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Started by upstream project "BIOFORMATS-test-repo" build number 133 originally caused by: Started by upstream project "Trigger" build number 153 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins18274899444841347424.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20944_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] 02:43:09,928 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:43:09,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:43:09,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:43:09,931 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:43:09,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:43:09,932 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:43:09,932 |-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] 02:43:09,932 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:43:09,933 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:43:09,933 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:43:09,933 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:43:09,933 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:43:10,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:43:10,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:43:10,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:43:10,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:43:10,217 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:43:10,218 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:43:10,218 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:43:10,218 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:43:10,218 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:43:10,219 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:43:10,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 286 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-26 02:43:10,229] [main] java.version = 1.8.0_342 [testng] 02:43:10,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:43:10,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:10,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-26_02-43-10.log] [testng] 02:43:10,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-26 02:43:10,288] [main] testng.directory = /data [testng] [2024-07-26 02:43:10,289] [main] testng.configDirectory = /config [testng] [2024-07-26 02:43:10,308] [main] testng.multiplier = 1.0 [testng] [2024-07-26 02:43:10,308] [main] testng.in-memory = false [testng] [2024-07-26 02:43:10,309] [main] testng.allow-missing = false [testng] [2024-07-26 02:43:10,309] [main] user.language = en [testng] [2024-07-26 02:43:10,309] [main] user.country = ${user.country} [testng] [2024-07-26 02:43:10,309] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-26 02:43:21,012] [main] ---------------------------------------- [testng] [2024-07-26 02:43:21,012] [main] Total files: 944 [testng] [2024-07-26 02:43:21,012] [main] Scan time: 10.703 s (11 ms/file) [testng] [2024-07-26 02:43:21,012] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-26 02:43:48,994] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 02:43:48,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:43:48,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:48,995 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-26_02-43-48.log] [testng] 02:43:48,995 |-INFO in ch.qos.logback.core.sift.SiftProcessor@777718de - End of configuration. [testng] [2024-07-26 02:43:49,034] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 02:43:49,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:43:49,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-26_02-43-49.log] [testng] 02:43:49,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b4e75fc - End of configuration. [testng] [2024-07-26 02:43:49,067] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 02:43:49,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:43:49,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,068 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-26_02-43-49.log] [testng] 02:43:49,069 |-INFO in ch.qos.logback.core.sift.SiftProcessor@723fb45b - End of configuration. [testng] [2024-07-26 02:43:49,095] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 02:43:49,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:43:49,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-26_02-43-49.log] [testng] 02:43:49,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@219d5491 - End of configuration. [testng] [2024-07-26 02:43:49,151] [pool-1-thread-9] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 02:43:49,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:43:49,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,152 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-26_02-43-49.log] [testng] 02:43:49,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d30d59f - End of configuration. [testng] [2024-07-26 02:43:49,187] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 02:43:49,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:43:49,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,188 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-26_02-43-49.log] [testng] 02:43:49,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40386025 - End of configuration. [testng] [2024-07-26 02:43:49,219] [pool-1-thread-7] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 02:43:49,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:43:49,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-26_02-43-49.log] [testng] 02:43:49,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@617cd3ad - End of configuration. [testng] [2024-07-26 02:43:49,255] [pool-1-thread-6] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 02:43:49,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:43:49,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,256 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-26_02-43-49.log] [testng] 02:43:49,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41019bae - End of configuration. [testng] [2024-07-26 02:43:49,304] [pool-1-thread-5] Initializing /data/brian/Series002_z01.tif: [testng] 02:43:49,304 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:43:49,304 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-26_02-43-49.log] [testng] 02:43:49,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fd3c18f - End of configuration. [testng] [2024-07-26 02:43:49,340] [pool-1-thread-4] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 02:43:49,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:43:49,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-26_02-43-49.log] [testng] 02:43:49,341 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ac99820 - End of configuration. [testng] [2024-07-26 02:43:49,374] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 02:43:49,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:43:49,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-26_02-43-49.log] [testng] 02:43:49,375 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e0fae3c - End of configuration. [testng] [2024-07-26 02:43:49,410] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 02:43:49,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:43:49,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:43:49,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-26_02-43-49.log] [testng] 02:43:49,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29440443 - End of configuration. [testng] [2024-07-26 02:43:51,195] [pool-1-thread-11] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] [2024-07-26 02:43:51,222] [pool-1-thread-6] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] [2024-07-26 02:43:55,976] [pool-1-thread-12] Initializing /data/brian/Series002_z00_ch00.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 9 minutes 34 seconds Finished: SUCCESS