Started by upstream project "BIOFORMATS-test-repo" build number 263
originally caused by:
Started by user devspace
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7
[BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins1157543721140413515.sh
+ '[' specs = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_41475_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
[javac] warning: [options] bootstrap class path not set in conjunction with -source 8
[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
test-automated:
[testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket
[testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket
[testng] File leak detector installed
[testng] 15:36:36,257 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 15:36:36,258 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 15:36:36,258 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 15:36:36,259 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 15:36:36,260 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 15:36:36,260 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 15:36:36,260 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 15:36:36,260 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 15:36:36,261 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 15:36:36,262 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 15:36:36,262 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 15:36:36,262 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 15:36:36,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 15:36:36,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 15:36:36,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 15:36:36,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 15:36:36,460 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 15:36:36,460 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 15:36:36,460 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 15:36:36,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 15:36:36,461 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 15:36:36,461 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 15:36:36,462 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 200 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-21 15:36:36,471] [main] java.version = 21
[testng] 15:36:36,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 15:36:36,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:36:36,518 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-21_15-36-36.log]
[testng] 15:36:36,520 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-11-21 15:36:36,521] [main] testng.directory = /data
[testng] [2024-11-21 15:36:36,522] [main] testng.configDirectory = /config
[testng] [2024-11-21 15:36:36,531] [main] testng.multiplier = 1.0
[testng] [2024-11-21 15:36:36,532] [main] testng.in-memory = false
[testng] [2024-11-21 15:36:36,532] [main] testng.allow-missing = false
[testng] [2024-11-21 15:36:36,532] [main] user.language = en
[testng] [2024-11-21 15:36:36,532] [main] user.country = ${user.country}
[testng] [2024-11-21 15:36:36,532] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-21 15:42:01,484] [main] ----------------------------------------
[testng] [2024-11-21 15:42:01,484] [main] Total files: 226
[testng] [2024-11-21 15:42:01,484] [main] Scan time: 324.951 s (1437 ms/file)
[testng] [2024-11-21 15:42:01,484] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 28 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-21 15:47:07,757] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF:
[testng] 15:47:07,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 15:47:07,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:07,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-21_15-47-07.log]
[testng] 15:47:07,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@442b3d67 - End of configuration.
[testng] [2024-11-21 15:47:08,712] [pool-1-thread-12] Initializing /data/iplab/3t3 Cell.IPL:
[testng] 15:47:08,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 15:47:08,713 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:08,713 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-21_15-47-08.log]
[testng] 15:47:08,714 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f06a2b2 - End of configuration.
[testng] [2024-11-21 15:47:08,835] [pool-1-thread-11] Initializing /data/iplab/Blend_Final.IPL:
[testng] 15:47:08,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 15:47:08,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:08,836 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-21_15-47-08.log]
[testng] 15:47:08,837 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ae25506 - End of configuration.
[testng] [2024-11-21 15:47:08,968] [pool-1-thread-10] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm:
[testng] 15:47:08,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 15:47:08,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:08,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-21_15-47-08.log]
[testng] 15:47:08,969 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d632233 - End of configuration.
[testng] [2024-11-21 15:47:09,812] [pool-1-thread-9] Initializing /data/iplab/Color Image.IPL:
[testng] 15:47:09,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 15:47:09,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:09,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-21_15-47-09.log]
[testng] 15:47:09,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f82be93 - End of configuration.
[testng] [2024-11-21 15:47:09,960] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm:
[testng] 15:47:09,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 15:47:09,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:09,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-21_15-47-09.log]
[testng] 15:47:09,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65a71622 - End of configuration.
[testng] [2024-11-21 15:47:10,830] [pool-1-thread-7] Initializing /data/iplab/Blend_DIC.IPL:
[testng] 15:47:10,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 15:47:10,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:10,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-21_15-47-10.log]
[testng] 15:47:10,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a002f1 - End of configuration.
[testng] [2024-11-21 15:47:10,954] [pool-1-thread-6] Initializing /data/iplab/Blend_Dapi.IPL:
[testng] 15:47:10,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 15:47:10,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:10,955 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-21_15-47-10.log]
[testng] 15:47:10,955 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2878c1ae - End of configuration.
[testng] [2024-11-21 15:47:11,061] [pool-1-thread-5] Initializing /data/iplab/16Bit XRay.IPL:
[testng] 15:47:11,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 15:47:11,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:11,062 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-21_15-47-11.log]
[testng] 15:47:11,062 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fefc15a - End of configuration.
[testng] [2024-11-21 15:47:11,188] [pool-1-thread-4] Initializing /data/iplab/Actin.IPL:
[testng] 15:47:11,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 15:47:11,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:11,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-21_15-47-11.log]
[testng] 15:47:11,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@340030bc - End of configuration.
[testng] [2024-11-21 15:47:11,334] [pool-1-thread-3] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3:
[testng] 15:47:11,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 15:47:11,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:11,335 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-21_15-47-11.log]
[testng] 15:47:11,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56af8fea - End of configuration.
[testng] [2024-11-21 15:47:11,561] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm:
[testng] 15:47:11,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 15:47:11,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 15:47:11,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-21_15-47-11.log]
[testng] 15:47:11,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@748d93bb - End of configuration.
[testng] [2024-11-21 15:47:17,225] [pool-1-thread-5] Initializing /data/fluoview/Sample_XYZ.TIF:
[testng] [2024-11-21 15:47:18,330] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYZCh.tif:
[testng] [2024-11-21 15:47:19,365] [pool-1-thread-12] Initializing /data/iplab/Chromosomes.IPL:
[testng] [2024-11-21 15:47:19,543] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3:
[testng] [2024-11-21 15:47:19,727] [pool-1-thread-11] Initializing /data/fluoview/sample_labled_XYZTCh.tif:
[testng] [2024-11-21 15:47:20,576] [pool-1-thread-7] Initializing /data/iplab/10x Blood and Bacteria.IPL:
[testng] [2024-11-21 15:47:20,723] [pool-1-thread-6] Initializing /data/iplab/Blend_Tritc.IPL:
[testng] [2024-11-21 15:47:20,869] [pool-1-thread-3] Initializing /data/iplab/Color Histology.IPL:
[testng] [2024-11-21 15:47:23,912] [pool-1-thread-12] Initializing /data/iplab/Blend_Fitc.IPL:
[testng] [2024-11-21 15:47:24,192] [pool-1-thread-3] Initializing /data/fluoview/Sample_XT.tif:
[testng] [2024-11-21 15:47:25,486] [pool-1-thread-6] Initializing /data/fluoview/SpineAnimation.tif:
[testng] [2024-11-21 15:47:26,597] [pool-1-thread-7] Initializing /data/fluoview/Sample_TwoCH.TIF:
[testng] [2024-11-21 15:47:27,340] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYTCh.tif:
[testng] [2024-11-21 15:47:28,180] [pool-1-thread-1] Initializing /data/fluoview/Sample_ThreeCH.TIF:
[testng] [2024-11-21 15:47:31,585] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3:
[testng] [2024-11-21 15:47:33,720] [pool-1-thread-9] Initializing /data/fluoview/SpineAnimation.avi:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1484, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 11 minutes 5 seconds
Finished: SUCCESS