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Started by upstream project "BIOFORMATS-test-repo" build number 367 originally caused by: Started by upstream project "Trigger" build number 393 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/jenkins17636432010821388144.sh + '[' imspector = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58580_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 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] 08:04:22,102 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 08:04:22,104 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 08:04:22,104 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:04:22,105 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:04:22,105 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:04:22,105 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:04:22,105 |-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] 08:04:22,105 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:04:22,106 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:04:22,106 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:04:22,106 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:04:22,106 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:04:22,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:04:22,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:04:22,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:04:22,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:04:22,345 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:04:22,346 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:04:22,346 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:04:22,346 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:04:22,346 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 08:04:22,347 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 08:04:22,347 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 241 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-07 08:04:22,356] [main] java.version = 1.8.0_342 [testng] 08:04:22,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:04:22,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:04:22,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-07_08-04-22.log] [testng] 08:04:22,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-07 08:04:22,405] [main] testng.directory = /data [testng] [2025-03-07 08:04:22,405] [main] testng.configDirectory = /config [testng] [2025-03-07 08:04:22,416] [main] testng.multiplier = 1.0 [testng] [2025-03-07 08:04:22,416] [main] testng.in-memory = false [testng] [2025-03-07 08:04:22,416] [main] testng.allow-missing = false [testng] [2025-03-07 08:04:22,416] [main] user.language = en [testng] [2025-03-07 08:04:22,416] [main] user.country = ${user.country} [testng] [2025-03-07 08:04:22,417] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-07 08:05:01,213] [main] ---------------------------------------- [testng] [2025-03-07 08:05:01,213] [main] Total files: 31 [testng] [2025-03-07 08:05:01,213] [main] Scan time: 38.796 s (1251 ms/file) [testng] [2025-03-07 08:05:01,213] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 29 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-07 08:05:59,337] [pool-1-thread-1] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_z-stack_FLIM_TDC_C0.ome.tif: [testng] 08:05:59,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:05:59,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:05:59,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-07_08-05-59.log] [testng] 08:05:59,339 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1634db89 - End of configuration. [testng] [2025-03-07 08:06:01,811] [pool-1-thread-12] Initializing /data/qa-17102/1 channel binning 8 time series.msr: [testng] 08:06:01,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:06:01,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:01,812 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-07_08-06-01.log] [testng] 08:06:01,812 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a49d4dc - End of configuration. [testng] [2025-03-07 08:06:03,213] [pool-1-thread-11] Initializing /data/qa-11369/02 - 70 - 1 - tp1 - x16 TCSPC.msr: [testng] 08:06:03,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:06:03,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:03,214 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-07_08-06-03.log] [testng] 08:06:03,214 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28924cff - End of configuration. [testng] [2025-03-07 08:06:04,597] [pool-1-thread-10] Initializing /data/qa-11369/01 - 770nm FITC - HybridPMT.msr: [testng] 08:06:04,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:06:04,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:04,598 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-07_08-06-04.log] [testng] 08:06:04,598 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c57dbf5 - End of configuration. [testng] [2025-03-07 08:06:05,947] [pool-1-thread-9] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel Zstack.msr: [testng] 08:06:05,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:06:05,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:05,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-07_08-06-05.log] [testng] 08:06:05,948 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21a0569d - End of configuration. [testng] [2025-03-07 08:06:07,667] [pool-1-thread-8] Initializing /data/paul/msr files - Paul Thomas UEA/Lifetime file.msr: [testng] 08:06:07,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:06:07,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:07,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-07_08-06-07.log] [testng] 08:06:07,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c28c878 - End of configuration. [testng] [2025-03-07 08:06:09,071] [pool-1-thread-7] Initializing /data/qa-7936/z-TC - for LOCI.msr: [testng] 08:06:09,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:06:09,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:09,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-07_08-06-09.log] [testng] 08:06:09,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bf404e3 - End of configuration. [testng] [2025-03-07 08:06:10,510] [pool-1-thread-6] 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] 08:06:10,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:06:10,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:10,511 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-07_08-06-10.log] [testng] 08:06:10,511 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d57857a - End of configuration. [testng] [2025-03-07 08:06:16,341] [pool-1-thread-5] Initializing /data/qa-7936/02 - not working.msr: [testng] 08:06:16,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:06:16,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:16,342 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-07_08-06-16.log] [testng] 08:06:16,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@147239fb - End of configuration. [testng] [2025-03-07 08:06:17,394] [pool-1-thread-4] Initializing /data/qa-7992/NegativeArraySizeException_small.msr: [testng] 08:06:17,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:06:17,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:17,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-07_08-06-17.log] [testng] 08:06:17,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47e4b613 - End of configuration. [testng] [2025-03-07 08:06:18,281] [pool-1-thread-3] Initializing /data/qa-7658/Document1_13-09-25.msr: [testng] 08:06:18,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:06:18,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:18,281 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-07_08-06-18.log] [testng] 08:06:18,282 |-INFO in ch.qos.logback.core.sift.SiftProcessor@449a8550 - End of configuration. [testng] [2025-03-07 08:06:19,024] [pool-1-thread-2] Initializing /data/qa-9468/HPDR10467U-40-VD0191-red-100pc-without-tube.msr: [testng] 08:06:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:06:19,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:06:19,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-07_08-06-19.log] [testng] 08:06:19,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c3df192 - End of configuration. [testng] [2025-03-07 08:06:32,280] [pool-1-thread-12] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_FLIM_z-stack_1.msr: [testng] [2025-03-07 08:06:33,440] [pool-1-thread-8] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel Zstack.msr: [testng] [2025-03-07 08:06:34,483] [pool-1-thread-11] Initializing /data/qa-7936/01 - working.msr: [testng] [2025-03-07 08:06:35,703] [pool-1-thread-5] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning_12-08-53_TCSPC_C0.ome.tif: [testng] [2025-03-07 08:06:37,735] [pool-1-thread-4] Initializing /data/qa-4929/OMERO data/01 - 27hpf_f2-GFP-wt1b+rfp-flk1 - 3channel-z-stack.msr: [testng] [2025-03-07 08:06:39,110] [pool-1-thread-10] Initializing /data/public/zenodo-10476252/test.msr: [testng] [2025-03-07 08:06:40,216] [pool-1-thread-7] Initializing /data/qa-17102/2 channels FLIM z stack.msr: [testng] [2025-03-07 08:06:41,368] [pool-1-thread-3] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel single slice.msr: [testng] [2025-03-07 08:06:42,577] [pool-1-thread-2] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning.msr: [testng] [2025-03-07 08:06:43,845] [pool-1-thread-9] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel single slice 4 tiles.msr: [testng] [2025-03-07 08:06:46,566] [pool-1-thread-1] Initializing /data/qa-7992/ArrayIndexOutOfBoundsException.msr: [testng] [2025-03-07 08:06:55,748] [pool-1-thread-3] Initializing /data/qa-4929/OMERO data/01 - urea_irf_image_TCSPC-data.msr: [testng] [2025-03-07 08:06:57,150] [pool-1-thread-10] Initializing /data/qa-17102/2 channels FLIM time series.msr: [testng] [2025-03-07 08:06:58,689] [pool-1-thread-2] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps.msr: [testng] [2025-03-07 08:07:00,157] [pool-1-thread-12] Initializing /data/qa-17102/1 channel binning 4 time series.msr: [testng] [2025-03-07 08:07:01,409] [pool-1-thread-7] Initializing /data/qa-7992/IllegalArgumentException.msr: [testng] [2025-03-07 08:07:02,624] [pool-1-thread-11] Initializing /data/qa-27309/181109_e3_cut.msr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1537, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 0 seconds Finished: SUCCESS