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Started by upstream project "BIOFORMATS-test-repo" build number 281 originally caused by: Started by upstream project "Trigger" build number 301 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins1235108237384214071.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44386_merge_ci -v /uod/idr/repos/curated/analyze:/data -v /uod/idr-scratch/merge-ci/curated/analyze:/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] 03:20:34,993 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:20:34,994 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 03:20:34,994 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:20:34,995 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:20:34,995 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:20:34,995 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:20:34,996 |-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] 03:20:34,996 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:20:34,996 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:20:34,996 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:20:34,997 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:20:34,997 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:20:35,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:20:35,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:20:35,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:20:35,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:20:35,242 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:20:35,243 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:20:35,243 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:20:35,243 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:20:35,243 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 03:20:35,244 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 03:20:35,244 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 248 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 03:20:35,253] [main] java.version = 1.8.0_342 [testng] 03:20:35,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:20:35,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:35,298 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_03-20-35.log] [testng] 03:20:35,300 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 03:20:35,302] [main] testng.directory = /data [testng] [2024-12-06 03:20:35,302] [main] testng.configDirectory = /config [testng] [2024-12-06 03:20:35,313] [main] testng.multiplier = 1.0 [testng] [2024-12-06 03:20:35,313] [main] testng.in-memory = false [testng] [2024-12-06 03:20:35,313] [main] testng.allow-missing = false [testng] [2024-12-06 03:20:35,313] [main] user.language = en [testng] [2024-12-06 03:20:35,314] [main] user.country = ${user.country} [testng] [2024-12-06 03:20:35,314] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 03:20:46,207] [main] ---------------------------------------- [testng] [2024-12-06 03:20:46,207] [main] Total files: 21 [testng] [2024-12-06 03:20:46,207] [main] Scan time: 10.893 s (518 ms/file) [testng] [2024-12-06 03:20:46,207] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 03:20:57,495] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 03:20:57,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:20:57,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:57,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_03-20-57.log] [testng] 03:20:57,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e79dfa9 - End of configuration. [testng] [2024-12-06 03:20:57,600] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 03:20:57,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:20:57,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:57,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_03-20-57.log] [testng] 03:20:57,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bf31aa4 - End of configuration. [testng] [2024-12-06 03:20:57,902] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 03:20:57,902 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:20:57,902 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:57,903 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_03-20-57.log] [testng] 03:20:57,903 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f6e3595 - End of configuration. [testng] [2024-12-06 03:20:58,182] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 03:20:58,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:20:58,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:58,183 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_03-20-58.log] [testng] 03:20:58,183 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dfaf1cf - End of configuration. [testng] [2024-12-06 03:20:58,486] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 03:20:58,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:20:58,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:58,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_03-20-58.log] [testng] 03:20:58,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66549e - End of configuration. [testng] [2024-12-06 03:20:58,794] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 03:20:58,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:20:58,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:58,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_03-20-58.log] [testng] 03:20:58,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bf8ea74 - End of configuration. [testng] [2024-12-06 03:20:59,094] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 03:20:59,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:20:59,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:59,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_03-20-59.log] [testng] 03:20:59,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3916efee - End of configuration. [testng] [2024-12-06 03:20:59,375] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 03:20:59,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:20:59,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:59,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_03-20-59.log] [testng] 03:20:59,376 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b0d3d5 - End of configuration. [testng] [2024-12-06 03:20:59,685] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 03:20:59,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:20:59,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:59,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_03-20-59.log] [testng] 03:20:59,686 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a1349ad - End of configuration. [testng] [2024-12-06 03:20:59,992] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 03:20:59,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:20:59,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:20:59,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_03-20-59.log] [testng] 03:20:59,993 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c28c901 - End of configuration. [testng] [2024-12-06 03:21:00,270] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 03:21:00,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:21:00,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:21:00,271 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_03-21-00.log] [testng] 03:21:00,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28a7c1a9 - End of configuration. [testng] [2024-12-06 03:21:00,595] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 03:21:00,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:21:00,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:21:00,595 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_03-21-00.log] [testng] 03:21:00,596 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59149c41 - End of configuration. [testng] [2024-12-06 03:21:04,472] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-12-06 03:21:09,442] [pool-1-thread-12] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-12-06 03:21:10,021] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr: [testng] [2024-12-06 03:21:10,510] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] [2024-12-06 03:21:11,148] [pool-1-thread-10] Initializing /data/frans/ch2bet.hdr: [testng] [2024-12-06 03:21:11,951] [pool-1-thread-3] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-12-06 03:21:12,416] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-12-06 03:21:12,716] [pool-1-thread-9] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-12-06 03:21:13,014] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 50 seconds Finished: SUCCESS