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Started by upstream project "BIOFORMATS-test-repo" build number 228 originally caused by: Started by upstream project "Trigger" build number 253 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins18119516900401762842.sh + '[' improvision = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35756_merge_ci -v /uod/idr/repos/curated/improvision:/data -v /uod/idr-scratch/merge-ci/curated/improvision:/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] 01:49:11,827 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:49:11,828 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 01:49:11,828 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:49:11,829 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:49:11,830 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:49:11,830 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:49:11,831 |-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] 01:49:11,831 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:49:11,831 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:49:11,832 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:49:11,832 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:49:11,832 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:49:12,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:49:12,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:49:12,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:49:12,029 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:49:12,035 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:49:12,036 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:49:12,036 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:49:12,036 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:49:12,036 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 01:49:12,037 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 01:49:12,037 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 206 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-19 01:49:12,046] [main] java.version = 11.0.16 [testng] 01:49:12,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:49:12,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:12,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-19_01-49-12.log] [testng] 01:49:12,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-19 01:49:12,097] [main] testng.directory = /data [testng] [2024-10-19 01:49:12,097] [main] testng.configDirectory = /config [testng] [2024-10-19 01:49:12,109] [main] testng.multiplier = 1.0 [testng] [2024-10-19 01:49:12,110] [main] testng.in-memory = false [testng] [2024-10-19 01:49:12,110] [main] testng.allow-missing = false [testng] [2024-10-19 01:49:12,110] [main] user.language = en [testng] [2024-10-19 01:49:12,110] [main] user.country = ${user.country} [testng] [2024-10-19 01:49:12,111] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-19 01:49:13,037] [main] ---------------------------------------- [testng] [2024-10-19 01:49:13,037] [main] Total files: 9 [testng] [2024-10-19 01:49:13,037] [main] Scan time: 0.926 s (102 ms/file) [testng] [2024-10-19 01:49:13,037] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 9 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-19 01:49:18,730] [pool-1-thread-1] Initializing /data/karsten/Spiro.tiff: [testng] 01:49:18,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:49:18,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:18,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-19_01-49-18.log] [testng] 01:49:18,733 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d24a4e6 - End of configuration. [testng] [2024-10-19 01:49:18,899] [pool-1-thread-9] Initializing /data/karsten/Vessels 16bit grey.tif: [testng] 01:49:18,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:49:18,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:18,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-19_01-49-18.log] [testng] 01:49:18,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6854e89b - End of configuration. [testng] [2024-10-19 01:49:19,012] [pool-1-thread-8] Initializing /data/karsten/Vessels FP grey.tif: [testng] 01:49:19,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:49:19,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:19,012 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-19_01-49-19.log] [testng] 01:49:19,013 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17ca2f6e - End of configuration. [testng] [2024-10-19 01:49:19,144] [pool-1-thread-7] Initializing /data/karsten/Vessels eight-bit grey.tif: [testng] 01:49:19,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:49:19,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:19,145 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-19_01-49-19.log] [testng] 01:49:19,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b30aa9c - End of configuration. [testng] [2024-10-19 01:49:19,289] [pool-1-thread-6] Initializing /data/karsten/Vessels 1bit.tif: [testng] 01:49:19,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:49:19,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:19,290 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-19_01-49-19.log] [testng] 01:49:19,290 |-INFO in ch.qos.logback.core.sift.SiftProcessor@914e4bc - End of configuration. [testng] [2024-10-19 01:49:19,413] [pool-1-thread-5] Initializing /data/karsten/Vessels 32-bit Col.tif: [testng] 01:49:19,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:49:19,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:19,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-19_01-49-19.log] [testng] 01:49:19,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d938d13 - End of configuration. [testng] [2024-10-19 01:49:19,556] [pool-1-thread-4] Initializing /data/jcb/Figure 1Ci-iv/T00001C01Z001.tif: [testng] 01:49:19,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:49:19,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:19,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-19_01-49-19.log] [testng] 01:49:19,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@145d8751 - End of configuration. [testng] [2024-10-19 01:49:20,800] [pool-1-thread-3] Initializing /data/chris/Fig 4A copy.tif: [testng] 01:49:20,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:49:20,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:20,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-19_01-49-20.log] [testng] 01:49:20,801 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33d2317d - End of configuration. [testng] [2024-10-19 01:49:20,945] [pool-1-thread-2] Initializing /data/karsten/Vessels 48bit Col.tif: [testng] 01:49:20,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:49:20,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:20,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-19_01-49-20.log] [testng] 01:49:20,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7496284a - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 477, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 22 seconds Finished: SUCCESS