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Started by upstream project "BIOFORMATS-test-repo" build number 217 originally caused by: Started by upstream project "Trigger" build number 244 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/jenkins12168049700539860553.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34394_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] 01:51:03,803 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:51:03,804 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:51:03,804 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:51:03,805 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:51:03,806 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:51:03,806 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:51:03,806 |-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] 01:51:03,806 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:51:03,806 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:51:03,807 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:51:03,807 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:51:03,807 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:51:04,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:51:04,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:51:04,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:51:04,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:51:04,046 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:51:04,046 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:51:04,046 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:51:04,047 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:51:04,047 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:51:04,048 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:51:04,048 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 242 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-11 01:51:04,057] [main] java.version = 1.8.0_342 [testng] 01:51:04,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:51:04,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:04,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-11_01-51-04.log] [testng] 01:51:04,103 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-11 01:51:04,104] [main] testng.directory = /data [testng] [2024-10-11 01:51:04,105] [main] testng.configDirectory = /config [testng] [2024-10-11 01:51:04,116] [main] testng.multiplier = 1.0 [testng] [2024-10-11 01:51:04,116] [main] testng.in-memory = false [testng] [2024-10-11 01:51:04,116] [main] testng.allow-missing = false [testng] [2024-10-11 01:51:04,116] [main] user.language = en [testng] [2024-10-11 01:51:04,116] [main] user.country = ${user.country} [testng] [2024-10-11 01:51:04,116] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-11 02:01:38,972] [main] ---------------------------------------- [testng] [2024-10-11 02:01:38,972] [main] Total files: 226 [testng] [2024-10-11 02:01:38,973] [main] Scan time: 634.856 s (2809 ms/file) [testng] [2024-10-11 02:01:38,973] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-11 02:08:25,797] [pool-1-thread-1] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 02:08:25,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:08:25,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:25,799 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-11_02-08-25.log] [testng] 02:08:25,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b69e40d - End of configuration. [testng] [2024-10-11 02:08:25,860] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 02:08:25,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:08:25,861 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:25,861 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-11_02-08-25.log] [testng] 02:08:25,862 |-INFO in ch.qos.logback.core.sift.SiftProcessor@746e35b - End of configuration. [testng] [2024-10-11 02:08:26,196] [pool-1-thread-11] Initializing /data/fluoview/Sample_XT.tif: [testng] 02:08:26,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:08:26,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:26,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-11_02-08-26.log] [testng] 02:08:26,197 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ad00a4 - End of configuration. [testng] [2024-10-11 02:08:26,724] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 02:08:26,724 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:08:26,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:26,725 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-11_02-08-26.log] [testng] 02:08:26,725 |-INFO in ch.qos.logback.core.sift.SiftProcessor@704545cd - End of configuration. [testng] [2024-10-11 02:08:27,000] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 02:08:27,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:08:27,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:27,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-11_02-08-27.log] [testng] 02:08:27,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@556fd823 - End of configuration. [testng] [2024-10-11 02:08:27,815] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 02:08:27,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:08:27,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:27,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-11_02-08-27.log] [testng] 02:08:27,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43ba956e - End of configuration. [testng] [2024-10-11 02:08:28,504] [pool-1-thread-7] Initializing /data/iplab/Blend_Final.IPL: [testng] 02:08:28,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:08:28,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:28,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-11_02-08-28.log] [testng] 02:08:28,505 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f8e7948 - End of configuration. [testng] [2024-10-11 02:08:28,753] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 02:08:28,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:08:28,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:28,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-11_02-08-28.log] [testng] 02:08:28,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3356a668 - End of configuration. [testng] [2024-10-11 02:08:29,103] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 02:08:29,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:08:29,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:29,103 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-11_02-08-29.log] [testng] 02:08:29,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fa1a5b0 - End of configuration. [testng] [2024-10-11 02:08:29,517] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 02:08:29,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:08:29,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:29,518 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-11_02-08-29.log] [testng] 02:08:29,518 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44d200a8 - End of configuration. [testng] [2024-10-11 02:08:29,561] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 02:08:29,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:08:29,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:29,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-11_02-08-29.log] [testng] 02:08:29,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50c25c5f - End of configuration. [testng] [2024-10-11 02:08:30,246] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 02:08:30,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:08:30,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:08:30,247 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-11_02-08-30.log] [testng] 02:08:30,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34f16161 - End of configuration. [testng] [2024-10-11 02:08:34,238] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-11 02:08:34,726] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-11 02:08:35,045] [pool-1-thread-1] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-10-11 02:08:35,128] [pool-1-thread-10] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-11 02:08:35,789] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-11 02:08:37,461] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-11 02:08:37,703] [pool-1-thread-12] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-10-11 02:08:38,110] [pool-1-thread-9] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-10-11 02:08:38,160] [pool-1-thread-3] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-10-11 02:08:38,504] [pool-1-thread-6] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-10-11 02:08:38,983] [pool-1-thread-1] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-11 02:08:39,185] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-11 02:08:39,893] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-11 02:08:41,100] [pool-1-thread-3] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-10-11 02:08:41,265] [pool-1-thread-9] Initializing /data/iplab/Color Image.IPL: [testng] [2024-10-11 02:08:41,419] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 17 minutes 47 seconds Finished: SUCCESS