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Started by upstream project "BIOFORMATS-test-repo" build number 393 originally caused by: Started by upstream project "Trigger" build number 418 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins10629130401381303659.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_62117_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] 19:42:55,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 19:42:55,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 19:42:55,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 19:42:55,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 19:42:55,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 19:42:55,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 19:42:55,668 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 19:42:55,668 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 19:42:55,669 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 19:42:55,669 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 19:42:55,669 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 19:42:55,669 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 19:42:55,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 19:42:55,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 19:42:55,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 19:42:55,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 19:42:55,916 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 19:42:55,917 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 19:42:55,917 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 19:42:55,917 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 19:42:55,917 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 19:42:55,918 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 19:42:55,918 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 250 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-28 19:42:55,928] [main] java.version = 1.8.0_342 [testng] 19:42:55,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 19:42:55,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 19:42:55,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-28_19-42-55.log] [testng] 19:42:55,975 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-28 19:42:55,977] [main] testng.directory = /data [testng] [2025-03-28 19:42:55,977] [main] testng.configDirectory = /config [testng] [2025-03-28 19:42:55,989] [main] testng.multiplier = 1.0 [testng] [2025-03-28 19:42:55,989] [main] testng.in-memory = false [testng] [2025-03-28 19:42:55,989] [main] testng.allow-missing = false [testng] [2025-03-28 19:42:55,989] [main] user.language = en [testng] [2025-03-28 19:42:55,989] [main] user.country = ${user.country} [testng] [2025-03-28 19:42:55,989] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-28 19:47:03,080] [main] ---------------------------------------- [testng] [2025-03-28 19:47:03,080] [main] Total files: 944 [testng] [2025-03-28 19:47:03,080] [main] Scan time: 247.091 s (261 ms/file) [testng] [2025-03-28 19:47:03,080] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-28 21:42:52,925] [pool-1-thread-1] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 21:42:52,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 21:42:52,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 21:42:52,927 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-28_21-42-52.log] [testng] 21:42:52,927 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d8db714 - End of configuration. [testng] [2025-03-28 21:43:50,086] [pool-1-thread-12] Initializing /data/primate/Leica_Image.tif: [testng] 21:43:50,086 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 21:43:50,086 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 21:43:50,087 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-28_21-43-50.log] [testng] 21:43:50,087 |-INFO in ch.qos.logback.core.sift.SiftProcessor@720344ba - End of configuration. [testng] [2025-03-28 21:44:32,960] [pool-1-thread-11] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 21:44:32,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 21:44:32,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 21:44:32,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-28_21-44-32.log] [testng] 21:44:32,962 |-INFO in ch.qos.logback.core.sift.SiftProcessor@394cdc7a - End of configuration. [testng] [2025-03-28 22:47:36,056] [pool-1-thread-10] Initializing /data/brian/Series002_z01.tif: [testng] 22:47:36,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 22:47:36,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:47:36,057 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-28_22-47-36.log] [testng] 22:47:36,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@342037a4 - End of configuration. [testng] [2025-03-28 22:49:42,959] [pool-1-thread-9] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 22:49:42,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 22:49:42,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:49:42,960 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-28_22-49-42.log] [testng] 22:49:42,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a684e82 - End of configuration. [testng] [2025-03-28 22:51:16,034] [pool-1-thread-8] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 22:51:16,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 22:51:16,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:51:16,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-28_22-51-16.log] [testng] 22:51:16,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f88c6a7 - End of configuration. [testng] [2025-03-28 22:53:09,191] [pool-1-thread-7] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 22:53:09,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 22:53:09,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:53:09,191 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-28_22-53-09.log] [testng] 22:53:09,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15a08ac9 - End of configuration. [testng] [2025-03-28 22:55:12,616] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 22:55:12,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 22:55:12,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:55:12,617 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-28_22-55-12.log] [testng] 22:55:12,618 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40e15d5c - End of configuration. [testng] [2025-03-28 22:56:49,062] [pool-1-thread-5] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 22:56:49,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 22:56:49,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:56:49,062 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-28_22-56-49.log] [testng] 22:56:49,063 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3736daa9 - End of configuration. [testng] [2025-03-28 22:58:52,484] [pool-1-thread-4] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 22:58:52,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 22:58:52,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 22:58:52,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-28_22-58-52.log] [testng] 22:58:52,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2d93b5 - End of configuration. [testng] [2025-03-28 23:00:39,238] [pool-1-thread-3] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 23:00:39,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 23:00:39,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:00:39,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-28_23-00-39.log] [testng] 23:00:39,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68593954 - End of configuration. [testng] [2025-03-28 23:02:28,795] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 23:02:28,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 23:02:28,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:02:28,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-28_23-02-28.log] [testng] 23:02:28,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e1a856b - End of configuration. [testng] 23:03:56,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 23:03:56,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:03:56,466 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-28_23-03-56.log] [testng] 23:03:56,466 |-INFO in ch.qos.logback.core.sift.SiftProcessor@494ba60b - End of configuration. [testng] 23:03:59,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 23:03:59,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 23:03:59,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-28_23-03-59.log] [testng] 23:03:59,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d518bff - End of configuration. [testng] [2025-03-28 23:12:49,951] [pool-1-thread-12] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] [2025-03-28 23:16:32,906] [pool-1-thread-10] Initializing /data/martin/Series028_z00_ch00.tif: [testng] [2025-03-28 23:18:52,572] [pool-1-thread-2] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: Build was aborted Calling Pipeline was cancelled Finished: ABORTED