Started by upstream project "BIOFORMATS-test-repo" build number 282
originally caused by:
 Started by user devspace
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/jenkins3800424747098254101.sh
+ '[' flex = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_44494_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

test-automated:
   [testng] File leak detector installed
   [testng] 10:44:58,217 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 10:44:58,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
   [testng] 10:44:58,219 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 10:44:58,220 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 10:44:58,220 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 10:44:58,220 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 10:44:58,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 10:44:58,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 10:44:58,221 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 10:44:58,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 10:44:58,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 10:44:58,222 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 10:44:58,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 10:44:58,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 10:44:58,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 10:44:58,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 10:44:58,521 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 10:44:58,522 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 10:44:58,522 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 10:44:58,523 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 10:44:58,523 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
   [testng] 10:44:58,524 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
   [testng] 10:44:58,524 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 303 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-12-06 10:44:58,536] [main] java.version = 1.8.0_342
   [testng] 10:44:58,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 10:44:58,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:44:58,590 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_10-44-58.log]
   [testng] 10:44:58,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
   [testng] [2024-12-06 10:44:58,594] [main] testng.directory = /data
   [testng] [2024-12-06 10:44:58,594] [main] testng.configDirectory = /config
   [testng] [2024-12-06 10:44:58,608] [main] testng.multiplier = 1.0
   [testng] [2024-12-06 10:44:58,608] [main] testng.in-memory = false
   [testng] [2024-12-06 10:44:58,608] [main] testng.allow-missing = false
   [testng] [2024-12-06 10:44:58,608] [main] user.language = en
   [testng] [2024-12-06 10:44:58,608] [main] user.country = ${user.country}
   [testng] [2024-12-06 10:44:58,608] [main] Maximum heap size = 13653 MB
   [testng] Scanning for files...
   [testng] [2024-12-06 10:46:33,989] [main] ----------------------------------------
   [testng] [2024-12-06 10:46:33,989] [main] Total files: 791
   [testng] [2024-12-06 10:46:33,990] [main] Scan time: 95.381 s (120 ms/file)
   [testng] [2024-12-06 10:46:33,990] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 42 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-12-06 10:51:29,249] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: 
   [testng] 10:51:29,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 10:51:29,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:29,250 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_10-51-29.log]
   [testng] 10:51:29,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c9eb6b - End of configuration.
   [testng] [2024-12-06 10:51:30,015] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: 
   [testng] 10:51:30,015 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 10:51:30,015 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:30,016 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_10-51-30.log]
   [testng] 10:51:30,017 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62cb406c - End of configuration.
   [testng] [2024-12-06 10:51:30,683] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: 
   [testng] 10:51:30,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 10:51:30,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:30,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_10-51-30.log]
   [testng] 10:51:30,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ae3a04b - End of configuration.
   [testng] [2024-12-06 10:51:31,469] [pool-1-thread-10] Initializing /data/manuel/003003001.flex: 
   [testng] 10:51:31,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 10:51:31,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:31,470 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_10-51-31.log]
   [testng] 10:51:31,471 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5066403c - End of configuration.
   [testng] [2024-12-06 10:51:32,220] [pool-1-thread-9] Initializing /data/stephane/006013000.flex: 
   [testng] 10:51:32,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 10:51:32,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:32,221 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_10-51-32.log]
   [testng] 10:51:32,221 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64a5ed7e - End of configuration.
   [testng] [2024-12-06 10:51:32,920] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: 
   [testng] 10:51:32,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 10:51:32,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:32,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_10-51-32.log]
   [testng] 10:51:32,921 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7bea6d25 - End of configuration.
   [testng] [2024-12-06 10:51:33,638] [pool-1-thread-7] Initializing /data/qa-17190/002002011.flex: 
   [testng] 10:51:33,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 10:51:33,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:33,639 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_10-51-33.log]
   [testng] 10:51:33,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7871f655 - End of configuration.
   [testng] [2024-12-06 10:51:34,398] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: 
   [testng] 10:51:34,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 10:51:34,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:34,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_10-51-34.log]
   [testng] 10:51:34,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ddbf377 - End of configuration.
   [testng] [2024-12-06 10:51:35,052] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: 
   [testng] 10:51:35,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 10:51:35,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:35,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_10-51-35.log]
   [testng] 10:51:35,053 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68d4194 - End of configuration.
   [testng] [2024-12-06 10:51:40,361] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: 
   [testng] 10:51:40,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 10:51:40,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:40,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_10-51-40.log]
   [testng] 10:51:40,363 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26159881 - End of configuration.
   [testng] [2024-12-06 10:51:46,955] [pool-1-thread-3] Initializing /data/tony/001014000 - from flex.tif: 
   [testng] 10:51:46,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 10:51:46,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:46,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_10-51-46.log]
   [testng] 10:51:46,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c071f34 - End of configuration.
   [testng] [2024-12-06 10:51:48,618] [pool-1-thread-2] Initializing /data/tony/test.tiff: 
   [testng] 10:51:48,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 10:51:48,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 10:51:48,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_10-51-48.log]
   [testng] 10:51:48,619 |-INFO in ch.qos.logback.core.sift.SiftProcessor@376cfaab - End of configuration.
   [testng] [2024-12-06 10:52:01,806] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: 
   [testng] [2024-12-06 10:52:02,692] [pool-1-thread-2] Initializing /data/public/idr0007/Plate1/001001000.flex: 
   [testng] [2024-12-06 10:52:08,211] [pool-1-thread-7] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: 
   [testng] [2024-12-06 10:52:09,341] [pool-1-thread-12] Initializing /data/ghislain/test.flex: 
   [testng] [2024-12-06 10:52:10,151] [pool-1-thread-6] Initializing /data/tony/000101400 - from PE sofwatre.tif: 
   [testng] [2024-12-06 10:52:14,608] [pool-1-thread-1] Initializing /data/tony/test1.flex: 
   [testng] [2024-12-06 10:52:15,428] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: 
   [testng] [2024-12-06 10:52:16,220] [pool-1-thread-9] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: 
   [testng] [2024-12-06 10:52:20,324] [pool-1-thread-11] Initializing /data/qa-7469/002002.flex: 
   [testng] [2024-12-06 10:52:22,319] [pool-1-thread-3] Initializing /data/achim/003003000.flex: 
   [testng] [2024-12-06 10:52:23,330] [pool-1-thread-6] Initializing /data/qa-18096/002003001.flex: 
   [testng] [2024-12-06 10:52:24,359] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: 
   [testng] [2024-12-06 10:52:33,623] [pool-1-thread-12] Initializing /data/tony/015002000.tiff: 
   [testng] [2024-12-06 10:52:36,579] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: 
   [testng] [2024-12-06 10:52:40,985] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: 
   [testng] [2024-12-06 10:52:42,039] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: 
   [testng] [2024-12-06 10:52:44,343] [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] [2024-12-06 10:52:45,466] [pool-1-thread-6] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: 
   [testng] [2024-12-06 10:52:48,507] [pool-1-thread-12] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: 
   [testng] [2024-12-06 10:52:54,335] [pool-1-thread-1] Initializing /data/anatole/001004000.flex: 
   [testng] [2024-12-06 10:52:58,678] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: 
   [testng] [2024-12-06 10:53:00,640] [pool-1-thread-3] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: 
   [testng] [2024-12-06 10:53:07,161] [pool-1-thread-6] Initializing /data/tamjid/006003000.flex: 
   [testng] [2024-12-06 10:53:09,091] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: 
   [testng] [2024-12-06 10:53:23,967] [pool-1-thread-11] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: 
   [testng] [2024-12-06 10:53:32,515] [pool-1-thread-6] Initializing /data/stephane/002007000.flex: 
   [testng] [2024-12-06 10:53:33,596] [pool-1-thread-8] Initializing /data/qa-18096/002002001.flex: 
   [testng] [2024-12-06 10:53:40,676] [pool-1-thread-1] Initializing /data/tamjid/006005000.flex: 
   [testng] [2024-12-06 10:53:45,542] [pool-1-thread-8] Initializing /data/tony/003003000.tiff: 
   [testng] [2024-12-06 10:53:47,424] [pool-1-thread-6] Initializing /data/tony/003008000.flex: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 2226, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 14 minutes 39 seconds
Finished: SUCCESS