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Started by upstream project "BIOFORMATS-test-repo" build number 297 originally caused by: Started by upstream project "Trigger" build number 319 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins15258927557194916230.sh + '[' avi = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46989_merge_ci -v /uod/idr/repos/curated/avi:/data -v /uod/idr-scratch/merge-ci/curated/avi:/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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml compile-tests: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 01:54:27,866 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:54:27,868 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:54:27,868 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:54:27,869 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:54:27,869 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:54:27,869 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:54:27,870 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:54:27,870 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:54:27,870 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:54:27,871 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:54:27,871 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:54:27,871 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:54:28,102 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:54:28,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:54:28,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:54:28,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:54:28,139 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:54:28,139 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:54:28,139 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:54:28,139 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:54:28,140 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:54:28,140 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:54:28,140 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 270 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-24 01:54:28,151] [main] java.version = 1.8.0_342 [testng] 01:54:28,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:54:28,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:54:28,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_01-54-28.log] [testng] 01:54:28,201 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-24 01:54:28,203] [main] testng.directory = /data [testng] [2024-12-24 01:54:28,204] [main] testng.configDirectory = /config [testng] [2024-12-24 01:54:28,217] [main] testng.multiplier = 1.0 [testng] [2024-12-24 01:54:28,217] [main] testng.in-memory = false [testng] [2024-12-24 01:54:28,217] [main] testng.allow-missing = false [testng] [2024-12-24 01:54:28,217] [main] user.language = en [testng] [2024-12-24 01:54:28,217] [main] user.country = ${user.country} [testng] [2024-12-24 01:54:28,217] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-24 01:54:33,667] [main] ---------------------------------------- [testng] [2024-12-24 01:54:33,667] [main] Total files: 40 [testng] [2024-12-24 01:54:33,667] [main] Scan time: 5.449 s (136 ms/file) [testng] [2024-12-24 01:54:33,667] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-24 01:55:27,215] [pool-1-thread-1] Initializing /data/kurt/40x_6um.avi: [testng] 01:55:27,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:55:27,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:27,217 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_01-55-27.log] [testng] 01:55:27,218 |-INFO in ch.qos.logback.core.sift.SiftProcessor@618bf061 - End of configuration. [testng] [2024-12-24 01:55:27,586] [pool-1-thread-12] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] 01:55:27,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:55:27,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:27,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_01-55-27.log] [testng] 01:55:27,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@441ca279 - End of configuration. [testng] [2024-12-24 01:55:27,938] [pool-1-thread-11] Initializing /data/kurt/63x_6um.avi: [testng] 01:55:27,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:55:27,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:27,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_01-55-27.log] [testng] 01:55:27,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c4d49f5 - End of configuration. [testng] [2024-12-24 01:55:28,287] [pool-1-thread-10] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] 01:55:28,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:55:28,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:28,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_01-55-28.log] [testng] 01:55:28,309 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73b0116b - End of configuration. [testng] [2024-12-24 01:55:28,638] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] 01:55:28,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:55:28,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:28,639 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_01-55-28.log] [testng] 01:55:28,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ba12933 - End of configuration. [testng] [2024-12-24 01:55:28,966] [pool-1-thread-8] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] 01:55:28,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:55:28,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:28,967 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_01-55-28.log] [testng] 01:55:28,967 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d2bb2cc - End of configuration. [testng] [2024-12-24 01:55:29,275] [pool-1-thread-7] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] 01:55:29,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:55:29,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:29,276 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_01-55-29.log] [testng] 01:55:29,277 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53f134af - End of configuration. [testng] [2024-12-24 01:55:29,601] [pool-1-thread-6] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] 01:55:29,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:55:29,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:29,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_01-55-29.log] [testng] 01:55:29,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@285a44c7 - End of configuration. [testng] [2024-12-24 01:55:29,943] [pool-1-thread-5] Initializing /data/chris/APZ04_009.avi: [testng] 01:55:29,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:55:29,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:29,944 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_01-55-29.log] [testng] 01:55:29,944 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f62268b - End of configuration. [testng] [2024-12-24 01:55:30,990] [pool-1-thread-4] Initializing /data/jae/20xD_5minfor14h.avi: [testng] 01:55:30,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:55:30,991 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:30,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_01-55-30.log] [testng] 01:55:30,992 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36f176de - End of configuration. [testng] [2024-12-24 01:55:31,396] [pool-1-thread-3] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] 01:55:31,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:55:31,396 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:31,396 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_01-55-31.log] [testng] 01:55:31,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@169a8fea - End of configuration. [testng] [2024-12-24 01:55:31,696] [pool-1-thread-2] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] 01:55:31,696 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:55:31,697 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:55:31,697 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_01-55-31.log] [testng] 01:55:31,698 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f112a48 - End of configuration. [testng] [2024-12-24 01:55:36,377] [pool-1-thread-7] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-12-24 01:55:36,757] [pool-1-thread-3] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-12-24 01:55:37,085] [pool-1-thread-2] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-12-24 01:55:37,547] [pool-1-thread-8] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] [2024-12-24 01:55:37,905] [pool-1-thread-6] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] [2024-12-24 01:55:38,367] [pool-1-thread-9] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] [2024-12-24 01:55:38,755] [pool-1-thread-1] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-12-24 01:55:39,080] [pool-1-thread-10] Initializing /data/ascb/TIRF.avi: [testng] [2024-12-24 01:55:39,441] [pool-1-thread-12] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2024-12-24 01:55:39,778] [pool-1-thread-11] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-12-24 01:55:41,339] [pool-1-thread-4] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] [2024-12-24 01:55:45,345] [pool-1-thread-9] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2024-12-24 01:55:45,972] [pool-1-thread-12] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-12-24 01:55:46,384] [pool-1-thread-1] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] [2024-12-24 01:55:46,740] [pool-1-thread-7] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] [2024-12-24 01:55:47,099] [pool-1-thread-8] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2024-12-24 01:55:47,485] [pool-1-thread-6] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-12-24 01:55:47,915] [pool-1-thread-4] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-12-24 01:55:48,317] [pool-1-thread-10] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-12-24 01:55:48,650] [pool-1-thread-2] Initializing /data/william/worm.avi: [testng] [2024-12-24 01:55:48,976] [pool-1-thread-5] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] [2024-12-24 01:55:49,290] [pool-1-thread-3] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2024-12-24 01:55:53,278] [pool-1-thread-5] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-12-24 01:55:53,629] [pool-1-thread-2] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-12-24 01:55:54,013] [pool-1-thread-7] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-12-24 01:55:54,356] [pool-1-thread-8] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 38 seconds Finished: SUCCESS