Started by upstream project "BIOFORMATS-test-repo" build number 310
originally caused by:
Started by upstream project "Trigger" build number 332
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/jenkins9016409288616248067.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_49046_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] 00:22:37,579 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:22:37,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 00:22:37,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:22:37,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:22:37,582 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:22:37,582 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:22:37,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 00:22:37,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:22:37,583 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:22:37,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:22:37,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:22:37,583 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:22:37,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:22:37,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:22:37,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:22:37,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:22:37,835 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:22:37,835 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:22:37,835 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:22:37,836 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:22:37,836 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 00:22:37,836 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 00:22:37,836 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 253 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-01-06 00:22:37,846] [main] java.version = 1.8.0_342
[testng] 00:22:37,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:22:37,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:22:37,892 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-06_00-22-37.log]
[testng] 00:22:37,893 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2025-01-06 00:22:37,895] [main] testng.directory = /data
[testng] [2025-01-06 00:22:37,895] [main] testng.configDirectory = /config
[testng] [2025-01-06 00:22:37,907] [main] testng.multiplier = 1.0
[testng] [2025-01-06 00:22:37,907] [main] testng.in-memory = false
[testng] [2025-01-06 00:22:37,907] [main] testng.allow-missing = false
[testng] [2025-01-06 00:22:37,907] [main] user.language = fr
[testng] [2025-01-06 00:22:37,907] [main] user.country = FR
[testng] [2025-01-06 00:22:37,907] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2025-01-06 00:23:00,141] [main] ----------------------------------------
[testng] [2025-01-06 00:23:00,141] [main] Total files: 5651
[testng] [2025-01-06 00:23:00,141] [main] Scan time: 22.234 s (3 ms/file)
[testng] [2025-01-06 00:23:00,142] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 44 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-01-06 00:23:31,240] [pool-1-thread-1] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/070123_HippoQ2Q3.lei:
[testng] 00:23:31,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:23:31,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:31,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-06_00-23-31.log]
[testng] 00:23:31,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ab4492d - End of configuration.
[testng] [2025-01-06 00:23:31,659] [pool-1-thread-12] Initializing /data/constantin/cell6/Quant_Image_02.jpg:
[testng] 00:23:31,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:23:31,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:31,660 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-06_00-23-31.log]
[testng] 00:23:31,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2abf3a19 - End of configuration.
[testng] [2025-01-06 00:23:31,716] [pool-1-thread-11] Initializing /data/simon/Leica demo/CFP-DsRed YFP neg/CFP-DsRed YFP neg.lei:
[testng] 00:23:31,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:23:31,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:31,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-06_00-23-31.log]
[testng] 00:23:31,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@551fd8ed - End of configuration.
[testng] [2025-01-06 00:23:32,168] [pool-1-thread-10] Initializing /data/oliver/o459/o459.lei:
[testng] 00:23:32,168 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:23:32,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:32,169 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-06_00-23-32.log]
[testng] 00:23:32,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73af5b73 - End of configuration.
[testng] [2025-01-06 00:23:32,376] [pool-1-thread-9] Initializing /data/david/intestine/intestine.lei:
[testng] 00:23:32,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:23:32,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:32,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-06_00-23-32.log]
[testng] 00:23:32,378 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a585b94 - End of configuration.
[testng] [2025-01-06 00:23:32,595] [pool-1-thread-8] Initializing /data/simon/Leica demo/test/test.lei:
[testng] 00:23:32,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:23:32,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:32,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-06_00-23-32.log]
[testng] 00:23:32,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@247b1fa4 - End of configuration.
[testng] [2025-01-06 00:23:33,771] [pool-1-thread-7] Initializing /data/clay/leica_stack.tif:
[testng] 00:23:33,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:23:33,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:33,772 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-06_00-23-33.log]
[testng] 00:23:33,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19efe351 - End of configuration.
[testng] [2025-01-06 00:23:33,917] [pool-1-thread-6] Initializing /data/stjude/NIHSSE02-3.lei:
[testng] 00:23:33,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:23:33,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:33,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-06_00-23-33.log]
[testng] 00:23:33,919 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d6f552 - End of configuration.
[testng] [2025-01-06 00:23:34,123] [pool-1-thread-5] Initializing /data/constantin/cell6/Graphs_1_00.jpg:
[testng] 00:23:34,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:23:34,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:34,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-06_00-23-34.log]
[testng] 00:23:34,125 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5443ff91 - End of configuration.
[testng] [2025-01-06 00:23:34,164] [pool-1-thread-4] Initializing /data/brian/tropo/tropo.lei:
[testng] 00:23:34,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:23:34,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:34,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-06_00-23-34.log]
[testng] 00:23:34,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15a4bba3 - End of configuration.
[testng] [2025-01-06 00:23:34,441] [pool-1-thread-3] Initializing /data/constantin/cell6/cell6.lei:
[testng] 00:23:34,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:23:34,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:34,442 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-06_00-23-34.log]
[testng] 00:23:34,443 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44c9deed - End of configuration.
[testng] [2025-01-06 00:23:34,645] [pool-1-thread-2] Initializing /data/grant/Leica SP2 (25-11-10).lei:
[testng] 00:23:34,645 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:23:34,645 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:23:34,646 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-06_00-23-34.log]
[testng] 00:23:34,646 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24e16a1b - End of configuration.
[testng] [2025-01-06 00:23:38,088] [pool-1-thread-12] Initializing /data/martin/samples-SP2/samples-SP2.lei:
[testng] [2025-01-06 00:23:38,705] [pool-1-thread-5] Initializing /data/constantin/cell6/cell6/Quant_Image_01.jpg:
[testng] [2025-01-06 00:23:39,675] [pool-1-thread-7] Initializing /data/joel/sequential scan 2/sequential scan 2.lei:
[testng] [2025-01-06 00:23:41,269] [pool-1-thread-5] Initializing /data/simon/Leica demo/GFP-YFPcaax/GFP-YFPcaax.lei:
[testng] [2025-01-06 00:23:54,801] [pool-1-thread-4] Initializing /data/simon/Leica demo/fish/fish.lei:
[testng] [2025-01-06 00:24:37,072] [pool-1-thread-6] Initializing /data/joel/sequential scan 3/sequential scan 3.lei:
[testng] [2025-01-06 00:25:48,786] [pool-1-thread-1] Initializing /data/brian/leica-original/050118.lei:
[testng] [2025-01-06 00:26:28,968] [pool-1-thread-5] Initializing /data/constantin/cell6/cell6/Logo.jpg:
[testng] [2025-01-06 00:26:30,644] [pool-1-thread-5] Initializing /data/clay/leica_stack-exported/leica_stack-exported.lei:
[testng] [2025-01-06 00:26:45,479] [pool-1-thread-5] Initializing /data/christophe/LEI_Saturated_Bug/Saturated_Problem.tif:
[testng] [2025-01-06 00:26:51,622] [pool-1-thread-5] Initializing /data/berra/eggcmgfp230909/eggcmgfp230909.lei:
[testng] [2025-01-06 00:27:59,390] [pool-1-thread-11] Initializing /data/constantin/cell6/Quant_Image_01.jpg:
[testng] [2025-01-06 00:28:01,928] [pool-1-thread-11] Initializing /data/christophe/Leica stacks/Nf5.lei:
[testng] [2025-01-06 00:28:55,318] [pool-1-thread-9] Initializing /data/julie/biorad/25-65.tif:
[testng] [2025-01-06 00:28:57,272] [pool-1-thread-3] Initializing /data/brian/050627-leica/050628-leica.lei:
[testng] [2025-01-06 00:29:04,350] [pool-1-thread-12] Initializing /data/samples/Leica_sample.lei:
[testng] [2025-01-06 00:29:07,833] [pool-1-thread-9] Initializing /data/martin/100422_02-rg-100x_CF1/100422_02-rg-100x_CF1.lei:
[testng] [2025-01-06 00:29:09,757] [pool-1-thread-7] Initializing /data/michael/2007-01-31_zres_sp2.lei:
[testng] [2025-01-06 00:29:15,943] [pool-1-thread-12] Initializing /data/julie/biorad/8291mcd8_raw01.pic:
[testng] [2025-01-06 00:29:25,094] [pool-1-thread-12] Initializing /data/andrey/10310500/10310500.lei:
[testng] [2025-01-06 00:29:25,682] [pool-1-thread-7] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/Exemple.tif:
[testng] [2025-01-06 00:29:31,225] [pool-1-thread-7] Initializing /data/constantin/cell6/Logo.jpg:
[testng] [2025-01-06 00:29:33,208] [pool-1-thread-7] Initializing /data/constantin/cell6/cell6/Quant_Image_00.jpg:
[testng] [2025-01-06 00:29:34,839] [pool-1-thread-7] Initializing /data/matija/PapilioScale40x/PapilioScale40x.lei:
[testng] [2025-01-06 00:29:51,337] [pool-1-thread-6] Initializing /data/vytas/4voxels/4voxels.lei:
[testng] [2025-01-06 00:30:08,798] [pool-1-thread-11] Initializing /data/mark/071026-561nm check/071026-561nm check.lei:
[testng] [2025-01-06 00:30:17,571] [pool-1-thread-8] Initializing /data/julie/c164_1.tif:
[testng] [2025-01-06 00:30:27,022] [pool-1-thread-8] Initializing /data/constantin/cell6/cell6/Quant_Image_02.jpg:
[testng] [2025-01-06 00:30:29,137] [pool-1-thread-8] Initializing /data/constantin/cell6/Quant_Image_00.jpg:
[testng] [2025-01-06 00:30:31,009] [pool-1-thread-2] Initializing /data/simon/Leica demo/RNA FISH/RNA FISH.lei:
[testng] [2025-01-06 00:30:31,548] [pool-1-thread-8] Initializing /data/clay/leica_stack.lei:
[testng] [2025-01-06 00:30:41,319] [pool-1-thread-8] Initializing /data/david/megan/megan.lei:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 2332, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 31 minutes 25 seconds
Finished: SUCCESS