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Started by upstream project "BIOFORMATS-test-repo" build number 73 originally caused by: Started by upstream project "Trigger" build number 81 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins10986689540215472045.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_11119_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] 02:54:12,515 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:54:12,516 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:54:12,516 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:54:12,516 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:54:12,516 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:54:12,517 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:54:12,517 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:54:12,517 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:54:12,517 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:54:12,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:54:12,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:54:12,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:54:12,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:54:12,943 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:54:12,943 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:54:12,944 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:54:12,944 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:54:12,944 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:54:12,945 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:54:12,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@6b4a4e18 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 428 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-24 02:54:12,957] [main] java.version = 1.8.0_342 [testng] 02:54:12,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:54:12,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:13,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-24_02-54-12.log] [testng] 02:54:13,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-24 02:54:13,014] [main] testng.directory = /data [testng] [2024-05-24 02:54:13,014] [main] testng.configDirectory = /config [testng] [2024-05-24 02:54:13,027] [main] testng.multiplier = 1.0 [testng] [2024-05-24 02:54:13,028] [main] testng.in-memory = false [testng] [2024-05-24 02:54:13,028] [main] testng.allow-missing = false [testng] [2024-05-24 02:54:13,028] [main] user.language = en [testng] [2024-05-24 02:54:13,028] [main] user.country = ${user.country} [testng] [2024-05-24 02:54:13,028] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-24 02:54:14,199] [main] ---------------------------------------- [testng] [2024-05-24 02:54:14,199] [main] Total files: 22 [testng] [2024-05-24 02:54:14,200] [main] Scan time: 1.171 s (53 ms/file) [testng] [2024-05-24 02:54:14,200] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-24 02:54:21,866] [pool-1-thread-1] Initializing /data/converted/mitosis-test.ipw: [testng] 02:54:21,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:54:21,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:21,868 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-24_02-54-21.log] [testng] 02:54:21,869 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8c1cdb - End of configuration. [testng] [2024-05-24 02:54:21,927] [pool-1-thread-12] Initializing /data/xiuwen/head2.seq: [testng] 02:54:21,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:54:21,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:21,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-24_02-54-21.log] [testng] 02:54:21,930 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d1d7366 - End of configuration. [testng] [2024-05-24 02:54:22,035] [pool-1-thread-11] Initializing /data/converted/clown.ipw: [testng] 02:54:22,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:54:22,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,036 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-24_02-54-22.log] [testng] 02:54:22,036 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70b41c94 - End of configuration. [testng] [2024-05-24 02:54:22,053] [pool-1-thread-10] Initializing /data/converted/dub01.ipw: [testng] 02:54:22,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:54:22,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-24_02-54-22.log] [testng] 02:54:22,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@650d8daf - End of configuration. [testng] [2024-05-24 02:54:22,081] [pool-1-thread-9] Initializing /data/converted/clown.seq: [testng] 02:54:22,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:54:22,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-24_02-54-22.log] [testng] 02:54:22,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d34e456 - End of configuration. [testng] [2024-05-24 02:54:22,094] [pool-1-thread-8] Initializing /data/converted/clown8c.seq: [testng] 02:54:22,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:54:22,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,095 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-24_02-54-22.log] [testng] 02:54:22,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19c0590e - End of configuration. [testng] [2024-05-24 02:54:22,112] [pool-1-thread-7] Initializing /data/alex/AFAset0003.ips: [testng] 02:54:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:54:22,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-24_02-54-22.log] [testng] 02:54:22,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41b88a12 - End of configuration. [testng] [2024-05-24 02:54:22,127] [pool-1-thread-6] Initializing /data/converted/mitosis-test.tif: [testng] 02:54:22,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:54:22,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-24_02-54-22.log] [testng] 02:54:22,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39c634f9 - End of configuration. [testng] [2024-05-24 02:54:22,276] [pool-1-thread-5] Initializing /data/converted/clown.tif: [testng] 02:54:22,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:54:22,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-24_02-54-22.log] [testng] 02:54:22,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@684830f8 - End of configuration. [testng] [2024-05-24 02:54:22,294] [pool-1-thread-4] Initializing /data/converted/dub01.seq: [testng] 02:54:22,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:54:22,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-24_02-54-22.log] [testng] 02:54:22,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@249d757b - End of configuration. [testng] [2024-05-24 02:54:22,323] [pool-1-thread-3] Initializing /data/samples/HEART.SEQ: [testng] 02:54:22,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:54:22,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-24_02-54-22.log] [testng] 02:54:22,324 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f7af6e6 - End of configuration. [testng] [2024-05-24 02:54:22,404] [pool-1-thread-2] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 02:54:22,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:54:22,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:54:22,405 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-24_02-54-22.log] [testng] 02:54:22,405 |-INFO in ch.qos.logback.core.sift.SiftProcessor@425bde39 - End of configuration. [testng] [2024-05-24 02:54:25,046] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.seq: [testng] [2024-05-24 02:54:25,084] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] [2024-05-24 02:54:25,110] [pool-1-thread-1] Initializing /data/converted/dub01.pic: [testng] [2024-05-24 02:54:25,141] [pool-1-thread-8] Initializing /data/converted/clown8c.tif: [testng] [2024-05-24 02:54:25,166] [pool-1-thread-3] Initializing /data/samples/PROBE.TIF: [testng] [2024-05-24 02:54:25,182] [pool-1-thread-4] Initializing /data/converted/mitosis-test.seq: [testng] [2024-05-24 02:54:25,215] [pool-1-thread-10] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-05-24 02:54:25,263] [pool-1-thread-2] Initializing /data/converted/clown8c.ipw: [testng] [2024-05-24 02:54:25,277] [pool-1-thread-6] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 29 seconds Finished: SUCCESS