Started by upstream project "BIOFORMATS-test-repo" build number 297
originally caused by:
Started by upstream project "Trigger" build number 319
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins9131868026862007602.sh
+ '[' specs = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_46930_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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Resolving artifacts
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
compile-tests:
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Resolving artifacts
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml
[resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml
[javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test
test-automated:
[testng] File leak detector installed
[testng] 00:17:48,059 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:17:48,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 00:17:48,060 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:17:48,061 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:17:48,062 |-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] 00:17:48,062 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:17:48,062 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:17:48,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:17:48,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:17:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:17:48,297 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:17:48,304 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:17:48,305 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:17:48,305 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 00:17:48,306 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 00:17:48,306 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 244 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-24 00:17:48,315] [main] java.version = 1.8.0_342
[testng] 00:17:48,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:17:48,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:17:48,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_00-17-48.log]
[testng] 00:17:48,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-12-24 00:17:48,364] [main] testng.directory = /data
[testng] [2024-12-24 00:17:48,364] [main] testng.configDirectory = /config
[testng] [2024-12-24 00:17:48,376] [main] testng.multiplier = 1.0
[testng] [2024-12-24 00:17:48,376] [main] testng.in-memory = false
[testng] [2024-12-24 00:17:48,376] [main] testng.allow-missing = false
[testng] [2024-12-24 00:17:48,376] [main] user.language = en
[testng] [2024-12-24 00:17:48,376] [main] user.country = ${user.country}
[testng] [2024-12-24 00:17:48,376] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-12-24 00:22:17,678] [main] ----------------------------------------
[testng] [2024-12-24 00:22:17,679] [main] Total files: 226
[testng] [2024-12-24 00:22:17,679] [main] Scan time: 269.302 s (1191 ms/file)
[testng] [2024-12-24 00:22:17,679] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 28 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-24 00:25:13,332] [pool-1-thread-1] Initializing /data/iplab/Blend_DIC.IPL:
[testng] 00:25:13,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:25:13,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,335 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_00-25-13.log]
[testng] 00:25:13,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441f5876 - End of configuration.
[testng] [2024-12-24 00:25:13,390] [pool-1-thread-12] Initializing /data/iplab/Color Histology.IPL:
[testng] 00:25:13,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:25:13,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,391 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_00-25-13.log]
[testng] 00:25:13,392 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d75b4b4 - End of configuration.
[testng] [2024-12-24 00:25:13,427] [pool-1-thread-11] Initializing /data/iplab/Color Image.IPL:
[testng] 00:25:13,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:25:13,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_00-25-13.log]
[testng] 00:25:13,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aaa1996 - End of configuration.
[testng] [2024-12-24 00:25:13,473] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.tif:
[testng] 00:25:13,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:25:13,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_00-25-13.log]
[testng] 00:25:13,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38ab19f8 - End of configuration.
[testng] [2024-12-24 00:25:13,703] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYZTCh.tif:
[testng] 00:25:13,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:25:13,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_00-25-13.log]
[testng] 00:25:13,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@360e4396 - End of configuration.
[testng] [2024-12-24 00:25:13,915] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.avi:
[testng] 00:25:13,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:25:13,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:13,915 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_00-25-13.log]
[testng] 00:25:13,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7489df23 - End of configuration.
[testng] [2024-12-24 00:25:14,000] [pool-1-thread-7] Initializing /data/iplab/Actin.IPL:
[testng] 00:25:14,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:25:14,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_00-25-14.log]
[testng] 00:25:14,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4795a84f - End of configuration.
[testng] [2024-12-24 00:25:14,038] [pool-1-thread-6] Initializing /data/fluoview/Sample_ThreeCH.TIF:
[testng] 00:25:14,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:25:14,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_00-25-14.log]
[testng] 00:25:14,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@202a8051 - End of configuration.
[testng] [2024-12-24 00:25:14,239] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYZCh.tif:
[testng] 00:25:14,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:25:14,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_00-25-14.log]
[testng] 00:25:14,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21395e09 - End of configuration.
[testng] [2024-12-24 00:25:14,435] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3:
[testng] 00:25:14,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:25:14,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_00-25-14.log]
[testng] 00:25:14,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@116202ea - End of configuration.
[testng] [2024-12-24 00:25:14,516] [pool-1-thread-3] Initializing /data/fluoview/Sample_TwoCH.TIF:
[testng] 00:25:14,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:25:14,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,517 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_00-25-14.log]
[testng] 00:25:14,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@89ce3c8 - End of configuration.
[testng] [2024-12-24 00:25:14,716] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL:
[testng] 00:25:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:25:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:25:14,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_00-25-14.log]
[testng] 00:25:14,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f6c66fb - End of configuration.
[testng] [2024-12-24 00:25:16,904] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm:
[testng] [2024-12-24 00:25:17,123] [pool-1-thread-11] Initializing /data/iplab/Blend_Final.IPL:
[testng] [2024-12-24 00:25:17,156] [pool-1-thread-12] Initializing /data/iplab/3t3 Cell.IPL:
[testng] [2024-12-24 00:25:17,188] [pool-1-thread-2] Initializing /data/fluoview/Sample_XT.tif:
[testng] [2024-12-24 00:25:17,541] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYTCh.tif:
[testng] [2024-12-24 00:25:17,905] [pool-1-thread-1] Initializing /data/iplab/Blend_Dapi.IPL:
[testng] [2024-12-24 00:25:17,967] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm:
[testng] [2024-12-24 00:25:19,864] [pool-1-thread-12] Initializing /data/iplab/Blend_Fitc.IPL:
[testng] [2024-12-24 00:25:20,032] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm:
[testng] [2024-12-24 00:25:20,751] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF:
[testng] [2024-12-24 00:25:21,278] [pool-1-thread-5] Initializing /data/iplab/Blend_Tritc.IPL:
[testng] [2024-12-24 00:25:21,333] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL:
[testng] [2024-12-24 00:25:21,390] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3:
[testng] [2024-12-24 00:25:21,464] [pool-1-thread-9] Initializing /data/fluoview/Sample_XYZ.TIF:
[testng] [2024-12-24 00:25:21,779] [pool-1-thread-3] Initializing /data/iplab/10x Blood and Bacteria.IPL:
[testng] [2024-12-24 00:25:22,579] [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: 7 minutes 49 seconds
Finished: SUCCESS