Started by upstream project "BIOFORMATS-test-repo" build number 246
originally caused by:
 Started by upstream project "Trigger" build number 270
 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/jenkins7769938056875797656.sh
+ '[' flex = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_38717_merge_ci -v /uod/idr/repos/curated/flex:/data -v /uod/idr-scratch/merge-ci/curated/flex:/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] 00:46:06,048 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 00:46:06,054 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
   [testng] 00:46:06,054 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 00:46:06,055 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 00:46:06,056 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 00:46:06,056 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 00:46:06,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 00:46:06,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 00:46:06,057 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 00:46:06,058 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 00:46:06,058 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 00:46:06,058 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 00:46:06,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 00:46:06,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 00:46:06,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 00:46:06,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 00:46:06,282 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 00:46:06,282 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 00:46:06,282 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 00:46:06,283 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 00:46:06,283 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
   [testng] 00:46:06,284 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
   [testng] 00:46:06,284 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 227 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-11-05 00:46:06,295] [main] java.version = 11.0.16
   [testng] 00:46:06,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 00:46:06,298 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:46:06,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-05_00-46-06.log]
   [testng] 00:46:06,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
   [testng] [2024-11-05 00:46:06,348] [main] testng.directory = /data
   [testng] [2024-11-05 00:46:06,349] [main] testng.configDirectory = /config
   [testng] [2024-11-05 00:46:06,359] [main] testng.multiplier = 1.0
   [testng] [2024-11-05 00:46:06,360] [main] testng.in-memory = false
   [testng] [2024-11-05 00:46:06,361] [main] testng.allow-missing = false
   [testng] [2024-11-05 00:46:06,361] [main] user.language = en
   [testng] [2024-11-05 00:46:06,361] [main] user.country = ${user.country}
   [testng] [2024-11-05 00:46:06,361] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-11-05 00:46:55,272] [main] ----------------------------------------
   [testng] [2024-11-05 00:46:55,272] [main] Total files: 791
   [testng] [2024-11-05 00:46:55,272] [main] Scan time: 48.911 s (61 ms/file)
   [testng] [2024-11-05 00:46:55,272] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 42 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-11-05 00:51:03,782] [pool-1-thread-1] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: 
   [testng] 00:51:03,782 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 00:51:03,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:03,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-05_00-51-03.log]
   [testng] 00:51:03,785 |-INFO in ch.qos.logback.core.sift.SiftProcessor@370f71f4 - End of configuration.
   [testng] [2024-11-05 00:51:04,408] [pool-1-thread-12] Initializing /data/qa-18096/002003001.flex: 
   [testng] 00:51:04,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 00:51:04,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:04,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-05_00-51-04.log]
   [testng] 00:51:04,411 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b59108f - End of configuration.
   [testng] [2024-11-05 00:51:05,054] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: 
   [testng] 00:51:05,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 00:51:05,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:05,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-05_00-51-05.log]
   [testng] 00:51:05,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@246e4a0a - End of configuration.
   [testng] [2024-11-05 00:51:05,682] [pool-1-thread-10] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: 
   [testng] 00:51:05,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 00:51:05,682 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:05,683 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-05_00-51-05.log]
   [testng] 00:51:05,683 |-INFO in ch.qos.logback.core.sift.SiftProcessor@714d4311 - End of configuration.
   [testng] [2024-11-05 00:51:06,401] [pool-1-thread-9] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: 
   [testng] 00:51:06,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 00:51:06,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:06,402 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-05_00-51-06.log]
   [testng] 00:51:06,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b0f6c43 - End of configuration.
   [testng] [2024-11-05 00:51:11,689] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: 
   [testng] 00:51:11,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 00:51:11,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:11,690 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-05_00-51-11.log]
   [testng] 00:51:11,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7890d7b0 - End of configuration.
   [testng] [2024-11-05 00:51:12,466] [pool-1-thread-7] Initializing /data/tony/003008000.flex: 
   [testng] 00:51:12,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 00:51:12,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:12,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-05_00-51-12.log]
   [testng] 00:51:12,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@219e67ce - End of configuration.
   [testng] [2024-11-05 00:51:13,256] [pool-1-thread-6] Initializing /data/tony/003003000.tiff: 
   [testng] 00:51:13,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 00:51:13,256 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:13,257 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-05_00-51-13.log]
   [testng] 00:51:13,257 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20772c70 - End of configuration.
   [testng] [2024-11-05 00:51:14,959] [pool-1-thread-5] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: 
   [testng] 00:51:14,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 00:51:14,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:14,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-05_00-51-14.log]
   [testng] 00:51:14,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61d340bc - End of configuration.
   [testng] [2024-11-05 00:51:15,666] [pool-1-thread-4] Initializing /data/qa-2983/004007000.flex: 
   [testng] 00:51:15,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 00:51:15,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:15,667 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-05_00-51-15.log]
   [testng] 00:51:15,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a94f69a - End of configuration.
   [testng] [2024-11-05 00:51:16,320] [pool-1-thread-3] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: 
   [testng] 00:51:16,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 00:51:16,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:16,321 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-05_00-51-16.log]
   [testng] 00:51:16,321 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f0d0ccb - End of configuration.
   [testng] [2024-11-05 00:51:17,395] [pool-1-thread-2] Initializing /data/tony/000101400 - from PE sofwatre.tif: 
   [testng] 00:51:17,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 00:51:17,395 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:51:17,396 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-05_00-51-17.log]
   [testng] 00:51:17,396 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16d2926d - End of configuration.
   [testng] [2024-11-05 00:51:28,505] [pool-1-thread-2] Initializing /data/anatole/001004000.flex: 
   [testng] [2024-11-05 00:51:29,683] [pool-1-thread-6] Initializing /data/qa-18096/002002001.flex: 
   [testng] [2024-11-05 00:51:30,579] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: 
   [testng] [2024-11-05 00:51:31,379] [pool-1-thread-4] Initializing /data/tony/test1.flex: 
   [testng] [2024-11-05 00:51:32,113] [pool-1-thread-1] Initializing /data/stephane/002007000.flex: 
   [testng] [2024-11-05 00:51:33,972] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: 
   [testng] [2024-11-05 00:51:35,121] [pool-1-thread-5] Initializing /data/qa-7469/002002.flex: 
   [testng] [2024-11-05 00:51:39,002] [pool-1-thread-7] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: 
   [testng] [2024-11-05 00:51:41,029] [pool-1-thread-8] Initializing /data/tony/001014000 - from flex.tif: 
   [testng] [2024-11-05 00:51:47,446] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: 
   [testng] [2024-11-05 00:51:48,385] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: 
   [testng] [2024-11-05 00:51:54,888] [pool-1-thread-1] Initializing /data/ghislain/test.flex: 
   [testng] [2024-11-05 00:51:55,883] [pool-1-thread-10] Initializing /data/tamjid/006005000.flex: 
   [testng] [2024-11-05 00:51:56,856] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: 
   [testng] [2024-11-05 00:52:03,797] [pool-1-thread-12] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: 
   [testng] [2024-11-05 00:52:13,146] [pool-1-thread-8] Initializing /data/manuel/003003001.flex: 
   [testng] [2024-11-05 00:52:17,049] [pool-1-thread-11] Initializing /data/public/idr0007/Plate1/001001000.flex: 
   [testng] [2024-11-05 00:52:28,570] [pool-1-thread-1] Initializing /data/stephane/006013000.flex: 
   [testng] [2024-11-05 00:52:29,747] [pool-1-thread-3] Initializing /data/tony/015002000.tiff: 
   [testng] [2024-11-05 00:52:31,742] [pool-1-thread-10] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: 
   [testng] [2024-11-05 00:52:32,842] [pool-1-thread-6] Initializing /data/tony/test.tiff: 
   [testng] [2024-11-05 00:52:34,640] [pool-1-thread-2] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: 
   [testng] [2024-11-05 00:52:40,923] [pool-1-thread-8] Initializing /data/tamjid/006003000.flex: 
   [testng] [2024-11-05 00:52:45,855] [pool-1-thread-6] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: 
   [testng] [2024-11-05 00:52:54,046] [pool-1-thread-3] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: 
   [testng] [2024-11-05 00:53:06,074] [pool-1-thread-1] Initializing /data/qa-17190/002002011.flex: 
   [testng] [2024-11-05 00:53:08,866] [pool-1-thread-2] Initializing /data/tony/001001000_objects.flex: 
   [testng] [2024-11-05 00:53:11,606] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: 
   [testng] [2024-11-05 00:53:19,641] [pool-1-thread-7] Initializing /data/achim/003003000.flex: 
   [testng] [2024-11-05 00:53:22,283] [pool-1-thread-1] Initializing /data/tamjid/006004000.flex: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 2226, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 13 minutes 21 seconds
Finished: SUCCESS