Started by upstream project "BIOFORMATS-test-repo" build number 81
originally caused by:
 Started by upstream project "Trigger" build number 89
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins3401783571283597028.sh
+ '[' incell = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_12393_merge_ci -v /uod/idr/repos/curated/incell:/data -v /uod/idr-scratch/merge-ci/curated/incell:/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] WARNING: An illegal reflective access operation has occurred
   [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket
   [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener
   [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
   [testng] WARNING: All illegal access operations will be denied in a future release
   [testng] File leak detector installed
   [testng] 02:22:00,961 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 02:22:00,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service.
   [testng] 02:22:00,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 02:22:00,964 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 02:22:00,964 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 02:22:00,965 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 02:22:00,965 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 02:22:00,965 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 02:22:00,966 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 02:22:00,966 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 02:22:00,966 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 02:22:00,967 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 02:22:01,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 02:22:01,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 02:22:01,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 02:22:01,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 02:22:01,173 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 02:22:01,173 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 02:22:01,173 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 02:22:01,173 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 02:22:01,174 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration.
   [testng] 02:22:01,174 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point
   [testng] 02:22:01,174 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 208 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-06-01 02:22:01,183] [main] java.version = 11.0.16
   [testng] 02:22:01,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 02:22:01,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:22:01,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-01_02-22-01.log]
   [testng] 02:22:01,231 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration.
   [testng] [2024-06-01 02:22:01,233] [main] testng.directory = /data
   [testng] [2024-06-01 02:22:01,233] [main] testng.configDirectory = /config
   [testng] [2024-06-01 02:22:01,243] [main] testng.multiplier = 1.0
   [testng] [2024-06-01 02:22:01,244] [main] testng.in-memory = false
   [testng] [2024-06-01 02:22:01,244] [main] testng.allow-missing = false
   [testng] [2024-06-01 02:22:01,245] [main] user.language = en
   [testng] [2024-06-01 02:22:01,245] [main] user.country = ${user.country}
   [testng] [2024-06-01 02:22:01,245] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-06-01 02:28:36,198] [main] ----------------------------------------
   [testng] [2024-06-01 02:28:36,198] [main] Total files: 4190
   [testng] [2024-06-01 02:28:36,199] [main] Scan time: 394.953 s (94 ms/file)
   [testng] [2024-06-01 02:28:36,199] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 27 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-06-01 02:28:52,776] [pool-1-thread-1] Initializing /data/damir/20x Z1 16fields Gr Rd DAPI Cy5_140610-3_fix_2.xdce: 
   [testng] 02:28:52,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 02:28:52,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:52,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-01_02-28-52.log]
   [testng] 02:28:52,779 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6afe68dc - End of configuration.
   [testng] [2024-06-01 02:28:56,247] [pool-1-thread-12] Initializing /data/brian/Proper Dark Images/2007.11.12.13.37.27.xdce: 
   [testng] 02:28:56,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 02:28:56,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-01_02-28-56.log]
   [testng] 02:28:56,260 |-INFO in ch.qos.logback.core.sift.SiftProcessor@599b5528 - End of configuration.
   [testng] [2024-06-01 02:28:56,287] [pool-1-thread-11] Initializing /data/karsten/gabriele_-1_2/gabriele_-1_2.xdce: 
   [testng] 02:28:56,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 02:28:56,288 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-01_02-28-56.log]
   [testng] 02:28:56,289 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51410969 - End of configuration.
   [testng] [2024-06-01 02:28:56,318] [pool-1-thread-10] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_238_IM/2009_97_238_IM.xdce: 
   [testng] 02:28:56,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 02:28:56,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-01_02-28-56.log]
   [testng] 02:28:56,320 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93e5377 - End of configuration.
   [testng] [2024-06-01 02:28:56,383] [pool-1-thread-9] Initializing /data/michael/Single plane no flatfield corr/2007.10.17.17.04.55.xdce: 
   [testng] 02:28:56,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 02:28:56,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,384 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-01_02-28-56.log]
   [testng] 02:28:56,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1807fdf0 - End of configuration.
   [testng] [2024-06-01 02:28:56,428] [pool-1-thread-8] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_Tif/ER2009_97_238_TIFF/PC3_ER2009.97.238.xdce: 
   [testng] 02:28:56,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 02:28:56,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-01_02-28-56.log]
   [testng] 02:28:56,430 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33217d15 - End of configuration.
   [testng] [2024-06-01 02:28:56,564] [pool-1-thread-7] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_Tif/ER2009_97_240_TIFF/PC3_ER2009.97.240(ok).xdce: 
   [testng] 02:28:56,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 02:28:56,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-01_02-28-56.log]
   [testng] 02:28:56,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48662f2c - End of configuration.
   [testng] [2024-06-01 02:28:56,681] [pool-1-thread-6] Initializing /data/public/INMAC384-DAPI-CM-eGFP_59223_1/INMAC384-DAPI-CM-eGFP_59223_1.xdce: 
   [testng] 02:28:56,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 02:28:56,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,683 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-01_02-28-56.log]
   [testng] 02:28:56,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1342095 - End of configuration.
   [testng] [2024-06-01 02:28:56,959] [pool-1-thread-5] Initializing /data/public/idr0017/2011-11-17_X-Man_LOPAC_X01_LP_S01_1/2011-11-17 X-Man LOPAC_X03_LP_S01_1.xdce: 
   [testng] 02:28:56,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 02:28:56,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:56,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-01_02-28-56.log]
   [testng] 02:28:56,963 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35e5b9ec - End of configuration.
   [testng] [2024-06-01 02:28:57,134] [pool-1-thread-4] Initializing /data/brian/H2Blivecell20x/H2Blivecell20x.xdce: 
   [testng] 02:28:57,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 02:28:57,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:57,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-01_02-28-57.log]
   [testng] 02:28:57,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cf60f51 - End of configuration.
   [testng] [2024-06-01 02:28:57,792] [pool-1-thread-3] Initializing /data/karsten/gabriele_-1_2/~gabriele_-1_2.xdce: 
   [testng] 02:28:57,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 02:28:57,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:57,795 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-01_02-28-57.log]
   [testng] 02:28:57,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f333700 - End of configuration.
   [testng] [2024-06-01 02:28:57,862] [pool-1-thread-2] Initializing /data/samples/images_number_mismatch/test.xdce: 
   [testng] 02:28:57,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 02:28:57,862 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:28:57,863 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-01_02-28-57.log]
   [testng] 02:28:57,864 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26f03d32 - End of configuration.
   [testng] [2024-06-01 02:29:02,784] [pool-1-thread-12] Initializing /data/frans/im dataset/PC3_ER2009.97.180_IM.xdce: 
   [testng] [2024-06-01 02:29:12,251] [pool-1-thread-2] Initializing /data/samples/variable-field-count/test.xdce: 
   [testng] [2024-06-01 02:29:25,348] [pool-1-thread-2] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_239_IM/2009_97_239_IM.xdce: 
   [testng] [2024-06-01 02:29:29,600] [pool-1-thread-9] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR 38/excel output file/HCT116_HR2009.97.038/HCT116_HR2009.97.038.xdce: 
   [testng] [2024-06-01 02:29:37,379] [pool-1-thread-11] Initializing /data/michael/firstStack/2007.07.05.17.33.35.xdce: 
   [testng] [2024-06-01 02:29:37,575] [pool-1-thread-3] Initializing /data/brian/livecell/H2b10xtrial.xdce: 
   [testng] [2024-06-01 02:30:01,203] [pool-1-thread-11] Initializing /data/brian/2Hour10x/H2b2Hour10x5fields.xdce: 
   [testng] [2024-06-01 02:30:49,338] [pool-1-thread-10] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_Tif/ER2009_97_239_TIFF/PC3_ER2009.97.239.xdce: 
   [testng] [2024-06-01 02:31:14,205] [pool-1-thread-2] Initializing /data/qa-4122/KJH YFPPML 2000_A-101061_1.xdce: 
   [testng] [2024-06-01 02:31:17,947] [pool-1-thread-12] Initializing /data/frans/incell_25juni2009/Experiment_with_3_plates_as_IM/2009_97_240_IM/2009_97_240_IM.xdce: 
   [testng] [2024-06-01 02:31:46,910] [pool-1-thread-8] Initializing /data/michael/2007.08.02.16.43.24/2007.08.02.16.43.24.xdce: 
   [testng] [2024-06-01 02:31:48,631] [pool-1-thread-7] Initializing /data/michael/Z Sections with flatfield corr/2007.10.17.17.13.59.xdce: 
   [testng] [2024-06-01 02:31:53,890] [pool-1-thread-9] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR 38/txt en XML output file/HCT116_HR2009.97.038/HCT116_HR2009.97.038.xdce: 
   [testng] [2024-06-01 02:32:14,724] [pool-1-thread-3] Initializing /data/frans/incell_25juni2009/ANALYZE files/plaat HR37/excel output file/HCT116_HR2009.97.037/HCT116_HR2009.97.037.xdce: 
   [testng] [2024-06-01 02:32:54,663] [pool-1-thread-7] Initializing /data/public/INMAC384-DAPI-CM-eGFP_59224_1/INMAC384-DAPI-CM-eGFP_59224_1.xdce: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 1431, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 40 minutes 11 seconds
Finished: SUCCESS