Started by upstream project "BIOFORMATS-test-repo" build number 192 originally caused by: Started by upstream project "Trigger" build number 214 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins12196919900812375202.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_30387_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] 01:46:48,575 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:46:48,579 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:46:48,579 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:46:48,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:46:48,584 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:46:48,585 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:46:48,585 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 3 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:46:48,585 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:46:48,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:46:48,588 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:46:48,588 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:46:48,588 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:46:48,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:46:48,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:46:48,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:46:48,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:46:48,973 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:46:48,974 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:46:48,975 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:46:48,976 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:46:48,976 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:46:48,978 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:46:48,979 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 393 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-18 01:46:48,996] [main] java.version = 17.0.2 [testng] 01:46:49,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:46:49,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:49,081 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-18_01-46-49.log] [testng] 01:46:49,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-09-18 01:46:49,090] [main] testng.directory = /data [testng] [2024-09-18 01:46:49,090] [main] testng.configDirectory = /config [testng] [2024-09-18 01:46:49,104] [main] testng.multiplier = 1.0 [testng] [2024-09-18 01:46:49,105] [main] testng.in-memory = false [testng] [2024-09-18 01:46:49,106] [main] testng.allow-missing = false [testng] [2024-09-18 01:46:49,106] [main] user.language = en [testng] [2024-09-18 01:46:49,106] [main] user.country = ${user.country} [testng] [2024-09-18 01:46:49,106] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-18 01:46:51,596] [main] ---------------------------------------- [testng] [2024-09-18 01:46:51,597] [main] Total files: 25 [testng] [2024-09-18 01:46:51,597] [main] Scan time: 2.49 s (99 ms/file) [testng] [2024-09-18 01:46:51,597] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-18 01:46:53,076] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:46:53,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:46:53,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,078 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-18_01-46-53.log] [testng] 01:46:53,079 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2af7e3b3 - End of configuration. [testng] [2024-09-18 01:46:53,110] [pool-1-thread-12] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 01:46:53,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:46:53,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-18_01-46-53.log] [testng] 01:46:53,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24025af5 - End of configuration. [testng] [2024-09-18 01:46:53,164] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:46:53,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:46:53,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-18_01-46-53.log] [testng] 01:46:53,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@310ebd70 - End of configuration. [testng] [2024-09-18 01:46:53,177] [pool-1-thread-10] Initializing /data/imagic/TEM 10118.dm2: [testng] 01:46:53,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:46:53,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,179 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-18_01-46-53.log] [testng] 01:46:53,180 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30fb30c9 - End of configuration. [testng] [2024-09-18 01:46:53,224] [pool-1-thread-9] Initializing /data/pang/unproc-auto: [testng] 01:46:53,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:46:53,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-18_01-46-53.log] [testng] 01:46:53,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4453eb07 - End of configuration. [testng] [2024-09-18 01:46:53,249] [pool-1-thread-8] Initializing /data/pang/grating025k.dm2: [testng] 01:46:53,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:46:53,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-18_01-46-53.log] [testng] 01:46:53,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fed7aa2 - End of configuration. [testng] [2024-09-18 01:46:53,266] [pool-1-thread-7] Initializing /data/pang/signed: [testng] 01:46:53,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:46:53,266 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,268 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-18_01-46-53.log] [testng] 01:46:53,268 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4603802f - End of configuration. [testng] [2024-09-18 01:46:53,284] [pool-1-thread-6] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:46:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:46:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-18_01-46-53.log] [testng] 01:46:53,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e3ada9 - End of configuration. [testng] [2024-09-18 01:46:53,306] [pool-1-thread-5] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 01:46:53,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:46:53,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-18_01-46-53.log] [testng] 01:46:53,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31b0fa79 - End of configuration. [testng] [2024-09-18 01:46:53,314] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:46:53,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:46:53,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-18_01-46-53.log] [testng] 01:46:53,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52c0ab2e - End of configuration. [testng] [2024-09-18 01:46:53,322] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 01:46:53,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:46:53,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-18_01-46-53.log] [testng] 01:46:53,324 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d38c92c - End of configuration. [testng] [2024-09-18 01:46:53,341] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 01:46:53,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:46:53,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:53,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-18_01-46-53.log] [testng] 01:46:53,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@611cffa2 - End of configuration. [testng] [2024-09-18 01:46:54,689] [pool-1-thread-1] Initializing /data/imagic/1-1.dm2: [testng] [2024-09-18 01:46:54,744] [pool-1-thread-5] Initializing /data/imagic/13008.dm2: [testng] [2024-09-18 01:46:54,800] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-09-18 01:46:54,813] [pool-1-thread-2] Initializing /data/pang/10500x-o4: [testng] [2024-09-18 01:46:54,867] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-09-18 01:46:55,138] [pool-1-thread-8] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 11 seconds Finished: SUCCESS