Started by upstream project "BIOFORMATS-test-repo" build number 112
originally caused by:
Started by upstream project "Trigger" build number 125
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins14649901154972733804.sh
+ '[' tillvision = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_17431_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] 01:47:08,401 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:47:08,403 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 01:47:08,403 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:47:08,404 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:47:08,404 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:47:08,404 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:47:08,405 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:47:08,405 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:47:08,405 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:47:08,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:47:08,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:47:08,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:47:08,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:47:08,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:47:08,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:47:08,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:47:08,712 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:47:08,712 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:47:08,712 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:47:08,713 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:47:08,713 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 01:47:08,714 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 01:47:08,714 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 309 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-05 01:47:08,727] [main] java.version = 1.8.0_342
[testng] 01:47:08,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:47:08,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:08,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-05_01-47-08.log]
[testng] 01:47:08,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-07-05 01:47:08,798] [main] testng.directory = /data
[testng] [2024-07-05 01:47:08,799] [main] testng.configDirectory = /config
[testng] [2024-07-05 01:47:08,812] [main] testng.multiplier = 1.0
[testng] [2024-07-05 01:47:08,812] [main] testng.in-memory = false
[testng] [2024-07-05 01:47:08,812] [main] testng.allow-missing = false
[testng] [2024-07-05 01:47:08,812] [main] user.language = en
[testng] [2024-07-05 01:47:08,812] [main] user.country = ${user.country}
[testng] [2024-07-05 01:47:08,812] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-07-05 01:47:10,617] [main] ----------------------------------------
[testng] [2024-07-05 01:47:10,617] [main] Total files: 46
[testng] [2024-07-05 01:47:10,618] [main] Scan time: 1.805 s (39 ms/file)
[testng] [2024-07-05 01:47:10,618] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 25 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-05 01:47:31,223] [pool-1-thread-1] Initializing /data/venu/060310/drug addition _BAM.vws:
[testng] 01:47:31,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:47:31,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:31,225 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-05_01-47-31.log]
[testng] 01:47:31,226 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33471dc2 - End of configuration.
[testng] [2024-07-05 01:47:31,410] [pool-1-thread-12] Initializing /data/ian/non_working_tillvision_vws/20120404.vws:
[testng] 01:47:31,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:47:31,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:31,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-05_01-47-31.log]
[testng] 01:47:31,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7da77416 - End of configuration.
[testng] [2024-07-05 01:47:35,091] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif:
[testng] 01:47:35,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:47:35,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-05_01-47-35.log]
[testng] 01:47:35,093 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b1271b0 - End of configuration.
[testng] [2024-07-05 01:47:35,135] [pool-1-thread-10] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws:
[testng] 01:47:35,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:47:35,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-05_01-47-35.log]
[testng] 01:47:35,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29da072c - End of configuration.
[testng] [2024-07-05 01:47:35,151] [pool-1-thread-9] Initializing /data/stephan/two sequences.vws:
[testng] 01:47:35,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:47:35,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,152 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-05_01-47-35.log]
[testng] 01:47:35,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c261851 - End of configuration.
[testng] [2024-07-05 01:47:35,167] [pool-1-thread-8] Initializing /data/samples/fibre.vws:
[testng] 01:47:35,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:47:35,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-05_01-47-35.log]
[testng] 01:47:35,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e2afcfc - End of configuration.
[testng] [2024-07-05 01:47:35,194] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws:
[testng] 01:47:35,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:47:35,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-05_01-47-35.log]
[testng] 01:47:35,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f1e31c - End of configuration.
[testng] [2024-07-05 01:47:35,233] [pool-1-thread-6] Initializing /data/imagesc-84715/not working.vws:
[testng] 01:47:35,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:47:35,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,234 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-05_01-47-35.log]
[testng] 01:47:35,235 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b8330a - End of configuration.
[testng] [2024-07-05 01:47:35,429] [pool-1-thread-5] Initializing /data/andreas/090811E1.vws:
[testng] 01:47:35,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:47:35,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:35,430 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-05_01-47-35.log]
[testng] 01:47:35,430 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45c242ac - End of configuration.
[testng] [2024-07-05 01:47:38,234] [pool-1-thread-4] Initializing /data/christian/080807epi/080807epi2.vws:
[testng] 01:47:38,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:47:38,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:38,235 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-05_01-47-38.log]
[testng] 01:47:38,235 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14ef3b6a - End of configuration.
[testng] [2024-07-05 01:47:38,315] [pool-1-thread-3] Initializing /data/imagesc-84715/working.vws:
[testng] 01:47:38,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:47:38,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:38,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-05_01-47-38.log]
[testng] 01:47:38,317 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ae3ba3d - End of configuration.
[testng] [2024-07-05 01:47:38,735] [pool-1-thread-2] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif:
[testng] 01:47:38,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:47:38,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:47:38,736 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-05_01-47-38.log]
[testng] 01:47:38,737 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55e1d0b6 - End of configuration.
[testng] [2024-07-05 01:47:40,405] [pool-1-thread-8] Initializing /data/ian/working_tillvision_vws/20120322.vws:
[testng] [2024-07-05 01:47:44,245] [pool-1-thread-2] Initializing /data/andreas/090812E4.vws:
[testng] [2024-07-05 01:47:45,252] [pool-1-thread-11] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws:
[testng] [2024-07-05 01:47:45,955] [pool-1-thread-10] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws:
[testng] [2024-07-05 01:47:46,345] [pool-1-thread-9] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif:
[testng] [2024-07-05 01:47:46,594] [pool-1-thread-4] Initializing /data/gerhard/test.vws:
[testng] [2024-07-05 01:47:46,899] [pool-1-thread-9] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif:
[testng] [2024-07-05 01:47:47,122] [pool-1-thread-1] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws:
[testng] [2024-07-05 01:47:47,567] [pool-1-thread-9] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws:
[testng] [2024-07-05 01:47:49,391] [pool-1-thread-10] Initializing /data/christian/080807ionophore/080807ionophore3.vws:
[testng] [2024-07-05 01:47:49,726] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws:
[testng] [2024-07-05 01:47:49,917] [pool-1-thread-4] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws:
[testng] [2024-07-05 01:47:50,248] [pool-1-thread-1] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1325, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 6 minutes 15 seconds
Finished: SUCCESS