Started by upstream project "BIOFORMATS-test-repo" build number 187 originally caused by: Started by upstream project "Trigger" build number 209 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/jenkins1595779616520746833.sh + '[' ome-tiff = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_29561_merge_ci -v /uod/idr/repos/curated/ome-tiff:/data -v /uod/idr-scratch/merge-ci/curated/ome-tiff:/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] 01:54:17,479 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:54:17,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:54:17,481 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:54:17,482 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:54:17,482 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:54:17,482 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:54:17,482 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:54:17,482 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:54:17,483 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:54:17,483 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:54:17,483 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:54:17,483 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:54:17,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:54:17,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:54:17,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:54:17,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:54:17,746 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:54:17,746 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:54:17,746 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:54:17,747 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:54:17,747 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:54:17,748 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:54:17,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 265 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-13 01:54:17,757] [main] java.version = 1.8.0_342 [testng] 01:54:17,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:54:17,760 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:54:17,805 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-13_01-54-17.log] [testng] 01:54:17,806 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-13 01:54:17,808] [main] testng.directory = /data [testng] [2024-09-13 01:54:17,808] [main] testng.configDirectory = /config [testng] [2024-09-13 01:54:17,821] [main] testng.multiplier = 1.0 [testng] [2024-09-13 01:54:17,821] [main] testng.in-memory = false [testng] [2024-09-13 01:54:17,821] [main] testng.allow-missing = false [testng] [2024-09-13 01:54:17,821] [main] user.language = en [testng] [2024-09-13 01:54:17,821] [main] user.country = ${user.country} [testng] [2024-09-13 01:54:17,821] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-13 01:57:01,523] [main] ---------------------------------------- [testng] [2024-09-13 01:57:01,523] [main] Total files: 4771 [testng] [2024-09-13 01:57:01,524] [main] Scan time: 163.702 s (34 ms/file) [testng] [2024-09-13 01:57:01,524] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 1455 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-13 02:04:32,492] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y05/image--L09--S00--U00--V00--J00--X00--Y05--T09--Z00--C00.ome.tif: [testng] 02:04:32,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:04:32,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:32,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-13_02-04-32.log] [testng] 02:04:32,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bcdc4f - End of configuration. [testng] [2024-09-13 02:04:32,639] [pool-1-thread-12] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y00/image--L15--S00--U00--V00--J00--X00--Y00--T15--Z00--C00.ome.tif: [testng] 02:04:32,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:04:32,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:32,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-13_02-04-32.log] [testng] 02:04:32,641 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d11f8bb - End of configuration. [testng] [2024-09-13 02:04:32,723] [pool-1-thread-11] Initializing /data/andor/iQMM_FURA_TIME22_WAVELENGTH0_0.ome.tif: [testng] 02:04:32,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:04:32,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:32,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-13_02-04-32.log] [testng] 02:04:32,724 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ff1280 - End of configuration. [testng] [2024-09-13 02:04:32,905] [pool-1-thread-10] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y00/image--L05--S00--U00--V00--J00--X01--Y00--T05--Z00--C00.ome.tif: [testng] 02:04:32,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:04:32,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:32,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-13_02-04-32.log] [testng] 02:04:32,906 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e842d4b - End of configuration. [testng] [2024-09-13 02:04:32,972] [pool-1-thread-9] Initializing /data/oliver/LA_ProtocolCombination_12.10.2009_21_40_58_Marker_1__3 3.tif: [testng] 02:04:32,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:04:32,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:32,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-13_02-04-32.log] [testng] 02:04:32,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f7447ee - End of configuration. [testng] [2024-09-13 02:04:39,555] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y00/image--L08--S00--U00--V00--J00--X05--Y00--T08--Z00--C00.ome.tif: [testng] 02:04:39,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:04:39,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,556 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-13_02-04-39.log] [testng] 02:04:39,556 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12a89e5a - End of configuration. [testng] [2024-09-13 02:04:39,653] [pool-1-thread-7] Initializing /data/pam/try2-09242010-1031-049/try2-09242010-1031-049.xml: [testng] 02:04:39,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:04:39,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-13_02-04-39.log] [testng] 02:04:39,654 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8d394a - End of configuration. [testng] [2024-09-13 02:04:39,715] [pool-1-thread-6] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y03/image--L01--S00--U00--V00--J00--X01--Y03--T01--Z00--C00.ome.tif: [testng] 02:04:39,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:04:39,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,716 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-13_02-04-39.log] [testng] 02:04:39,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@308b409c - End of configuration. [testng] [2024-09-13 02:04:39,820] [pool-1-thread-5] Initializing /data/andor/iQMM_FURA_TIME119_WAVELENGTH1_0.ome.tif: [testng] 02:04:39,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:04:39,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,821 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-13_02-04-39.log] [testng] 02:04:39,822 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12f52f34 - End of configuration. [testng] [2024-09-13 02:04:39,887] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y05/image--L01--S00--U00--V00--J00--X00--Y05--T01--Z00--C00.ome.tif: [testng] 02:04:39,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:04:39,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-13_02-04-39.log] [testng] 02:04:39,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e078641 - End of configuration. [testng] [2024-09-13 02:04:39,948] [pool-1-thread-3] Initializing /data/andor/iQMM_FURA_TIME21_WAVELENGTH1_0.ome.tif: [testng] 02:04:39,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:04:39,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:39,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-13_02-04-39.log] [testng] 02:04:39,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5fc62322 - End of configuration. [testng] [2024-09-13 02:04:39,999] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y03/image--L13--S00--U00--V00--J00--X03--Y03--T13--Z00--C00.ome.tif: [testng] 02:04:39,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:04:39,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:40,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-13_02-04-40.log] [testng] 02:04:40,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13892e15 - End of configuration. [testng] [2024-09-13 02:04:47,300] [pool-1-thread-10] Initializing /data/public/2010-06/multi-channel-z-series.ome.tiff: [testng] [2024-09-13 02:04:47,359] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y01/image--L01--S00--U00--V00--J00--X01--Y01--T01--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:47,428] [pool-1-thread-7] Initializing /data/public/2015-01/modulo/FLIM-ModuloAlongT-TSCPC.ome.tiff: [testng] [2024-09-13 02:04:47,510] [pool-1-thread-12] Initializing /data/andor/iQMM_FURA_TIME91_WAVELENGTH1_0.ome.tif: [testng] [2024-09-13 02:04:47,602] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y04/image--L00--S00--U00--V00--J00--X02--Y04--T00--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:47,900] [pool-1-thread-4] Initializing /data/public/2010-04/one-screen-one-plate-four-wells.ome.tiff: [testng] [2024-09-13 02:04:48,007] [pool-1-thread-3] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y06/image--L11--S00--U00--V00--J00--X03--Y06--T11--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:48,076] [pool-1-thread-6] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y06/image--L07--S00--U00--V00--J00--X03--Y06--T07--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:48,119] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y05/image--L11--S00--U00--V00--J00--X05--Y05--T11--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:48,182] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y02/image--L13--S00--U00--V00--J00--X03--Y02--T13--Z00--C00.ome.tif: [testng] [2024-09-13 02:04:48,248] [pool-1-thread-11] Initializing 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[testng] [2024-09-13 02:12:38,261] [pool-1-thread-6] Initializing /data/sub-resolution/Leica-2/Leica-2-subifds.ome.tiff: [testng] [2024-09-13 02:12:38,812] [pool-1-thread-11] Initializing /data/tubhiswtTEST/time2/lzw/lzw-tubhiswt_C1_TP1.ome.tif: [testng] [2024-09-13 02:12:40,610] [pool-1-thread-7] Initializing /data/tubhiswtTEST/tubhiswt4D-J2K.ome.tif: [testng] [2024-09-13 02:12:41,490] [pool-1-thread-9] Initializing /data/public/2015-01/modulo/LAMBDA-ModuloAlongZ-ModuloAlongT.ome.tiff: [testng] [2024-09-13 02:12:42,522] [pool-1-thread-9] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y01/image--L13--S00--U00--V00--J00--X05--Y01--T13--Z00--C00.ome.tif: [testng] [2024-09-13 02:12:43,346] [pool-1-thread-9] Initializing /data/andor/iQMM_FURA_TIME180_WAVELENGTH1_0.ome.tif: [testng] [2024-09-13 02:12:45,187] [pool-1-thread-7] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y05/image--L05--S00--U00--V00--J00--X02--Y05--T05--Z00--C00.ome.tif: [testng] [2024-09-13 02:12:45,671] [pool-1-thread-9] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y06/image--L00--S00--U00--V00--J00--X03--Y06--T00--Z00--C00.ome.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 77115, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 32 minutes 25 seconds Finished: SUCCESS