Started by upstream project "BIOFORMATS-test-repo" build number 90
originally caused by:
 Started by upstream project "Trigger" build number 101
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8
[BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins11041050164996507358.sh
+ '[' flex = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_13806_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] 01:32:07,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 01:32:07,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
   [testng] 01:32:07,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:32:07,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 01:32:07,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 01:32:07,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 01:32:07,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 01:32:07,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:32:07,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 01:32:07,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 01:32:07,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 01:32:07,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 01:32:08,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 01:32:08,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 01:32:08,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 01:32:08,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 01:32:08,095 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 01:32:08,095 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 01:32:08,095 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 01:32:08,096 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 01:32:08,096 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
   [testng] 01:32:08,097 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
   [testng] 01:32:08,097 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-06-12 01:32:08,108] [main] java.version = 17.0.2
   [testng] 01:32:08,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 01:32:08,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:32:08,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-12_01-32-08.log]
   [testng] 01:32:08,155 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
   [testng] [2024-06-12 01:32:08,157] [main] testng.directory = /data
   [testng] [2024-06-12 01:32:08,157] [main] testng.configDirectory = /config
   [testng] [2024-06-12 01:32:08,166] [main] testng.multiplier = 1.0
   [testng] [2024-06-12 01:32:08,167] [main] testng.in-memory = false
   [testng] [2024-06-12 01:32:08,167] [main] testng.allow-missing = false
   [testng] [2024-06-12 01:32:08,167] [main] user.language = en
   [testng] [2024-06-12 01:32:08,167] [main] user.country = ${user.country}
   [testng] [2024-06-12 01:32:08,167] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-06-12 01:32:21,250] [main] ----------------------------------------
   [testng] [2024-06-12 01:32:21,250] [main] Total files: 791
   [testng] [2024-06-12 01:32:21,250] [main] Scan time: 13.082 s (16 ms/file)
   [testng] [2024-06-12 01:32:21,250] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 42 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-06-12 01:38:21,416] [pool-1-thread-1] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: 
   [testng] 01:38:21,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 01:38:21,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:21,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-12_01-38-21.log]
   [testng] 01:38:21,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dd5b1c2 - End of configuration.
   [testng] [2024-06-12 01:38:21,457] [pool-1-thread-12] Initializing /data/qa-18096/002002001.flex: 
   [testng] 01:38:21,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 01:38:21,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:21,458 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-12_01-38-21.log]
   [testng] 01:38:21,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14f298a6 - End of configuration.
   [testng] [2024-06-12 01:38:21,507] [pool-1-thread-11] Initializing /data/anatole/001004000.flex: 
   [testng] 01:38:21,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 01:38:21,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:21,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-12_01-38-21.log]
   [testng] 01:38:21,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f06a2b2 - End of configuration.
   [testng] [2024-06-12 01:38:21,569] [pool-1-thread-10] Initializing /data/qa-7469/002002.flex: 
   [testng] 01:38:21,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 01:38:21,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:21,570 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-12_01-38-21.log]
   [testng] 01:38:21,571 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17b15b78 - End of configuration.
   [testng] [2024-06-12 01:38:21,610] [pool-1-thread-9] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: 
   [testng] 01:38:21,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 01:38:21,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:21,612 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-12_01-38-21.log]
   [testng] 01:38:21,612 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d9f10b - End of configuration.
   [testng] [2024-06-12 01:38:22,148] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: 
   [testng] 01:38:22,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 01:38:22,148 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,149 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-12_01-38-22.log]
   [testng] 01:38:22,149 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44b7b736 - End of configuration.
   [testng] [2024-06-12 01:38:22,574] [pool-1-thread-7] Initializing /data/tony/000101400 - from PE sofwatre.tif: 
   [testng] 01:38:22,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 01:38:22,575 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,575 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-12_01-38-22.log]
   [testng] 01:38:22,576 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b74f060 - End of configuration.
   [testng] [2024-06-12 01:38:22,638] [pool-1-thread-6] Initializing /data/tamjid/006003000.flex: 
   [testng] 01:38:22,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 01:38:22,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,639 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-12_01-38-22.log]
   [testng] 01:38:22,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1753cd3f - End of configuration.
   [testng] [2024-06-12 01:38:22,664] [pool-1-thread-5] Initializing /data/tony/003008000.flex: 
   [testng] 01:38:22,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 01:38:22,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,665 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-12_01-38-22.log]
   [testng] 01:38:22,665 |-INFO in ch.qos.logback.core.sift.SiftProcessor@612dbea7 - End of configuration.
   [testng] [2024-06-12 01:38:22,709] [pool-1-thread-4] Initializing /data/tamjid/006005000.flex: 
   [testng] 01:38:22,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 01:38:22,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,710 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-12_01-38-22.log]
   [testng] 01:38:22,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e943307 - End of configuration.
   [testng] [2024-06-12 01:38:22,737] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: 
   [testng] 01:38:22,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 01:38:22,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,737 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-12_01-38-22.log]
   [testng] 01:38:22,738 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2396cf10 - End of configuration.
   [testng] [2024-06-12 01:38:22,802] [pool-1-thread-2] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: 
   [testng] 01:38:22,802 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 01:38:22,802 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:38:22,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-12_01-38-22.log]
   [testng] 01:38:22,803 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dbcf442 - End of configuration.
   [testng] [2024-06-12 01:38:24,862] [pool-1-thread-7] Initializing /data/tony/015002000.tiff: 
   [testng] [2024-06-12 01:38:24,917] [pool-1-thread-6] Initializing /data/qa-17190/002002011.flex: 
   [testng] [2024-06-12 01:38:24,962] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: 
   [testng] [2024-06-12 01:38:24,993] [pool-1-thread-10] Initializing /data/tony/001014000 - from flex.tif: 
   [testng] [2024-06-12 01:38:25,043] [pool-1-thread-12] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: 
   [testng] [2024-06-12 01:38:25,461] [pool-1-thread-3] Initializing /data/tony/test.tiff: 
   [testng] [2024-06-12 01:38:26,008] [pool-1-thread-6] Initializing /data/achim/003003000.flex: 
   [testng] [2024-06-12 01:38:26,076] [pool-1-thread-1] Initializing /data/stephane/006013000.flex: 
   [testng] [2024-06-12 01:38:26,259] [pool-1-thread-7] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: 
   [testng] [2024-06-12 01:38:26,358] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: 
   [testng] [2024-06-12 01:38:26,838] [pool-1-thread-3] Initializing /data/tony/003003000.tiff: 
   [testng] [2024-06-12 01:38:26,988] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: 
   [testng] [2024-06-12 01:38:27,850] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: 
   [testng] [2024-06-12 01:38:27,910] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: 
   [testng] [2024-06-12 01:38:28,422] [pool-1-thread-3] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: 
   [testng] [2024-06-12 01:38:28,547] [pool-1-thread-5] Initializing /data/ghislain/test.flex: 
   [testng] [2024-06-12 01:38:29,323] [pool-1-thread-5] Initializing /data/tamjid/006004000.flex: 
   [testng] [2024-06-12 01:38:29,731] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: 
   [testng] [2024-06-12 01:38:30,304] [pool-1-thread-3] Initializing /data/tony/test1.flex: 
   [testng] [2024-06-12 01:38:30,636] [pool-1-thread-3] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: 
   [testng] [2024-06-12 01:38:30,854] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: 
   [testng] [2024-06-12 01:38:31,454] [pool-1-thread-1] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: 
   [testng] [2024-06-12 01:38:32,002] [pool-1-thread-3] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: 
   [testng] [2024-06-12 01:38:32,184] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: 
   [testng] [2024-06-12 01:38:32,352] [pool-1-thread-11] Initializing /data/public/idr0007/Plate1/001001000.flex: 
   [testng] [2024-06-12 01:38:33,574] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: 
   [testng] [2024-06-12 01:38:34,895] [pool-1-thread-4] Initializing /data/manuel/003003001.flex: 
   [testng] [2024-06-12 01:38:34,967] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: 
   [testng] [2024-06-12 01:38:35,526] [pool-1-thread-6] Initializing /data/qa-18096/002003001.flex: 
   [testng] [2024-06-12 01:38:36,104] [pool-1-thread-6] 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 33 seconds
Finished: SUCCESS