Started by upstream project "BIOFORMATS-test-repo" build number 209 originally caused by: Started by upstream project "Trigger" build number 235 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins15926286634044428535.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33251_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 test-automated: [testng] File leak detector installed [testng] 03:51:35,295 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:51:35,297 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 03:51:35,297 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:51:35,298 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:51:35,299 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:51:35,299 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:51:35,299 |-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] 03:51:35,299 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:51:35,300 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:51:35,300 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:51:35,300 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:51:35,300 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:51:35,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:51:35,526 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:51:35,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:51:35,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:51:35,563 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:51:35,563 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:51:35,563 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:51:35,563 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:51:35,563 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 03:51:35,564 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 03:51:35,564 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 264 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-04 03:51:35,575] [main] java.version = 1.8.0_342 [testng] 03:51:35,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:51:35,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:35,631 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-04_03-51-35.log] [testng] 03:51:35,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-10-04 03:51:35,634] [main] testng.directory = /data [testng] [2024-10-04 03:51:35,634] [main] testng.configDirectory = /config [testng] [2024-10-04 03:51:35,646] [main] testng.multiplier = 1.0 [testng] [2024-10-04 03:51:35,646] [main] testng.in-memory = false [testng] [2024-10-04 03:51:35,646] [main] testng.allow-missing = false [testng] [2024-10-04 03:51:35,646] [main] user.language = en [testng] [2024-10-04 03:51:35,646] [main] user.country = ${user.country} [testng] [2024-10-04 03:51:35,646] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-04 03:51:48,556] [main] ---------------------------------------- [testng] [2024-10-04 03:51:48,556] [main] Total files: 944 [testng] [2024-10-04 03:51:48,557] [main] Scan time: 12.909 s (13 ms/file) [testng] [2024-10-04 03:51:48,557] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-04 03:52:51,713] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 03:52:51,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:52:51,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:51,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-04_03-52-51.log] [testng] 03:52:51,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3807917f - End of configuration. [testng] [2024-10-04 03:52:52,402] [pool-1-thread-12] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 03:52:52,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:52:52,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:52,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-04_03-52-52.log] [testng] 03:52:52,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a1156eb - End of configuration. [testng] [2024-10-04 03:52:53,266] [pool-1-thread-11] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 03:52:53,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:52:53,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:53,267 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-04_03-52-53.log] [testng] 03:52:53,268 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4947175f - End of configuration. [testng] [2024-10-04 03:52:54,049] [pool-1-thread-10] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 03:52:54,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:52:54,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:54,051 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-04_03-52-54.log] [testng] 03:52:54,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@116b5f6d - End of configuration. [testng] [2024-10-04 03:53:25,084] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 03:53:25,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:53:25,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:25,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-04_03-53-25.log] [testng] 03:53:25,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@121cc3a1 - End of configuration. [testng] [2024-10-04 03:53:25,894] [pool-1-thread-8] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 03:53:25,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:53:25,894 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:25,895 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-04_03-53-25.log] [testng] 03:53:25,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39e5147 - End of configuration. [testng] [2024-10-04 03:53:26,627] [pool-1-thread-7] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 03:53:26,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:53:26,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:26,628 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-04_03-53-26.log] [testng] 03:53:26,629 |-INFO in ch.qos.logback.core.sift.SiftProcessor@581091a5 - End of configuration. [testng] [2024-10-04 03:53:27,474] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 03:53:27,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:53:27,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:27,475 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-04_03-53-27.log] [testng] 03:53:27,475 |-INFO in ch.qos.logback.core.sift.SiftProcessor@be5ae8e - End of configuration. [testng] [2024-10-04 03:53:28,214] [pool-1-thread-5] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 03:53:28,214 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:53:28,214 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:28,215 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-04_03-53-28.log] [testng] 03:53:28,215 |-INFO in ch.qos.logback.core.sift.SiftProcessor@752c709e - End of configuration. [testng] [2024-10-04 03:53:29,071] [pool-1-thread-4] Initializing /data/primate/Leica_Image.tif: [testng] 03:53:29,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:53:29,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:29,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-04_03-53-29.log] [testng] 03:53:29,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17994c7c - End of configuration. [testng] [2024-10-04 03:53:29,799] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 03:53:29,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:53:29,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:29,800 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-04_03-53-29.log] [testng] 03:53:29,800 |-INFO in ch.qos.logback.core.sift.SiftProcessor@479cc65d - End of configuration. [testng] [2024-10-04 03:53:30,539] [pool-1-thread-2] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 03:53:30,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:53:30,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:53:30,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-04_03-53-30.log] [testng] 03:53:30,541 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36e4deb9 - End of configuration. [testng] [2024-10-04 03:53:37,299] [pool-1-thread-4] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] [2024-10-04 03:53:40,026] [pool-1-thread-8] Initializing /data/brian/Series002_z01.tif: [testng] [2024-10-04 03:53:41,302] [pool-1-thread-9] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 49 minutes 2 seconds Finished: SUCCESS