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Started by upstream project "BIOFORMATS-test-repo" build number 298
originally caused by:
 Started by upstream project "Trigger" build number 320
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3
[BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins6438479088253106730.sh
+ '[' perkinelmer-operetta = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_47107_merge_ci -v /uod/idr/repos/curated/perkinelmer-operetta:/data -v /uod/idr-scratch/merge-ci/curated/perkinelmer-operetta:/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] 00:43:09,454 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 00:43:09,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
   [testng] 00:43:09,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 00:43:09,456 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 00:43:09,457 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 00:43:09,457 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 00:43:09,457 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 00:43:09,457 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 00:43:09,458 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 00:43:09,458 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 00:43:09,459 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 00:43:09,459 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 00:43:09,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 00:43:09,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 00:43:09,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 00:43:09,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 00:43:09,637 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 00:43:09,637 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 00:43:09,637 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 00:43:09,637 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 00:43:09,638 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
   [testng] 00:43:09,639 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
   [testng] 00:43:09,639 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 181 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-12-25 00:43:09,647] [main] java.version = 17.0.2
   [testng] 00:43:09,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 00:43:09,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 00:43:09,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_00-43-09.log]
   [testng] 00:43:09,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
   [testng] [2024-12-25 00:43:09,692] [main] testng.directory = /data
   [testng] [2024-12-25 00:43:09,692] [main] testng.configDirectory = /config
   [testng] [2024-12-25 00:43:09,700] [main] testng.multiplier = 1.0
   [testng] [2024-12-25 00:43:09,700] [main] testng.in-memory = false
   [testng] [2024-12-25 00:43:09,700] [main] testng.allow-missing = false
   [testng] [2024-12-25 00:43:09,701] [main] user.language = en
   [testng] [2024-12-25 00:43:09,701] [main] user.country = ${user.country}
   [testng] [2024-12-25 00:43:09,701] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-12-25 00:57:11,380] [main] ----------------------------------------
   [testng] [2024-12-25 00:57:11,380] [main] Total files: 14681
   [testng] [2024-12-25 00:57:11,380] [main] Scan time: 841.679 s (57 ms/file)
   [testng] [2024-12-25 00:57:11,380] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 17 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-12-25 01:11:52,904] [pool-1-thread-1] Initializing /data/public/idr0034/HipSci Experiment 10 Plate 1__2014-08-21T17_57_35-Measurement1/Images/Index.idx.xml: 
   [testng] 01:11:52,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 01:11:52,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:11:52,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_01-11-52.log]
   [testng] 01:11:52,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1cf6b381 - End of configuration.
   [testng] [2024-12-25 01:12:15,624] [pool-1-thread-12] Initializing /data/samples/32-bit-file/Index.idx.xml: 
   [testng] 01:12:15,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 01:12:15,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:15,625 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-25_01-12-15.log]
   [testng] 01:12:15,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@275be4c1 - End of configuration.
   [testng] [2024-12-25 01:12:16,667] [pool-1-thread-11] Initializing /data/public/zenodo-7841360/Hoechst__2023-03-07T10_17_54-Measurement 2/Images/Index.idx.xml: 
   [testng] 01:12:16,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 01:12:16,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:16,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-25_01-12-16.log]
   [testng] 01:12:16,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39d07b87 - End of configuration.
   [testng] [2024-12-25 01:12:17,486] [pool-1-thread-10] Initializing /data/hms/ryang_skbr3_p1__2012-07-10T15_24_30-Measurement1/Images/Index.idx.xml: 
   [testng] 01:12:17,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 01:12:17,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:17,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-25_01-12-17.log]
   [testng] 01:12:17,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a87b0b0 - End of configuration.
   [testng] [2024-12-25 01:12:18,497] [pool-1-thread-9] Initializing /data/samples/new-phenix/artificial-v6/Hiplex_run1_cycle1_MsPos/Index.idx.xml: 
   [testng] 01:12:18,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 01:12:18,497 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:18,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_01-12-18.log]
   [testng] 01:12:18,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3afa2a8d - End of configuration.
   [testng] [2024-12-25 01:12:26,257] [pool-1-thread-8] Initializing /data/samples/extra-directories/Index.idx.xml: 
   [testng] 01:12:26,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 01:12:26,257 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:26,258 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-25_01-12-26.log]
   [testng] 01:12:26,258 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7639e7f0 - End of configuration.
   [testng] [2024-12-25 01:12:27,455] [pool-1-thread-7] Initializing /data/public/omer/006P_M3/006P_M3_overview.png: 
   [testng] 01:12:27,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 01:12:27,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:27,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_01-12-27.log]
   [testng] 01:12:27,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ebcaf6c - End of configuration.
   [testng] [2024-12-25 01:12:27,517] [pool-1-thread-6] Initializing /data/pki/DataSet/dec61bf8-5ca8-415a-8639-b75bf59ca47c/images/index.xml: 
   [testng] 01:12:27,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 01:12:27,517 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:27,518 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-25_01-12-27.log]
   [testng] 01:12:27,518 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d21b2c3 - End of configuration.
   [testng] [2024-12-25 01:12:29,463] [pool-1-thread-5] Initializing /data/pki/Export/HRMNY-13786__2021-11-23T13_44_30-Measurement 3/Images/Index.xml: 
   [testng] 01:12:29,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 01:12:29,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:29,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-25_01-12-29.log]
   [testng] 01:12:29,464 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35d74b05 - End of configuration.
   [testng] [2024-12-25 01:12:31,392] [pool-1-thread-4] Initializing /data/stephen/Plate 1(2)__2011-09-29T23_50_20-Measurement1/Images/Index.idx.xml: 
   [testng] 01:12:31,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 01:12:31,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:31,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-25_01-12-31.log]
   [testng] 01:12:31,393 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f374ea1 - End of configuration.
   [testng] [2024-12-25 01:12:33,242] [pool-1-thread-3] Initializing /data/public/omer/006P_M3/006P__2017-08-19T12_42_59-Measurement 3/Images/Index.idx.xml: 
   [testng] 01:12:33,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 01:12:33,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:33,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-25_01-12-33.log]
   [testng] 01:12:33,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d3f9a20 - End of configuration.
   [testng] [2024-12-25 01:12:43,611] [pool-1-thread-2] Initializing /data/stephen/P004-CC Edu-pHH3__2009-02-03T17_36_29-Measurement1/Images/Index.idx.xml: 
   [testng] 01:12:43,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 01:12:43,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 01:12:43,612 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-25_01-12-43.log]
   [testng] 01:12:43,613 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b70a58b - End of configuration.
   [testng] [2024-12-25 01:12:49,570] [pool-1-thread-7] Initializing /data/samples/new-phenix/original/Hiplex_run1_cycle1_MsPos/Index.idx.xml: 
   [testng] [2024-12-25 01:13:10,591] [pool-1-thread-11] Initializing /data/public/omer/006P_M3/006P_M3_overview_fields.png: 
   [testng] [2024-12-25 01:13:13,621] [pool-1-thread-11] Initializing /data/samples/smaller-xy/Index.idx.xml: 
   [testng] [2024-12-25 01:14:10,711] [pool-1-thread-10] Initializing /data/qa-17826/JLM-20170801-Operetta/Index.idx.xml: 
   [testng] [2024-12-25 01:14:20,207] [pool-1-thread-8] Initializing /data/samples/no-first-series/Index.idx.xml: 
   [testng] 03:47:00,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 03:47:00,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 03:47:00,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_03-47-00.log]
   [testng] 03:47:00,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2620975 - End of configuration.
   [testng] 04:11:59,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 04:11:59,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:11:59,117 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_04-11-59.log]
   [testng] 04:11:59,117 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2145f7dd - End of configuration.
   [testng] 04:12:05,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 04:12:05,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:05,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_04-12-05.log]
   [testng] 04:12:05,307 |-INFO in ch.qos.logback.core.sift.SiftProcessor@572d2e2a - End of configuration.
   [testng] 04:12:44,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 04:12:44,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:44,538 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_04-12-44.log]
   [testng] 04:12:44,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d810e - End of configuration.
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 901, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 209 minutes 40 seconds
Finished: SUCCESS