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Started by upstream project "BIOFORMATS-test-repo" build number 225 originally caused by: Started by user devspace 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/jenkins3861879266543391083.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35498_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 15:11:35,732 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 15:11:35,733 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 15:11:35,733 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:11:35,734 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 15:11:35,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 15:11:35,735 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 15:11:35,735 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 15:11:35,735 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:11:35,736 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 15:11:35,736 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 15:11:35,736 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 15:11:35,737 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 15:11:35,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 15:11:35,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 15:11:35,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 15:11:35,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 15:11:35,919 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 15:11:35,919 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 15:11:35,919 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 15:11:35,920 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 15:11:35,920 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 15:11:35,921 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 15:11:35,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-17 15:11:35,929] [main] java.version = 21 [testng] 15:11:35,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 15:11:35,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:11:35,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-17_15-11-35.log] [testng] 15:11:35,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-10-17 15:11:35,976] [main] testng.directory = /data [testng] [2024-10-17 15:11:35,976] [main] testng.configDirectory = /config [testng] [2024-10-17 15:11:35,985] [main] testng.multiplier = 1.0 [testng] [2024-10-17 15:11:35,985] [main] testng.in-memory = false [testng] [2024-10-17 15:11:35,985] [main] testng.allow-missing = false [testng] [2024-10-17 15:11:35,985] [main] user.language = en [testng] [2024-10-17 15:11:35,985] [main] user.country = ${user.country} [testng] [2024-10-17 15:11:35,985] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-17 15:12:57,524] [main] ---------------------------------------- [testng] [2024-10-17 15:12:57,525] [main] Total files: 25 [testng] [2024-10-17 15:12:57,525] [main] Scan time: 81.539 s (3261 ms/file) [testng] [2024-10-17 15:12:57,525] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-17 15:14:34,596] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 15:14:34,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 15:14:34,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:34,598 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-17_15-14-34.log] [testng] 15:14:34,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@628cb6c2 - End of configuration. [testng] [2024-10-17 15:14:34,794] [pool-1-thread-12] Initializing /data/imagic/TEM 10118.dm2: [testng] 15:14:34,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 15:14:34,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:34,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-17_15-14-34.log] [testng] 15:14:34,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f6f9b22 - End of configuration. [testng] [2024-10-17 15:14:35,922] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 15:14:35,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 15:14:35,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:35,924 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-17_15-14-35.log] [testng] 15:14:35,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6eaaaea6 - End of configuration. [testng] [2024-10-17 15:14:37,292] [pool-1-thread-10] Initializing /data/pang/unproc-auto: [testng] 15:14:37,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 15:14:37,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:37,293 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-17_15-14-37.log] [testng] 15:14:37,293 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69f8b103 - End of configuration. [testng] [2024-10-17 15:14:38,686] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 15:14:38,686 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 15:14:38,686 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:38,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-17_15-14-38.log] [testng] 15:14:38,687 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25cba300 - End of configuration. [testng] [2024-10-17 15:14:38,911] [pool-1-thread-8] Initializing /data/imagic/1-1.dm2: [testng] 15:14:38,911 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 15:14:38,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:38,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-17_15-14-38.log] [testng] 15:14:38,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@571ac318 - End of configuration. [testng] [2024-10-17 15:14:40,269] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 15:14:40,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 15:14:40,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:40,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-17_15-14-40.log] [testng] 15:14:40,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58d15b70 - End of configuration. [testng] [2024-10-17 15:14:40,488] [pool-1-thread-6] Initializing /data/pang/signed: [testng] 15:14:40,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 15:14:40,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:40,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-17_15-14-40.log] [testng] 15:14:40,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@565bb2cc - End of configuration. [testng] [2024-10-17 15:14:42,577] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 15:14:42,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 15:14:42,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:42,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-17_15-14-42.log] [testng] 15:14:42,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@605b712d - End of configuration. [testng] [2024-10-17 15:14:43,500] [pool-1-thread-4] Initializing /data/pang/10500x-o4: [testng] 15:14:43,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 15:14:43,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:43,501 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-17_15-14-43.log] [testng] 15:14:43,501 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79170391 - End of configuration. [testng] [2024-10-17 15:14:43,848] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 15:14:43,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 15:14:43,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:43,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-17_15-14-43.log] [testng] 15:14:43,850 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59e7a2e6 - End of configuration. [testng] [2024-10-17 15:14:43,944] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 15:14:43,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 15:14:43,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 15:14:43,944 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-17_15-14-43.log] [testng] 15:14:43,945 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b15497 - End of configuration. [testng] [2024-10-17 15:14:48,054] [pool-1-thread-9] Initializing /data/imagic/13008.dm2: [testng] [2024-10-17 15:14:48,485] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] [2024-10-17 15:14:48,848] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-10-17 15:14:48,949] [pool-1-thread-2] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2024-10-17 15:14:49,639] [pool-1-thread-7] Initializing /data/pang/grating025k.dm2: [testng] [2024-10-17 15:14:51,039] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 25 seconds Finished: SUCCESS