Skip to content
[Jenkins]Jenkins
log in

Console Output

Started by upstream project "BIOFORMATS-test-repo" build number 275
originally caused by:
 Started by upstream project "Trigger" build number 296
 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/jenkins14666457926165081980.sh
+ '[' avi = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_43373_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] 01:39:37,642 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 01:39:37,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
   [testng] 01:39:37,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:39:37,644 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:39:37,645 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 01:39:37,645 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 01:39:37,645 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 01:39:37,645 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:39:37,646 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:39:37,646 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 01:39:37,647 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 01:39:37,647 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 01:39:37,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 01:39:37,824 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 01:39:37,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 01:39:37,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 01:39:37,855 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 01:39:37,855 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 01:39:37,855 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 01:39:37,856 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 01:39:37,856 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
   [testng] 01:39:37,857 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
   [testng] 01:39:37,857 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 211 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-12-01 01:39:37,867] [main] java.version = 17.0.2
   [testng] 01:39:37,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 01:39:37,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:39:37,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-01_01-39-37.log]
   [testng] 01:39:37,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
   [testng] [2024-12-01 01:39:37,943] [main] testng.directory = /data
   [testng] [2024-12-01 01:39:37,943] [main] testng.configDirectory = /config
   [testng] [2024-12-01 01:39:37,956] [main] testng.multiplier = 1.0
   [testng] [2024-12-01 01:39:37,957] [main] testng.in-memory = false
   [testng] [2024-12-01 01:39:37,957] [main] testng.allow-missing = false
   [testng] [2024-12-01 01:39:37,958] [main] user.language = en
   [testng] [2024-12-01 01:39:37,958] [main] user.country = ${user.country}
   [testng] [2024-12-01 01:39:37,958] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-12-01 01:39:42,046] [main] ----------------------------------------
   [testng] [2024-12-01 01:39:42,046] [main] Total files: 40
   [testng] [2024-12-01 01:39:42,046] [main] Scan time: 4.088 s (102 ms/file)
   [testng] [2024-12-01 01:39:42,046] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 38 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-12-01 01:40:25,077] [pool-1-thread-1] Initializing /data/qa-7560/Ex9 ALADIN WT KO KI_DIC_ 31_07_2013_M1.avi: 
   [testng] 01:40:25,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 01:40:25,077 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:25,078 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-01_01-40-25.log]
   [testng] 01:40:25,079 |-INFO in ch.qos.logback.core.sift.SiftProcessor@762a7d6 - End of configuration.
   [testng] [2024-12-01 01:40:25,684] [pool-1-thread-12] Initializing /data/chip_avi/Level004-WA-116.avi: 
   [testng] 01:40:25,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 01:40:25,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:25,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-01_01-40-25.log]
   [testng] 01:40:25,686 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6984f8ee - End of configuration.
   [testng] [2024-12-01 01:40:25,961] [pool-1-thread-11] Initializing /data/ascb/TIRF.avi: 
   [testng] 01:40:25,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 01:40:25,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:25,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-01_01-40-25.log]
   [testng] 01:40:25,963 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48cf576e - End of configuration.
   [testng] [2024-12-01 01:40:26,361] [pool-1-thread-10] Initializing /data/jules/GUV_long15N_10_10mb_debut_26102011_4.avi: 
   [testng] 01:40:26,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 01:40:26,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:26,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-01_01-40-26.log]
   [testng] 01:40:26,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10ee009f - End of configuration.
   [testng] [2024-12-01 01:40:30,382] [pool-1-thread-9] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_5.avi: 
   [testng] 01:40:30,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 01:40:30,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:30,383 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-01_01-40-30.log]
   [testng] 01:40:30,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@190e263b - End of configuration.
   [testng] [2024-12-01 01:40:30,575] [pool-1-thread-8] Initializing /data/roger/spheroid1-crop.lsm movie 2.avi: 
   [testng] 01:40:30,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 01:40:30,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:30,576 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-01_01-40-30.log]
   [testng] 01:40:30,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ff92f9f - End of configuration.
   [testng] [2024-12-01 01:40:30,789] [pool-1-thread-7] Initializing /data/qa-11011/M-flow10001.avi: 
   [testng] 01:40:30,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 01:40:30,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:30,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-01_01-40-30.log]
   [testng] 01:40:30,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25c382a6 - End of configuration.
   [testng] [2024-12-01 01:40:31,029] [pool-1-thread-6] Initializing /data/curtis/mri-stack-bf.avi: 
   [testng] 01:40:31,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 01:40:31,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:31,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-01_01-40-31.log]
   [testng] 01:40:31,031 |-INFO in ch.qos.logback.core.sift.SiftProcessor@db16f5d - End of configuration.
   [testng] [2024-12-01 01:40:31,278] [pool-1-thread-5] Initializing /data/roger/op9middle40x.lsm movie 2.avi: 
   [testng] 01:40:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 01:40:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:31,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-01_01-40-31.log]
   [testng] 01:40:31,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d33bf66 - End of configuration.
   [testng] [2024-12-01 01:40:31,547] [pool-1-thread-4] Initializing /data/qa-4232/11051920xdrywithincubatoronthenoff_Subset.avi: 
   [testng] 01:40:31,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 01:40:31,547 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:31,548 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-01_01-40-31.log]
   [testng] 01:40:31,548 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57f7a986 - End of configuration.
   [testng] [2024-12-01 01:40:31,809] [pool-1-thread-3] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_4.avi: 
   [testng] 01:40:31,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 01:40:31,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:31,810 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-01_01-40-31.log]
   [testng] 01:40:31,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58c27175 - End of configuration.
   [testng] [2024-12-01 01:40:32,069] [pool-1-thread-2] Initializing /data/william/worm.avi: 
   [testng] 01:40:32,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 01:40:32,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:40:32,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-01_01-40-32.log]
   [testng] 01:40:32,070 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bb1210a - End of configuration.
   [testng] [2024-12-01 01:40:36,109] [pool-1-thread-2] Initializing /data/jae/20xD_5minfor14h.avi: 
   [testng] [2024-12-01 01:40:37,082] [pool-1-thread-3] Initializing /data/simon/24_bit_problem.avi: 
   [testng] [2024-12-01 01:40:37,409] [pool-1-thread-6] Initializing /data/jcb/JCB 201203159/JCB_201203159_0_3.avi: 
   [testng] [2024-12-01 01:40:37,668] [pool-1-thread-12] Initializing /data/prairie/cornea dc and macs.AVI: 
   [testng] [2024-12-01 01:40:37,929] [pool-1-thread-9] Initializing /data/roger/op9middle40x.lsm movie.avi: 
   [testng] [2024-12-01 01:40:38,182] [pool-1-thread-4] Initializing /data/roger/op9middle40x.lsm movie 3.avi: 
   [testng] [2024-12-01 01:40:38,448] [pool-1-thread-5] Initializing /data/kurt/40x_6um.avi: 
   [testng] [2024-12-01 01:40:38,716] [pool-1-thread-11] Initializing /data/chris/APZ04_009.avi: 
   [testng] [2024-12-01 01:40:45,972] [pool-1-thread-8] Initializing /data/kurt/63x_6um.avi: 
   [testng] [2024-12-01 01:40:46,563] [pool-1-thread-7] Initializing /data/sample-avis/rgb-odd-width/HyperStack.avi: 
   [testng] [2024-12-01 01:40:48,996] [pool-1-thread-1] Initializing /data/curtis/mri-stack-ij-old.avi: 
   [testng] [2024-12-01 01:40:49,654] [pool-1-thread-7] Initializing /data/qa-7450/MVI_3610.AVI: 
   [testng] [2024-12-01 01:40:50,079] [pool-1-thread-6] Initializing /data/roger/spheroid1-crop.lsm movie.avi: 
   [testng] [2024-12-01 01:40:50,381] [pool-1-thread-4] Initializing /data/chip_avi/Level003-DB-089.avi: 
   [testng] [2024-12-01 01:40:50,649] [pool-1-thread-3] Initializing /data/pki/yinghua_USPI2-ASMKT772_111017100001_C10_f1.avi: 
   [testng] [2024-12-01 01:40:51,039] [pool-1-thread-9] Initializing /data/sample-avis/extra-chunk/HyperStack.avi: 
   [testng] [2024-12-01 01:40:51,229] [pool-1-thread-8] Initializing /data/chip_avi/Level001-ES-083.avi: 
   [testng] [2024-12-01 01:40:51,413] [pool-1-thread-2] Initializing /data/jules/GUV_long15N_10_20mb_debut_25102011_1_BW.avi: 
   [testng] [2024-12-01 01:40:51,757] [pool-1-thread-5] Initializing /data/curtis/mri-stack-ij-new.avi: 
   [testng] [2024-12-01 01:40:52,002] [pool-1-thread-12] Initializing /data/roger/op9middle40x.lsm movie 4.avi: 
   [testng] [2024-12-01 01:40:53,739] [pool-1-thread-1] Initializing /data/chip_avi/Level002-DB-090.avi: 
   [testng] [2024-12-01 01:40:54,068] [pool-1-thread-10] Initializing /data/qa-7336/2X_63X-DAPI-Emilin2_Filter_Render_Series.avi: 
   [testng] [2024-12-01 01:40:55,192] [pool-1-thread-9] Initializing /data/roger/spheroid1.lsm movie.avi: 
   [testng] [2024-12-01 01:40:55,450] [pool-1-thread-8] Initializing /data/qa-5019/nemo-2_1_.avi: 
   [testng] [2024-12-01 01:40:55,688] [pool-1-thread-4] Initializing /data/qa-5019/nemo-2_10_20.avi: 
   [testng] [2024-12-01 01:40:55,921] [pool-1-thread-3] Initializing /data/kurt/40x_6um_2.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 24 seconds
Finished: SUCCESS