Started by upstream project "BIOFORMATS-test-repo" build number 128 originally caused by: Started by upstream project "Trigger" build number 145 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/jenkins12878438262692642292.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_20048_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 -Duser.language=fr -Duser.country=FR 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] 01:44:57,284 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:44:57,286 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:44:57,286 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:44:57,288 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:44:57,288 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:44:57,288 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:44:57,288 |-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] 01:44:57,288 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:44:57,289 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:44:57,289 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:44:57,289 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:44:57,289 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:44:57,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:44:57,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:44:57,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:44:57,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:44:57,594 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:44:57,594 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:44:57,594 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:44:57,595 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:44:57,595 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:44:57,596 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:44:57,596 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 307 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-22 01:44:57,607] [main] java.version = 1.8.0_342 [testng] 01:44:57,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:44:57,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:57,660 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-22_01-44-57.log] [testng] 01:44:57,662 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-22 01:44:57,664] [main] testng.directory = /data [testng] [2024-07-22 01:44:57,664] [main] testng.configDirectory = /config [testng] [2024-07-22 01:44:57,677] [main] testng.multiplier = 1.0 [testng] [2024-07-22 01:44:57,678] [main] testng.in-memory = false [testng] [2024-07-22 01:44:57,678] [main] testng.allow-missing = false [testng] [2024-07-22 01:44:57,678] [main] user.language = fr [testng] [2024-07-22 01:44:57,678] [main] user.country = FR [testng] [2024-07-22 01:44:57,678] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-22 01:44:58,732] [main] ---------------------------------------- [testng] [2024-07-22 01:44:58,732] [main] Total files: 25 [testng] [2024-07-22 01:44:58,732] [main] Scan time: 1.054 s (42 ms/file) [testng] [2024-07-22 01:44:58,732] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-22 01:44:59,789] [pool-1-thread-1] Initializing /data/imagic/1-1.dm2: [testng] 01:44:59,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:44:59,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-22_01-44-59.log] [testng] 01:44:59,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59fba1da - End of configuration. [testng] [2024-07-22 01:44:59,819] [pool-1-thread-12] Initializing /data/pang/grating025k.dm2: [testng] 01:44:59,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:44:59,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,821 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-22_01-44-59.log] [testng] 01:44:59,821 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7031cbfe - End of configuration. [testng] [2024-07-22 01:44:59,833] [pool-1-thread-11] Initializing /data/pang/unproc-auto: [testng] 01:44:59,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:44:59,834 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,834 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-22_01-44-59.log] [testng] 01:44:59,835 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ece954 - End of configuration. [testng] [2024-07-22 01:44:59,847] [pool-1-thread-10] Initializing /data/pang/10500x-o4: [testng] 01:44:59,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:44:59,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,848 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-22_01-44-59.log] [testng] 01:44:59,848 |-INFO in ch.qos.logback.core.sift.SiftProcessor@100458df - End of configuration. [testng] [2024-07-22 01:44:59,865] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 01:44:59,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:44:59,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-22_01-44-59.log] [testng] 01:44:59,866 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bd6eb59 - End of configuration. [testng] [2024-07-22 01:44:59,870] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:44:59,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:44:59,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,871 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-22_01-44-59.log] [testng] 01:44:59,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@186a598 - End of configuration. [testng] [2024-07-22 01:44:59,875] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 01:44:59,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:44:59,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-22_01-44-59.log] [testng] 01:44:59,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f6f909d - End of configuration. [testng] [2024-07-22 01:44:59,879] [pool-1-thread-6] Initializing /data/imagic/13008.dm2: [testng] 01:44:59,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:44:59,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,880 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-22_01-44-59.log] [testng] 01:44:59,880 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d511bcd - End of configuration. [testng] [2024-07-22 01:44:59,895] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:44:59,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:44:59,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,896 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-22_01-44-59.log] [testng] 01:44:59,896 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37f50e8f - End of configuration. [testng] [2024-07-22 01:44:59,900] [pool-1-thread-4] Initializing /data/pang/signed: [testng] 01:44:59,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:44:59,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-22_01-44-59.log] [testng] 01:44:59,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ad204f - End of configuration. [testng] [2024-07-22 01:44:59,914] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 01:44:59,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:44:59,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,915 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-22_01-44-59.log] [testng] 01:44:59,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178fa80e - End of configuration. [testng] [2024-07-22 01:44:59,919] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:44:59,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:44:59,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:59,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-22_01-44-59.log] [testng] 01:44:59,921 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79a1f79f - End of configuration. [testng] [2024-07-22 01:45:01,116] [pool-1-thread-2] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [2024-07-22 01:45:01,160] [pool-1-thread-3] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-07-22 01:45:01,162] [pool-1-thread-8] Initializing /data/imagic/TEM 10118.dm2: [testng] [2024-07-22 01:45:01,171] [pool-1-thread-5] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] [2024-07-22 01:45:01,179] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] [2024-07-22 01:45:01,182] [pool-1-thread-12] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 seconds Finished: SUCCESS