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Started by upstream project "BIOFORMATS-test-repo" build number 367 originally caused by: Started by upstream project "Trigger" build number 393 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins12677919037162387047.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58525_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] 02:12:45,213 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 02:12:45,215 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 02:12:45,215 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:12:45,216 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:12:45,216 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:12:45,216 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:12:45,217 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:12:45,217 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:12:45,217 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:12:45,218 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:12:45,218 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:12:45,218 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:12:45,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:12:45,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:12:45,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:12:45,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:12:45,484 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:12:45,484 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:12:45,484 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:12:45,485 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:12:45,485 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 02:12:45,486 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 02:12:45,486 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 269 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-07 02:12:45,495] [main] java.version = 1.8.0_342 [testng] 02:12:45,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:12:45,499 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:12:45,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-07_02-12-45.log] [testng] 02:12:45,546 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-07 02:12:45,547] [main] testng.directory = /data [testng] [2025-03-07 02:12:45,548] [main] testng.configDirectory = /config [testng] [2025-03-07 02:12:45,560] [main] testng.multiplier = 1.0 [testng] [2025-03-07 02:12:45,560] [main] testng.in-memory = false [testng] [2025-03-07 02:12:45,560] [main] testng.allow-missing = false [testng] [2025-03-07 02:12:45,560] [main] user.language = en [testng] [2025-03-07 02:12:45,560] [main] user.country = ${user.country} [testng] [2025-03-07 02:12:45,560] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-07 02:13:15,097] [main] ---------------------------------------- [testng] [2025-03-07 02:13:15,097] [main] Total files: 25 [testng] [2025-03-07 02:13:15,097] [main] Scan time: 29.537 s (1181 ms/file) [testng] [2025-03-07 02:13:15,097] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-07 02:13:50,612] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 02:13:50,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:13:50,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,613 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-07_02-13-50.log] [testng] 02:13:50,614 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a79f089 - End of configuration. [testng] [2025-03-07 02:13:50,692] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 02:13:50,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:13:50,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-07_02-13-50.log] [testng] 02:13:50,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52a7d4da - End of configuration. [testng] [2025-03-07 02:13:50,764] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 02:13:50,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:13:50,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:50,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-07_02-13-50.log] [testng] 02:13:50,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1c9a9f - End of configuration. [testng] [2025-03-07 02:13:51,119] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 02:13:51,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:13:51,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:51,120 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-07_02-13-51.log] [testng] 02:13:51,120 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5eeeb843 - End of configuration. [testng] [2025-03-07 02:13:51,186] [pool-1-thread-9] Initializing /data/pang/signed: [testng] 02:13:51,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:13:51,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:51,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-07_02-13-51.log] [testng] 02:13:51,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ab956d3 - End of configuration. [testng] [2025-03-07 02:13:51,565] [pool-1-thread-8] Initializing /data/pang/10500x-o4: [testng] 02:13:51,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:13:51,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:51,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-07_02-13-51.log] [testng] 02:13:51,567 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da123a8 - End of configuration. [testng] [2025-03-07 02:13:51,946] [pool-1-thread-7] Initializing /data/pang/grating025k.dm2: [testng] 02:13:51,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:13:51,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:51,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-07_02-13-51.log] [testng] 02:13:51,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d53fff1 - End of configuration. [testng] [2025-03-07 02:13:52,322] [pool-1-thread-6] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 02:13:52,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:13:52,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:52,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-07_02-13-52.log] [testng] 02:13:52,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3338150c - End of configuration. [testng] [2025-03-07 02:13:52,387] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 02:13:52,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:13:52,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:52,388 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-07_02-13-52.log] [testng] 02:13:52,388 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ca5412a - End of configuration. [testng] [2025-03-07 02:13:52,712] [pool-1-thread-4] Initializing /data/imagic/TEM 10118.dm2: [testng] 02:13:52,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:13:52,712 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:52,713 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-07_02-13-52.log] [testng] 02:13:52,713 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cad303 - End of configuration. [testng] [2025-03-07 02:13:53,037] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 02:13:53,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:13:53,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:53,038 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-07_02-13-53.log] [testng] 02:13:53,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ff7d338 - End of configuration. [testng] [2025-03-07 02:13:53,129] [pool-1-thread-2] Initializing /data/pang/unproc-auto: [testng] 02:13:53,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:13:53,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:53,130 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-07_02-13-53.log] [testng] 02:13:53,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1914ad7c - End of configuration. [testng] [2025-03-07 02:13:56,589] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2025-03-07 02:13:56,651] [pool-1-thread-12] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2025-03-07 02:13:56,993] [pool-1-thread-10] Initializing /data/imagic/1-1.dm2: [testng] [2025-03-07 02:13:57,321] [pool-1-thread-6] Initializing /data/imagic/13008.dm2: [testng] [2025-03-07 02:13:57,733] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] [2025-03-07 02:13:58,053] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [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 18 seconds Finished: SUCCESS