![[Jenkins]](/jenkins/static/d8ca237c/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 289 originally caused by: Started by upstream project "Trigger" build number 308 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/jenkins14735981699485489693.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_45612_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] 00:38:13,381 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:38:13,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:38:13,383 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:13,384 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:38:13,384 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:38:13,384 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:38:13,385 |-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] 00:38:13,385 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:13,385 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:38:13,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:38:13,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:38:13,386 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:38:13,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:38:13,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:38:13,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:38:13,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:38:13,637 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:38:13,638 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:38:13,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:38:13,638 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:38:13,638 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:38:13,639 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:38:13,639 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 254 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-13 00:38:13,649] [main] java.version = 1.8.0_342 [testng] 00:38:13,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:38:13,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:38:13,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-13_00-38-13.log] [testng] 00:38:13,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-13 00:38:13,699] [main] testng.directory = /data [testng] [2024-12-13 00:38:13,699] [main] testng.configDirectory = /config [testng] [2024-12-13 00:38:13,711] [main] testng.multiplier = 1.0 [testng] [2024-12-13 00:38:13,711] [main] testng.in-memory = false [testng] [2024-12-13 00:38:13,711] [main] testng.allow-missing = false [testng] [2024-12-13 00:38:13,711] [main] user.language = en [testng] [2024-12-13 00:38:13,711] [main] user.country = ${user.country} [testng] [2024-12-13 00:38:13,711] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-13 00:46:56,612] [main] ---------------------------------------- [testng] [2024-12-13 00:46:56,612] [main] Total files: 226 [testng] [2024-12-13 00:46:56,612] [main] Scan time: 522.901 s (2313 ms/file) [testng] [2024-12-13 00:46:56,612] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-13 00:52:24,920] [pool-1-thread-1] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 00:52:24,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:52:24,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,922 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-13_00-52-24.log] [testng] 00:52:24,922 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39badc5f - End of configuration. [testng] [2024-12-13 00:52:25,023] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:52:25,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:52:25,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:25,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-13_00-52-25.log] [testng] 00:52:25,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f8cbe25 - End of configuration. [testng] [2024-12-13 00:52:25,626] [pool-1-thread-11] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:52:25,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:52:25,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:25,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-13_00-52-25.log] [testng] 00:52:25,627 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cf5d368 - End of configuration. [testng] [2024-12-13 00:52:26,204] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 00:52:26,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:52:26,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:26,205 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-13_00-52-26.log] [testng] 00:52:26,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13713951 - End of configuration. [testng] [2024-12-13 00:52:26,335] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 00:52:26,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:52:26,335 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:26,336 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-13_00-52-26.log] [testng] 00:52:26,336 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14edffa6 - End of configuration. [testng] [2024-12-13 00:52:26,907] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 00:52:26,907 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:52:26,907 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:26,908 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-13_00-52-26.log] [testng] 00:52:26,908 |-INFO in ch.qos.logback.core.sift.SiftProcessor@414f0263 - End of configuration. [testng] [2024-12-13 00:52:27,492] [pool-1-thread-7] Initializing /data/iplab/Blend_Final.IPL: [testng] 00:52:27,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:52:27,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:27,493 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-13_00-52-27.log] [testng] 00:52:27,494 |-INFO in ch.qos.logback.core.sift.SiftProcessor@145bed84 - End of configuration. [testng] [2024-12-13 00:52:27,584] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 00:52:27,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:52:27,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:27,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-13_00-52-27.log] [testng] 00:52:27,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d025157 - End of configuration. [testng] [2024-12-13 00:52:28,158] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 00:52:28,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:52:28,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:28,159 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-13_00-52-28.log] [testng] 00:52:28,159 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41db376b - End of configuration. [testng] [2024-12-13 00:52:28,291] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 00:52:28,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:52:28,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:28,292 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-13_00-52-28.log] [testng] 00:52:28,293 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bce8066 - End of configuration. [testng] [2024-12-13 00:52:28,381] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 00:52:28,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:52:28,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:28,382 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-13_00-52-28.log] [testng] 00:52:28,382 |-INFO in ch.qos.logback.core.sift.SiftProcessor@107323f0 - End of configuration. [testng] [2024-12-13 00:52:28,936] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:52:28,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:52:28,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:28,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-13_00-52-28.log] [testng] 00:52:28,937 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78172b4d - End of configuration. [testng] [2024-12-13 00:52:33,209] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-12-13 00:52:33,886] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-12-13 00:52:34,016] [pool-1-thread-4] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-12-13 00:52:34,118] [pool-1-thread-10] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-12-13 00:52:34,830] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-12-13 00:52:39,111] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-12-13 00:52:40,070] [pool-1-thread-1] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-12-13 00:52:40,994] [pool-1-thread-8] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-12-13 00:52:41,229] [pool-1-thread-3] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-12-13 00:52:42,390] [pool-1-thread-12] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-12-13 00:52:42,528] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-12-13 00:52:43,516] [pool-1-thread-9] Initializing /data/iplab/Actin.IPL: [testng] [2024-12-13 00:52:43,650] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-12-13 00:52:45,156] [pool-1-thread-1] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-12-13 00:52:46,597] [pool-1-thread-4] Initializing /data/iplab/Color Image.IPL: [testng] [2024-12-13 00:52:46,932] [pool-1-thread-8] 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: 14 minutes 44 seconds Finished: SUCCESS