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Started by upstream project "BIOFORMATS-test-repo" build number 69 originally caused by: Started by upstream project "Trigger" build number 77 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins7969473648074579416.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_10422_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] 02:25:24,040 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:25:24,041 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:25:24,041 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:25:24,042 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:25:24,042 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:25:24,043 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:25:24,043 |-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] 02:25:24,043 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:25:24,043 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:25:24,044 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:25:24,044 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:25:24,044 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:25:24,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:25:24,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:25:24,286 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:25:24,286 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:25:24,294 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:25:24,294 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:25:24,294 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:25:24,295 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:25:24,295 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:25:24,296 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:25:24,296 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 253 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-20 02:25:24,305] [main] java.version = 1.8.0_342 [testng] 02:25:24,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:25:24,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:24,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-20_02-25-24.log] [testng] 02:25:24,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-20 02:25:24,355] [main] testng.directory = /data [testng] [2024-05-20 02:25:24,356] [main] testng.configDirectory = /config [testng] [2024-05-20 02:25:24,367] [main] testng.multiplier = 1.0 [testng] [2024-05-20 02:25:24,368] [main] testng.in-memory = false [testng] [2024-05-20 02:25:24,368] [main] testng.allow-missing = false [testng] [2024-05-20 02:25:24,368] [main] user.language = fr [testng] [2024-05-20 02:25:24,368] [main] user.country = FR [testng] [2024-05-20 02:25:24,368] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-20 02:25:31,782] [main] ---------------------------------------- [testng] [2024-05-20 02:25:31,782] [main] Total files: 67 [testng] [2024-05-20 02:25:31,782] [main] Scan time: 7.414 s (110 ms/file) [testng] [2024-05-20 02:25:31,782] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-20 02:25:58,136] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:25:58,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:25:58,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,138 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-20_02-25-58.log] [testng] 02:25:58,139 |-INFO in ch.qos.logback.core.sift.SiftProcessor@496f5a6d - End of configuration. [testng] [2024-05-20 02:25:58,176] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:25:58,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:25:58,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,177 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-20_02-25-58.log] [testng] 02:25:58,177 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59ea82b8 - End of configuration. [testng] [2024-05-20 02:25:58,195] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:25:58,195 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:25:58,195 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,196 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-20_02-25-58.log] [testng] 02:25:58,196 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32d90c0 - End of configuration. [testng] [2024-05-20 02:25:58,209] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:25:58,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:25:58,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-20_02-25-58.log] [testng] 02:25:58,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70eed077 - End of configuration. [testng] [2024-05-20 02:25:58,223] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:25:58,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:25:58,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,224 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-20_02-25-58.log] [testng] 02:25:58,225 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b0c4ff3 - End of configuration. [testng] [2024-05-20 02:25:58,269] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 02:25:58,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:25:58,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,271 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-20_02-25-58.log] [testng] 02:25:58,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63b1fe05 - End of configuration. [testng] [2024-05-20 02:25:58,311] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 02:25:58,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:25:58,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,311 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-20_02-25-58.log] [testng] 02:25:58,312 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6277c11a - End of configuration. [testng] [2024-05-20 02:25:58,325] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:25:58,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:25:58,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-20_02-25-58.log] [testng] 02:25:58,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b06caf1 - End of configuration. [testng] [2024-05-20 02:25:58,340] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 02:25:58,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:25:58,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-20_02-25-58.log] [testng] 02:25:58,341 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6cdc6c24 - End of configuration. [testng] [2024-05-20 02:25:58,402] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 02:25:58,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:25:58,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-20_02-25-58.log] [testng] 02:25:58,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@692ef69f - End of configuration. [testng] [2024-05-20 02:25:58,427] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 02:25:58,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:25:58,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,428 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-20_02-25-58.log] [testng] 02:25:58,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65021910 - End of configuration. [testng] [2024-05-20 02:25:58,462] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:25:58,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:25:58,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:25:58,463 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-20_02-25-58.log] [testng] 02:25:58,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dcc24e9 - End of configuration. [testng] [2024-05-20 02:26:00,622] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-05-20 02:26:00,633] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-05-20 02:26:00,668] [pool-1-thread-10] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-05-20 02:26:00,697] [pool-1-thread-12] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-05-20 02:26:00,727] [pool-1-thread-7] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-05-20 02:26:00,758] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-05-20 02:26:00,776] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-05-20 02:26:01,230] [pool-1-thread-3] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-05-20 02:26:01,799] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-05-20 02:26:01,903] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-05-20 02:26:01,943] [pool-1-thread-4] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-05-20 02:26:02,522] [pool-1-thread-11] Initializing /data/public/eliana/retina_large.ims: [testng] [2024-05-20 02:26:02,969] [pool-1-thread-3] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: [testng] [2024-05-20 02:26:03,000] [pool-1-thread-2] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] [2024-05-20 02:26:03,887] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal_IMS3.ims: [testng] [2024-05-20 02:26:05,040] [pool-1-thread-8] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] [2024-05-20 02:26:12,652] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal.ims: BUILD SUCCESSFUL Total time: 1 minute 49 seconds Finished: SUCCESS