Started by upstream project "BIOFORMATS-test-repo" build number 4
originally caused by:
Started by upstream project "Trigger" build number 5
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/jenkins1667341285504137054.sh
+ '[' bmp = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_487_merge_ci -v /uod/idr/repos/curated/bmp:/data -v /uod/idr-scratch/merge-ci/curated/bmp:/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] 1 warning
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] 00:23:32,737 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:23:32,738 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 00:23:32,738 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:23:32,739 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:23:32,739 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:23:32,740 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:23:32,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:23:32,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:23:32,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:23:32,741 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:23:32,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:23:32,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:23:32,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:23:32,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:23:32,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:23:32,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:23:32,947 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:23:32,947 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:23:32,947 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:23:32,947 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:23:32,948 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 00:23:32,948 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 00:23:32,948 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 207 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-03-17 00:23:32,958] [main] java.version = 17.0.2
[testng] 00:23:32,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:23:32,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:33,007 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-17_00-23-32.log]
[testng] 00:23:33,008 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-03-17 00:23:33,011] [main] testng.directory = /data
[testng] [2024-03-17 00:23:33,011] [main] testng.configDirectory = /config
[testng] [2024-03-17 00:23:33,020] [main] testng.multiplier = 1.0
[testng] [2024-03-17 00:23:33,021] [main] testng.in-memory = false
[testng] [2024-03-17 00:23:33,021] [main] testng.allow-missing = false
[testng] [2024-03-17 00:23:33,021] [main] user.language = en
[testng] [2024-03-17 00:23:33,021] [main] user.country = ${user.country}
[testng] [2024-03-17 00:23:33,021] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-03-17 00:23:33,455] [main] ----------------------------------------
[testng] [2024-03-17 00:23:33,455] [main] Total files: 31
[testng] [2024-03-17 00:23:33,455] [main] Scan time: 0.434 s (14 ms/file)
[testng] [2024-03-17 00:23:33,455] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 31 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-03-17 00:23:36,176] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp:
[testng] 00:23:36,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:23:36,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,178 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-17_00-23-36.log]
[testng] 00:23:36,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2abad664 - End of configuration.
[testng] [2024-03-17 00:23:36,218] [pool-1-thread-12] Initializing /data/big-images/6kx6k.bmp:
[testng] 00:23:36,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:23:36,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-17_00-23-36.log]
[testng] 00:23:36,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71a34a19 - End of configuration.
[testng] [2024-03-17 00:23:36,269] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp:
[testng] 00:23:36,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:23:36,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-17_00-23-36.log]
[testng] 00:23:36,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4578b14a - End of configuration.
[testng] [2024-03-17 00:23:36,302] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp:
[testng] 00:23:36,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:23:36,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-17_00-23-36.log]
[testng] 00:23:36,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@552a98e8 - End of configuration.
[testng] [2024-03-17 00:23:36,338] [pool-1-thread-9] Initializing /data/brian/images/raw_a.bmp:
[testng] 00:23:36,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:23:36,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-17_00-23-36.log]
[testng] 00:23:36,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@98fffe3 - End of configuration.
[testng] [2024-03-17 00:23:36,372] [pool-1-thread-8] Initializing /data/brian/images/23srp5dksub.bmp:
[testng] 00:23:36,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:23:36,372 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,373 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-17_00-23-36.log]
[testng] 00:23:36,373 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d31d19f - End of configuration.
[testng] [2024-03-17 00:23:36,416] [pool-1-thread-7] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp:
[testng] 00:23:36,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:23:36,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-17_00-23-36.log]
[testng] 00:23:36,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62823acf - End of configuration.
[testng] [2024-03-17 00:23:36,447] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Two.bmp:
[testng] 00:23:36,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:23:36,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-17_00-23-36.log]
[testng] 00:23:36,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74b2f251 - End of configuration.
[testng] [2024-03-17 00:23:36,478] [pool-1-thread-5] Initializing /data/curtis/image1.bmp:
[testng] 00:23:36,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:23:36,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-17_00-23-36.log]
[testng] 00:23:36,480 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d608af5 - End of configuration.
[testng] [2024-03-17 00:23:36,508] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp:
[testng] 00:23:36,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:23:36,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-17_00-23-36.log]
[testng] 00:23:36,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8993ec1 - End of configuration.
[testng] [2024-03-17 00:23:36,545] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Seven.bmp:
[testng] 00:23:36,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:23:36,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,546 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-17_00-23-36.log]
[testng] 00:23:36,546 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25f195f1 - End of configuration.
[testng] [2024-03-17 00:23:36,576] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp:
[testng] 00:23:36,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:23:36,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:36,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-17_00-23-36.log]
[testng] 00:23:36,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60aae8bf - End of configuration.
[testng] [2024-03-17 00:23:38,381] [pool-1-thread-11] Initializing /data/brian/images/raw_a_rg.bmp:
[testng] [2024-03-17 00:23:38,402] [pool-1-thread-5] Initializing /data/curtis/image3.bmp:
[testng] [2024-03-17 00:23:38,418] [pool-1-thread-9] Initializing /data/frank/cell_mask_error.bmp:
[testng] [2024-03-17 00:23:38,433] [pool-1-thread-2] Initializing /data/brian/images/DMSOHigh_001.bmp:
[testng] [2024-03-17 00:23:38,454] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Eight.bmp:
[testng] [2024-03-17 00:23:38,478] [pool-1-thread-10] Initializing /data/brian/images/raw_a_rg.tiff:
[testng] [2024-03-17 00:23:38,910] [pool-1-thread-6] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp:
[testng] [2024-03-17 00:23:38,930] [pool-1-thread-8] Initializing /data/stephane/holo0908.bmp:
[testng] [2024-03-17 00:23:39,313] [pool-1-thread-7] Initializing /data/curtis/image2.bmp:
[testng] [2024-03-17 00:23:39,534] [pool-1-thread-1] Initializing /data/big-images/8kx8k.bmp:
[testng] [2024-03-17 00:23:39,902] [pool-1-thread-5] Initializing /data/curtis/image4.bmp:
[testng] [2024-03-17 00:23:39,957] [pool-1-thread-6] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp:
[testng] [2024-03-17 00:23:39,997] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Five.bmp:
[testng] [2024-03-17 00:23:40,145] [pool-1-thread-3] Initializing /data/curtis/image5.bmp:
[testng] [2024-03-17 00:23:40,177] [pool-1-thread-9] Initializing /data/brian/images/kidney_TFl_1.bmp:
[testng] [2024-03-17 00:23:40,203] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Nine.bmp:
[testng] [2024-03-17 00:23:40,292] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_One.bmp:
[testng] [2024-03-17 00:23:40,416] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Six.bmp:
[testng] [2024-03-17 00:23:40,581] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1643, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 37 seconds
Finished: SUCCESS