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Started by upstream project "BIOFORMATS-test-repo" build number 127 originally caused by: Started by upstream project "Trigger" build number 144 originally caused by: Started by timer 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/jenkins10928526729353314164.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_19912_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] 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] 02:06:37,777 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:06:37,779 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:06:37,779 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:06:37,780 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:06:37,781 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:06:37,781 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:06:37,782 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:06:37,782 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:06:37,782 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:06:37,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:06:37,784 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:06:37,785 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:06:38,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:06:38,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:06:38,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:06:38,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:06:38,066 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:06:38,066 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:06:38,066 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:06:38,067 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:06:38,067 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:06:38,068 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:06:38,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 286 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-21 02:06:38,083] [main] java.version = 17.0.2 [testng] 02:06:38,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:06:38,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:38,150 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-21_02-06-38.log] [testng] 02:06:38,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-21 02:06:38,156] [main] testng.directory = /data [testng] [2024-07-21 02:06:38,156] [main] testng.configDirectory = /config [testng] [2024-07-21 02:06:38,171] [main] testng.multiplier = 1.0 [testng] [2024-07-21 02:06:38,173] [main] testng.in-memory = false [testng] [2024-07-21 02:06:38,173] [main] testng.allow-missing = false [testng] [2024-07-21 02:06:38,173] [main] user.language = en [testng] [2024-07-21 02:06:38,173] [main] user.country = ${user.country} [testng] [2024-07-21 02:06:38,173] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-21 02:06:38,725] [main] ---------------------------------------- [testng] [2024-07-21 02:06:38,725] [main] Total files: 19 [testng] [2024-07-21 02:06:38,725] [main] Scan time: 0.552 s (29 ms/file) [testng] [2024-07-21 02:06:38,726] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-21 02:06:41,628] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] 02:06:41,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:06:41,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-21_02-06-41.log] [testng] 02:06:41,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a000182 - End of configuration. [testng] [2024-07-21 02:06:41,669] [pool-1-thread-12] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 02:06:41,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:06:41,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-21_02-06-41.log] [testng] 02:06:41,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a38dfd9 - End of configuration. [testng] [2024-07-21 02:06:41,756] [pool-1-thread-11] Initializing /data/samples/400R PICT0003.MRW: [testng] 02:06:41,756 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:06:41,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-21_02-06-41.log] [testng] 02:06:41,759 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d2a9eee - End of configuration. [testng] [2024-07-21 02:06:41,783] [pool-1-thread-10] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 02:06:41,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:06:41,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,784 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-21_02-06-41.log] [testng] 02:06:41,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69683f83 - End of configuration. [testng] [2024-07-21 02:06:41,819] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] 02:06:41,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:06:41,819 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,821 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-21_02-06-41.log] [testng] 02:06:41,822 |-INFO in ch.qos.logback.core.sift.SiftProcessor@616c7f82 - End of configuration. [testng] [2024-07-21 02:06:41,888] [pool-1-thread-8] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] 02:06:41,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:06:41,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-21_02-06-41.log] [testng] 02:06:41,892 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2314a47 - End of configuration. [testng] [2024-07-21 02:06:41,950] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] 02:06:41,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:06:41,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-21_02-06-41.log] [testng] 02:06:41,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ae8071 - End of configuration. [testng] [2024-07-21 02:06:41,990] [pool-1-thread-6] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] 02:06:41,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:06:41,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:41,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-21_02-06-41.log] [testng] 02:06:41,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26fa8739 - End of configuration. [testng] [2024-07-21 02:06:42,051] [pool-1-thread-5] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 02:06:42,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:06:42,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:42,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-21_02-06-42.log] [testng] 02:06:42,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c4f73d2 - End of configuration. [testng] [2024-07-21 02:06:42,114] [pool-1-thread-4] Initializing /data/samples/1600R PICT0005.MRW: [testng] 02:06:42,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:06:42,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:42,116 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-21_02-06-42.log] [testng] 02:06:42,117 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f3c44a7 - End of configuration. [testng] [2024-07-21 02:06:42,173] [pool-1-thread-3] Initializing /data/samples/3200R PICT0006.MRW: [testng] 02:06:42,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:06:42,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:42,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-21_02-06-42.log] [testng] 02:06:42,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@534d808f - End of configuration. [testng] [2024-07-21 02:06:42,237] [pool-1-thread-2] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 02:06:42,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:06:42,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:06:42,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-21_02-06-42.log] [testng] 02:06:42,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ae53be5 - End of configuration. [testng] [2024-07-21 02:06:51,968] [pool-1-thread-4] Initializing /data/samples/100R PICT0001.MRW: [testng] [2024-07-21 02:06:52,006] [pool-1-thread-5] Initializing /data/samples/200R PICT0002.MRW: [testng] [2024-07-21 02:06:52,054] [pool-1-thread-7] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] [2024-07-21 02:06:52,093] [pool-1-thread-11] Initializing /data/samples/800R PICT0010.MRW: [testng] [2024-07-21 02:06:52,140] [pool-1-thread-10] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] [2024-07-21 02:06:52,244] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] [2024-07-21 02:06:52,294] [pool-1-thread-12] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 24 seconds Finished: SUCCESS