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Started by upstream project "BIOFORMATS-test-repo" build number 113 originally caused by: Started by upstream project "Trigger" build number 126 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/jenkins3263262991553115905.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17588_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 01:40:36,553 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:40:36,555 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 01:40:36,556 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:36,557 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:40:36,558 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:40:36,558 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:40:36,559 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:40:36,559 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:36,559 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:40:36,560 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:40:36,561 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:40:36,561 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:40:36,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:40:36,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:40:36,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:40:36,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:40:36,758 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:40:36,758 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:40:36,758 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:40:36,758 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:40:36,758 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 01:40:36,759 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 01:40:36,759 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 200 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-06 01:40:36,768] [main] java.version = 11.0.16 [testng] 01:40:36,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:40:36,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:36,813 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-06_01-40-36.log] [testng] 01:40:36,815 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-06 01:40:36,817] [main] testng.directory = /data [testng] [2024-07-06 01:40:36,817] [main] testng.configDirectory = /config [testng] [2024-07-06 01:40:36,826] [main] testng.multiplier = 1.0 [testng] [2024-07-06 01:40:36,828] [main] testng.in-memory = false [testng] [2024-07-06 01:40:36,828] [main] testng.allow-missing = false [testng] [2024-07-06 01:40:36,828] [main] user.language = en [testng] [2024-07-06 01:40:36,828] [main] user.country = ${user.country} [testng] [2024-07-06 01:40:36,828] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-06 01:40:37,864] [main] ---------------------------------------- [testng] [2024-07-06 01:40:37,864] [main] Total files: 25 [testng] [2024-07-06 01:40:37,864] [main] Scan time: 1.036 s (41 ms/file) [testng] [2024-07-06 01:40:37,864] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-06 01:40:39,122] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 01:40:39,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:40:39,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-06_01-40-39.log] [testng] 01:40:39,125 |-INFO in ch.qos.logback.core.sift.SiftProcessor@188b4e94 - End of configuration. [testng] [2024-07-06 01:40:39,142] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 01:40:39,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:40:39,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,144 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-06_01-40-39.log] [testng] 01:40:39,144 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fa4057 - End of configuration. [testng] [2024-07-06 01:40:39,150] [pool-1-thread-11] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:40:39,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:40:39,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,151 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-06_01-40-39.log] [testng] 01:40:39,151 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25c075f9 - End of configuration. [testng] [2024-07-06 01:40:39,169] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:40:39,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:40:39,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,170 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-06_01-40-39.log] [testng] 01:40:39,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c5e775c - End of configuration. [testng] [2024-07-06 01:40:39,178] [pool-1-thread-9] Initializing /data/imagic/1-1.dm2: [testng] 01:40:39,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:40:39,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,179 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-06_01-40-39.log] [testng] 01:40:39,180 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a7af343 - End of configuration. [testng] [2024-07-06 01:40:39,200] [pool-1-thread-8] Initializing /data/pang/signed: [testng] 01:40:39,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:40:39,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,202 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-06_01-40-39.log] [testng] 01:40:39,202 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ac7ccde - End of configuration. [testng] [2024-07-06 01:40:39,219] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 01:40:39,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:40:39,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,221 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-06_01-40-39.log] [testng] 01:40:39,221 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68bfa50d - End of configuration. [testng] [2024-07-06 01:40:39,230] [pool-1-thread-6] Initializing /data/pang/unproc-auto: [testng] 01:40:39,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:40:39,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-06_01-40-39.log] [testng] 01:40:39,232 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d2ff85f - End of configuration. [testng] [2024-07-06 01:40:39,251] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:40:39,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:40:39,252 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-06_01-40-39.log] [testng] 01:40:39,253 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d19ce0d - End of configuration. [testng] [2024-07-06 01:40:39,257] [pool-1-thread-4] Initializing /data/imagic/TEM 10118.dm2: [testng] 01:40:39,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:40:39,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-06_01-40-39.log] [testng] 01:40:39,259 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15deb839 - End of configuration. [testng] [2024-07-06 01:40:39,276] [pool-1-thread-3] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 01:40:39,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:40:39,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,277 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-06_01-40-39.log] [testng] 01:40:39,278 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd2ebf0 - End of configuration. [testng] [2024-07-06 01:40:39,293] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:40:39,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:40:39,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:40:39,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-06_01-40-39.log] [testng] 01:40:39,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ed65e2 - End of configuration. [testng] [2024-07-06 01:40:41,226] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] [2024-07-06 01:40:41,237] [pool-1-thread-10] Initializing /data/pang/grating025k.dm2: [testng] [2024-07-06 01:40:41,249] [pool-1-thread-7] Initializing /data/pang/10500x-o4: [testng] [2024-07-06 01:40:41,264] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-07-06 01:40:41,268] [pool-1-thread-8] Initializing /data/imagic/13008.dm2: [testng] [2024-07-06 01:40:41,282] [pool-1-thread-6] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 8 seconds Finished: SUCCESS