![[Jenkins]](/jenkins/static/03a0bb70/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 256 originally caused by: Started by upstream project "Trigger" build number 280 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/jenkins13206407097691858860.sh + '[' leica = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_40299_merge_ci -v /uod/idr/repos/curated/leica:/data -v /uod/idr-scratch/merge-ci/curated/leica:/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] 00:22:36,392 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:22:36,394 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:22:36,394 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:22:36,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:22:36,395 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:22:36,395 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:22:36,396 |-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] 00:22:36,396 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:22:36,396 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:22:36,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:22:36,397 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:22:36,397 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:22:36,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:22:36,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:22:36,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:22:36,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:22:36,678 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:22:36,678 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:22:36,678 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:22:36,679 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:22:36,679 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:22:36,680 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:22:36,680 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 284 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-15 00:22:36,690] [main] java.version = 1.8.0_342 [testng] 00:22:36,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:22:36,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:22:36,741 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-15_00-22-36.log] [testng] 00:22:36,742 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-15 00:22:36,744] [main] testng.directory = /data [testng] [2024-11-15 00:22:36,745] [main] testng.configDirectory = /config [testng] [2024-11-15 00:22:36,757] [main] testng.multiplier = 1.0 [testng] [2024-11-15 00:22:36,758] [main] testng.in-memory = false [testng] [2024-11-15 00:22:36,758] [main] testng.allow-missing = false [testng] [2024-11-15 00:22:36,758] [main] user.language = en [testng] [2024-11-15 00:22:36,758] [main] user.country = ${user.country} [testng] [2024-11-15 00:22:36,758] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-15 00:22:49,140] [main] ---------------------------------------- [testng] [2024-11-15 00:22:49,141] [main] Total files: 5651 [testng] [2024-11-15 00:22:49,141] [main] Scan time: 12.382 s (2 ms/file) [testng] [2024-11-15 00:22:49,141] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 44 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-15 00:23:12,054] [pool-1-thread-1] Initializing /data/clay/leica_stack-exported/leica_stack-exported.lei: [testng] 00:23:12,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:23:12,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,057 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-15_00-23-12.log] [testng] 00:23:12,057 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12857ebc - End of configuration. [testng] [2024-11-15 00:23:12,247] [pool-1-thread-12] Initializing /data/samples/Leica_sample.lei: [testng] 00:23:12,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:23:12,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,248 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-15_00-23-12.log] [testng] 00:23:12,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a322a49 - End of configuration. [testng] [2024-11-15 00:23:12,454] [pool-1-thread-11] Initializing /data/constantin/cell6/cell6/Quant_Image_02.jpg: [testng] 00:23:12,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:23:12,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,455 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-15_00-23-12.log] [testng] 00:23:12,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@402b884a - End of configuration. [testng] [2024-11-15 00:23:12,492] [pool-1-thread-10] Initializing /data/simon/Leica demo/test/test.lei: [testng] 00:23:12,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:23:12,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,493 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-15_00-23-12.log] [testng] 00:23:12,493 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70d621b1 - End of configuration. [testng] [2024-11-15 00:23:12,762] [pool-1-thread-9] Initializing /data/simon/Leica demo/RNA FISH/RNA FISH.lei: [testng] 00:23:12,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:23:12,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-15_00-23-12.log] [testng] 00:23:12,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21976815 - End of configuration. [testng] [2024-11-15 00:23:12,991] [pool-1-thread-8] Initializing /data/joel/sequential scan 3/sequential scan 3.lei: [testng] 00:23:12,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:23:12,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:12,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-15_00-23-12.log] [testng] 00:23:12,993 |-INFO in ch.qos.logback.core.sift.SiftProcessor@491ed874 - End of configuration. [testng] [2024-11-15 00:23:13,265] [pool-1-thread-7] Initializing /data/constantin/cell6/Quant_Image_01.jpg: [testng] 00:23:13,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:23:13,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:13,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-15_00-23-13.log] [testng] 00:23:13,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14f900d7 - End of configuration. [testng] [2024-11-15 00:23:13,309] [pool-1-thread-6] Initializing /data/constantin/cell6/Quant_Image_02.jpg: [testng] 00:23:13,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:23:13,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:13,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-15_00-23-13.log] [testng] 00:23:13,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c5fb287 - End of configuration. [testng] [2024-11-15 00:23:13,348] [pool-1-thread-5] Initializing /data/christophe/Leica stacks/Nf5.lei: [testng] 00:23:13,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:23:13,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:13,349 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-15_00-23-13.log] [testng] 00:23:13,349 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c4ca521 - End of configuration. [testng] [2024-11-15 00:23:13,554] [pool-1-thread-4] Initializing /data/joel/sequential scan 2/sequential scan 2.lei: [testng] 00:23:13,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:23:13,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:13,555 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-15_00-23-13.log] [testng] 00:23:13,555 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2571a0ff - End of configuration. [testng] [2024-11-15 00:23:13,979] [pool-1-thread-3] Initializing /data/brian/050627-leica/050628-leica.lei: [testng] 00:23:13,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:23:13,979 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:13,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-15_00-23-13.log] [testng] 00:23:13,980 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28447082 - End of configuration. [testng] [2024-11-15 00:23:15,165] [pool-1-thread-2] Initializing /data/julie/biorad/8291mcd8_raw01.pic: [testng] 00:23:15,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:23:15,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:15,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-15_00-23-15.log] [testng] 00:23:15,168 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4afea784 - End of configuration. [testng] [2024-11-15 00:23:17,881] [pool-1-thread-7] Initializing /data/david/megan/megan.lei: [testng] [2024-11-15 00:23:18,696] [pool-1-thread-11] Initializing /data/stjude/NIHSSE02-3.lei: [testng] [2024-11-15 00:23:19,318] [pool-1-thread-6] Initializing /data/julie/c164_1.tif: [testng] [2024-11-15 00:23:25,511] [pool-1-thread-12] Initializing /data/mark/071026-561nm check/071026-561nm check.lei: [testng] [2024-11-15 00:23:26,133] [pool-1-thread-2] Initializing /data/christophe/LEI_Saturated_Bug/Saturated_Problem.tif: [testng] [2024-11-15 00:23:28,287] [pool-1-thread-1] Initializing /data/constantin/cell6/cell6.lei: [testng] [2024-11-15 00:23:30,530] [pool-1-thread-6] Initializing /data/constantin/cell6/Logo.jpg: [testng] [2024-11-15 00:23:32,508] [pool-1-thread-6] Initializing /data/andrey/10310500/10310500.lei: [testng] [2024-11-15 00:23:33,245] [pool-1-thread-2] Initializing /data/clay/leica_stack.tif: [testng] [2024-11-15 00:23:37,354] [pool-1-thread-2] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/070123_HippoQ2Q3.lei: [testng] [2024-11-15 00:24:09,259] [pool-1-thread-11] Initializing /data/constantin/cell6/cell6/Quant_Image_01.jpg: [testng] [2024-11-15 00:24:11,145] [pool-1-thread-11] Initializing /data/constantin/cell6/Graphs_1_00.jpg: [testng] [2024-11-15 00:24:13,232] [pool-1-thread-11] Initializing /data/martin/100422_02-rg-100x_CF1/100422_02-rg-100x_CF1.lei: [testng] [2024-11-15 00:25:07,448] [pool-1-thread-5] Initializing /data/brian/leica-original/050118.lei: [testng] [2024-11-15 00:25:25,147] [pool-1-thread-9] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/Exemple.tif: [testng] [2024-11-15 00:25:28,908] [pool-1-thread-2] Initializing /data/berra/eggcmgfp230909/eggcmgfp230909.lei: [testng] [2024-11-15 00:25:31,282] [pool-1-thread-9] Initializing /data/simon/Leica demo/fish/fish.lei: [testng] [2024-11-15 00:27:56,546] [pool-1-thread-4] Initializing /data/oliver/o459/o459.lei: [testng] [2024-11-15 00:28:00,507] [pool-1-thread-8] Initializing /data/simon/Leica demo/GFP-YFPcaax/GFP-YFPcaax.lei: [testng] [2024-11-15 00:28:06,178] [pool-1-thread-1] Initializing /data/martin/samples-SP2/samples-SP2.lei: [testng] [2024-11-15 00:28:26,301] [pool-1-thread-7] Initializing /data/brian/tropo/tropo.lei: [testng] [2024-11-15 00:28:38,220] [pool-1-thread-7] Initializing /data/clay/leica_stack.lei: [testng] [2024-11-15 00:28:45,986] [pool-1-thread-12] Initializing /data/constantin/cell6/cell6/Logo.jpg: [testng] [2024-11-15 00:28:47,240] [pool-1-thread-7] Initializing /data/david/intestine/intestine.lei: [testng] [2024-11-15 00:28:47,930] [pool-1-thread-12] Initializing /data/simon/Leica demo/CFP-DsRed YFP neg/CFP-DsRed YFP neg.lei: [testng] [2024-11-15 00:29:01,256] [pool-1-thread-10] Initializing /data/michael/2007-01-31_zres_sp2.lei: [testng] [2024-11-15 00:29:12,397] [pool-1-thread-10] Initializing /data/matija/PapilioScale40x/PapilioScale40x.lei: [testng] [2024-11-15 00:29:49,558] [pool-1-thread-8] Initializing /data/grant/Leica SP2 (25-11-10).lei: [testng] [2024-11-15 00:30:37,726] [pool-1-thread-6] Initializing /data/constantin/cell6/cell6/Quant_Image_00.jpg: [testng] [2024-11-15 00:30:39,279] [pool-1-thread-6] Initializing /data/vytas/4voxels/4voxels.lei: [testng] [2024-11-15 00:31:12,021] [pool-1-thread-10] Initializing /data/constantin/cell6/Quant_Image_00.jpg: [testng] [2024-11-15 00:31:12,116] [pool-1-thread-2] Initializing /data/julie/biorad/25-65.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2332, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 26 minutes 32 seconds Finished: SUCCESS