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Started by upstream project "BIOFORMATS-test-repo" build number 300 originally caused by: Started by upstream project "Trigger" build number 322 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/jenkins8336903312206701954.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47465_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 test-automated: [testng] File leak detector installed [testng] 01:36:17,859 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:36:17,861 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:36:17,861 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:36:17,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:36:17,862 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:36:17,862 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:36:17,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:36:17,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:36:17,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:36:17,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:36:17,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:36:17,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:36:18,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:36:18,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:36:18,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:36:18,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:36:18,125 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:36:18,125 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:36:18,125 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:36:18,126 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:36:18,126 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:36:18,127 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:36:18,127 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 264 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-27 01:36:18,137] [main] java.version = 1.8.0_342 [testng] 01:36:18,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:36:18,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:36:18,186 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-27_01-36-18.log] [testng] 01:36:18,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-27 01:36:18,189] [main] testng.directory = /data [testng] [2024-12-27 01:36:18,190] [main] testng.configDirectory = /config [testng] [2024-12-27 01:36:18,202] [main] testng.multiplier = 1.0 [testng] [2024-12-27 01:36:18,202] [main] testng.in-memory = false [testng] [2024-12-27 01:36:18,202] [main] testng.allow-missing = false [testng] [2024-12-27 01:36:18,202] [main] user.language = en [testng] [2024-12-27 01:36:18,202] [main] user.country = ${user.country} [testng] [2024-12-27 01:36:18,202] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-27 01:36:40,603] [main] ---------------------------------------- [testng] [2024-12-27 01:36:40,603] [main] Total files: 25 [testng] [2024-12-27 01:36:40,603] [main] Scan time: 22.401 s (896 ms/file) [testng] [2024-12-27 01:36:40,603] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-27 01:37:09,939] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 01:37:09,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:37:09,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:09,940 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-27_01-37-09.log] [testng] 01:37:09,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e921d7b - End of configuration. [testng] [2024-12-27 01:37:10,005] [pool-1-thread-12] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:37:10,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:37:10,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:10,006 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-27_01-37-10.log] [testng] 01:37:10,006 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e0ed383 - End of configuration. [testng] [2024-12-27 01:37:10,938] [pool-1-thread-11] Initializing /data/imagic/13008.dm2: [testng] 01:37:10,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:37:10,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:10,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-27_01-37-10.log] [testng] 01:37:10,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@548d063 - End of configuration. [testng] [2024-12-27 01:37:12,087] [pool-1-thread-10] Initializing /data/pang/signed: [testng] 01:37:12,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:37:12,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:12,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-27_01-37-12.log] [testng] 01:37:12,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48f5e516 - End of configuration. [testng] [2024-12-27 01:37:12,429] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 01:37:12,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:37:12,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:12,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-27_01-37-12.log] [testng] 01:37:12,430 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12d0dbc6 - End of configuration. [testng] [2024-12-27 01:37:12,491] [pool-1-thread-8] Initializing /data/pang/10500x-o4: [testng] 01:37:12,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:37:12,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:12,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-27_01-37-12.log] [testng] 01:37:12,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e8d7b9f - End of configuration. [testng] [2024-12-27 01:37:12,854] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 01:37:12,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:37:12,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:12,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-27_01-37-12.log] [testng] 01:37:12,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@397a0286 - End of configuration. [testng] [2024-12-27 01:37:12,918] [pool-1-thread-6] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 01:37:12,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:37:12,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:12,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-27_01-37-12.log] [testng] 01:37:12,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a636e71 - End of configuration. [testng] [2024-12-27 01:37:13,169] [pool-1-thread-5] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 01:37:13,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:37:13,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:13,170 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-27_01-37-13.log] [testng] 01:37:13,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a636e79 - End of configuration. [testng] [2024-12-27 01:37:13,493] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:37:13,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:37:13,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:13,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-27_01-37-13.log] [testng] 01:37:13,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5857aea9 - End of configuration. [testng] [2024-12-27 01:37:13,557] [pool-1-thread-3] Initializing /data/pang/grating025k.dm2: [testng] 01:37:13,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:37:13,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:13,558 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-27_01-37-13.log] [testng] 01:37:13,558 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c15249a - End of configuration. [testng] [2024-12-27 01:37:13,921] [pool-1-thread-2] Initializing /data/pang/unproc-auto: [testng] 01:37:13,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:37:13,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:37:13,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-27_01-37-13.log] [testng] 01:37:13,923 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e3ee12a - End of configuration. [testng] [2024-12-27 01:37:18,000] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-12-27 01:37:18,054] [pool-1-thread-1] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2024-12-27 01:37:18,412] [pool-1-thread-7] Initializing /data/imagic/1-1.dm2: [testng] [2024-12-27 01:37:18,725] [pool-1-thread-6] Initializing /data/imagic/TEM 10118.dm2: [testng] [2024-12-27 01:37:19,154] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] [2024-12-27 01:37:19,916] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 8 seconds Finished: SUCCESS