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Started by upstream project "BIOFORMATS-test-repo" build number 227 originally caused by: Started by upstream project "Trigger" build number 252 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins10784783695859345631.sh + '[' amira = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35567_merge_ci -v /uod/idr/repos/curated/amira:/data -v /uod/idr-scratch/merge-ci/curated/amira:/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] 08:06:38,876 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 08:06:38,878 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 08:06:38,878 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:06:38,879 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:06:38,879 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:06:38,879 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:06:38,880 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 08:06:38,880 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:06:38,880 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:06:38,880 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:06:38,881 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:06:38,881 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:06:39,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:06:39,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:06:39,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:06:39,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:06:39,136 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:06:39,137 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:06:39,137 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:06:39,137 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:06:39,137 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 08:06:39,138 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 08:06:39,138 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 258 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-18 08:06:39,148] [main] java.version = 1.8.0_342 [testng] 08:06:39,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:06:39,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:39,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_08-06-39.log] [testng] 08:06:39,199 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-18 08:06:39,200] [main] testng.directory = /data [testng] [2024-10-18 08:06:39,201] [main] testng.configDirectory = /config [testng] [2024-10-18 08:06:39,212] [main] testng.multiplier = 1.0 [testng] [2024-10-18 08:06:39,213] [main] testng.in-memory = false [testng] [2024-10-18 08:06:39,213] [main] testng.allow-missing = false [testng] [2024-10-18 08:06:39,213] [main] user.language = en [testng] [2024-10-18 08:06:39,213] [main] user.country = ${user.country} [testng] [2024-10-18 08:06:39,213] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-18 08:07:05,012] [main] ---------------------------------------- [testng] [2024-10-18 08:07:05,012] [main] Total files: 15 [testng] [2024-10-18 08:07:05,012] [main] Scan time: 25.799 s (1719 ms/file) [testng] [2024-10-18 08:07:05,012] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-18 08:08:16,368] [pool-1-thread-1] Initializing /data/ilya/test.am: [testng] 08:08:16,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:08:16,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:16,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_08-08-16.log] [testng] 08:08:16,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39ef033 - End of configuration. [testng] [2024-10-18 08:08:19,780] [pool-1-thread-12] Initializing /data/jeremy/Virus_Membrane7.am: [testng] 08:08:19,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:08:19,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:19,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-18_08-08-19.log] [testng] 08:08:19,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18c0639b - End of configuration. [testng] [2024-10-18 08:08:22,915] [pool-1-thread-11] Initializing /data/jeremy/Virus_Membrane7-screenshot.PNG: [testng] 08:08:22,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:08:22,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:22,916 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_08-08-22.log] [testng] 08:08:22,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1239c017 - End of configuration. [testng] [2024-10-18 08:08:23,098] [pool-1-thread-10] Initializing /data/johannes/template.labels: [testng] 08:08:23,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:08:23,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:23,099 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_08-08-23.log] [testng] 08:08:23,099 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40dae952 - End of configuration. [testng] [2024-10-18 08:08:25,661] [pool-1-thread-9] Initializing /data/jcb/201108088/Haberman-Fig4A-original.am: [testng] 08:08:25,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:08:25,661 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:25,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_08-08-25.log] [testng] 08:08:25,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d6d71fb - End of configuration. [testng] [2024-10-18 08:08:28,175] [pool-1-thread-8] Initializing /data/public/imagesc-50585/BF_Check.tif: [testng] 08:08:28,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:08:28,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:28,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_08-08-28.log] [testng] 08:08:28,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b1271b0 - End of configuration. [testng] [2024-10-18 08:08:34,925] [pool-1-thread-7] Initializing /data/public/ignacio/test.am: [testng] 08:08:34,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:08:34,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:34,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_08-08-34.log] [testng] 08:08:34,927 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f500507 - End of configuration. [testng] [2024-10-18 08:08:37,495] [pool-1-thread-6] Initializing /data/jeremy/Hiv_spikes.am: [testng] 08:08:37,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:08:37,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:37,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_08-08-37.log] [testng] 08:08:37,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@224ebe5 - End of configuration. [testng] [2024-10-18 08:08:40,090] [pool-1-thread-5] Initializing /data/public/imagesc-50585/BF_CheckMIB.am: [testng] 08:08:40,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:08:40,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:40,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_08-08-40.log] [testng] 08:08:40,092 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ecf39ae - End of configuration. [testng] [2024-10-18 08:08:42,572] [pool-1-thread-4] Initializing /data/samples/emptykey/test.am: [testng] 08:08:42,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:08:42,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:42,573 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_08-08-42.log] [testng] 08:08:42,573 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f63b4d1 - End of configuration. [testng] [2024-10-18 08:08:44,851] [pool-1-thread-3] Initializing /data/public/imagesc-50585/BF_CheckAmira.am: [testng] 08:08:44,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:08:44,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:44,852 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_08-08-44.log] [testng] 08:08:44,852 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12a31ee1 - End of configuration. [testng] [2024-10-18 08:08:47,481] [pool-1-thread-2] Initializing /data/johannes/template.grey: [testng] 08:08:47,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:08:47,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:47,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_08-08-47.log] [testng] 08:08:47,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7af18a6f - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 636, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 59 seconds Finished: SUCCESS