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Started by upstream project "BIOFORMATS-test-repo" build number 234 originally caused by: Started by upstream project "Trigger" build number 259 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/jenkins8599384065470126849.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_36805_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] 03:26:54,955 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:26:54,957 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 03:26:54,957 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:26:54,958 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:26:54,959 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:26:54,959 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:26:54,959 |-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] 03:26:54,959 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:26:54,960 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:26:54,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:26:54,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:26:54,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:26:55,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:26:55,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:26:55,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:26:55,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:26:55,228 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:26:55,229 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:26:55,229 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:26:55,229 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:26:55,229 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 03:26:55,230 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 03:26:55,230 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 270 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-25 03:26:55,240] [main] java.version = 1.8.0_342 [testng] 03:26:55,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:26:55,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:26:55,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-25_03-26-55.log] [testng] 03:26:55,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-25 03:26:55,290] [main] testng.directory = /data [testng] [2024-10-25 03:26:55,290] [main] testng.configDirectory = /config [testng] [2024-10-25 03:26:55,302] [main] testng.multiplier = 1.0 [testng] [2024-10-25 03:26:55,302] [main] testng.in-memory = false [testng] [2024-10-25 03:26:55,302] [main] testng.allow-missing = false [testng] [2024-10-25 03:26:55,302] [main] user.language = en [testng] [2024-10-25 03:26:55,302] [main] user.country = ${user.country} [testng] [2024-10-25 03:26:55,303] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-25 03:26:59,553] [main] ---------------------------------------- [testng] [2024-10-25 03:26:59,554] [main] Total files: 21 [testng] [2024-10-25 03:26:59,554] [main] Scan time: 4.25 s (202 ms/file) [testng] [2024-10-25 03:26:59,554] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-25 03:27:05,702] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 03:27:05,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:27:05,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:05,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-25_03-27-05.log] [testng] 03:27:05,704 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20546051 - End of configuration. [testng] [2024-10-25 03:27:05,796] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 03:27:05,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:27:05,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:05,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-25_03-27-05.log] [testng] 03:27:05,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a4001ca - End of configuration. [testng] [2024-10-25 03:27:05,985] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 03:27:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:27:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:05,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-25_03-27-05.log] [testng] 03:27:05,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e51c0b3 - End of configuration. [testng] [2024-10-25 03:27:06,173] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 03:27:06,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:27:06,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:06,174 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-25_03-27-06.log] [testng] 03:27:06,174 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cce0d99 - End of configuration. [testng] [2024-10-25 03:27:06,406] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 03:27:06,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:27:06,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:06,407 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-25_03-27-06.log] [testng] 03:27:06,408 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10138055 - End of configuration. [testng] [2024-10-25 03:27:06,601] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 03:27:06,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:27:06,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:06,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-25_03-27-06.log] [testng] 03:27:06,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ae69fa1 - End of configuration. [testng] [2024-10-25 03:27:06,776] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 03:27:06,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:27:06,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:06,776 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-25_03-27-06.log] [testng] 03:27:06,777 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19391d58 - End of configuration. [testng] [2024-10-25 03:27:06,966] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 03:27:06,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:27:06,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:06,967 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-25_03-27-06.log] [testng] 03:27:06,968 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24c1092 - End of configuration. [testng] [2024-10-25 03:27:07,155] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 03:27:07,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:27:07,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:07,156 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-25_03-27-07.log] [testng] 03:27:07,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@477f3814 - End of configuration. [testng] [2024-10-25 03:27:07,335] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 03:27:07,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:27:07,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:07,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-25_03-27-07.log] [testng] 03:27:07,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d4acaa4 - End of configuration. [testng] [2024-10-25 03:27:07,549] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 03:27:07,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:27:07,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:07,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-25_03-27-07.log] [testng] 03:27:07,550 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63fb5fb9 - End of configuration. [testng] [2024-10-25 03:27:07,757] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 03:27:07,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:27:07,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:27:07,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-25_03-27-07.log] [testng] 03:27:07,758 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68fbca23 - End of configuration. [testng] [2024-10-25 03:27:09,665] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-10-25 03:27:11,590] [pool-1-thread-12] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-10-25 03:27:11,800] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr: [testng] [2024-10-25 03:27:12,066] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] [2024-10-25 03:27:12,654] [pool-1-thread-10] Initializing /data/frans/ch2bet.hdr: [testng] [2024-10-25 03:27:12,872] [pool-1-thread-7] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-10-25 03:27:13,067] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-10-25 03:27:13,254] [pool-1-thread-3] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-10-25 03:27:13,471] [pool-1-thread-8] 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: 26 seconds Finished: SUCCESS