Started by upstream project "BIOFORMATS-test-repo" build number 124
originally caused by:
Started by upstream project "Trigger" build number 141
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4
[BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins5585707303641893296.sh
+ '[' mrw = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_19420_merge_ci -v /uod/idr/repos/curated/mrw:/data -v /uod/idr-scratch/merge-ci/curated/mrw:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 02:05:01,217 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:05:01,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service.
[testng] 02:05:01,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:05:01,222 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:05:01,223 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:05:01,223 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:05:01,224 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:05:01,224 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:05:01,225 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:05:01,227 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:05:01,228 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:05:01,228 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:05:01,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:05:01,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:05:01,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:05:01,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:05:01,693 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:05:01,694 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:05:01,694 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:05:01,696 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:05:01,696 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration.
[testng] 02:05:01,698 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point
[testng] 02:05:01,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 474 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-18 02:05:01,725] [main] java.version = 21
[testng] 02:05:01,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:05:01,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:01,807 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-18_02-05-01.log]
[testng] 02:05:01,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration.
[testng] [2024-07-18 02:05:01,814] [main] testng.directory = /data
[testng] [2024-07-18 02:05:01,814] [main] testng.configDirectory = /config
[testng] [2024-07-18 02:05:01,827] [main] testng.multiplier = 1.0
[testng] [2024-07-18 02:05:01,829] [main] testng.in-memory = false
[testng] [2024-07-18 02:05:01,829] [main] testng.allow-missing = false
[testng] [2024-07-18 02:05:01,829] [main] user.language = en
[testng] [2024-07-18 02:05:01,829] [main] user.country = ${user.country}
[testng] [2024-07-18 02:05:01,829] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-07-18 02:05:02,522] [main] ----------------------------------------
[testng] [2024-07-18 02:05:02,522] [main] Total files: 19
[testng] [2024-07-18 02:05:02,523] [main] Scan time: 0.693 s (36 ms/file)
[testng] [2024-07-18 02:05:02,523] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 19 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-18 02:05:05,413] [pool-1-thread-1] Initializing /data/samples/200R PICT0002.MRW:
[testng] 02:05:05,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:05:05,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-18_02-05-05.log]
[testng] 02:05:05,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@455fcc54 - End of configuration.
[testng] [2024-07-18 02:05:05,491] [pool-1-thread-12] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw:
[testng] 02:05:05,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:05:05,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,493 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-18_02-05-05.log]
[testng] 02:05:05,494 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cb879d8 - End of configuration.
[testng] [2024-07-18 02:05:05,537] [pool-1-thread-11] Initializing /data/samples/05-Sep-07_nyc_0531.mrw:
[testng] 02:05:05,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:05:05,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-18_02-05-05.log]
[testng] 02:05:05,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b89bd71 - End of configuration.
[testng] [2024-07-18 02:05:05,658] [pool-1-thread-10] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw:
[testng] 02:05:05,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:05:05,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-18_02-05-05.log]
[testng] 02:05:05,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6535a1df - End of configuration.
[testng] [2024-07-18 02:05:05,782] [pool-1-thread-9] Initializing /data/samples/05-Sep-22_statua_0818.mrw:
[testng] 02:05:05,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:05:05,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-18_02-05-05.log]
[testng] 02:05:05,787 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c74ced6 - End of configuration.
[testng] [2024-07-18 02:05:05,880] [pool-1-thread-8] Initializing /data/samples/05-Sep-22_statua_0837.mrw:
[testng] 02:05:05,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:05:05,882 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:05,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-18_02-05-05.log]
[testng] 02:05:05,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b37b149 - End of configuration.
[testng] [2024-07-18 02:05:06,023] [pool-1-thread-7] Initializing /data/samples/400R PICT0003.MRW:
[testng] 02:05:06,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:05:06,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,026 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-18_02-05-06.log]
[testng] 02:05:06,027 |-INFO in ch.qos.logback.core.sift.SiftProcessor@233bbffd - End of configuration.
[testng] [2024-07-18 02:05:06,115] [pool-1-thread-6] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw:
[testng] 02:05:06,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:05:06,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,117 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-18_02-05-06.log]
[testng] 02:05:06,118 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b4eea6f - End of configuration.
[testng] [2024-07-18 02:05:06,190] [pool-1-thread-5] Initializing /data/samples/05-Sep-22_statua_0800.mrw:
[testng] 02:05:06,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:05:06,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-18_02-05-06.log]
[testng] 02:05:06,196 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b859d5b - End of configuration.
[testng] [2024-07-18 02:05:06,277] [pool-1-thread-4] Initializing /data/samples/800R PICT0010.MRW:
[testng] 02:05:06,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:05:06,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-18_02-05-06.log]
[testng] 02:05:06,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c6ce2c6 - End of configuration.
[testng] [2024-07-18 02:05:06,368] [pool-1-thread-3] Initializing /data/samples/3200R PICT0006.MRW:
[testng] 02:05:06,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:05:06,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-18_02-05-06.log]
[testng] 02:05:06,371 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2adf31de - End of configuration.
[testng] [2024-07-18 02:05:06,482] [pool-1-thread-2] Initializing /data/samples/05-Aug-21_duperele_0353.mrw:
[testng] 02:05:06,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:05:06,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:05:06,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-18_02-05-06.log]
[testng] 02:05:06,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c016ea - End of configuration.
[testng] [2024-07-18 02:05:15,714] [pool-1-thread-11] Initializing /data/samples/05-Sep-14_sigma_0698.mrw:
[testng] [2024-07-18 02:05:15,736] [pool-1-thread-10] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw:
[testng] [2024-07-18 02:05:15,764] [pool-1-thread-1] Initializing /data/samples/1600R PICT0005.MRW:
[testng] [2024-07-18 02:05:15,788] [pool-1-thread-9] Initializing /data/samples/05-Sep-03_duperele_0472.mrw:
[testng] [2024-07-18 02:05:15,810] [pool-1-thread-3] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw:
[testng] [2024-07-18 02:05:15,834] [pool-1-thread-6] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw:
[testng] [2024-07-18 02:05:15,861] [pool-1-thread-5] Initializing /data/samples/100R PICT0001.MRW:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1007, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 25 seconds
Finished: SUCCESS