Started by upstream project "BIOFORMATS-test-repo" build number 83
originally caused by:
 Started by upstream project "Trigger" build number 93
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins14053891491520468074.sh
+ '[' flex = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_12658_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] 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] 01:31:25,349 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 01:31:25,350 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
   [testng] 01:31:25,350 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:31:25,351 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:31:25,352 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 01:31:25,352 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 01:31:25,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 01:31:25,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:31:25,353 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:31:25,354 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 01:31:25,355 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 01:31:25,355 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 01:31:25,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 01:31:25,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 01:31:25,573 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 01:31:25,573 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 01:31:25,579 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 01:31:25,579 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 01:31:25,579 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 01:31:25,580 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 01:31:25,580 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
   [testng] 01:31:25,581 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
   [testng] 01:31:25,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 228 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-06-05 01:31:25,592] [main] java.version = 17.0.2
   [testng] 01:31:25,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 01:31:25,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:31:25,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-05_01-31-25.log]
   [testng] 01:31:25,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
   [testng] [2024-06-05 01:31:25,642] [main] testng.directory = /data
   [testng] [2024-06-05 01:31:25,642] [main] testng.configDirectory = /config
   [testng] [2024-06-05 01:31:25,651] [main] testng.multiplier = 1.0
   [testng] [2024-06-05 01:31:25,652] [main] testng.in-memory = false
   [testng] [2024-06-05 01:31:25,652] [main] testng.allow-missing = false
   [testng] [2024-06-05 01:31:25,652] [main] user.language = en
   [testng] [2024-06-05 01:31:25,652] [main] user.country = ${user.country}
   [testng] [2024-06-05 01:31:25,652] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-06-05 01:31:38,240] [main] ----------------------------------------
   [testng] [2024-06-05 01:31:38,241] [main] Total files: 791
   [testng] [2024-06-05 01:31:38,241] [main] Scan time: 12.588 s (15 ms/file)
   [testng] [2024-06-05 01:31:38,241] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 42 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-06-05 01:37:29,927] [pool-1-thread-1] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: 
   [testng] 01:37:29,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 01:37:29,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:29,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-05_01-37-29.log]
   [testng] 01:37:29,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72d98a43 - End of configuration.
   [testng] [2024-06-05 01:37:29,972] [pool-1-thread-12] Initializing /data/qa-18096/002002001.flex: 
   [testng] 01:37:29,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 01:37:29,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:29,973 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-05_01-37-29.log]
   [testng] 01:37:29,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41ac9d44 - End of configuration.
   [testng] [2024-06-05 01:37:30,043] [pool-1-thread-11] Initializing /data/anatole/001004000.flex: 
   [testng] 01:37:30,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 01:37:30,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:30,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-05_01-37-30.log]
   [testng] 01:37:30,044 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f73cf21 - End of configuration.
   [testng] [2024-06-05 01:37:30,120] [pool-1-thread-10] Initializing /data/qa-7469/002002.flex: 
   [testng] 01:37:30,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 01:37:30,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:30,121 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-05_01-37-30.log]
   [testng] 01:37:30,122 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d87af9c - End of configuration.
   [testng] [2024-06-05 01:37:30,180] [pool-1-thread-9] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: 
   [testng] 01:37:30,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 01:37:30,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:30,181 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-05_01-37-30.log]
   [testng] 01:37:30,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ddf9bb6 - End of configuration.
   [testng] [2024-06-05 01:37:30,685] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: 
   [testng] 01:37:30,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 01:37:30,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:30,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-05_01-37-30.log]
   [testng] 01:37:30,687 |-INFO in ch.qos.logback.core.sift.SiftProcessor@612dbea7 - End of configuration.
   [testng] [2024-06-05 01:37:31,130] [pool-1-thread-7] Initializing /data/tony/000101400 - from PE sofwatre.tif: 
   [testng] 01:37:31,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 01:37:31,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-05_01-37-31.log]
   [testng] 01:37:31,131 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e943307 - End of configuration.
   [testng] [2024-06-05 01:37:31,184] [pool-1-thread-6] Initializing /data/tamjid/006003000.flex: 
   [testng] 01:37:31,184 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 01:37:31,184 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,185 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-05_01-37-31.log]
   [testng] 01:37:31,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2396cf10 - End of configuration.
   [testng] [2024-06-05 01:37:31,210] [pool-1-thread-5] Initializing /data/tony/003008000.flex: 
   [testng] 01:37:31,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 01:37:31,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,211 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-05_01-37-31.log]
   [testng] 01:37:31,211 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dbcf442 - End of configuration.
   [testng] [2024-06-05 01:37:31,267] [pool-1-thread-4] Initializing /data/tamjid/006005000.flex: 
   [testng] 01:37:31,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 01:37:31,267 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,268 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-05_01-37-31.log]
   [testng] 01:37:31,269 |-INFO in ch.qos.logback.core.sift.SiftProcessor@232b3191 - End of configuration.
   [testng] [2024-06-05 01:37:31,294] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: 
   [testng] 01:37:31,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 01:37:31,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-05_01-37-31.log]
   [testng] 01:37:31,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c88d79d - End of configuration.
   [testng] [2024-06-05 01:37:31,346] [pool-1-thread-2] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: 
   [testng] 01:37:31,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 01:37:31,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:37:31,347 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-05_01-37-31.log]
   [testng] 01:37:31,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443e61b1 - End of configuration.
   [testng] [2024-06-05 01:37:33,177] [pool-1-thread-4] Initializing /data/tony/015002000.tiff: 
   [testng] [2024-06-05 01:37:33,262] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: 
   [testng] [2024-06-05 01:37:33,299] [pool-1-thread-7] Initializing /data/tony/001014000 - from flex.tif: 
   [testng] [2024-06-05 01:37:33,350] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: 
   [testng] [2024-06-05 01:37:33,783] [pool-1-thread-12] Initializing /data/tony/test.tiff: 
   [testng] [2024-06-05 01:37:33,841] [pool-1-thread-3] Initializing /data/qa-17190/002002011.flex: 
   [testng] [2024-06-05 01:37:34,254] [pool-1-thread-1] Initializing /data/achim/003003000.flex: 
   [testng] [2024-06-05 01:37:34,610] [pool-1-thread-3] Initializing /data/stephane/006013000.flex: 
   [testng] [2024-06-05 01:37:34,673] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: 
   [testng] [2024-06-05 01:37:34,705] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: 
   [testng] [2024-06-05 01:37:35,294] [pool-1-thread-12] Initializing /data/tony/003003000.tiff: 
   [testng] [2024-06-05 01:37:35,511] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: 
   [testng] [2024-06-05 01:37:36,049] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: 
   [testng] [2024-06-05 01:37:36,316] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: 
   [testng] [2024-06-05 01:37:36,813] [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] [2024-06-05 01:37:36,999] [pool-1-thread-12] Initializing /data/ghislain/test.flex: 
   [testng] [2024-06-05 01:37:37,755] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: 
   [testng] [2024-06-05 01:37:37,993] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: 
   [testng] [2024-06-05 01:37:38,764] [pool-1-thread-12] Initializing /data/tony/test1.flex: 
   [testng] [2024-06-05 01:37:39,089] [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] [2024-06-05 01:37:39,162] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: 
   [testng] [2024-06-05 01:37:39,792] [pool-1-thread-3] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: 
   [testng] [2024-06-05 01:37:40,544] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: 
   [testng] [2024-06-05 01:37:40,598] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: 
   [testng] [2024-06-05 01:37:40,970] [pool-1-thread-6] Initializing /data/public/idr0007/Plate1/001001000.flex: 
   [testng] [2024-06-05 01:37:42,044] [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] [2024-06-05 01:37:43,148] [pool-1-thread-1] Initializing /data/manuel/003003001.flex: 
   [testng] [2024-06-05 01:37:43,371] [pool-1-thread-11] Initializing /data/tony/001001000_objects.flex: 
   [testng] [2024-06-05 01:37:43,951] [pool-1-thread-11] Initializing /data/qa-18096/002003001.flex: 
   [testng] [2024-06-05 01:37:44,347] [pool-1-thread-12] Initializing /data/stephane/002007000.flex: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 2226, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 9 minutes 19 seconds
Finished: SUCCESS