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Started by upstream project "BIOFORMATS-test-repo" build number 307 originally caused by: Started by upstream project "Trigger" build number 329 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/jenkins17235066722769367747.sh + '[' nifti = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48702_merge_ci -v /uod/idr/repos/curated/nifti:/data -v /uod/idr-scratch/merge-ci/curated/nifti:/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] 04:15:07,844 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:15:07,845 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:15:07,845 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:15:07,846 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:15:07,846 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:15:07,846 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:15:07,847 |-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] 04:15:07,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:15:07,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:15:07,847 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:15:07,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:15:07,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:15:08,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:15:08,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:15:08,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:15:08,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:15:08,095 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:15:08,095 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:15:08,095 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:15:08,096 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:15:08,096 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:15:08,097 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:15:08,097 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 250 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-03 04:15:08,106] [main] java.version = 1.8.0_342 [testng] 04:15:08,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:15:08,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:15:08,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-03_04-15-08.log] [testng] 04:15:08,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2025-01-03 04:15:08,159] [main] testng.directory = /data [testng] [2025-01-03 04:15:08,159] [main] testng.configDirectory = /config [testng] [2025-01-03 04:15:08,171] [main] testng.multiplier = 1.0 [testng] [2025-01-03 04:15:08,171] [main] testng.in-memory = false [testng] [2025-01-03 04:15:08,172] [main] testng.allow-missing = false [testng] [2025-01-03 04:15:08,172] [main] user.language = en [testng] [2025-01-03 04:15:08,172] [main] user.country = ${user.country} [testng] [2025-01-03 04:15:08,172] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-03 04:15:26,490] [main] ---------------------------------------- [testng] [2025-01-03 04:15:26,490] [main] Total files: 23 [testng] [2025-01-03 04:15:26,491] [main] Scan time: 18.318 s (796 ms/file) [testng] [2025-01-03 04:15:26,491] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 20 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-03 04:16:08,103] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr: [testng] 04:16:08,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:16:08,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:08,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-03_04-16-08.log] [testng] 04:16:08,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a4242f6 - End of configuration. [testng] [2025-01-03 04:16:08,955] [pool-1-thread-12] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr: [testng] 04:16:08,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:16:08,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:08,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-03_04-16-08.log] [testng] 04:16:08,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49e0772a - End of configuration. [testng] [2025-01-03 04:16:09,776] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr: [testng] 04:16:09,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:16:09,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:09,777 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-03_04-16-09.log] [testng] 04:16:09,777 |-INFO in ch.qos.logback.core.sift.SiftProcessor@df6f14c - End of configuration. [testng] [2025-01-03 04:16:10,478] [pool-1-thread-10] Initializing /data/public/NIH/zstat1.nii: [testng] 04:16:10,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:16:10,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:10,478 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-03_04-16-10.log] [testng] 04:16:10,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72f12611 - End of configuration. [testng] [2025-01-03 04:16:11,154] [pool-1-thread-9] Initializing /data/public/NIH/avg152T1_RL_nifti.nii: [testng] 04:16:11,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:16:11,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:11,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-03_04-16-11.log] [testng] 04:16:11,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@193ce2ab - End of configuration. [testng] [2025-01-03 04:16:11,943] [pool-1-thread-8] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr: [testng] 04:16:11,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:16:11,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:11,944 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-03_04-16-11.log] [testng] 04:16:11,945 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39e40f79 - End of configuration. [testng] [2025-01-03 04:16:12,793] [pool-1-thread-7] Initializing /data/public/NIH/filtered_func_data.nii: [testng] 04:16:12,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:16:12,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:12,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-03_04-16-12.log] [testng] 04:16:12,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@aa5e144 - End of configuration. [testng] [2025-01-03 04:16:13,938] [pool-1-thread-6] Initializing /data/public/NIH/minimal.hdr: [testng] 04:16:13,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:16:13,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:13,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-03_04-16-13.log] [testng] 04:16:13,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6276226d - End of configuration. [testng] [2025-01-03 04:16:14,684] [pool-1-thread-5] Initializing /data/public/NIH/avg152T1_LR_nifti.nii: [testng] 04:16:14,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:16:14,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:14,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-03_04-16-14.log] [testng] 04:16:14,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@293e8321 - End of configuration. [testng] [2025-01-03 04:16:15,322] [pool-1-thread-4] Initializing /data/public/NIH/zstat1.nii.gz: [testng] 04:16:15,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:16:15,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:15,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-03_04-16-15.log] [testng] 04:16:15,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ab818e3 - End of configuration. [testng] [2025-01-03 04:16:17,942] [pool-1-thread-3] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz: [testng] 04:16:17,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:16:17,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:17,943 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-03_04-16-17.log] [testng] 04:16:17,943 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35dbe478 - End of configuration. [testng] [2025-01-03 04:16:20,635] [pool-1-thread-2] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz: [testng] 04:16:20,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:16:20,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:16:20,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-03_04-16-20.log] [testng] 04:16:20,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39c875 - End of configuration. [testng] [2025-01-03 04:16:30,456] [pool-1-thread-9] Initializing /data/public/NIH/newsirp_final_XML.nii: [testng] [2025-01-03 04:16:31,108] [pool-1-thread-5] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr: [testng] [2025-01-03 04:16:32,066] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii.gz: [testng] [2025-01-03 04:16:40,014] [pool-1-thread-7] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr: [testng] [2025-01-03 04:16:42,091] [pool-1-thread-8] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr: [testng] [2025-01-03 04:16:43,039] [pool-1-thread-12] Initializing /data/public/NIH/minimal.nii: [testng] [2025-01-03 04:16:44,104] [pool-1-thread-11] Initializing /data/qa-17334/volume4d.nii: [testng] [2025-01-03 04:16:45,513] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1060, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 29 seconds Finished: SUCCESS