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Started by upstream project "BIOFORMATS-test-repo" build number 245 originally caused by: Started by upstream project "Trigger" build number 269 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins15465560336581164101.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_38609_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 -Duser.language=fr -Duser.country=FR 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] 08:52:39,899 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 08:52:39,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 08:52:39,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:52:39,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:52:39,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:52:39,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:52:39,902 |-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] 08:52:39,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:52:39,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:52:39,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:52:39,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:52:39,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:52:40,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:52:40,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:52:40,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:52:40,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:52:40,143 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:52:40,143 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:52:40,143 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:52:40,144 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:52:40,144 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 08:52:40,145 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 08:52:40,145 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 243 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-04 08:52:40,154] [main] java.version = 1.8.0_342 [testng] 08:52:40,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:52:40,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:52:40,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-04_08-52-40.log] [testng] 08:52:40,201 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-04 08:52:40,203] [main] testng.directory = /data [testng] [2024-11-04 08:52:40,203] [main] testng.configDirectory = /config [testng] [2024-11-04 08:52:40,214] [main] testng.multiplier = 1.0 [testng] [2024-11-04 08:52:40,214] [main] testng.in-memory = false [testng] [2024-11-04 08:52:40,214] [main] testng.allow-missing = false [testng] [2024-11-04 08:52:40,214] [main] user.language = fr [testng] [2024-11-04 08:52:40,214] [main] user.country = FR [testng] [2024-11-04 08:52:40,214] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-04 08:53:49,639] [main] ---------------------------------------- [testng] [2024-11-04 08:53:49,639] [main] Total files: 21 [testng] [2024-11-04 08:53:49,640] [main] Scan time: 69.425 s (3305 ms/file) [testng] [2024-11-04 08:53:49,640] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-04 08:54:55,162] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 08:54:55,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:54:55,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:54:55,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-04_08-54-55.log] [testng] 08:54:55,164 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d950845 - End of configuration. [testng] [2024-11-04 08:54:55,773] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 08:54:55,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:54:55,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:54:55,774 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-04_08-54-55.log] [testng] 08:54:55,775 |-INFO in ch.qos.logback.core.sift.SiftProcessor@396536b0 - End of configuration. [testng] [2024-11-04 08:54:59,051] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 08:54:59,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:54:59,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:54:59,052 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-04_08-54-59.log] [testng] 08:54:59,052 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b0d3d5 - End of configuration. [testng] [2024-11-04 08:55:02,563] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 08:55:02,563 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:55:02,563 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:02,564 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-04_08-55-02.log] [testng] 08:55:02,564 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a1349ad - End of configuration. [testng] [2024-11-04 08:55:05,797] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 08:55:05,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:55:05,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:05,798 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-04_08-55-05.log] [testng] 08:55:05,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a4a49ba - End of configuration. [testng] [2024-11-04 08:55:06,851] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 08:55:06,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:55:06,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:06,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-04_08-55-06.log] [testng] 08:55:06,854 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15811a5d - End of configuration. [testng] [2024-11-04 08:55:09,388] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 08:55:09,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:55:09,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:09,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-04_08-55-09.log] [testng] 08:55:09,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@597cc3e7 - End of configuration. [testng] [2024-11-04 08:55:12,960] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 08:55:12,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:55:12,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:12,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-04_08-55-12.log] [testng] 08:55:12,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@588bd208 - End of configuration. [testng] [2024-11-04 08:55:16,274] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 08:55:16,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:55:16,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:16,275 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-04_08-55-16.log] [testng] 08:55:16,276 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a1fc117 - End of configuration. [testng] [2024-11-04 08:55:20,577] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 08:55:20,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:55:20,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:20,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-04_08-55-20.log] [testng] 08:55:20,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12676c0d - End of configuration. [testng] [2024-11-04 08:55:24,132] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 08:55:24,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:55:24,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:24,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-04_08-55-24.log] [testng] 08:55:24,133 |-INFO in ch.qos.logback.core.sift.SiftProcessor@507eb1c0 - End of configuration. [testng] [2024-11-04 08:55:28,403] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 08:55:28,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:55:28,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:55:28,404 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-04_08-55-28.log] [testng] 08:55:28,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4329f73 - End of configuration. [testng] [2024-11-04 08:55:41,931] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-11-04 08:56:03,879] [pool-1-thread-11] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-11-04 08:56:06,730] [pool-1-thread-9] Initializing /data/frans/ch2bet.hdr: [testng] [2024-11-04 08:56:09,819] [pool-1-thread-10] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-11-04 08:56:12,425] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-11-04 08:56:15,135] [pool-1-thread-7] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-11-04 08:56:17,673] [pool-1-thread-12] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [2024-11-04 08:56:18,812] [pool-1-thread-2] Initializing /data/frans/brodmann.hdr: [testng] [2024-11-04 08:56:20,918] [pool-1-thread-6] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 14 seconds Finished: SUCCESS