Started by upstream project "BIOFORMATS-test-repo" build number 75 originally caused by: Started by upstream project "Trigger" build number 83 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins10870118259654873382.sh + '[' ome-tiff = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_11350_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 01:36:53,471 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:36:53,472 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:36:53,472 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:36:53,473 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:36:53,473 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:36:53,473 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:36:53,474 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:36:53,474 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:36:53,474 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:36:53,475 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:36:53,475 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:36:53,475 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:36:53,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:36:53,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:36:53,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:36:53,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:36:53,657 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:36:53,658 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:36:53,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:36:53,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:36:53,658 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:36:53,659 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:36:53,659 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-26 01:36:53,668] [main] java.version = 17.0.2 [testng] 01:36:53,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:36:53,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:36:53,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-26_01-36-53.log] [testng] 01:36:53,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-05-26 01:36:53,713] [main] testng.directory = /data [testng] [2024-05-26 01:36:53,713] [main] testng.configDirectory = /config [testng] [2024-05-26 01:36:53,723] [main] testng.multiplier = 1.0 [testng] [2024-05-26 01:36:53,724] [main] testng.in-memory = false [testng] [2024-05-26 01:36:53,724] [main] testng.allow-missing = false [testng] [2024-05-26 01:36:53,724] [main] user.language = en [testng] [2024-05-26 01:36:53,724] [main] user.country = ${user.country} [testng] [2024-05-26 01:36:53,724] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-26 01:39:50,083] [main] ---------------------------------------- [testng] [2024-05-26 01:39:50,083] [main] Total files: 4771 [testng] [2024-05-26 01:39:50,084] [main] Scan time: 176.359 s (36 ms/file) [testng] [2024-05-26 01:39:50,084] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 1455 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-26 01:45:52,828] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y01/image--L02--S00--U00--V00--J00--X00--Y01--T02--Z00--C00.ome.tif: [testng] 01:45:52,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:45:52,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:52,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-26_01-45-52.log] [testng] 01:45:52,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d812494 - End of configuration. [testng] [2024-05-26 01:45:52,867] [pool-1-thread-6] Initializing /data/oliver/LA_ProtocolCombination_12.10.2009_21_40_58_Marker_5__7.tif: [testng] 01:45:52,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:45:52,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:52,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-26_01-45-52.log] [testng] 01:45:52,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11a0c0c9 - End of configuration. [testng] [2024-05-26 01:45:57,763] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y03/image--L07--S00--U00--V00--J00--X01--Y03--T07--Z00--C00.ome.tif: [testng] 01:45:57,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:45:57,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,764 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-26_01-45-57.log] [testng] 01:45:57,765 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78e92057 - End of configuration. [testng] [2024-05-26 01:45:57,804] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y00/image--L14--S00--U00--V00--J00--X05--Y00--T14--Z00--C00.ome.tif: [testng] 01:45:57,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:45:57,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,805 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-26_01-45-57.log] [testng] 01:45:57,806 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1350c617 - End of configuration. [testng] [2024-05-26 01:45:57,844] [pool-1-thread-3] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y00/image--L05--S00--U00--V00--J00--X03--Y00--T05--Z00--C00.ome.tif: [testng] 01:45:57,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:45:57,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,845 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-26_01-45-57.log] [testng] 01:45:57,846 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26abb663 - End of configuration. [testng] [2024-05-26 01:45:57,888] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y00/image--L12--S00--U00--V00--J00--X03--Y00--T12--Z00--C00.ome.tif: [testng] 01:45:57,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:45:57,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,889 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-26_01-45-57.log] [testng] 01:45:57,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28ba72e8 - End of configuration. [testng] [2024-05-26 01:45:57,928] [pool-1-thread-12] Initializing /data/public/2007-06/Iron-Plate.ome.tiff: [testng] 01:45:57,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:45:57,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-26_01-45-57.log] [testng] 01:45:57,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c9002dd - End of configuration. [testng] [2024-05-26 01:45:57,982] [pool-1-thread-11] Initializing /data/andor/iQMM_FURA_TIME184_WAVELENGTH1_0.ome.tif: [testng] 01:45:57,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:45:57,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:57,983 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-26_01-45-57.log] [testng] 01:45:57,984 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3931b4ed - End of configuration. [testng] [2024-05-26 01:45:58,018] [pool-1-thread-10] Initializing /data/andor/iQMM_FURA_TIME109_WAVELENGTH1_0.ome.tif: [testng] 01:45:58,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:45:58,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:58,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-26_01-45-58.log] [testng] 01:45:58,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e3f1b49 - End of configuration. [testng] [2024-05-26 01:45:58,051] [pool-1-thread-9] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X04--Y02/image--L06--S00--U00--V00--J00--X04--Y02--T06--Z00--C00.ome.tif: [testng] 01:45:58,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:45:58,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:58,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-26_01-45-58.log] [testng] 01:45:58,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71d6083c - End of configuration. [testng] [2024-05-26 01:45:58,090] [pool-1-thread-8] Initializing /data/curtis/mc4d-i5d.ome.tif: [testng] 01:45:58,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:45:58,091 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:58,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-26_01-45-58.log] [testng] 01:45:58,093 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e4eba37 - End of configuration. [testng] [2024-05-26 01:45:58,125] [pool-1-thread-7] Initializing /data/public/2008-09/multi-channel.ome.tiff: [testng] 01:45:58,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:45:58,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:45:58,126 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-26_01-45-58.log] [testng] 01:45:58,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19843745 - End of configuration. [testng] [2024-05-26 01:46:03,728] [pool-1-thread-1] Initializing /data/andor/iQMM_FURA_TIME75_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:03,772] [pool-1-thread-2] Initializing /data/andor/iQMM_FURA_TIME111_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:03,801] [pool-1-thread-11] Initializing /data/ruben/experiment--2009_10_27_15_43_34/slide--S00/chamber--U00--V00/field--X05--Y00/image--L00--S00--U00--V00--J00--X05--Y00--T00--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:03,838] [pool-1-thread-8] Initializing /data/andor/iQMM_FURA_TIME156_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:03,862] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X06--Y05/image--L07--S00--U00--V00--J00--X06--Y05--T07--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:03,899] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X06--Y04/image--L12--S00--U00--V00--J00--X06--Y04--T12--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:03,928] [pool-1-thread-12] Initializing /data/andor/iQMM_FURA_TIME162_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:03,952] [pool-1-thread-10] Initializing /data/public/2012-06/tubhiswt-4D/tubhiswt_C0_TP0.ome.tif: [testng] [2024-05-26 01:46:04,259] [pool-1-thread-7] Initializing /data/andor/iQMM_FURA_TIME196_WAVELENGTH1_0.ome.tif: [testng] [2024-05-26 01:46:04,282] [pool-1-thread-3] Initializing /data/andor/iQMM_FURA_TIME189_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:04,315] [pool-1-thread-9] Initializing /data/andor/iQMM_FURA_TIME18_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:06,530] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y03/image--L12--S00--U00--V00--J00--X03--Y03--T12--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:06,569] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y02/image--L11--S00--U00--V00--J00--X00--Y02--T11--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:06,816] [pool-1-thread-7] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y05/image--L05--S00--U00--V00--J00--X05--Y05--T05--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:06,921] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y00/image--L09--S00--U00--V00--J00--X03--Y00--T09--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:06,996] [pool-1-thread-9] Initializing /data/andor/iQMM_FURA_TIME191_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:07,035] [pool-1-thread-12] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y00/image--L04--S00--U00--V00--J00--X03--Y00--T04--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:07,068] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y03/image--L09--S00--U00--V00--J00--X03--Y03--T09--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:07,098] [pool-1-thread-11] Initializing /data/public/2008-09/single-image.ome.tiff: [testng] [2024-05-26 01:46:07,150] [pool-1-thread-8] Initializing /data/andor/iQMM_FURA_TIME27_WAVELENGTH1_0.ome.tif: [testng] [2024-05-26 01:46:07,264] [pool-1-thread-3] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y00/image--L13--S00--U00--V00--J00--X02--Y00--T13--Z00--C00.ome.tif: [testng] [2024-05-26 01:46:08,227] [pool-1-thread-1] Initializing /data/andor/iQMM_FURA_TIME188_WAVELENGTH0_0.ome.tif: [testng] [2024-05-26 01:46:08,770] [pool-1-thread-7] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y01/image--L05--S00--U00--V00--J00--X00--Y01--T05--Z00--C00.ome.tif: [testng] 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[pool-1-thread-11] Initializing /data/public/2010-04/multi-channel-z-series-time-series.ome.tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 77115, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 27 minutes 34 seconds Finished: SUCCESS