Started by upstream project "BIOFORMATS-test-repo" build number 276 originally caused by: Started by upstream project "Trigger" build number 297 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/jenkins7468218101037662466.sh + '[' imspector = 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_43573_merge_ci -v /uod/idr/repos/curated/imspector:/data -v /uod/idr-scratch/merge-ci/curated/imspector:/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] 02:48:12,146 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:48:12,148 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 02:48:12,148 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:48:12,149 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:48:12,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:48:12,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:48:12,150 |-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] 02:48:12,150 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:48:12,150 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:48:12,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:48:12,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:48:12,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:48:12,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:48:12,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:48:12,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:48:12,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:48:12,429 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:48:12,430 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:48:12,430 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:48:12,430 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:48:12,430 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 02:48:12,431 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 02:48:12,431 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 281 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-02 02:48:12,443] [main] java.version = 1.8.0_342 [testng] 02:48:12,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:48:12,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:12,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-02_02-48-12.log] [testng] 02:48:12,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-02 02:48:12,500] [main] testng.directory = /data [testng] [2024-12-02 02:48:12,500] [main] testng.configDirectory = /config [testng] [2024-12-02 02:48:12,516] [main] testng.multiplier = 1.0 [testng] [2024-12-02 02:48:12,516] [main] testng.in-memory = false [testng] [2024-12-02 02:48:12,516] [main] testng.allow-missing = false [testng] [2024-12-02 02:48:12,516] [main] user.language = fr [testng] [2024-12-02 02:48:12,516] [main] user.country = FR [testng] [2024-12-02 02:48:12,517] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-02 02:48:21,478] [main] ---------------------------------------- [testng] [2024-12-02 02:48:21,479] [main] Total files: 29 [testng] [2024-12-02 02:48:21,479] [main] Scan time: 8.961 s (309 ms/file) [testng] [2024-12-02 02:48:21,479] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-02 02:48:35,300] [pool-1-thread-1] Initializing /data/qa-7992/ArrayIndexOutOfBoundsException.msr: [testng] 02:48:35,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:48:35,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:35,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-02_02-48-35.log] [testng] 02:48:35,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f0d97ea - End of configuration. [testng] [2024-12-02 02:48:35,602] [pool-1-thread-12] Initializing /data/qa-27309/181109_e3_cut.msr: [testng] 02:48:35,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:48:35,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:35,603 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-02_02-48-35.log] [testng] 02:48:35,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@471bdf2e - End of configuration. [testng] [2024-12-02 02:48:35,888] [pool-1-thread-11] Initializing /data/qa-7992/NegativeArraySizeException_small.msr: [testng] 02:48:35,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:48:35,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:35,889 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-02_02-48-35.log] [testng] 02:48:35,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7760b64e - End of configuration. [testng] [2024-12-02 02:48:36,171] [pool-1-thread-10] Initializing /data/qa-7992/IllegalArgumentException.msr: [testng] 02:48:36,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:48:36,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:36,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-02_02-48-36.log] [testng] 02:48:36,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e87e718 - End of configuration. [testng] [2024-12-02 02:48:36,433] [pool-1-thread-9] Initializing /data/paul/msr files - Paul Thomas UEA/Lifetime file.msr: [testng] 02:48:36,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:48:36,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:36,434 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-02_02-48-36.log] [testng] 02:48:36,434 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25018e84 - End of configuration. [testng] [2024-12-02 02:48:36,720] [pool-1-thread-8] Initializing /data/qa-9468/HPDR10467U-40-VD0191-red-100pc-without-tube.msr: [testng] 02:48:36,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:48:36,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:36,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-02_02-48-36.log] [testng] 02:48:36,722 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10eaf362 - End of configuration. [testng] [2024-12-02 02:48:37,049] [pool-1-thread-7] Initializing /data/qa-11369/01 - 770nm FITC - HybridPMT.msr: [testng] 02:48:37,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:48:37,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:37,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-02_02-48-37.log] [testng] 02:48:37,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d6a167e - End of configuration. [testng] [2024-12-02 02:48:37,365] [pool-1-thread-6] Initializing /data/qa-7936/02 - not working.msr: [testng] 02:48:37,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:48:37,366 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:37,366 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-02_02-48-37.log] [testng] 02:48:37,366 |-INFO in ch.qos.logback.core.sift.SiftProcessor@578dd917 - End of configuration. [testng] [2024-12-02 02:48:37,636] [pool-1-thread-5] Initializing /data/qa-4929/OMERO data/01 - 27hpf_f2-GFP-wt1b+rfp-flk1 - 3channel-z-stack.msr: [testng] 02:48:37,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:48:37,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:37,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-02_02-48-37.log] [testng] 02:48:37,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37c93bc8 - End of configuration. [testng] [2024-12-02 02:48:37,915] [pool-1-thread-4] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_FLIM_z-stack_1.msr: [testng] 02:48:37,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:48:37,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:37,917 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-02_02-48-37.log] [testng] 02:48:37,917 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ead0d30 - End of configuration. [testng] [2024-12-02 02:48:38,188] [pool-1-thread-3] Initializing /data/qa-11369/02 - 70 - 1 - tp1 - x16 TCSPC.msr: [testng] 02:48:38,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:48:38,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:38,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-02_02-48-38.log] [testng] 02:48:38,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f182e08 - End of configuration. [testng] [2024-12-02 02:48:38,478] [pool-1-thread-2] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning.msr: [testng] 02:48:38,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:48:38,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:38,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-02_02-48-38.log] [testng] 02:48:38,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@592f3d7a - End of configuration. [testng] [2024-12-02 02:48:43,165] [pool-1-thread-12] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning_12-08-53_TCSPC_C0.ome.tif: [testng] [2024-12-02 02:48:43,774] [pool-1-thread-4] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps.msr: [testng] [2024-12-02 02:48:44,044] [pool-1-thread-9] Initializing /data/qa-7658/Document1_13-09-25.msr: [testng] [2024-12-02 02:48:44,356] [pool-1-thread-3] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel single slice 4 tiles.msr: [testng] [2024-12-02 02:48:44,672] [pool-1-thread-6] Initializing /data/qa-7936/z-TC - for LOCI.msr: [testng] [2024-12-02 02:48:44,956] [pool-1-thread-10] Initializing /data/qa-4929/OMERO data/01 - urea_irf_image_TCSPC-data.msr: [testng] [2024-12-02 02:48:45,254] [pool-1-thread-5] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel Zstack.msr: [testng] [2024-12-02 02:48:45,556] [pool-1-thread-7] Initializing /data/qa-17102/1 channel binning 4 time series.msr: [testng] [2024-12-02 02:48:45,853] [pool-1-thread-1] Initializing /data/qa-17102/2 channels FLIM z stack.msr: [testng] [2024-12-02 02:48:46,135] [pool-1-thread-11] Initializing /data/qa-17102/2 channels FLIM time series.msr: [testng] [2024-12-02 02:48:46,431] [pool-1-thread-2] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_z-stack_FLIM_TDC_C0.ome.tif: [testng] [2024-12-02 02:48:47,090] [pool-1-thread-8] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel Zstack.msr: [testng] [2024-12-02 02:48:50,248] [pool-1-thread-11] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps/02 - 500x500x105_1046x1046x57_1_875um_steps_11-34-02_PMT - PMT [PMT1] _C0.ome.tif: [testng] [2024-12-02 02:48:51,667] [pool-1-thread-7] Initializing /data/qa-17102/1 channel binning 8 time series.msr: [testng] [2024-12-02 02:48:51,984] [pool-1-thread-1] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel single slice.msr: [testng] [2024-12-02 02:48:52,267] [pool-1-thread-10] Initializing /data/qa-7936/01 - working.msr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 56 seconds Finished: SUCCESS