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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins11349137122646685279.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4099_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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] 07:14:11,153 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:14:11,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 07:14:11,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:14:11,156 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:14:11,157 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:14:11,157 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:14:11,157 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:14:11,157 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:14:11,158 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:14:11,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:14:11,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:14:11,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:14:11,406 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:14:11,407 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:14:11,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:14:11,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:14:11,440 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:14:11,441 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:14:11,441 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:14:11,441 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:14:11,441 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 07:14:11,442 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 07:14:11,442 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 284 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 07:14:11,451] [main] java.version = 1.8.0_342 [testng] 07:14:11,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:14:11,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:11,513 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_07-14-11.log] [testng] 07:14:11,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 07:14:11,519] [main] testng.directory = /data [testng] [2024-04-12 07:14:11,520] [main] testng.configDirectory = /config [testng] [2024-04-12 07:14:11,542] [main] testng.multiplier = 1.0 [testng] [2024-04-12 07:14:11,542] [main] testng.in-memory = false [testng] [2024-04-12 07:14:11,542] [main] testng.allow-missing = false [testng] [2024-04-12 07:14:11,542] [main] user.language = en [testng] [2024-04-12 07:14:11,542] [main] user.country = ${user.country} [testng] [2024-04-12 07:14:11,542] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 07:14:25,956] [main] ---------------------------------------- [testng] [2024-04-12 07:14:25,956] [main] Total files: 226 [testng] [2024-04-12 07:14:25,957] [main] Scan time: 14.413 s (63 ms/file) [testng] [2024-04-12 07:14:25,957] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 07:14:33,867] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 07:14:33,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:14:33,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:33,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_07-14-33.log] [testng] 07:14:33,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e7a5e4a - End of configuration. [testng] [2024-04-12 07:14:33,927] [pool-1-thread-12] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 07:14:33,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:14:33,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:33,928 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_07-14-33.log] [testng] 07:14:33,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c807c08 - End of configuration. [testng] [2024-04-12 07:14:33,942] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] 07:14:33,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:14:33,942 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:33,943 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_07-14-33.log] [testng] 07:14:33,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7adc1fb8 - End of configuration. [testng] [2024-04-12 07:14:33,969] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 07:14:33,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:14:33,969 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:33,970 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_07-14-33.log] [testng] 07:14:33,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53c0e667 - End of configuration. [testng] [2024-04-12 07:14:33,978] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 07:14:33,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:14:33,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:33,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_07-14-33.log] [testng] 07:14:33,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7edf8086 - End of configuration. [testng] [2024-04-12 07:14:34,027] [pool-1-thread-8] Initializing /data/fluoview/Sample_XT.tif: [testng] 07:14:34,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:14:34,028 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,029 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_07-14-34.log] [testng] 07:14:34,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d444e2 - End of configuration. [testng] [2024-04-12 07:14:34,071] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 07:14:34,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:14:34,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_07-14-34.log] [testng] 07:14:34,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b02a6a - End of configuration. [testng] [2024-04-12 07:14:34,092] [pool-1-thread-6] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 07:14:34,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:14:34,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,093 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_07-14-34.log] [testng] 07:14:34,094 |-INFO in ch.qos.logback.core.sift.SiftProcessor@197040a7 - End of configuration. [testng] [2024-04-12 07:14:34,101] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 07:14:34,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:14:34,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_07-14-34.log] [testng] 07:14:34,102 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73d3d058 - End of configuration. [testng] [2024-04-12 07:14:34,163] [pool-1-thread-4] Initializing /data/iplab/Actin.IPL: [testng] 07:14:34,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:14:34,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,164 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_07-14-34.log] [testng] 07:14:34,164 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2ddf71 - End of configuration. [testng] [2024-04-12 07:14:34,170] [pool-1-thread-3] Initializing /data/iplab/16Bit XRay.IPL: [testng] 07:14:34,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:14:34,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,170 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_07-14-34.log] [testng] 07:14:34,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@519ced01 - End of configuration. [testng] [2024-04-12 07:14:34,177] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 07:14:34,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:14:34,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:14:34,178 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_07-14-34.log] [testng] 07:14:34,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1de11cfa - End of configuration. [testng] [2024-04-12 07:14:35,748] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-04-12 07:14:35,799] [pool-1-thread-11] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-04-12 07:14:35,819] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-04-12 07:14:35,832] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-04-12 07:14:35,865] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-04-12 07:14:35,981] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-04-12 07:14:35,985] [pool-1-thread-6] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-04-12 07:14:35,990] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-04-12 07:14:36,001] [pool-1-thread-12] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-04-12 07:14:36,008] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-04-12 07:14:36,350] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-04-12 07:14:36,411] [pool-1-thread-8] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-04-12 07:14:36,451] [pool-1-thread-9] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-04-12 07:14:36,481] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-04-12 07:14:36,561] [pool-1-thread-6] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-04-12 07:14:36,616] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 32 seconds Finished: SUCCESS