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Started by upstream project "BIOFORMATS-test-repo" build number 115 originally caused by: Started by upstream project "Trigger" build number 128 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins18148270363952806676.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_17966_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] 02:13:54,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:13:54,548 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:13:54,548 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:13:54,549 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:13:54,549 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:13:54,549 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:13:54,549 |-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] 02:13:54,549 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:13:54,550 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:13:54,550 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:13:54,550 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:13:54,550 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:13:54,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:13:54,771 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:13:54,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:13:54,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:13:54,806 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:13:54,806 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:13:54,806 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:13:54,807 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:13:54,807 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:13:54,808 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:13:54,808 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 258 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-08 02:13:54,817] [main] java.version = 1.8.0_342 [testng] 02:13:54,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:13:54,821 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:13:54,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-08_02-13-54.log] [testng] 02:13:54,866 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-08 02:13:54,868] [main] testng.directory = /data [testng] [2024-07-08 02:13:54,868] [main] testng.configDirectory = /config [testng] [2024-07-08 02:13:54,880] [main] testng.multiplier = 1.0 [testng] [2024-07-08 02:13:54,881] [main] testng.in-memory = false [testng] [2024-07-08 02:13:54,881] [main] testng.allow-missing = false [testng] [2024-07-08 02:13:54,881] [main] user.language = fr [testng] [2024-07-08 02:13:54,881] [main] user.country = FR [testng] [2024-07-08 02:13:54,881] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-08 02:14:02,109] [main] ---------------------------------------- [testng] [2024-07-08 02:14:02,109] [main] Total files: 67 [testng] [2024-07-08 02:14:02,109] [main] Scan time: 7.228 s (107 ms/file) [testng] [2024-07-08 02:14:02,109] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-08 02:14:26,507] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:14:26,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:14:26,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-08_02-14-26.log] [testng] 02:14:26,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e839951 - End of configuration. [testng] [2024-07-08 02:14:26,556] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:14:26,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:14:26,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,558 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-08_02-14-26.log] [testng] 02:14:26,558 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5811780a - End of configuration. [testng] [2024-07-08 02:14:26,578] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:14:26,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:14:26,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-08_02-14-26.log] [testng] 02:14:26,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dc72522 - End of configuration. [testng] [2024-07-08 02:14:26,592] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:14:26,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:14:26,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,593 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-08_02-14-26.log] [testng] 02:14:26,593 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ef07ebb - End of configuration. [testng] [2024-07-08 02:14:26,604] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:14:26,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:14:26,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,605 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-08_02-14-26.log] [testng] 02:14:26,606 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75b76328 - End of configuration. [testng] [2024-07-08 02:14:26,642] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 02:14:26,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:14:26,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-08_02-14-26.log] [testng] 02:14:26,644 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ea545b6 - End of configuration. [testng] [2024-07-08 02:14:26,659] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 02:14:26,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:14:26,659 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,659 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-08_02-14-26.log] [testng] 02:14:26,660 |-INFO in ch.qos.logback.core.sift.SiftProcessor@459fd591 - End of configuration. [testng] [2024-07-08 02:14:26,671] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:14:26,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:14:26,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-08_02-14-26.log] [testng] 02:14:26,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34d9daeb - End of configuration. [testng] [2024-07-08 02:14:26,688] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 02:14:26,688 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:14:26,688 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,689 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-08_02-14-26.log] [testng] 02:14:26,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39a3ccbb - End of configuration. [testng] [2024-07-08 02:14:26,761] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 02:14:26,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:14:26,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,762 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-08_02-14-26.log] [testng] 02:14:26,762 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28d95c88 - End of configuration. [testng] [2024-07-08 02:14:26,796] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 02:14:26,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:14:26,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,798 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-08_02-14-26.log] [testng] 02:14:26,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61eef0f - End of configuration. [testng] [2024-07-08 02:14:26,826] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:14:26,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:14:26,827 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:14:26,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-08_02-14-26.log] [testng] 02:14:26,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3621289b - End of configuration. [testng] [2024-07-08 02:14:28,634] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-07-08 02:14:28,645] [pool-1-thread-12] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-07-08 02:14:28,678] [pool-1-thread-10] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-07-08 02:14:28,704] [pool-1-thread-11] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-07-08 02:14:28,733] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-07-08 02:14:28,758] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-07-08 02:14:28,775] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-07-08 02:14:29,282] [pool-1-thread-3] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-07-08 02:14:29,344] [pool-1-thread-4] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-07-08 02:14:29,385] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-07-08 02:14:29,422] [pool-1-thread-8] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-07-08 02:14:29,705] [pool-1-thread-1] Initializing /data/public/eliana/retina_large.ims: BUILD SUCCESSFUL Total time: 1 minute 40 seconds Finished: SUCCESS