Started by upstream project "BIOFORMATS-test-repo" build number 66
originally caused by:
Started by upstream project "Trigger" build number 74
originally caused by:
Started by user devspace
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4
[BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins9270113159872515014.sh
+ '[' imspector = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_9935_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
test-automated:
[testng] File leak detector installed
[testng] 08:54:39,270 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 08:54:39,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
[testng] 08:54:39,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 08:54:39,273 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 08:54:39,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 08:54:39,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 08:54:39,274 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 08:54:39,274 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 08:54:39,274 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 08:54:39,274 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 08:54:39,275 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 08:54:39,275 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 08:54:39,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 08:54:39,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 08:54:39,566 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 08:54:39,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 08:54:39,580 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 08:54:39,580 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 08:54:39,580 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 08:54:39,581 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 08:54:39,581 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
[testng] 08:54:39,582 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
[testng] 08:54:39,583 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 309 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-17 08:54:39,598] [main] java.version = 1.8.0_342
[testng] 08:54:39,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 08:54:39,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:39,657 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-17_08-54-39.log]
[testng] 08:54:39,660 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
[testng] [2024-05-17 08:54:39,663] [main] testng.directory = /data
[testng] [2024-05-17 08:54:39,663] [main] testng.configDirectory = /config
[testng] [2024-05-17 08:54:39,682] [main] testng.multiplier = 1.0
[testng] [2024-05-17 08:54:39,682] [main] testng.in-memory = false
[testng] [2024-05-17 08:54:39,683] [main] testng.allow-missing = false
[testng] [2024-05-17 08:54:39,683] [main] user.language = en
[testng] [2024-05-17 08:54:39,683] [main] user.country = ${user.country}
[testng] [2024-05-17 08:54:39,683] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-05-17 08:54:41,793] [main] ----------------------------------------
[testng] [2024-05-17 08:54:41,793] [main] Total files: 29
[testng] [2024-05-17 08:54:41,793] [main] Scan time: 2.11 s (72 ms/file)
[testng] [2024-05-17 08:54:41,793] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 28 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-17 08:54:47,373] [pool-1-thread-1] Initializing /data/qa-7992/ArrayIndexOutOfBoundsException.msr:
[testng] 08:54:47,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 08:54:47,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,375 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-17_08-54-47.log]
[testng] 08:54:47,375 |-INFO in ch.qos.logback.core.sift.SiftProcessor@740b7b3f - End of configuration.
[testng] [2024-05-17 08:54:47,416] [pool-1-thread-12] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - 500x500x105_1046x1046x57_1.875um_steps.msr:
[testng] 08:54:47,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 08:54:47,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-17_08-54-47.log]
[testng] 08:54:47,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38116bf0 - End of configuration.
[testng] [2024-05-17 08:54:47,452] [pool-1-thread-11] Initializing /data/qa-4929/OMERO data/01 - 27hpf_f2-GFP-wt1b+rfp-flk1 - 3channel-z-stack.msr:
[testng] 08:54:47,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 08:54:47,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,455 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-17_08-54-47.log]
[testng] 08:54:47,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5789a283 - End of configuration.
[testng] [2024-05-17 08:54:47,490] [pool-1-thread-10] Initializing /data/qa-7992/IllegalArgumentException.msr:
[testng] 08:54:47,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 08:54:47,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-17_08-54-47.log]
[testng] 08:54:47,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@310a3929 - End of configuration.
[testng] [2024-05-17 08:54:47,522] [pool-1-thread-9] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_z-stack_FLIM_TDC_C0.ome.tif:
[testng] 08:54:47,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 08:54:47,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-17_08-54-47.log]
[testng] 08:54:47,524 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2401f64b - End of configuration.
[testng] [2024-05-17 08:54:47,747] [pool-1-thread-8] Initializing /data/qa-17102/2 channels FLIM time series.msr:
[testng] 08:54:47,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 08:54:47,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-17_08-54-47.log]
[testng] 08:54:47,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@504afbf4 - End of configuration.
[testng] [2024-05-17 08:54:47,784] [pool-1-thread-7] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel Zstack.msr:
[testng] 08:54:47,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 08:54:47,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,785 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-17_08-54-47.log]
[testng] 08:54:47,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@199377f4 - End of configuration.
[testng] [2024-05-17 08:54:47,817] [pool-1-thread-6] Initializing /data/qa-11369/02 - 70 - 1 - tp1 - x16 TCSPC.msr:
[testng] 08:54:47,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 08:54:47,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,818 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-17_08-54-47.log]
[testng] 08:54:47,819 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e5fe5cb - End of configuration.
[testng] [2024-05-17 08:54:47,851] [pool-1-thread-5] Initializing /data/qa-7658/Document1_13-09-25.msr:
[testng] 08:54:47,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 08:54:47,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,852 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-17_08-54-47.log]
[testng] 08:54:47,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7594a95b - End of configuration.
[testng] [2024-05-17 08:54:47,881] [pool-1-thread-4] Initializing /data/qa-7936/01 - working.msr:
[testng] 08:54:47,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 08:54:47,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-17_08-54-47.log]
[testng] 08:54:47,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b384b29 - End of configuration.
[testng] [2024-05-17 08:54:47,910] [pool-1-thread-3] Initializing /data/qa-11369/01 - 770nm FITC - HybridPMT.msr:
[testng] 08:54:47,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 08:54:47,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,911 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-17_08-54-47.log]
[testng] 08:54:47,912 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10d72609 - End of configuration.
[testng] [2024-05-17 08:54:47,951] [pool-1-thread-2] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning.msr:
[testng] 08:54:47,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 08:54:47,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 08:54:47,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-17_08-54-47.log]
[testng] 08:54:47,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40fa70c1 - End of configuration.
[testng] [2024-05-17 08:54:50,096] [pool-1-thread-8] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel Zstack.msr:
[testng] [2024-05-17 08:54:50,117] [pool-1-thread-6] Initializing /data/paul/msr files - Paul Thomas UEA/Lifetime file.msr:
[testng] [2024-05-17 08:54:50,143] [pool-1-thread-11] Initializing /data/qa-27309/181109_e3_cut.msr:
[testng] [2024-05-17 08:54:50,167] [pool-1-thread-3] Initializing /data/qa-7936/02 - not working.msr:
[testng] [2024-05-17 08:54:50,198] [pool-1-thread-4] Initializing /data/qa-17102/2 channels FLIM z stack.msr:
[testng] [2024-05-17 08:54:50,224] [pool-1-thread-1] Initializing /data/qa-7668/01 - RhodamineB - FLIM test - 4 binning_12-08-53_TCSPC_C0.ome.tif:
[testng] [2024-05-17 08:54:50,422] [pool-1-thread-10] Initializing /data/qa-17102/1 channel binning 8 time series.msr:
[testng] [2024-05-17 08:54:50,444] [pool-1-thread-5] Initializing /data/qa-17102/1 channel binning 4 time series.msr:
[testng] [2024-05-17 08:54:50,463] [pool-1-thread-12] Initializing /data/qa-7702/trim- scope msr z-stacks/02 - Arf_FLIM_z-stack_1.msr:
[testng] [2024-05-17 08:54:50,483] [pool-1-thread-2] Initializing /data/paul/msr files - Paul Thomas UEA/Two channel single slice.msr:
[testng] [2024-05-17 08:54:50,564] [pool-1-thread-7] Initializing /data/qa-7936/z-TC - for LOCI.msr:
[testng] [2024-05-17 08:54:50,794] [pool-1-thread-9] Initializing /data/qa-9468/HPDR10467U-40-VD0191-red-100pc-without-tube.msr:
[testng] [2024-05-17 08:54:50,827] [pool-1-thread-2] Initializing /data/qa-7992/NegativeArraySizeException_small.msr:
[testng] [2024-05-17 08:54:50,863] [pool-1-thread-11] 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] [2024-05-17 08:54:51,300] [pool-1-thread-5] Initializing /data/qa-4929/OMERO data/01 - urea_irf_image_TCSPC-data.msr:
[testng] [2024-05-17 08:54:51,366] [pool-1-thread-6] Initializing /data/paul/msr files - Paul Thomas UEA/Single channel single slice 4 tiles.msr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1484, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 17 seconds
Finished: SUCCESS