02:31:27,650 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-10-25 02:31:27,652] [main] testng.directory = /data
[testng] [2024-10-25 02:31:27,652] [main] testng.configDirectory = /config
[testng] [2024-10-25 02:31:27,663] [main] testng.multiplier = 1.0
[testng] [2024-10-25 02:31:27,664] [main] testng.in-memory = false
[testng] [2024-10-25 02:31:27,664] [main] testng.allow-missing = false
[testng] [2024-10-25 02:31:27,664] [main] user.language = en
[testng] [2024-10-25 02:31:27,664] [main] user.country = ${user.country}
[testng] [2024-10-25 02:31:27,664] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-10-25 02:31:38,361] [main] ----------------------------------------
[testng] [2024-10-25 02:31:38,361] [main] Total files: 46
[testng] [2024-10-25 02:31:38,361] [main] Scan time: 10.697 s (232 ms/file)
[testng] [2024-10-25 02:31:38,361] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 25 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-25 02:32:10,937] [pool-1-thread-1] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif:
[testng] 02:32:10,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:32:10,937 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:10,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-25_02-32-10.log]
[testng] 02:32:10,938 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57f3be38 - End of configuration.
[testng] [2024-10-25 02:32:11,856] [pool-1-thread-12] Initializing /data/gerhard/test.vws:
[testng] 02:32:11,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:32:11,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:11,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-25_02-32-11.log]
[testng] 02:32:11,858 |-INFO in ch.qos.logback.core.sift.SiftProcessor@688946f8 - End of configuration.
[testng] [2024-10-25 02:32:12,202] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif:
[testng] 02:32:12,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:32:12,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:12,203 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-25_02-32-12.log]
[testng] 02:32:12,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55329d8b - End of configuration.
[testng] [2024-10-25 02:32:13,039] [pool-1-thread-10] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws:
[testng] 02:32:13,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:32:13,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:13,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-25_02-32-13.log]
[testng] 02:32:13,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7587a381 - End of configuration.
[testng] [2024-10-25 02:32:14,823] [pool-1-thread-9] Initializing /data/samples/fibre.vws:
[testng] 02:32:14,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:32:14,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:14,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-25_02-32-14.log]
[testng] 02:32:14,825 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7085249c - End of configuration.
[testng] [2024-10-25 02:32:15,009] [pool-1-thread-8] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws:
[testng] 02:32:15,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:32:15,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:15,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-25_02-32-15.log]
[testng] 02:32:15,010 |-INFO in ch.qos.logback.core.sift.SiftProcessor@477d57b4 - End of configuration.
[testng] [2024-10-25 02:32:15,858] [pool-1-thread-7] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws:
[testng] 02:32:15,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:32:15,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:15,859 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-25_02-32-15.log]
[testng] 02:32:15,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9356c34 - End of configuration.
[testng] [2024-10-25 02:32:16,390] [pool-1-thread-6] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws:
[testng] 02:32:16,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:32:16,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:16,391 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-25_02-32-16.log]
[testng] 02:32:16,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49e26837 - End of configuration.
[testng] [2024-10-25 02:32:16,738] [pool-1-thread-5] Initializing /data/ian/working_tillvision_vws/20120322.vws:
[testng] 02:32:16,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:32:16,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:16,739 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-25_02-32-16.log]
[testng] 02:32:16,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f56c671 - End of configuration.
[testng] [2024-10-25 02:32:20,975] [pool-1-thread-4] Initializing /data/andreas/090812E4.vws:
[testng] 02:32:20,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:32:20,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:20,977 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-25_02-32-20.log]
[testng] 02:32:20,977 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ca30366 - End of configuration.
[testng] [2024-10-25 02:32:22,729] [pool-1-thread-3] Initializing /data/imagesc-84715/not working.vws:
[testng] 02:32:22,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:32:22,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:22,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-25_02-32-22.log]
[testng] 02:32:22,731 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76faa2c6 - End of configuration.
[testng] [2024-10-25 02:32:23,067] [pool-1-thread-2] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif:
[testng] 02:32:23,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:32:23,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:32:23,068 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-25_02-32-23.log]
[testng] 02:32:23,069 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b513f3d - End of configuration.
[testng] [2024-10-25 02:32:28,868] [pool-1-thread-9] Initializing /data/ian/non_working_tillvision_vws/20120404.vws:
[testng] [2024-10-25 02:32:33,210] [pool-1-thread-12] Initializing /data/venu/060310/drug addition _BAM.vws:
[testng] [2024-10-25 02:32:33,915] [pool-1-thread-11] Initializing /data/imagesc-84715/working.vws:
[testng] [2024-10-25 02:32:34,797] [pool-1-thread-1] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws:
[testng] [2024-10-25 02:32:35,602] [pool-1-thread-2] Initializing /data/andreas/090811E1.vws:
[testng] [2024-10-25 02:32:46,310] [pool-1-thread-6] Initializing /data/christian/080807ionophore/080807ionophore3.vws:
[testng] [2024-10-25 02:32:47,509] [pool-1-thread-3] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif:
[testng] [2024-10-25 02:32:49,541] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws:
[testng] [2024-10-25 02:32:52,417] [pool-1-thread-3] Initializing /data/stephan/two sequences.vws:
[testng] [2024-10-25 02:32:54,730] [pool-1-thread-1] Initializing /data/christian/080807epi/080807epi2.vws:
[testng] [2024-10-25 02:32:56,133] [pool-1-thread-6] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws:
[testng] [2024-10-25 02:32:56,485] [pool-1-thread-12] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws:
[testng] [2024-10-25 02:32:57,388] [pool-1-thread-8] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1325, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 13 minutes 28 seconds
Finished: SUCCESS