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Started by upstream project "BIOFORMATS-test-repo" build number 8 originally caused by: Started by upstream project "Trigger" build number 11 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins5771409921107799882.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1185_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] 00:54:24,602 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:54:24,604 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:54:24,604 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:24,605 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:24,605 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:54:24,605 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:54:24,606 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:54:24,606 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:24,606 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:24,607 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:54:24,607 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:54:24,607 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:54:24,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:54:24,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:54:24,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:54:24,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:54:24,966 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:54:24,967 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:54:24,967 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:54:24,967 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:54:24,967 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:54:24,968 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:54:24,969 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 363 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-22 00:54:24,981] [main] java.version = 1.8.0_342 [testng] 00:54:24,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:54:24,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:25,028 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-22_00-54-25.log] [testng] 00:54:25,030 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-22 00:54:25,031] [main] testng.directory = /data [testng] [2024-03-22 00:54:25,032] [main] testng.configDirectory = /config [testng] [2024-03-22 00:54:25,044] [main] testng.multiplier = 1.0 [testng] [2024-03-22 00:54:25,044] [main] testng.in-memory = false [testng] [2024-03-22 00:54:25,044] [main] testng.allow-missing = false [testng] [2024-03-22 00:54:25,044] [main] user.language = en [testng] [2024-03-22 00:54:25,044] [main] user.country = ${user.country} [testng] [2024-03-22 00:54:25,044] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-22 00:54:26,615] [main] ---------------------------------------- [testng] [2024-03-22 00:54:26,615] [main] Total files: 25 [testng] [2024-03-22 00:54:26,615] [main] Scan time: 1.571 s (62 ms/file) [testng] [2024-03-22 00:54:26,616] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-22 00:54:28,977] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 00:54:28,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:54:28,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:28,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-22_00-54-28.log] [testng] 00:54:28,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bab2a32 - End of configuration. [testng] [2024-03-22 00:54:29,003] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 00:54:29,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:54:29,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,005 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-22_00-54-29.log] [testng] 00:54:29,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c3e7748 - End of configuration. [testng] [2024-03-22 00:54:29,020] [pool-1-thread-11] Initializing /data/pang/unproc-auto: [testng] 00:54:29,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:54:29,020 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,021 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-22_00-54-29.log] [testng] 00:54:29,021 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39e40f79 - End of configuration. [testng] [2024-03-22 00:54:29,038] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 00:54:29,038 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:54:29,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,039 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-22_00-54-29.log] [testng] 00:54:29,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441ac4ee - End of configuration. [testng] [2024-03-22 00:54:29,044] [pool-1-thread-9] Initializing /data/pang/10500x-o4: [testng] 00:54:29,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:54:29,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,045 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-22_00-54-29.log] [testng] 00:54:29,046 |-INFO in ch.qos.logback.core.sift.SiftProcessor@453b4616 - End of configuration. [testng] [2024-03-22 00:54:29,225] [pool-1-thread-8] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 00:54:29,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:54:29,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-22_00-54-29.log] [testng] 00:54:29,226 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9ea5c19 - End of configuration. [testng] [2024-03-22 00:54:29,239] [pool-1-thread-7] Initializing /data/imagic/13008.dm2: [testng] 00:54:29,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:54:29,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-22_00-54-29.log] [testng] 00:54:29,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56a8ce36 - End of configuration. [testng] [2024-03-22 00:54:29,252] [pool-1-thread-6] Initializing /data/imagic/TEM 10118.dm2: [testng] 00:54:29,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:54:29,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-22_00-54-29.log] [testng] 00:54:29,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ca6e55 - End of configuration. [testng] [2024-03-22 00:54:29,266] [pool-1-thread-5] Initializing /data/imagic/1-1.dm2: [testng] 00:54:29,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:54:29,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,267 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-22_00-54-29.log] [testng] 00:54:29,268 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4286a6f2 - End of configuration. [testng] [2024-03-22 00:54:29,281] [pool-1-thread-4] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 00:54:29,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:54:29,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-22_00-54-29.log] [testng] 00:54:29,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cdf62cd - End of configuration. [testng] [2024-03-22 00:54:29,287] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 00:54:29,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:54:29,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-22_00-54-29.log] [testng] 00:54:29,289 |-INFO in ch.qos.logback.core.sift.SiftProcessor@355f8c8a - End of configuration. [testng] [2024-03-22 00:54:29,293] [pool-1-thread-2] Initializing /data/pang/grating025k.dm2: [testng] 00:54:29,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:54:29,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-22_00-54-29.log] [testng] 00:54:29,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@315d0ae6 - End of configuration. [testng] [2024-03-22 00:54:30,951] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] [2024-03-22 00:54:31,210] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-03-22 00:54:31,213] [pool-1-thread-4] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2024-03-22 00:54:31,230] [pool-1-thread-1] Initializing /data/pang/signed: [testng] [2024-03-22 00:54:31,242] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] [2024-03-22 00:54:31,245] [pool-1-thread-11] 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: 10 seconds Finished: SUCCESS