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Started by upstream project "BIOFORMATS-test-repo" build number 108 originally caused by: Started by upstream project "Trigger" build number 120 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/jenkins15433407586956751626.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_16818_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR 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] 03:33:01,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:33:01,904 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 03:33:01,904 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:33:01,905 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:33:01,906 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:33:01,906 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:33:01,906 |-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] 03:33:01,906 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:33:01,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:33:01,907 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:33:01,907 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:33:01,907 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:33:02,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:33:02,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:33:02,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:33:02,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:33:02,180 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:33:02,180 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:33:02,180 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:33:02,181 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:33:02,181 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 03:33:02,182 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 03:33:02,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 275 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-01 03:33:02,193] [main] java.version = 1.8.0_342 [testng] 03:33:02,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:33:02,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:02,246 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-01_03-33-02.log] [testng] 03:33:02,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-01 03:33:02,250] [main] testng.directory = /data [testng] [2024-07-01 03:33:02,250] [main] testng.configDirectory = /config [testng] [2024-07-01 03:33:02,263] [main] testng.multiplier = 1.0 [testng] [2024-07-01 03:33:02,264] [main] testng.in-memory = false [testng] [2024-07-01 03:33:02,264] [main] testng.allow-missing = false [testng] [2024-07-01 03:33:02,264] [main] user.language = fr [testng] [2024-07-01 03:33:02,264] [main] user.country = FR [testng] [2024-07-01 03:33:02,264] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-01 03:33:09,867] [main] ---------------------------------------- [testng] [2024-07-01 03:33:09,867] [main] Total files: 67 [testng] [2024-07-01 03:33:09,867] [main] Scan time: 7.602 s (113 ms/file) [testng] [2024-07-01 03:33:09,867] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-01 03:33:35,168] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 03:33:35,169 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:33:35,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-01_03-33-35.log] [testng] 03:33:35,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55816f - End of configuration. [testng] [2024-07-01 03:33:35,218] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 03:33:35,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:33:35,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,220 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-01_03-33-35.log] [testng] 03:33:35,220 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fa971f7 - End of configuration. [testng] [2024-07-01 03:33:35,243] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 03:33:35,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:33:35,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-01_03-33-35.log] [testng] 03:33:35,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21e21306 - End of configuration. [testng] [2024-07-01 03:33:35,259] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 03:33:35,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:33:35,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,260 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-01_03-33-35.log] [testng] 03:33:35,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39a3ccbb - End of configuration. [testng] [2024-07-01 03:33:35,273] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 03:33:35,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:33:35,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-01_03-33-35.log] [testng] 03:33:35,274 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c7392e0 - End of configuration. [testng] [2024-07-01 03:33:35,313] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 03:33:35,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:33:35,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-01_03-33-35.log] [testng] 03:33:35,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39d09197 - End of configuration. [testng] [2024-07-01 03:33:35,349] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 03:33:35,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:33:35,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,350 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-01_03-33-35.log] [testng] 03:33:35,350 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59279392 - End of configuration. [testng] [2024-07-01 03:33:35,363] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 03:33:35,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:33:35,363 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,364 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-01_03-33-35.log] [testng] 03:33:35,365 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b95e882 - End of configuration. [testng] [2024-07-01 03:33:35,384] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 03:33:35,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:33:35,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-01_03-33-35.log] [testng] 03:33:35,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@393de464 - End of configuration. [testng] [2024-07-01 03:33:35,448] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 03:33:35,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:33:35,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-01_03-33-35.log] [testng] 03:33:35,450 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66edaaf3 - End of configuration. [testng] [2024-07-01 03:33:35,494] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 03:33:35,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:33:35,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-01_03-33-35.log] [testng] 03:33:35,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f5cb62b - End of configuration. [testng] [2024-07-01 03:33:35,522] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 03:33:35,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:33:35,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:33:35,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-01_03-33-35.log] [testng] 03:33:35,524 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56de0d63 - End of configuration. [testng] [2024-07-01 03:33:37,577] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-07-01 03:33:37,589] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-07-01 03:33:37,630] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-07-01 03:33:37,657] [pool-1-thread-8] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-07-01 03:33:37,692] [pool-1-thread-12] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-07-01 03:33:37,722] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-07-01 03:33:37,738] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-07-01 03:33:37,804] [pool-1-thread-3] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-07-01 03:33:38,519] [pool-1-thread-10] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-07-01 03:33:38,552] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-07-01 03:33:38,635] [pool-1-thread-4] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-07-01 03:33:38,729] [pool-1-thread-1] Initializing /data/public/eliana/retina_large.ims: [testng] [2024-07-01 03:33:39,263] [pool-1-thread-11] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: [testng] [2024-07-01 03:33:39,757] [pool-1-thread-3] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: [testng] [2024-07-01 03:33:39,844] [pool-1-thread-2] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] [2024-07-01 03:33:40,546] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal_IMS3.ims: [testng] [2024-07-01 03:33:41,051] [pool-1-thread-11] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] [2024-07-01 03:33:49,353] [pool-1-thread-5] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal.ims: [testng] [2024-07-01 03:33:49,490] [pool-1-thread-7] Initializing /data/niko/imaris-testfile_5x5x5.ims: [testng] [2024-07-01 03:33:49,655] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims: [testng] [2024-07-01 03:33:50,029] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0001.ims: [testng] [2024-07-01 03:33:50,441] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0013.ims: [testng] [2024-07-01 03:33:50,753] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0007.ims: [testng] [2024-07-01 03:33:51,420] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/PtK2Cell.ims: BUILD SUCCESSFUL Total time: 1 minute 39 seconds Finished: SUCCESS