Started by upstream project "BIOFORMATS-test-repo" build number 112 originally caused by: Started by upstream project "Trigger" build number 125 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins14716855687348526410.sh + '[' ome-tiff = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17418_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] 01:39:12,386 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:39:12,446 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:39:12,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:39:12,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:39:12,531 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:39:12,531 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:39:12,531 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:39:12,532 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:39:12,532 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:39:12,543 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:39:12,544 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 467 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-05 01:39:12,563] [main] java.version = 1.8.0_342 [testng] 01:39:12,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:39:12,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:12,692 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-05_01-39-12.log] [testng] 01:39:12,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-05 01:39:12,696] [main] testng.directory = /data [testng] [2024-07-05 01:39:12,696] [main] testng.configDirectory = /config [testng] [2024-07-05 01:39:12,723] [main] testng.multiplier = 1.0 [testng] [2024-07-05 01:39:12,723] [main] testng.in-memory = false [testng] [2024-07-05 01:39:12,723] [main] testng.allow-missing = false [testng] [2024-07-05 01:39:12,723] [main] user.language = en [testng] [2024-07-05 01:39:12,724] [main] user.country = ${user.country} [testng] [2024-07-05 01:39:12,724] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-05 01:41:57,384] [main] ---------------------------------------- [testng] [2024-07-05 01:41:57,385] [main] Total files: 4771 [testng] [2024-07-05 01:41:57,385] [main] Scan time: 164.66 s (34 ms/file) [testng] [2024-07-05 01:41:57,385] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 1455 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-05 01:49:05,981] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y06/image--L03--S00--U00--V00--J00--X00--Y06--T03--Z00--C00.ome.tif: [testng] 01:49:05,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:49:05,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:05,983 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-05_01-49-05.log] [testng] 01:49:05,984 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26c8aff1 - End of configuration. [testng] [2024-07-05 01:49:06,030] [pool-1-thread-9] Initializing /data/peter/LA_ProtocolCombination_23.01.2012_16_29_52_1.ome.tif: [testng] 01:49:06,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:49:06,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-05_01-49-06.log] [testng] 01:49:06,031 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a1fc5ad - End of configuration. [testng] [2024-07-05 01:49:06,335] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y01/image--L01--S00--U00--V00--J00--X05--Y01--T01--Z00--C00.ome.tif: [testng] 01:49:06,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:49:06,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-05_01-49-06.log] [testng] 01:49:06,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2541e9df - End of configuration. [testng] [2024-07-05 01:49:06,369] [pool-1-thread-7] Initializing /data/public/2007-06/single-channel.ome.tif: [testng] 01:49:06,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:49:06,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-05_01-49-06.log] [testng] 01:49:06,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78454765 - End of configuration. [testng] [2024-07-05 01:49:06,390] [pool-1-thread-6] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y03/image--L10--S00--U00--V00--J00--X01--Y03--T10--Z00--C00.ome.tif: [testng] 01:49:06,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:49:06,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-05_01-49-06.log] [testng] 01:49:06,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57daa354 - End of configuration. [testng] [2024-07-05 01:49:06,422] [pool-1-thread-5] Initializing /data/andor/iQMM_FURA_TIME123_WAVELENGTH0_0.ome.tif: [testng] 01:49:06,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:49:06,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-05_01-49-06.log] [testng] 01:49:06,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32c46d47 - End of configuration. [testng] [2024-07-05 01:49:06,452] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y05/image--L10--S00--U00--V00--J00--X00--Y05--T10--Z00--C00.ome.tif: [testng] 01:49:06,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:49:06,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-05_01-49-06.log] [testng] 01:49:06,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56b1663e - End of configuration. [testng] [2024-07-05 01:49:06,484] [pool-1-thread-3] Initializing /data/andor/iQMM_FURA_TIME26_WAVELENGTH0_0.ome.tif: [testng] 01:49:06,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:49:06,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-05_01-49-06.log] [testng] 01:49:06,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71e9d39d - End of configuration. [testng] [2024-07-05 01:49:06,507] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y04/image--L07--S00--U00--V00--J00--X03--Y04--T07--Z00--C00.ome.tif: [testng] 01:49:06,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:49:06,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-05_01-49-06.log] [testng] 01:49:06,508 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ab194cd - End of configuration. [testng] [2024-07-05 01:49:06,565] [pool-1-thread-12] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X00--Y01/image--L08--S00--U00--V00--J00--X00--Y01--T08--Z00--C00.ome.tif: [testng] 01:49:06,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:49:06,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-05_01-49-06.log] [testng] 01:49:06,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fa2ca0 - End of configuration. [testng] [2024-07-05 01:49:06,593] [pool-1-thread-11] Initializing /data/andor/iQMM_FURA_TIME26_WAVELENGTH1_0.ome.tif: [testng] 01:49:06,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:49:06,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,594 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-05_01-49-06.log] [testng] 01:49:06,594 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7391824e - End of configuration. [testng] [2024-07-05 01:49:06,616] [pool-1-thread-10] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y00/image--L14--S00--U00--V00--J00--X01--Y00--T14--Z00--C00.ome.tif: [testng] 01:49:06,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:49:06,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:06,616 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-05_01-49-06.log] [testng] 01:49:06,617 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73fd85e5 - End of configuration. [testng] [2024-07-05 01:49:15,098] [pool-1-thread-9] Initializing /data/public/2012-06/bioformats-artificial/multi-channel-4D-series.ome.tif: [testng] [2024-07-05 01:49:15,137] [pool-1-thread-7] Initializing /data/andor/iQMM_FURA_TIME194_WAVELENGTH1_0.ome.tif: [testng] [2024-07-05 01:49:15,158] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y06/image--L05--S00--U00--V00--J00--X05--Y06--T05--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,184] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y03/image--L07--S00--U00--V00--J00--X03--Y03--T07--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,216] [pool-1-thread-11] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X04--Y03/image--L04--S00--U00--V00--J00--X04--Y03--T04--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,240] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y01/image--L10--S00--U00--V00--J00--X01--Y01--T10--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,265] [pool-1-thread-10] Initializing /data/public/2016-06/binaryonly/multifile-Z1.ome.tiff: [testng] [2024-07-05 01:49:15,277] [pool-1-thread-2] Initializing /data/andor/iQMM_FURA_TIME96_WAVELENGTH0_0.ome.tif: [testng] [2024-07-05 01:49:15,298] [pool-1-thread-12] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y04/image--L09--S00--U00--V00--J00--X02--Y04--T09--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,322] [pool-1-thread-6] Initializing /data/public/2010-06/multi-channel-z-series-time-series.ome.tiff: [testng] [2024-07-05 01:49:15,344] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X04--Y00/image--L05--S00--U00--V00--J00--X04--Y00--T05--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:15,371] [pool-1-thread-3] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X04--Y00/image--L01--S00--U00--V00--J00--X04--Y00--T01--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,290] [pool-1-thread-12] Initializing /data/andor/iQMM_FURA_TIME90_WAVELENGTH1_0.ome.tif: [testng] [2024-07-05 01:49:16,313] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y03/image--L11--S00--U00--V00--J00--X03--Y03--T11--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,338] [pool-1-thread-2] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y06/image--L13--S00--U00--V00--J00--X03--Y06--T13--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,363] [pool-1-thread-11] Initializing /data/tubhiswtTEST/time2/lzw/lzw-tubhiswt_C1_TP1.ome.tif: [testng] [2024-07-05 01:49:16,583] [pool-1-thread-7] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X05--Y06/image--L10--S00--U00--V00--J00--X05--Y06--T10--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,615] [pool-1-thread-1] Initializing /data/curtis/mc4d-i5d.ome.tif: [testng] [2024-07-05 01:49:16,648] [pool-1-thread-5] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y04/image--L02--S00--U00--V00--J00--X02--Y04--T02--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,692] [pool-1-thread-3] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X06--Y02/image--L05--S00--U00--V00--J00--X06--Y02--T05--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,724] [pool-1-thread-6] Initializing /data/public/2016-06/bioformats-artificial/multi-channel.ome.tf8: [testng] [2024-07-05 01:49:16,739] [pool-1-thread-4] Initializing /data/ruben/experiment--2009_10_27_15_43_34/slide--S00/chamber--U00--V00/field--X03--Y02/image--L00--S00--U00--V00--J00--X03--Y02--T00--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,765] [pool-1-thread-10] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X06--Y02/image--L02--S00--U00--V00--J00--X06--Y02--T02--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:16,824] [pool-1-thread-9] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X01--Y04/image--L11--S00--U00--V00--J00--X01--Y04--T11--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:17,545] [pool-1-thread-6] Initializing /data/andor/iQMM_FURA_TIME156_WAVELENGTH0_0.ome.tif: [testng] [2024-07-05 01:49:17,603] [pool-1-thread-1] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X04--Y06/image--L10--S00--U00--V00--J00--X04--Y06--T10--Z00--C00.ome.tif: [testng] [2024-07-05 01:49:17,669] [pool-1-thread-12] Initializing 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/data/andor/iQMM_FURA_TIME185_WAVELENGTH0_0.ome.tif: [testng] [2024-07-05 01:54:24,319] [pool-1-thread-8] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X02--Y05/image--L14--S00--U00--V00--J00--X02--Y05--T14--Z00--C00.ome.tif: [testng] [2024-07-05 01:54:24,502] [pool-1-thread-9] Initializing /data/ruben/experiment--2009_10_27_15_59_00/slide--S00/chamber--U00--V00/field--X03--Y06/image--L09--S00--U00--V00--J00--X03--Y06--T09--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: 25 minutes 51 seconds Finished: SUCCESS