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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@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins3908895709432083524.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32733_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 03:23:45,672 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:23:45,674 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 03:23:45,674 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:23:45,675 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:23:45,675 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:23:45,676 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:23:45,676 |-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] 03:23:45,676 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:23:45,677 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:23:45,677 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:23:45,678 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:23:45,678 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:23:45,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:23:45,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:23:45,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:23:45,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:23:45,925 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:23:45,925 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:23:45,925 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:23:45,926 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:23:45,926 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 03:23:45,927 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 03:23:45,927 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 250 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-01 03:23:45,937] [main] java.version = 11.0.16 [testng] 03:23:45,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:23:45,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:23:45,988 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-01_03-23-45.log] [testng] 03:23:45,989 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-10-01 03:23:45,992] [main] testng.directory = /data [testng] [2024-10-01 03:23:45,993] [main] testng.configDirectory = /config [testng] [2024-10-01 03:23:46,004] [main] testng.multiplier = 1.0 [testng] [2024-10-01 03:23:46,006] [main] testng.in-memory = false [testng] [2024-10-01 03:23:46,006] [main] testng.allow-missing = false [testng] [2024-10-01 03:23:46,006] [main] user.language = en [testng] [2024-10-01 03:23:46,006] [main] user.country = ${user.country} [testng] [2024-10-01 03:23:46,006] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-01 03:24:00,909] [main] ---------------------------------------- [testng] [2024-10-01 03:24:00,909] [main] Total files: 68 [testng] [2024-10-01 03:24:00,909] [main] Scan time: 14.903 s (219 ms/file) [testng] [2024-10-01 03:24:00,909] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 60 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-01 03:24:27,175] [pool-1-thread-1] Initializing /data/gh-4193/24-5-9_RSV+AfumMscar+CFW_40x Stack_deconvolved.ims: [testng] 03:24:27,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:24:27,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,177 |-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_03-24-27.log] [testng] 03:24:27,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42f3fcc1 - End of configuration. [testng] [2024-10-01 03:24:27,345] [pool-1-thread-12] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: [testng] 03:24:27,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:24:27,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,347 |-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_03-24-27.log] [testng] 03:24:27,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d710599 - End of configuration. [testng] [2024-10-01 03:24:27,543] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] 03:24:27,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:24:27,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,544 |-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_03-24-27.log] [testng] 03:24:27,544 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a9a64ed - End of configuration. [testng] [2024-10-01 03:24:27,809] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0001.ims: [testng] 03:24:27,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:24:27,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,809 |-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_03-24-27.log] [testng] 03:24:27,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e114881 - End of configuration. [testng] [2024-10-01 03:24:27,889] [pool-1-thread-9] Initializing /data/generated/10-31_E_t0015.ims: [testng] 03:24:27,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:24:27,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,890 |-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_03-24-27.log] [testng] 03:24:27,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bf95aef - End of configuration. [testng] [2024-10-01 03:24:27,959] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0007.ims: [testng] 03:24:27,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:24:27,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:27,960 |-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_03-24-27.log] [testng] 03:24:27,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eb8dac2 - End of configuration. [testng] [2024-10-01 03:24:28,041] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0012.ims: [testng] 03:24:28,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:24:28,042 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,043 |-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_03-24-28.log] [testng] 03:24:28,043 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f252e57 - End of configuration. [testng] [2024-10-01 03:24:28,116] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0000.ims: [testng] 03:24:28,116 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:24:28,116 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,117 |-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_03-24-28.log] [testng] 03:24:28,117 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3aa0d576 - End of configuration. [testng] [2024-10-01 03:24:28,194] [pool-1-thread-5] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] 03:24:28,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:24:28,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,195 |-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_03-24-28.log] [testng] 03:24:28,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a4f56e2 - End of configuration. [testng] [2024-10-01 03:24:28,420] [pool-1-thread-4] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] 03:24:28,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:24:28,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,421 |-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_03-24-28.log] [testng] 03:24:28,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d2a00e1 - End of configuration. [testng] [2024-10-01 03:24:28,662] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0003.ims: [testng] 03:24:28,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:24:28,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,663 |-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_03-24-28.log] [testng] 03:24:28,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17a8cdcc - End of configuration. [testng] [2024-10-01 03:24:28,745] [pool-1-thread-2] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] 03:24:28,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:24:28,746 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:24:28,746 |-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_03-24-28.log] [testng] 03:24:28,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35c49acd - End of configuration. [testng] [2024-10-01 03:24:31,494] [pool-1-thread-10] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-10-01 03:24:31,634] [pool-1-thread-9] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] [2024-10-01 03:24:37,334] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_1T_confocal.ims: [testng] [2024-10-01 03:24:37,440] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0005.ims: [testng] [2024-10-01 03:24:37,490] [pool-1-thread-7] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-10-01 03:24:37,636] [pool-1-thread-8] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-10-01 03:24:37,879] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0004.ims: [testng] [2024-10-01 03:24:38,012] [pool-1-thread-12] Initializing /data/oliver/Stack2_float32Bit.ims: BUILD SUCCESSFUL Total time: 1 minute 50 seconds Finished: SUCCESS