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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@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins9125153395345192283.sh + '[' specs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1145_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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] 00:26:09,908 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:26:09,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:26:09,910 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:09,911 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:09,912 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:26:09,912 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:26:09,912 |-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] 00:26:09,912 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:09,913 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:09,913 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:26:09,913 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:26:09,913 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:26:10,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:26:10,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:26:10,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:26:10,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:26:10,182 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:26:10,182 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:26:10,182 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:26:10,183 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:26:10,183 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:26:10,184 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:26:10,184 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 271 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-22 00:26:10,194] [main] java.version = 1.8.0_342 [testng] 00:26:10,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:26:10,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:10,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-22_00-26-10.log] [testng] 00:26:10,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-22 00:26:10,258] [main] testng.directory = /data [testng] [2024-03-22 00:26:10,258] [main] testng.configDirectory = /config [testng] [2024-03-22 00:26:10,278] [main] testng.multiplier = 1.0 [testng] [2024-03-22 00:26:10,278] [main] testng.in-memory = false [testng] [2024-03-22 00:26:10,278] [main] testng.allow-missing = false [testng] [2024-03-22 00:26:10,278] [main] user.language = en [testng] [2024-03-22 00:26:10,278] [main] user.country = ${user.country} [testng] [2024-03-22 00:26:10,279] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-22 00:26:48,781] [main] ---------------------------------------- [testng] [2024-03-22 00:26:48,781] [main] Total files: 226 [testng] [2024-03-22 00:26:48,781] [main] Scan time: 38.502 s (170 ms/file) [testng] [2024-03-22 00:26:48,781] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-22 00:27:08,770] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 00:27:08,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:27:08,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:08,772 |-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_00-27-08.log] [testng] 00:27:08,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7199cf0a - End of configuration. [testng] [2024-03-22 00:27:08,924] [pool-1-thread-12] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 00:27:08,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:27:08,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:08,925 |-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_00-27-08.log] [testng] 00:27:08,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39de595b - End of configuration. [testng] [2024-03-22 00:27:08,941] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 00:27:08,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:27:08,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:08,942 |-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_00-27-08.log] [testng] 00:27:08,964 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75b6bc89 - End of configuration. [testng] [2024-03-22 00:27:08,972] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] 00:27:08,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:27:08,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:08,973 |-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_00-27-08.log] [testng] 00:27:08,973 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35b5400 - End of configuration. [testng] [2024-03-22 00:27:08,982] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 00:27:08,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:27:08,982 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:08,983 |-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_00-27-08.log] [testng] 00:27:08,984 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5745b0c0 - End of configuration. [testng] [2024-03-22 00:27:09,111] [pool-1-thread-8] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:27:09,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:27:09,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,112 |-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_00-27-09.log] [testng] 00:27:09,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@729bd993 - End of configuration. [testng] [2024-03-22 00:27:09,193] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 00:27:09,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:27:09,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,194 |-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_00-27-09.log] [testng] 00:27:09,195 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dad0a71 - End of configuration. [testng] [2024-03-22 00:27:09,283] [pool-1-thread-6] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 00:27:09,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:27:09,284 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,285 |-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_00-27-09.log] [testng] 00:27:09,285 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48a711bc - End of configuration. [testng] [2024-03-22 00:27:09,306] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:27:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:27:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,307 |-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_00-27-09.log] [testng] 00:27:09,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a900a29 - End of configuration. [testng] [2024-03-22 00:27:09,464] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 00:27:09,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:27:09,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,465 |-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_00-27-09.log] [testng] 00:27:09,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@701bbf20 - End of configuration. [testng] [2024-03-22 00:27:09,536] [pool-1-thread-4] Initializing /data/iplab/Actin.IPL: [testng] 00:27:09,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:27:09,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,538 |-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_00-27-09.log] [testng] 00:27:09,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30762747 - End of configuration. [testng] [2024-03-22 00:27:09,552] [pool-1-thread-3] Initializing /data/iplab/16Bit XRay.IPL: [testng] 00:27:09,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:27:09,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:27:09,553 |-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_00-27-09.log] [testng] 00:27:09,553 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25cb7323 - End of configuration. [testng] [2024-03-22 00:27:11,778] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-03-22 00:27:11,829] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-03-22 00:27:11,867] [pool-1-thread-7] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-03-22 00:27:11,943] [pool-1-thread-11] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-03-22 00:27:11,952] [pool-1-thread-4] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-03-22 00:27:11,961] [pool-1-thread-3] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-03-22 00:27:11,974] [pool-1-thread-6] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-03-22 00:27:11,987] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-03-22 00:27:12,294] [pool-1-thread-9] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-03-22 00:27:12,309] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-03-22 00:27:12,632] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-03-22 00:27:12,730] [pool-1-thread-11] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-03-22 00:27:12,815] [pool-1-thread-12] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-03-22 00:27:13,004] [pool-1-thread-4] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-03-22 00:27:13,190] [pool-1-thread-3] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-03-22 00:27:13,263] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 9 seconds Finished: SUCCESS