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Started by upstream project "BIOFORMATS-test-repo" build number 388 originally caused by: Started by upstream project "Trigger" build number 411 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@17 [BIOFORMATS-test-folder@17] $ /bin/bash -xe /tmp/jenkins7304118380697976576.sh + '[' avi = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61408_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 01:08:43,363 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:08:43,365 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 01:08:43,365 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:08:43,366 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:08:43,366 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:08:43,367 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:08:43,367 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:08:43,367 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:08:43,368 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:08:43,368 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:08:43,368 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:08:43,369 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:08:43,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:08:43,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:08:43,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:08:43,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:08:43,563 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:08:43,564 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:08:43,564 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:08:43,564 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:08:43,564 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 01:08:43,565 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 01:08:43,565 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-23 01:08:43,574] [main] java.version = 17.0.2 [testng] 01:08:43,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:08:43,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:08:43,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-23_01-08-43.log] [testng] 01:08:43,620 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-23 01:08:43,623] [main] testng.directory = /data [testng] [2025-03-23 01:08:43,623] [main] testng.configDirectory = /config [testng] [2025-03-23 01:08:43,632] [main] testng.multiplier = 1.0 [testng] [2025-03-23 01:08:43,633] [main] testng.in-memory = false [testng] [2025-03-23 01:08:43,633] [main] testng.allow-missing = false [testng] [2025-03-23 01:08:43,633] [main] user.language = en [testng] [2025-03-23 01:08:43,633] [main] user.country = ${user.country} [testng] [2025-03-23 01:08:43,633] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-23 01:08:56,529] [main] ---------------------------------------- [testng] [2025-03-23 01:08:56,529] [main] Total files: 40 [testng] [2025-03-23 01:08:56,530] [main] Scan time: 12.895 s (322 ms/file) [testng] [2025-03-23 01:08:56,530] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 38 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-23 01:10:22,629] [pool-1-thread-1] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: [testng] 01:10:22,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:10:22,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:22,631 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-23_01-10-22.log] [testng] 01:10:22,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d454048 - End of configuration. [testng] [2025-03-23 01:10:24,061] [pool-1-thread-12] Initializing /data/curtis/mri-stack-ij-old.avi: [testng] 01:10:24,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:10:24,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:24,063 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-23_01-10-24.log] [testng] 01:10:24,063 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54800439 - End of configuration. [testng] [2025-03-23 01:10:25,448] [pool-1-thread-11] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: [testng] 01:10:25,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:10:25,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:25,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-23_01-10-25.log] [testng] 01:10:25,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12d220c8 - End of configuration. [testng] [2025-03-23 01:10:26,871] [pool-1-thread-10] Initializing /data/qa-11011/M-flow10001.avi: [testng] 01:10:26,872 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:10:26,872 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:26,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-23_01-10-26.log] [testng] 01:10:26,873 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dee6701 - End of configuration. [testng] [2025-03-23 01:10:28,203] [pool-1-thread-9] Initializing /data/curtis/mri-stack-ij-new.avi: [testng] 01:10:28,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:10:28,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:28,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-23_01-10-28.log] [testng] 01:10:28,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49111dab - End of configuration. [testng] [2025-03-23 01:10:29,561] [pool-1-thread-8] Initializing /data/roger/op9middle40x.lsm movie 3.avi: [testng] 01:10:29,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:10:29,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:29,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-23_01-10-29.log] [testng] 01:10:29,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fbe49d0 - End of configuration. [testng] [2025-03-23 01:10:31,039] [pool-1-thread-7] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: [testng] 01:10:31,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:10:31,039 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:31,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-23_01-10-31.log] [testng] 01:10:31,040 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ed16471 - End of configuration. [testng] [2025-03-23 01:10:32,159] [pool-1-thread-6] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: [testng] 01:10:32,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:10:32,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:32,162 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-23_01-10-32.log] [testng] 01:10:32,162 |-INFO in ch.qos.logback.core.sift.SiftProcessor@432e08f5 - End of configuration. [testng] [2025-03-23 01:10:33,467] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie 4.avi: [testng] 01:10:33,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:10:33,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:33,468 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-23_01-10-33.log] [testng] 01:10:33,469 |-INFO in ch.qos.logback.core.sift.SiftProcessor@613026f1 - End of configuration. [testng] [2025-03-23 01:10:34,616] [pool-1-thread-4] Initializing /data/prairie/cornea dc and macs.AVI: [testng] 01:10:34,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:10:34,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:34,617 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-23_01-10-34.log] [testng] 01:10:34,618 |-INFO in ch.qos.logback.core.sift.SiftProcessor@190e263b - End of configuration. [testng] [2025-03-23 01:10:35,797] [pool-1-thread-3] Initializing /data/chip_avi/Level002-DB-090.avi: [testng] 01:10:35,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:10:35,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:35,798 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-23_01-10-35.log] [testng] 01:10:35,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ff92f9f - End of configuration. [testng] [2025-03-23 01:10:37,162] [pool-1-thread-2] Initializing /data/chip_avi/Level001-ES-083.avi: [testng] 01:10:37,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:10:37,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:10:37,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-23_01-10-37.log] [testng] 01:10:37,163 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25c382a6 - End of configuration. [testng] [2025-03-23 01:10:48,838] [pool-1-thread-6] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: [testng] [2025-03-23 01:10:50,077] [pool-1-thread-1] Initializing /data/kurt/63x_6um.avi: [testng] [2025-03-23 01:10:51,261] [pool-1-thread-2] Initializing /data/roger/spheroid1.lsm movie.avi: [testng] [2025-03-23 01:10:52,419] [pool-1-thread-8] Initializing /data/kurt/40x_6um_2.avi: [testng] [2025-03-23 01:10:53,544] [pool-1-thread-12] Initializing /data/qa-7450/MVI_3610.AVI: [testng] [2025-03-23 01:10:54,497] [pool-1-thread-3] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: [testng] [2025-03-23 01:10:55,348] [pool-1-thread-10] Initializing /data/chip_avi/Level004-WA-116.avi: [testng] [2025-03-23 01:10:56,459] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie 2.avi: [testng] [2025-03-23 01:10:57,558] [pool-1-thread-11] Initializing /data/curtis/mri-stack-bf.avi: [testng] [2025-03-23 01:10:58,659] [pool-1-thread-5] Initializing /data/simon/24_bit_problem.avi: [testng] [2025-03-23 01:10:59,802] [pool-1-thread-7] Initializing /data/qa-5019/nemo-2_1_.avi: [testng] [2025-03-23 01:11:00,882] [pool-1-thread-4] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: [testng] [2025-03-23 01:11:13,409] [pool-1-thread-11] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: [testng] [2025-03-23 01:11:14,589] [pool-1-thread-10] Initializing /data/jae/20xD_5minfor14h.avi: [testng] [2025-03-23 01:11:16,108] [pool-1-thread-6] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: [testng] [2025-03-23 01:11:17,516] [pool-1-thread-5] Initializing /data/chris/APZ04_009.avi: [testng] [2025-03-23 01:11:20,110] [pool-1-thread-3] Initializing /data/ascb/TIRF.avi: [testng] [2025-03-23 01:11:21,405] [pool-1-thread-2] Initializing /data/roger/spheroid1-crop.lsm movie.avi: [testng] [2025-03-23 01:11:22,616] [pool-1-thread-9] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: [testng] [2025-03-23 01:11:23,821] [pool-1-thread-1] Initializing /data/william/worm.avi: [testng] [2025-03-23 01:11:25,029] [pool-1-thread-7] Initializing /data/qa-5019/nemo-2_10_20.avi: [testng] [2025-03-23 01:11:26,678] [pool-1-thread-12] Initializing /data/kurt/40x_6um.avi: [testng] [2025-03-23 01:11:28,148] [pool-1-thread-8] Initializing /data/chip_avi/Level003-DB-089.avi: [testng] [2025-03-23 01:11:37,861] [pool-1-thread-4] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: [testng] [2025-03-23 01:11:39,834] [pool-1-thread-7] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: [testng] [2025-03-23 01:11:40,963] [pool-1-thread-8] Initializing /data/roger/op9middle40x.lsm movie.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2014, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 11 seconds Finished: SUCCESS