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Started by upstream project "BIOFORMATS-test-repo" build number 76 originally caused by: Started by upstream project "Trigger" build number 84 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins18352807707275762251.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_11570_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] 02:19:13,765 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:19:13,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:19:13,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:19:13,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:19:13,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:19:13,769 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:19:13,770 |-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] 02:19:13,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:19:13,770 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:19:13,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:19:13,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:19:13,771 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:19:14,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:19:14,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:19:14,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:19:14,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:19:14,066 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:19:14,066 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:19:14,066 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:19:14,067 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:19:14,067 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:19:14,068 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:19:14,068 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 298 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-27 02:19:14,079] [main] java.version = 1.8.0_342 [testng] 02:19:14,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:19:14,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:14,139 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-27_02-19-14.log] [testng] 02:19:14,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-27 02:19:14,146] [main] testng.directory = /data [testng] [2024-05-27 02:19:14,146] [main] testng.configDirectory = /config [testng] [2024-05-27 02:19:14,166] [main] testng.multiplier = 1.0 [testng] [2024-05-27 02:19:14,167] [main] testng.in-memory = false [testng] [2024-05-27 02:19:14,167] [main] testng.allow-missing = false [testng] [2024-05-27 02:19:14,167] [main] user.language = fr [testng] [2024-05-27 02:19:14,167] [main] user.country = FR [testng] [2024-05-27 02:19:14,167] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-27 02:19:22,404] [main] ---------------------------------------- [testng] [2024-05-27 02:19:22,404] [main] Total files: 67 [testng] [2024-05-27 02:19:22,404] [main] Scan time: 8.236 s (122 ms/file) [testng] [2024-05-27 02:19:22,404] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-27 02:19:49,549] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:19:49,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:19:49,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-27_02-19-49.log] [testng] 02:19:49,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e946826 - End of configuration. [testng] [2024-05-27 02:19:49,586] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:19:49,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:19:49,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,587 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-27_02-19-49.log] [testng] 02:19:49,588 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f1c88e - End of configuration. [testng] [2024-05-27 02:19:49,606] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:19:49,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:19:49,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,607 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-27_02-19-49.log] [testng] 02:19:49,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38b8685c - End of configuration. [testng] [2024-05-27 02:19:49,620] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:19:49,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:19:49,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,621 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-27_02-19-49.log] [testng] 02:19:49,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55612a4e - End of configuration. [testng] [2024-05-27 02:19:49,633] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:19:49,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:19:49,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,634 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-27_02-19-49.log] [testng] 02:19:49,634 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69e3790f - End of configuration. [testng] [2024-05-27 02:19:49,671] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 02:19:49,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:19:49,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-27_02-19-49.log] [testng] 02:19:49,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1311bce3 - End of configuration. [testng] [2024-05-27 02:19:49,684] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 02:19:49,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:19:49,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-27_02-19-49.log] [testng] 02:19:49,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34fda6ad - End of configuration. [testng] [2024-05-27 02:19:49,725] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:19:49,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:19:49,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,726 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-27_02-19-49.log] [testng] 02:19:49,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@633bf4b5 - End of configuration. [testng] [2024-05-27 02:19:49,738] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 02:19:49,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:19:49,739 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,739 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-27_02-19-49.log] [testng] 02:19:49,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63b5fc4a - End of configuration. [testng] [2024-05-27 02:19:49,792] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 02:19:49,792 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:19:49,793 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,793 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-27_02-19-49.log] [testng] 02:19:49,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f215f69 - End of configuration. [testng] [2024-05-27 02:19:49,822] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 02:19:49,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:19:49,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,823 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-27_02-19-49.log] [testng] 02:19:49,823 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63ece6e2 - End of configuration. [testng] [2024-05-27 02:19:49,854] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:19:49,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:19:49,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:49,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-27_02-19-49.log] [testng] 02:19:49,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@444213de - End of configuration. [testng] [2024-05-27 02:19:51,985] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-05-27 02:19:51,995] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-05-27 02:19:52,029] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-05-27 02:19:52,051] [pool-1-thread-7] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-05-27 02:19:52,078] [pool-1-thread-10] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-05-27 02:19:52,113] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-05-27 02:19:52,132] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-05-27 02:19:52,328] [pool-1-thread-3] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-05-27 02:19:52,629] [pool-1-thread-4] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-05-27 02:19:52,677] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-05-27 02:19:52,726] [pool-1-thread-8] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-05-27 02:19:53,568] [pool-1-thread-1] Initializing /data/public/eliana/retina_large.ims: [testng] [2024-05-27 02:19:53,633] [pool-1-thread-2] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: [testng] [2024-05-27 02:19:53,702] [pool-1-thread-12] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims: [testng] [2024-05-27 02:19:53,768] [pool-1-thread-3] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] [2024-05-27 02:19:54,611] [pool-1-thread-8] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal_IMS3.ims: [testng] [2024-05-27 02:19:54,765] [pool-1-thread-2] Initializing /data/qa-17522/2016-12-14_08.43.34_Sample Prefix_WAINWRIGHT James_Protocol.ims: [testng] [2024-05-27 02:20:05,420] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0008.ims: [testng] [2024-05-27 02:20:05,436] [pool-1-thread-11] Initializing /data/public/davemason/Convallaria_3C_3T_2x2grid_confocal.ims: [testng] [2024-05-27 02:20:05,901] [pool-1-thread-12] Initializing /data/james/apoEcherry_IL10GFP_tfn647_1_R3D_D3D-Display Adjustment-Save-2011-7-5-1.ims: [testng] [2024-05-27 02:20:06,138] [pool-1-thread-1] Initializing /data/generated/MF-2CH-Z-T.ims: [testng] [2024-05-27 02:20:06,316] [pool-1-thread-1] Initializing /data/qa-17515/Organoid=1.ims: [testng] [2024-05-27 02:20:07,458] [pool-1-thread-5] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims: BUILD SUCCESSFUL Total time: 1 minute 48 seconds Finished: SUCCESS