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Started by upstream project "BIOFORMATS-test-repo" build number 85 originally caused by: Started by upstream project "Trigger" build number 96 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins15830691140138969348.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_13046_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 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] 02:19:28,661 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:19:28,663 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:19:28,663 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:19:28,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:19:28,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:19:28,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:19:28,665 |-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] 02:19:28,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:19:28,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:19:28,666 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:19:28,666 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:19:28,667 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:19:28,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:19:28,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:19:28,989 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:19:28,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:19:29,001 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:19:29,001 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:19:29,001 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:19:29,002 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:19:29,002 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:19:29,003 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:19:29,003 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 337 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-07 02:19:29,015] [main] java.version = 1.8.0_342 [testng] 02:19:29,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:19:29,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:19:29,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-07_02-19-29.log] [testng] 02:19:29,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-06-07 02:19:29,074] [main] testng.directory = /data [testng] [2024-06-07 02:19:29,074] [main] testng.configDirectory = /config [testng] [2024-06-07 02:19:29,092] [main] testng.multiplier = 1.0 [testng] [2024-06-07 02:19:29,093] [main] testng.in-memory = false [testng] [2024-06-07 02:19:29,093] [main] testng.allow-missing = false [testng] [2024-06-07 02:19:29,093] [main] user.language = en [testng] [2024-06-07 02:19:29,093] [main] user.country = ${user.country} [testng] [2024-06-07 02:19:29,094] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-06-07 02:19:37,002] [main] ---------------------------------------- [testng] [2024-06-07 02:19:37,002] [main] Total files: 67 [testng] [2024-06-07 02:19:37,002] [main] Scan time: 7.908 s (118 ms/file) [testng] [2024-06-07 02:19:37,002] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-07 02:20:01,773] [pool-1-thread-1] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_deconvolved_IMS3.ims: [testng] 02:20:01,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:20:01,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-07_02-20-01.log] [testng] 02:20:01,775 |-INFO in ch.qos.logback.core.sift.SiftProcessor@436fa153 - End of configuration. [testng] [2024-06-07 02:20:01,841] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0000.ims: [testng] 02:20:01,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:20:01,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,842 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-07_02-20-01.log] [testng] 02:20:01,843 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ec2fb3 - End of configuration. [testng] [2024-06-07 02:20:01,885] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0005.ims: [testng] 02:20:01,885 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:20:01,885 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,886 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-07_02-20-01.log] [testng] 02:20:01,886 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79a8fb8 - End of configuration. [testng] [2024-06-07 02:20:01,905] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0003.ims: [testng] 02:20:01,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:20:01,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-07_02-20-01.log] [testng] 02:20:01,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3850ac72 - End of configuration. [testng] [2024-06-07 02:20:01,931] [pool-1-thread-9] Initializing /data/jcb/fig 6B GFP-AP-2d.ims: [testng] 02:20:01,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:20:01,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,933 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-07_02-20-01.log] [testng] 02:20:01,933 |-INFO in ch.qos.logback.core.sift.SiftProcessor@124dc6f8 - End of configuration. [testng] [2024-06-07 02:20:01,998] [pool-1-thread-8] Initializing /data/generated/mri-stack-original.ims: [testng] 02:20:01,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:20:01,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:01,999 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-07_02-20-01.log] [testng] 02:20:02,000 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b22461c - End of configuration. [testng] [2024-06-07 02:20:02,052] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0015.ims: [testng] 02:20:02,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:20:02,052 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-07_02-20-02.log] [testng] 02:20:02,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@514c43d1 - End of configuration. [testng] [2024-06-07 02:20:02,075] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0009.ims: [testng] 02:20:02,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:20:02,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-07_02-20-02.log] [testng] 02:20:02,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72f86ecd - End of configuration. [testng] [2024-06-07 02:20:02,103] [pool-1-thread-5] Initializing /data/qa-17839/Fusion_2048_2048_50_1_Acquire.ims: [testng] 02:20:02,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:20:02,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-07_02-20-02.log] [testng] 02:20:02,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a27c3bd - End of configuration. [testng] [2024-06-07 02:20:02,179] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 02:20:02,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:20:02,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,180 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-07_02-20-02.log] [testng] 02:20:02,181 |-INFO in ch.qos.logback.core.sift.SiftProcessor@495d6fd3 - End of configuration. [testng] [2024-06-07 02:20:02,246] [pool-1-thread-3] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] 02:20:02,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:20:02,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,248 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-07_02-20-02.log] [testng] 02:20:02,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@785fa7e9 - End of configuration. [testng] [2024-06-07 02:20:02,289] [pool-1-thread-2] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 02:20:02,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:20:02,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:20:02,291 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-07_02-20-02.log] [testng] 02:20:02,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b2793b9 - End of configuration. [testng] [2024-06-07 02:20:04,741] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0012.ims: [testng] [2024-06-07 02:20:04,752] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_10T_confocal_IMS3.ims: [testng] [2024-06-07 02:20:04,793] [pool-1-thread-11] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] [2024-06-07 02:20:04,825] [pool-1-thread-10] Initializing /data/jake/p75Cherry M2 010-3~B.ims: [testng] [2024-06-07 02:20:04,855] [pool-1-thread-6] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] [2024-06-07 02:20:04,882] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0010.ims: [testng] [2024-06-07 02:20:04,901] [pool-1-thread-4] Initializing /data/generated/10-31_E_t0006.ims: [testng] [2024-06-07 02:20:05,210] [pool-1-thread-3] Initializing /data/qa-8019/wrong_num_dimensions.ims: [testng] [2024-06-07 02:20:05,842] [pool-1-thread-1] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] [2024-06-07 02:20:05,887] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0014.ims: [testng] [2024-06-07 02:20:06,109] [pool-1-thread-12] Initializing /data/qa-4898/o383_1_457_CS_r1.ims: [testng] [2024-06-07 02:20:06,222] [pool-1-thread-4] Initializing /data/public/eliana/retina_large.ims: [testng] [2024-06-07 02:20:06,571] [pool-1-thread-8] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: BUILD SUCCESSFUL Total time: 1 minute 45 seconds Finished: SUCCESS