Started by upstream project "BIOFORMATS-test-repo" build number 136
originally caused by:
Started by upstream project "Trigger" build number 156
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/jenkins7063805440845062811.sh
+ '[' leica = slidebook ']'
++ date +%u
+ '[' 1 -le 1 ']'
+ DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR'
+ sudo docker run --rm --name BIOFORMATS-test-folder_21292_merge_ci -v /uod/idr/repos/curated/leica:/data -v /uod/idr-scratch/merge-ci/curated/leica:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR
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] 01:21:19,319 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:21:19,320 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 01:21:19,320 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:19,321 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:21:19,321 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:21:19,321 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:21:19,322 |-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] 01:21:19,322 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:19,322 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:21:19,322 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:21:19,322 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:21:19,323 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:21:19,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:21:19,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:21:19,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:21:19,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:21:19,564 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:21:19,564 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:21:19,564 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:21:19,565 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:21:19,565 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 01:21:19,566 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 01:21:19,566 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 244 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-07-29 01:21:19,575] [main] java.version = 1.8.0_342
[testng] 01:21:19,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:21:19,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:19,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-29_01-21-19.log]
[testng] 01:21:19,622 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-07-29 01:21:19,624] [main] testng.directory = /data
[testng] [2024-07-29 01:21:19,624] [main] testng.configDirectory = /config
[testng] [2024-07-29 01:21:19,635] [main] testng.multiplier = 1.0
[testng] [2024-07-29 01:21:19,635] [main] testng.in-memory = false
[testng] [2024-07-29 01:21:19,635] [main] testng.allow-missing = false
[testng] [2024-07-29 01:21:19,636] [main] user.language = fr
[testng] [2024-07-29 01:21:19,636] [main] user.country = FR
[testng] [2024-07-29 01:21:19,636] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-07-29 01:21:27,274] [main] ----------------------------------------
[testng] [2024-07-29 01:21:27,275] [main] Total files: 5651
[testng] [2024-07-29 01:21:27,275] [main] Scan time: 7.638 s (1 ms/file)
[testng] [2024-07-29 01:21:27,275] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 44 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-07-29 01:21:43,839] [pool-1-thread-1] Initializing /data/clay/leica_stack-exported/leica_stack-exported.lei:
[testng] 01:21:43,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:21:43,840 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:43,841 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-29_01-21-43.log]
[testng] 01:21:43,841 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b36721b - End of configuration.
[testng] [2024-07-29 01:21:43,876] [pool-1-thread-12] Initializing /data/samples/Leica_sample.lei:
[testng] 01:21:43,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:21:43,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:43,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-29_01-21-43.log]
[testng] 01:21:43,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79a18eea - End of configuration.
[testng] [2024-07-29 01:21:43,896] [pool-1-thread-11] Initializing /data/constantin/cell6/cell6/Quant_Image_02.jpg:
[testng] 01:21:43,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:21:43,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:43,897 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-29_01-21-43.log]
[testng] 01:21:43,897 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58725dd1 - End of configuration.
[testng] [2024-07-29 01:21:43,905] [pool-1-thread-10] Initializing /data/simon/Leica demo/test/test.lei:
[testng] 01:21:43,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:21:43,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:43,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-29_01-21-43.log]
[testng] 01:21:43,906 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67870614 - End of configuration.
[testng] [2024-07-29 01:21:44,000] [pool-1-thread-9] Initializing /data/simon/Leica demo/RNA FISH/RNA FISH.lei:
[testng] 01:21:44,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:21:44,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-29_01-21-44.log]
[testng] 01:21:44,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ebc7f4b - End of configuration.
[testng] [2024-07-29 01:21:44,063] [pool-1-thread-8] Initializing /data/joel/sequential scan 3/sequential scan 3.lei:
[testng] 01:21:44,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:21:44,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,063 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-29_01-21-44.log]
[testng] 01:21:44,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@331cdb6d - End of configuration.
[testng] [2024-07-29 01:21:44,095] [pool-1-thread-7] Initializing /data/constantin/cell6/Quant_Image_01.jpg:
[testng] 01:21:44,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:21:44,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-29_01-21-44.log]
[testng] 01:21:44,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@84ea091 - End of configuration.
[testng] [2024-07-29 01:21:44,103] [pool-1-thread-6] Initializing /data/constantin/cell6/Quant_Image_02.jpg:
[testng] 01:21:44,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:21:44,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-29_01-21-44.log]
[testng] 01:21:44,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@376c3bde - End of configuration.
[testng] [2024-07-29 01:21:44,112] [pool-1-thread-5] Initializing /data/christophe/Leica stacks/Nf5.lei:
[testng] 01:21:44,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:21:44,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-29_01-21-44.log]
[testng] 01:21:44,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@db1839c - End of configuration.
[testng] [2024-07-29 01:21:44,144] [pool-1-thread-4] Initializing /data/joel/sequential scan 2/sequential scan 2.lei:
[testng] 01:21:44,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:21:44,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-29_01-21-44.log]
[testng] 01:21:44,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44c24172 - End of configuration.
[testng] [2024-07-29 01:21:44,174] [pool-1-thread-3] Initializing /data/brian/050627-leica/050628-leica.lei:
[testng] 01:21:44,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:21:44,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-29_01-21-44.log]
[testng] 01:21:44,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19a26e4a - End of configuration.
[testng] [2024-07-29 01:21:44,550] [pool-1-thread-2] Initializing /data/julie/biorad/8291mcd8_raw01.pic:
[testng] 01:21:44,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:21:44,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:21:44,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-29_01-21-44.log]
[testng] 01:21:44,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11e0ca14 - End of configuration.
[testng] [2024-07-29 01:21:45,635] [pool-1-thread-7] Initializing /data/david/megan/megan.lei:
[testng] [2024-07-29 01:21:45,683] [pool-1-thread-11] Initializing /data/christophe/LEI_Saturated_Bug/Saturated_Problem.tif:
[testng] [2024-07-29 01:21:45,725] [pool-1-thread-6] Initializing /data/mark/071026-561nm check/071026-561nm check.lei:
[testng] [2024-07-29 01:21:45,820] [pool-1-thread-12] Initializing /data/stjude/NIHSSE02-3.lei:
[testng] [2024-07-29 01:21:45,860] [pool-1-thread-1] Initializing /data/julie/c164_1.tif:
[testng] [2024-07-29 01:21:46,414] [pool-1-thread-2] Initializing /data/constantin/cell6/cell6.lei:
[testng] [2024-07-29 01:21:47,110] [pool-1-thread-11] Initializing /data/constantin/cell6/Logo.jpg:
[testng] [2024-07-29 01:21:47,269] [pool-1-thread-11] Initializing /data/andrey/10310500/10310500.lei:
[testng] [2024-07-29 01:21:51,330] [pool-1-thread-1] Initializing /data/clay/leica_stack.tif:
[testng] [2024-07-29 01:21:51,943] [pool-1-thread-1] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/070123_HippoQ2Q3.lei:
[testng] [2024-07-29 01:21:52,196] [pool-1-thread-12] Initializing /data/constantin/cell6/cell6/Quant_Image_01.jpg:
[testng] [2024-07-29 01:21:52,361] [pool-1-thread-12] Initializing /data/constantin/cell6/Graphs_1_00.jpg:
[testng] [2024-07-29 01:21:52,747] [pool-1-thread-12] Initializing /data/martin/100422_02-rg-100x_CF1/100422_02-rg-100x_CF1.lei:
[testng] [2024-07-29 01:21:55,975] [pool-1-thread-5] Initializing /data/brian/leica-original/050118.lei:
[testng] [2024-07-29 01:21:56,764] [pool-1-thread-9] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/Exemple.tif:
[testng] [2024-07-29 01:21:57,942] [pool-1-thread-9] Initializing /data/berra/eggcmgfp230909/eggcmgfp230909.lei:
[testng] [2024-07-29 01:22:06,433] [pool-1-thread-8] Initializing /data/simon/Leica demo/fish/fish.lei:
[testng] [2024-07-29 01:22:07,424] [pool-1-thread-4] Initializing /data/oliver/o459/o459.lei:
[testng] [2024-07-29 01:22:07,639] [pool-1-thread-2] Initializing /data/simon/Leica demo/GFP-YFPcaax/GFP-YFPcaax.lei:
[testng] [2024-07-29 01:22:08,082] [pool-1-thread-1] Initializing /data/martin/samples-SP2/samples-SP2.lei:
[testng] [2024-07-29 01:22:08,299] [pool-1-thread-6] Initializing /data/brian/tropo/tropo.lei:
[testng] [2024-07-29 01:22:09,689] [pool-1-thread-6] Initializing /data/clay/leica_stack.lei:
[testng] [2024-07-29 01:22:10,310] [pool-1-thread-6] Initializing /data/constantin/cell6/cell6/Logo.jpg:
[testng] [2024-07-29 01:22:10,434] [pool-1-thread-6] Initializing /data/david/intestine/intestine.lei:
[testng] [2024-07-29 01:22:10,760] [pool-1-thread-7] Initializing /data/simon/Leica demo/CFP-DsRed YFP neg/CFP-DsRed YFP neg.lei:
[testng] [2024-07-29 01:22:11,748] [pool-1-thread-10] Initializing /data/michael/2007-01-31_zres_sp2.lei:
[testng] [2024-07-29 01:22:12,644] [pool-1-thread-10] Initializing /data/matija/PapilioScale40x/PapilioScale40x.lei:
[testng] [2024-07-29 01:22:24,038] [pool-1-thread-1] Initializing /data/grant/Leica SP2 (25-11-10).lei:
[testng] [2024-07-29 01:22:25,570] [pool-1-thread-10] Initializing /data/constantin/cell6/cell6/Quant_Image_00.jpg:
[testng] [2024-07-29 01:22:25,681] [pool-1-thread-10] Initializing /data/vytas/4voxels/4voxels.lei:
[testng] [2024-07-29 01:22:26,638] [pool-1-thread-7] Initializing /data/constantin/cell6/Quant_Image_00.jpg:
[testng] [2024-07-29 01:22:26,889] [pool-1-thread-7] Initializing /data/julie/biorad/25-65.tif:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 2332, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 3 minutes 22 seconds
Finished: SUCCESS