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Started by upstream project "BIOFORMATS-test-repo" build number 384 originally caused by: Started by user devspace 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/jenkins2857356004543186837.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60825_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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] 18:44:11,965 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 18:44:11,966 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 18:44:11,966 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 18:44:11,967 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 18:44:11,967 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 18:44:11,968 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 18:44:11,968 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 18:44:11,968 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 18:44:11,968 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 18:44:11,969 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 18:44:11,969 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 18:44:11,969 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 18:44:12,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 18:44:12,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 18:44:12,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 18:44:12,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 18:44:12,151 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 18:44:12,151 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 18:44:12,152 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 18:44:12,152 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 18:44:12,152 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 18:44:12,153 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 18:44:12,153 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-19 18:44:12,161] [main] java.version = 17.0.2 [testng] 18:44:12,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 18:44:12,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:44:12,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-19_18-44-12.log] [testng] 18:44:12,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-19 18:44:12,207] [main] testng.directory = /data [testng] [2025-03-19 18:44:12,208] [main] testng.configDirectory = /config [testng] [2025-03-19 18:44:12,216] [main] testng.multiplier = 1.0 [testng] [2025-03-19 18:44:12,217] [main] testng.in-memory = false [testng] [2025-03-19 18:44:12,217] [main] testng.allow-missing = false [testng] [2025-03-19 18:44:12,217] [main] user.language = en [testng] [2025-03-19 18:44:12,217] [main] user.country = ${user.country} [testng] [2025-03-19 18:44:12,217] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-19 18:45:00,230] [main] ---------------------------------------- [testng] [2025-03-19 18:45:00,230] [main] Total files: 944 [testng] [2025-03-19 18:45:00,230] [main] Scan time: 48.012 s (50 ms/file) [testng] [2025-03-19 18:45:00,230] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-19 18:51:52,344] [pool-1-thread-1] Initializing /data/brian/Series002_z01.tif: [testng] 18:51:52,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 18:51:52,344 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:51:52,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-19_18-51-52.log] [testng] 18:51:52,345 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dd79ddf - End of configuration. [testng] [2025-03-19 18:52:03,771] [pool-1-thread-12] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 18:52:03,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 18:52:03,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:52:03,772 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-19_18-52-03.log] [testng] 18:52:03,772 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19db13c8 - End of configuration. [testng] [2025-03-19 18:52:14,482] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 18:52:14,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 18:52:14,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:52:14,483 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-19_18-52-14.log] [testng] 18:52:14,484 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6efd9437 - End of configuration. [testng] [2025-03-19 18:52:21,130] [pool-1-thread-10] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 18:52:21,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 18:52:21,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:52:21,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-19_18-52-21.log] [testng] 18:52:21,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a1be6c0 - End of configuration. [testng] [2025-03-19 18:52:28,196] [pool-1-thread-9] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 18:52:28,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 18:52:28,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:52:28,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-19_18-52-28.log] [testng] 18:52:28,197 |-INFO in ch.qos.logback.core.sift.SiftProcessor@261e4ae3 - End of configuration. [testng] [2025-03-19 18:55:58,925] [pool-1-thread-8] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 18:55:58,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 18:55:58,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:55:58,926 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-19_18-55-58.log] [testng] 18:55:58,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bbf2160 - End of configuration. [testng] [2025-03-19 18:56:03,663] [pool-1-thread-7] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 18:56:03,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 18:56:03,663 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:03,664 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-19_18-56-03.log] [testng] 18:56:03,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2178fc12 - End of configuration. [testng] [2025-03-19 18:56:10,157] [pool-1-thread-6] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 18:56:10,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 18:56:10,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:10,158 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-19_18-56-10.log] [testng] 18:56:10,159 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57e6d10c - End of configuration. [testng] [2025-03-19 18:56:15,264] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 18:56:15,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 18:56:15,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:15,265 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-19_18-56-15.log] [testng] 18:56:15,265 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6265941d - End of configuration. [testng] [2025-03-19 18:56:21,726] [pool-1-thread-4] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 18:56:21,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 18:56:21,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:21,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-19_18-56-21.log] [testng] 18:56:21,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f5d248 - End of configuration. [testng] [2025-03-19 18:56:27,394] [pool-1-thread-3] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 18:56:27,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 18:56:27,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:27,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-19_18-56-27.log] [testng] 18:56:27,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eca686c - End of configuration. [testng] [2025-03-19 18:56:32,529] [pool-1-thread-2] Initializing /data/primate/Leica_Image.tif: [testng] 18:56:32,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 18:56:32,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 18:56:32,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-19_18-56-32.log] [testng] 18:56:32,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bf75dbe - End of configuration. [testng] [2025-03-19 18:57:09,525] [pool-1-thread-11] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] [2025-03-19 18:57:11,915] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] [2025-03-19 18:57:17,986] [pool-1-thread-1] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 00:15:25,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:15:25,690 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:15:25,691 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-20_00-15-25.log] [testng] 00:15:25,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33eb6758 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 331 minutes 18 seconds Finished: SUCCESS