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Started by upstream project "BIOFORMATS-test-repo" build number 62 originally caused by: Started by upstream project "Trigger" build number 69 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/jenkins3438190075243434805.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_9274_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] 02:20:21,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:20:21,375 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:20:21,375 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:20:21,376 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:20:21,376 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:20:21,376 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:20:21,376 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:20:21,376 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:20:21,377 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:20:21,377 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:20:21,377 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:20:21,377 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:20:21,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:20:21,622 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:20:21,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:20:21,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:20:21,658 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:20:21,658 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:20:21,659 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:20:21,662 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:20:21,662 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:20:21,664 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:20:21,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 287 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-13 02:20:21,688] [main] java.version = 1.8.0_342 [testng] 02:20:21,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:20:21,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:21,787 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-13_02-20-21.log] [testng] 02:20:21,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-13 02:20:21,799] [main] testng.directory = /data [testng] [2024-05-13 02:20:21,800] [main] testng.configDirectory = /config [testng] [2024-05-13 02:20:21,814] [main] testng.multiplier = 1.0 [testng] [2024-05-13 02:20:21,815] [main] testng.in-memory = false [testng] [2024-05-13 02:20:21,815] [main] testng.allow-missing = false [testng] [2024-05-13 02:20:21,815] [main] user.language = fr [testng] [2024-05-13 02:20:21,815] [main] user.country = FR [testng] [2024-05-13 02:20:21,815] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-13 02:20:28,682] [main] ---------------------------------------- [testng] [2024-05-13 02:20:28,682] [main] Total files: 67 [testng] [2024-05-13 02:20:28,682] [main] Scan time: 6.867 s (102 ms/file) [testng] [2024-05-13 02:20:28,683] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-13 02:20:51,044] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:20:51,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:20:51,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-13_02-20-51.log] [testng] 02:20:51,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e5be4f6 - End of configuration. [testng] [2024-05-13 02:20:51,082] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:20:51,082 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:20:51,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,083 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-13_02-20-51.log] [testng] 02:20:51,084 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b22461c - End of configuration. [testng] [2024-05-13 02:20:51,103] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:20:51,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:20:51,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-13_02-20-51.log] [testng] 02:20:51,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@514c43d1 - End of configuration. [testng] [2024-05-13 02:20:51,119] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:20:51,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:20:51,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,119 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-13_02-20-51.log] [testng] 02:20:51,120 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72f86ecd - End of configuration. [testng] [2024-05-13 02:20:51,135] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:20:51,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:20:51,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,136 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-13_02-20-51.log] [testng] 02:20:51,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@570a76b3 - End of configuration. [testng] [2024-05-13 02:20:51,171] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 02:20:51,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:20:51,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-13_02-20-51.log] [testng] 02:20:51,172 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a27c3bd - End of configuration. [testng] [2024-05-13 02:20:51,186] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 02:20:51,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:20:51,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-13_02-20-51.log] [testng] 02:20:51,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@495d6fd3 - End of configuration. [testng] [2024-05-13 02:20:51,202] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:20:51,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:20:51,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-13_02-20-51.log] [testng] 02:20:51,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@785fa7e9 - End of configuration. [testng] [2024-05-13 02:20:51,225] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 02:20:51,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:20:51,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-13_02-20-51.log] [testng] 02:20:51,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@578bdcdc - End of configuration. [testng] [2024-05-13 02:20:51,281] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 02:20:51,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:20:51,281 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-13_02-20-51.log] [testng] 02:20:51,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dbda3fe - End of configuration. [testng] [2024-05-13 02:20:51,311] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 02:20:51,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:20:51,312 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,313 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-13_02-20-51.log] [testng] 02:20:51,313 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c165667 - End of configuration. [testng] [2024-05-13 02:20:51,351] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:20:51,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:20:51,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:51,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-13_02-20-51.log] [testng] 02:20:51,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dd63f54 - End of configuration. [testng] [2024-05-13 02:20:53,318] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-05-13 02:20:53,329] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-05-13 02:20:53,363] [pool-1-thread-12] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-05-13 02:20:53,388] [pool-1-thread-10] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-05-13 02:20:53,413] [pool-1-thread-8] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-05-13 02:20:53,445] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-05-13 02:20:53,460] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-05-13 02:20:54,711] [pool-1-thread-4] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-05-13 02:20:54,836] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-05-13 02:20:54,885] [pool-1-thread-11] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-05-13 02:20:55,749] [pool-1-thread-6] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: [testng] [2024-05-13 02:20:56,313] [pool-1-thread-3] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: [testng] [2024-05-13 02:20:56,455] [pool-1-thread-2] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] [2024-05-13 02:20:56,854] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal_IMS3.ims: [testng] [2024-05-13 02:20:57,217] [pool-1-thread-6] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] [2024-05-13 02:21:10,548] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims: [testng] [2024-05-13 02:21:10,625] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0008.ims: [testng] [2024-05-13 02:21:10,920] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims: [testng] [2024-05-13 02:21:11,083] [pool-1-thread-1] Initializing /data/james/apoEcherry_IL10GFP_tfn647_1_R3D_D3D-Display Adjustment-Save-2011-7-5-1.ims: [testng] [2024-05-13 02:21:11,282] [pool-1-thread-5] Initializing /data/generated/MF-2CH-Z-T.ims: [testng] [2024-05-13 02:21:11,723] [pool-1-thread-5] Initializing /data/qa-17515/Organoid=1.ims: [testng] [2024-05-13 02:21:13,052] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims: BUILD SUCCESSFUL Total time: 1 minute 45 seconds Finished: SUCCESS