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Started by upstream project "BIOFORMATS-test-repo" build number 217 originally caused by: Started by upstream project "Trigger" build number 244 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins13655212661628218019.sh + '[' avi = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34453_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] 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] 04:42:15,645 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:42:15,647 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:42:15,647 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:42:15,648 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:42:15,649 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:42:15,649 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:42:15,649 |-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] 04:42:15,649 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:42:15,650 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:42:15,650 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:42:15,650 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:42:15,650 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:42:15,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:42:15,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:42:15,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:42:15,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:42:15,928 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:42:15,928 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:42:15,928 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:42:15,929 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:42:15,929 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:42:15,930 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:42:15,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 280 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-11 04:42:15,940] [main] java.version = 1.8.0_342 [testng] 04:42:15,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:42:15,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:42:15,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-11_04-42-15.log] [testng] 04:42:15,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-11 04:42:15,996] [main] testng.directory = /data [testng] [2024-10-11 04:42:15,996] [main] testng.configDirectory = /config [testng] [2024-10-11 04:42:16,008] [main] testng.multiplier = 1.0 [testng] [2024-10-11 04:42:16,008] [main] testng.in-memory = false [testng] [2024-10-11 04:42:16,008] [main] testng.allow-missing = false [testng] [2024-10-11 04:42:16,008] [main] user.language = en [testng] [2024-10-11 04:42:16,009] [main] user.country = ${user.country} [testng] [2024-10-11 04:42:16,009] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-11 04:42:28,049] [main] ---------------------------------------- [testng] [2024-10-11 04:42:28,050] [main] Total files: 40 [testng] [2024-10-11 04:42:28,050] [main] Scan time: 12.04 s (301 ms/file) [testng] [2024-10-11 04:42:28,050] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-11 04:43:35,762] [pool-1-thread-1] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] 04:43:35,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:43:35,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:35,764 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-11_04-43-35.log] [testng] 04:43:35,765 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4feb830d - End of configuration. [testng] [2024-10-11 04:43:36,250] [pool-1-thread-12] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 04:43:36,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:43:36,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:36,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-11_04-43-36.log] [testng] 04:43:36,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6593568b - End of configuration. [testng] [2024-10-11 04:43:36,831] [pool-1-thread-11] Initializing /data/william/worm.avi: [testng] 04:43:36,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:43:36,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:36,832 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-11_04-43-36.log] [testng] 04:43:36,833 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4222e627 - End of configuration. [testng] [2024-10-11 04:43:37,561] [pool-1-thread-10] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] 04:43:37,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:43:37,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:37,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-11_04-43-37.log] [testng] 04:43:37,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5472fdc5 - End of configuration. [testng] [2024-10-11 04:43:38,073] [pool-1-thread-9] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] 04:43:38,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:43:38,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:38,074 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-11_04-43-38.log] [testng] 04:43:38,074 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bc2521a - End of configuration. [testng] [2024-10-11 04:43:38,440] [pool-1-thread-8] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] 04:43:38,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:43:38,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:38,441 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-11_04-43-38.log] [testng] 04:43:38,442 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e9628d9 - End of configuration. [testng] [2024-10-11 04:43:38,828] [pool-1-thread-7] Initializing /data/qa-7450/MVI_3610.AVI: [testng] 04:43:38,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:43:38,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:38,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-11_04-43-38.log] [testng] 04:43:38,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78d40985 - End of configuration. [testng] [2024-10-11 04:43:39,401] [pool-1-thread-6] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] 04:43:39,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:43:39,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:39,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-11_04-43-39.log] [testng] 04:43:39,402 |-INFO in ch.qos.logback.core.sift.SiftProcessor@155d8874 - End of configuration. [testng] [2024-10-11 04:43:40,209] [pool-1-thread-5] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] 04:43:40,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:43:40,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:40,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-11_04-43-40.log] [testng] 04:43:40,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15a532e0 - End of configuration. [testng] [2024-10-11 04:43:40,677] [pool-1-thread-4] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] 04:43:40,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:43:40,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:40,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-11_04-43-40.log] [testng] 04:43:40,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@310ee736 - End of configuration. [testng] [2024-10-11 04:43:41,103] [pool-1-thread-3] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] 04:43:41,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:43:41,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:41,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-11_04-43-41.log] [testng] 04:43:41,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73b0116b - End of configuration. [testng] [2024-10-11 04:43:41,764] [pool-1-thread-2] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] 04:43:41,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:43:41,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:43:41,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-11_04-43-41.log] [testng] 04:43:41,765 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72068b5e - End of configuration. [testng] [2024-10-11 04:43:47,702] [pool-1-thread-9] Initializing /data/kurt/40x_6um.avi: [testng] [2024-10-11 04:43:48,523] [pool-1-thread-1] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2024-10-11 04:43:49,233] [pool-1-thread-4] Initializing /data/prairie/cornea dc and macs.AVI: [testng] [2024-10-11 04:43:49,595] [pool-1-thread-7] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2024-10-11 04:43:50,322] [pool-1-thread-2] Initializing /data/kurt/63x_6um.avi: [testng] [2024-10-11 04:43:50,949] [pool-1-thread-6] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2024-10-11 04:43:51,616] [pool-1-thread-5] Initializing /data/qa-11011/M-flow10001.avi: [testng] [2024-10-11 04:43:52,141] [pool-1-thread-8] Initializing /data/kurt/40x_6um_2.avi: [testng] [2024-10-11 04:43:52,762] [pool-1-thread-3] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2024-10-11 04:43:53,551] [pool-1-thread-12] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2024-10-11 04:43:55,170] [pool-1-thread-10] Initializing /data/simon/24_bit_problem.avi: [testng] [2024-10-11 04:43:55,755] [pool-1-thread-11] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] [2024-10-11 04:44:01,146] [pool-1-thread-7] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2024-10-11 04:44:01,807] [pool-1-thread-3] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] [2024-10-11 04:44:02,330] [pool-1-thread-11] Initializing /data/ascb/TIRF.avi: [testng] [2024-10-11 04:44:02,723] [pool-1-thread-9] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] [2024-10-11 04:44:03,510] [pool-1-thread-10] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] [2024-10-11 04:44:03,938] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2024-10-11 04:44:04,483] [pool-1-thread-8] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] [2024-10-11 04:44:04,922] [pool-1-thread-4] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2024-10-11 04:44:05,497] [pool-1-thread-1] Initializing /data/chris/APZ04_009.avi: [testng] [2024-10-11 04:44:06,898] [pool-1-thread-2] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] [2024-10-11 04:44:08,825] [pool-1-thread-6] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2024-10-11 04:44:10,286] [pool-1-thread-7] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] [2024-10-11 04:44:12,288] [pool-1-thread-3] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2024-10-11 04:44:13,007] [pool-1-thread-8] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 7 seconds Finished: SUCCESS