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Started by upstream project "BIOFORMATS-test-repo" build number 206 originally caused by: Started by upstream project "Trigger" build number 232 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/jenkins15191600185399346304.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32683_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] 02:04:16,906 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:04:16,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:04:16,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:04:16,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:04:16,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:04:16,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:04:16,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:04:16,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:04:16,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:04:16,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:04:16,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:04:16,911 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:04:17,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:04:17,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:04:17,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:04:17,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:04:17,099 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:04:17,099 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:04:17,099 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:04:17,099 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:04:17,099 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:04:17,100 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:04:17,100 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-01 02:04:17,109] [main] java.version = 11.0.16 [testng] 02:04:17,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:04:17,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:17,165 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-01_02-04-17.log] [testng] 02:04:17,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-10-01 02:04:17,169] [main] testng.directory = /data [testng] [2024-10-01 02:04:17,170] [main] testng.configDirectory = /config [testng] [2024-10-01 02:04:17,181] [main] testng.multiplier = 1.0 [testng] [2024-10-01 02:04:17,183] [main] testng.in-memory = false [testng] [2024-10-01 02:04:17,183] [main] testng.allow-missing = false [testng] [2024-10-01 02:04:17,183] [main] user.language = en [testng] [2024-10-01 02:04:17,183] [main] user.country = ${user.country} [testng] [2024-10-01 02:04:17,183] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-01 02:04:30,053] [main] ---------------------------------------- [testng] [2024-10-01 02:04:30,053] [main] Total files: 25 [testng] [2024-10-01 02:04:30,053] [main] Scan time: 12.87 s (514 ms/file) [testng] [2024-10-01 02:04:30,054] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-01 02:04:43,111] [pool-1-thread-1] Initializing /data/imagic/1-1.dm2: [testng] 02:04:43,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:04:43,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,114 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-01_02-04-43.log] [testng] 02:04:43,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71d238a3 - End of configuration. [testng] [2024-10-01 02:04:43,359] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 02:04:43,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:04:43,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-01_02-04-43.log] [testng] 02:04:43,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@694b5b3e - End of configuration. [testng] [2024-10-01 02:04:43,542] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 02:04:43,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:04:43,542 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,543 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-01_02-04-43.log] [testng] 02:04:43,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20c784b5 - End of configuration. [testng] [2024-10-01 02:04:43,584] [pool-1-thread-10] Initializing /data/pang/grating025k.dm2: [testng] 02:04:43,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:04:43,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-01_02-04-43.log] [testng] 02:04:43,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b756b92 - End of configuration. [testng] [2024-10-01 02:04:43,785] [pool-1-thread-9] Initializing /data/imagic/TEM 10118.dm2: [testng] 02:04:43,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:04:43,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-01_02-04-43.log] [testng] 02:04:43,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dd1055c - End of configuration. [testng] [2024-10-01 02:04:43,948] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 02:04:43,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:04:43,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-01_02-04-43.log] [testng] 02:04:43,949 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5557bc09 - End of configuration. [testng] [2024-10-01 02:04:43,980] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 02:04:43,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:04:43,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:43,980 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-01_02-04-43.log] [testng] 02:04:43,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@df4fe76 - End of configuration. [testng] [2024-10-01 02:04:44,010] [pool-1-thread-6] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 02:04:44,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:04:44,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:44,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-01_02-04-44.log] [testng] 02:04:44,011 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a64590 - End of configuration. [testng] [2024-10-01 02:04:44,310] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 02:04:44,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:04:44,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:44,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-01_02-04-44.log] [testng] 02:04:44,311 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a87c2f2 - End of configuration. [testng] [2024-10-01 02:04:44,360] [pool-1-thread-4] Initializing /data/pang/10500x-o4: [testng] 02:04:44,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:04:44,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:44,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-01_02-04-44.log] [testng] 02:04:44,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a409a69 - End of configuration. [testng] [2024-10-01 02:04:44,672] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 02:04:44,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:04:44,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:44,673 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-01_02-04-44.log] [testng] 02:04:44,674 |-INFO in ch.qos.logback.core.sift.SiftProcessor@753e3 - End of configuration. [testng] [2024-10-01 02:04:44,710] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 02:04:44,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:04:44,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:44,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-01_02-04-44.log] [testng] 02:04:44,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@307efb95 - End of configuration. [testng] [2024-10-01 02:04:47,525] [pool-1-thread-3] Initializing /data/pang/signed: [testng] [2024-10-01 02:04:47,740] [pool-1-thread-8] Initializing /data/imagic/13008.dm2: [testng] [2024-10-01 02:04:47,959] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-10-01 02:04:47,999] [pool-1-thread-11] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2024-10-01 02:04:48,216] [pool-1-thread-7] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2024-10-01 02:04:48,378] [pool-1-thread-5] Initializing /data/pang/unproc-auto: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 37 seconds Finished: SUCCESS