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Started by upstream project "BIOFORMATS-test-repo" build number 2 originally caused by: Started by upstream project "Trigger" build number 3 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins13525354279347711741.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_201_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] 00:52:16,001 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:52:16,003 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:52:16,003 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:52:16,004 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:52:16,004 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:52:16,004 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:52:16,004 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:52:16,004 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:52:16,005 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:52:16,005 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:52:16,005 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:52:16,005 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:52:16,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:52:16,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:52:16,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:52:16,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:52:16,261 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:52:16,261 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:52:16,261 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:52:16,262 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:52:16,262 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:52:16,262 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:52:16,263 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 258 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-15 00:52:16,273] [main] java.version = 1.8.0_342 [testng] 00:52:16,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:52:16,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:16,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-15_00-52-16.log] [testng] 00:52:16,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-15 00:52:16,333] [main] testng.directory = /data [testng] [2024-03-15 00:52:16,333] [main] testng.configDirectory = /config [testng] [2024-03-15 00:52:16,350] [main] testng.multiplier = 1.0 [testng] [2024-03-15 00:52:16,350] [main] testng.in-memory = false [testng] [2024-03-15 00:52:16,350] [main] testng.allow-missing = false [testng] [2024-03-15 00:52:16,350] [main] user.language = en [testng] [2024-03-15 00:52:16,350] [main] user.country = ${user.country} [testng] [2024-03-15 00:52:16,350] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-15 00:52:19,918] [main] ---------------------------------------- [testng] [2024-03-15 00:52:19,918] [main] Total files: 25 [testng] [2024-03-15 00:52:19,918] [main] Scan time: 3.568 s (142 ms/file) [testng] [2024-03-15 00:52:19,918] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-15 00:52:24,419] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 00:52:24,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:52:24,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-15_00-52-24.log] [testng] 00:52:24,421 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f3a2cc1 - End of configuration. [testng] [2024-03-15 00:52:24,485] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 00:52:24,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:52:24,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-15_00-52-24.log] [testng] 00:52:24,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b24c330 - End of configuration. [testng] [2024-03-15 00:52:24,537] [pool-1-thread-11] Initializing /data/pang/unproc-auto: [testng] 00:52:24,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:52:24,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,538 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-15_00-52-24.log] [testng] 00:52:24,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69376478 - End of configuration. [testng] [2024-03-15 00:52:24,621] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 00:52:24,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:52:24,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,622 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-15_00-52-24.log] [testng] 00:52:24,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a3d7c67 - End of configuration. [testng] [2024-03-15 00:52:24,636] [pool-1-thread-9] Initializing /data/pang/10500x-o4: [testng] 00:52:24,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:52:24,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-15_00-52-24.log] [testng] 00:52:24,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c1c6a6c - End of configuration. [testng] [2024-03-15 00:52:24,696] [pool-1-thread-8] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 00:52:24,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:52:24,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-15_00-52-24.log] [testng] 00:52:24,697 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f8a175d - End of configuration. [testng] [2024-03-15 00:52:24,753] [pool-1-thread-7] Initializing /data/imagic/13008.dm2: [testng] 00:52:24,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:52:24,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-15_00-52-24.log] [testng] 00:52:24,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67d96332 - End of configuration. [testng] [2024-03-15 00:52:24,796] [pool-1-thread-6] Initializing /data/imagic/TEM 10118.dm2: [testng] 00:52:24,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:52:24,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-15_00-52-24.log] [testng] 00:52:24,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49e0772a - End of configuration. [testng] [2024-03-15 00:52:24,864] [pool-1-thread-5] Initializing /data/imagic/1-1.dm2: [testng] 00:52:24,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:52:24,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-15_00-52-24.log] [testng] 00:52:24,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@df6f14c - End of configuration. [testng] [2024-03-15 00:52:24,917] [pool-1-thread-4] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 00:52:24,917 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:52:24,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,918 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-15_00-52-24.log] [testng] 00:52:24,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@192bf027 - End of configuration. [testng] [2024-03-15 00:52:24,933] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 00:52:24,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:52:24,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,934 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-15_00-52-24.log] [testng] 00:52:24,935 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4509df77 - End of configuration. [testng] [2024-03-15 00:52:24,947] [pool-1-thread-2] Initializing /data/pang/grating025k.dm2: [testng] 00:52:24,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:52:24,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:52:24,948 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-15_00-52-24.log] [testng] 00:52:24,948 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e90c9d4 - End of configuration. [testng] [2024-03-15 00:52:26,750] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] [2024-03-15 00:52:26,759] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-03-15 00:52:26,769] [pool-1-thread-1] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2024-03-15 00:52:26,821] [pool-1-thread-12] Initializing /data/pang/signed: [testng] [2024-03-15 00:52:26,907] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] [2024-03-15 00:52:26,916] [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: 16 seconds Finished: SUCCESS