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Started by upstream project "BIOFORMATS-test-repo" build number 399 originally caused by: Started by upstream project "Trigger" build number 485 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@19 [BIOFORMATS-test-folder@19] $ /bin/bash -xe /tmp/jenkins15189473924088182408.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_63084_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] 07:31:44,530 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 07:31:44,532 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 07:31:44,532 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:31:44,534 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:31:44,534 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:31:44,534 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:31:44,534 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:31:44,534 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:31:44,535 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:31:44,535 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:31:44,535 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:31:44,535 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:31:44,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:31:44,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:31:44,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:31:44,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:31:44,813 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:31:44,813 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:31:44,814 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:31:44,814 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:31:44,814 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 07:31:44,815 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 07:31:44,815 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 280 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-05-19 07:31:44,825] [main] java.version = 1.8.0_342 [testng] 07:31:44,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:31:44,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:31:44,934 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-19_07-31-44.log] [testng] 07:31:44,936 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-05-19 07:31:44,938] [main] testng.directory = /data [testng] [2025-05-19 07:31:44,938] [main] testng.configDirectory = /config [testng] [2025-05-19 07:31:45,219] [main] testng.multiplier = 1.0 [testng] [2025-05-19 07:31:45,219] [main] testng.in-memory = false [testng] [2025-05-19 07:31:45,219] [main] testng.allow-missing = false [testng] [2025-05-19 07:31:45,219] [main] user.language = fr [testng] [2025-05-19 07:31:45,219] [main] user.country = FR [testng] [2025-05-19 07:31:45,219] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-05-19 07:34:30,859] [main] ---------------------------------------- [testng] [2025-05-19 07:34:30,859] [main] Total files: 31 [testng] [2025-05-19 07:34:30,859] [main] Scan time: 165.639 s (5343 ms/file) [testng] [2025-05-19 07:34:30,859] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 29 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-05-19 07:37:58,682] [pool-1-thread-1] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning.msr: [testng] 07:37:58,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:37:58,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:37:58,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-05-19_07-37-58.log] [testng] 07:37:58,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f8c4f3e - End of configuration. [testng] [2025-05-19 07:38:03,847] [pool-1-thread-12] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel single slice.msr: [testng] 07:38:03,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:38:03,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:03,848 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-05-19_07-38-03.log] [testng] 07:38:03,849 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59ee8188 - End of configuration. [testng] [2025-05-19 07:38:09,782] [pool-1-thread-11] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning_12-08-53_TCSPC_C0.ome.tif: [testng] 07:38:09,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:38:09,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:09,782 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-05-19_07-38-09.log] [testng] 07:38:09,783 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2afae862 - End of configuration. [testng] [2025-05-19 07:38:18,568] [pool-1-thread-10] Initializing /data/qa-7658/Document1_13-09-25.msr: [testng] 07:38:18,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:38:18,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:18,569 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-05-19_07-38-18.log] [testng] 07:38:18,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d2b4bee - End of configuration. [testng] [2025-05-19 07:38:25,311] [pool-1-thread-9] Initializing /data/qa-9468/HPDR10467U-40-VD0191-red-100pc-without-tube.msr: [testng] 07:38:25,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:38:25,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:25,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-05-19_07-38-25.log] [testng] 07:38:25,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e7994a1 - End of configuration. [testng] [2025-05-19 07:38:30,839] [pool-1-thread-8] Initializing /data/qa-17102/1 channel binning 8 time series.msr: [testng] 07:38:30,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:38:30,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:30,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-05-19_07-38-30.log] [testng] 07:38:30,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@334c1322 - End of configuration. [testng] [2025-05-19 07:38:37,014] [pool-1-thread-7] Initializing /data/qa-4929/OMERO data/01 - 27hpf_f2-GFP-wt1b+rfp-flk1 - 3channel-z-stack.msr: [testng] 07:38:37,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:38:37,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:37,015 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-05-19_07-38-37.log] [testng] 07:38:37,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ac97f51 - End of configuration. [testng] [2025-05-19 07:38:44,401] [pool-1-thread-6] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel Zstack.msr: [testng] 07:38:44,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:38:44,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:44,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-05-19_07-38-44.log] [testng] 07:38:44,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bf73ac8 - End of configuration. [testng] [2025-05-19 07:38:52,228] [pool-1-thread-5] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_z-stack_FLIM_TDC_C0.ome.tif: [testng] 07:38:52,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:38:52,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:52,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-05-19_07-38-52.log] [testng] 07:38:52,229 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ccf70a2 - End of configuration. [testng] [2025-05-19 07:38:59,734] [pool-1-thread-4] Initializing /data/qa-4929/OMERO data/01 - urea_irf_image_TCSPC-data.msr: [testng] 07:38:59,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:38:59,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:38:59,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-05-19_07-38-59.log] [testng] 07:38:59,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5410fa0a - End of configuration. [testng] [2025-05-19 07:39:03,066] [pool-1-thread-3] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps.msr: [testng] 07:39:03,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:39:03,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:03,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-05-19_07-39-03.log] [testng] 07:39:03,067 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ebb3318 - End of configuration. [testng] [2025-05-19 07:39:06,246] [pool-1-thread-2] Initializing /data/qa-11369/02 - 70 - 1 - tp1 - x16 TCSPC.msr: [testng] 07:39:06,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:39:06,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:39:06,247 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-05-19_07-39-06.log] [testng] 07:39:06,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c973156 - End of configuration. [testng] [2025-05-19 07:40:01,023] [pool-1-thread-12] Initializing /data/qa-17102/2 channels FLIM time series.msr: [testng] [2025-05-19 07:40:06,683] [pool-1-thread-8] Initializing /data/qa-7992/ArrayIndexOutOfBoundsException.msr: [testng] [2025-05-19 07:40:13,065] [pool-1-thread-2] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel Zstack.msr: [testng] [2025-05-19 07:40:21,101] [pool-1-thread-4] Initializing /data/qa-7992/IllegalArgumentException.msr: [testng] [2025-05-19 07:40:27,794] [pool-1-thread-3] Initializing /data/qa-7936/02 - not working.msr: [testng] [2025-05-19 07:40:30,595] [pool-1-thread-7] Initializing /data/qa-7936/01 - working.msr: [testng] [2025-05-19 07:40:33,457] [pool-1-thread-9] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel single slice 4 tiles.msr: [testng] [2025-05-19 07:40:36,477] [pool-1-thread-10] Initializing /data/qa-11369/01 - 770nm FITC - HybridPMT.msr: [testng] [2025-05-19 07:40:45,224] [pool-1-thread-1] Initializing /data/qa-7992/NegativeArraySizeException_small.msr: [testng] [2025-05-19 07:40:50,583] [pool-1-thread-6] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_FLIM_z-stack_1.msr: [testng] [2025-05-19 07:41:08,564] [pool-1-thread-5] Initializing /data/qa-17102/1 channel binning 4 time series.msr: [testng] [2025-05-19 07:41:17,111] [pool-1-thread-11] Initializing /data/qa-17102/2 channels FLIM z stack.msr: [testng] [2025-05-19 07:41:56,816] [pool-1-thread-12] Initializing /data/paul/msr files - Paul Thomas UEA/Lifetime file.msr: [testng] [2025-05-19 07:42:00,096] [pool-1-thread-3] Initializing /data/public/zenodo-10476252/test.msr: [testng] [2025-05-19 07:42:05,252] [pool-1-thread-4] 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] [2025-05-19 07:42:41,681] [pool-1-thread-1] Initializing /data/qa-27309/181109_e3_cut.msr: [testng] [2025-05-19 07:42:52,776] [pool-1-thread-6] Initializing /data/qa-7936/z-TC - for LOCI.msr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1537, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 19 minutes 18 seconds Finished: SUCCESS