Started by upstream project "BIOFORMATS-test-repo" build number 186
originally caused by:
Started by upstream project "Trigger" build number 208
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/jenkins2016372915267031259.sh
+ '[' imspector = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_29458_merge_ci -v /uod/idr/repos/curated/imspector:/data -v /uod/idr-scratch/merge-ci/curated/imspector:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 02:25:06,249 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:25:06,251 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service.
[testng] 02:25:06,251 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:25:06,252 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:25:06,252 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:25:06,252 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:25:06,253 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:25:06,253 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:25:06,253 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:25:06,254 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:25:06,254 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:25:06,254 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:25:06,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:25:06,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:25:06,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:25:06,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:25:06,475 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:25:06,475 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:25:06,475 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:25:06,475 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:25:06,476 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration.
[testng] 02:25:06,476 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point
[testng] 02:25:06,476 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 223 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-09-12 02:25:06,489] [main] java.version = 21
[testng] 02:25:06,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:25:06,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:06,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-12_02-25-06.log]
[testng] 02:25:06,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration.
[testng] [2024-09-12 02:25:06,539] [main] testng.directory = /data
[testng] [2024-09-12 02:25:06,539] [main] testng.configDirectory = /config
[testng] [2024-09-12 02:25:06,547] [main] testng.multiplier = 1.0
[testng] [2024-09-12 02:25:06,548] [main] testng.in-memory = false
[testng] [2024-09-12 02:25:06,548] [main] testng.allow-missing = false
[testng] [2024-09-12 02:25:06,548] [main] user.language = en
[testng] [2024-09-12 02:25:06,548] [main] user.country = ${user.country}
[testng] [2024-09-12 02:25:06,548] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-09-12 02:25:09,183] [main] ----------------------------------------
[testng] [2024-09-12 02:25:09,183] [main] Total files: 29
[testng] [2024-09-12 02:25:09,183] [main] Scan time: 2.635 s (90 ms/file)
[testng] [2024-09-12 02:25:09,183] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 28 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-09-12 02:25:15,608] [pool-1-thread-1] Initializing /data/qa-7992/NegativeArraySizeException_small.msr:
[testng] 02:25:15,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:25:15,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:15,609 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-12_02-25-15.log]
[testng] 02:25:15,610 |-INFO in ch.qos.logback.core.sift.SiftProcessor@735f022f - End of configuration.
[testng] [2024-09-12 02:25:15,663] [pool-1-thread-12] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_z-stack_FLIM_TDC_C0.ome.tif:
[testng] 02:25:15,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:25:15,664 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:15,665 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-12_02-25-15.log]
[testng] 02:25:15,665 |-INFO in ch.qos.logback.core.sift.SiftProcessor@640fd262 - End of configuration.
[testng] [2024-09-12 02:25:15,938] [pool-1-thread-11] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning_12-08-53_TCSPC_C0.ome.tif:
[testng] 02:25:15,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:25:15,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:15,940 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-12_02-25-15.log]
[testng] 02:25:15,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d1a2594 - End of configuration.
[testng] [2024-09-12 02:25:16,331] [pool-1-thread-10] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps/02 - 500x500x105_1046x1046x57_1_875um_steps_11-34-02_PMT - PMT [PMT1] _C0.ome.tif:
[testng] 02:25:16,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:25:16,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,333 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-12_02-25-16.log]
[testng] 02:25:16,333 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c2c081b - End of configuration.
[testng] [2024-09-12 02:25:16,599] [pool-1-thread-9] Initializing /data/qa-11369/01 - 770nm FITC - HybridPMT.msr:
[testng] 02:25:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:25:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-12_02-25-16.log]
[testng] 02:25:16,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d3eb071 - End of configuration.
[testng] [2024-09-12 02:25:16,668] [pool-1-thread-8] Initializing /data/qa-7936/02 - not working.msr:
[testng] 02:25:16,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:25:16,668 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,669 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-12_02-25-16.log]
[testng] 02:25:16,670 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25ee6e03 - End of configuration.
[testng] [2024-09-12 02:25:16,732] [pool-1-thread-7] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps.msr:
[testng] 02:25:16,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:25:16,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,733 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-12_02-25-16.log]
[testng] 02:25:16,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d2c4b9e - End of configuration.
[testng] [2024-09-12 02:25:16,798] [pool-1-thread-6] Initializing /data/qa-4929/OMERO data/01 - urea_irf_image_TCSPC-data.msr:
[testng] 02:25:16,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:25:16,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,800 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-12_02-25-16.log]
[testng] 02:25:16,800 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b735fbc - End of configuration.
[testng] [2024-09-12 02:25:16,857] [pool-1-thread-5] Initializing /data/qa-9468/HPDR10467U-40-VD0191-red-100pc-without-tube.msr:
[testng] 02:25:16,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:25:16,857 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-12_02-25-16.log]
[testng] 02:25:16,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cc3003 - End of configuration.
[testng] [2024-09-12 02:25:16,954] [pool-1-thread-4] Initializing /data/qa-7992/IllegalArgumentException.msr:
[testng] 02:25:16,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:25:16,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:16,955 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-12_02-25-16.log]
[testng] 02:25:16,955 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7abe229b - End of configuration.
[testng] [2024-09-12 02:25:17,034] [pool-1-thread-3] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning.msr:
[testng] 02:25:17,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:25:17,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:17,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-12_02-25-17.log]
[testng] 02:25:17,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22c3367f - End of configuration.
[testng] [2024-09-12 02:25:17,147] [pool-1-thread-2] Initializing /data/qa-17102/2 channels FLIM time series.msr:
[testng] 02:25:17,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:25:17,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:17,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-12_02-25-17.log]
[testng] 02:25:17,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@485664a9 - End of configuration.
[testng] [2024-09-12 02:25:19,659] [pool-1-thread-2] Initializing /data/qa-17102/1 channel binning 8 time series.msr:
[testng] [2024-09-12 02:25:19,690] [pool-1-thread-6] Initializing /data/qa-11369/02 - 70 - 1 - tp1 - x16 TCSPC.msr:
[testng] [2024-09-12 02:25:19,719] [pool-1-thread-4] Initializing /data/qa-7936/01 - working.msr:
[testng] [2024-09-12 02:25:19,762] [pool-1-thread-9] Initializing /data/qa-4929/OMERO data/01 - 27hpf_f2-GFP-wt1b+rfp-flk1 - 3channel-z-stack.msr:
[testng] [2024-09-12 02:25:19,820] [pool-1-thread-8] Initializing /data/qa-7658/Document1_13-09-25.msr:
[testng] [2024-09-12 02:25:19,884] [pool-1-thread-1] Initializing /data/qa-17102/2 channels FLIM z stack.msr:
[testng] [2024-09-12 02:25:20,070] [pool-1-thread-5] Initializing /data/qa-7992/ArrayIndexOutOfBoundsException.msr:
[testng] [2024-09-12 02:25:20,146] [pool-1-thread-7] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_FLIM_z-stack_1.msr:
[testng] [2024-09-12 02:25:20,247] [pool-1-thread-3] Initializing /data/qa-27309/181109_e3_cut.msr:
[testng] [2024-09-12 02:25:20,657] [pool-1-thread-11] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel single slice.msr:
[testng] [2024-09-12 02:25:20,724] [pool-1-thread-3] Initializing /data/qa-7936/z-TC - for LOCI.msr:
[testng] [2024-09-12 02:25:20,808] [pool-1-thread-12] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel single slice 4 tiles.msr:
[testng] [2024-09-12 02:25:20,888] [pool-1-thread-2] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel Zstack.msr:
[testng] [2024-09-12 02:25:20,942] [pool-1-thread-1] Initializing /data/paul/msr files - Paul Thomas UEA/Lifetime file.msr:
[testng] [2024-09-12 02:25:20,987] [pool-1-thread-4] Initializing /data/qa-17102/1 channel binning 4 time series.msr:
[testng] [2024-09-12 02:25:21,053] [pool-1-thread-9] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel Zstack.msr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1484, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 19 seconds
Finished: SUCCESS