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Started by upstream project "BIOFORMATS-test-repo" build number 110 originally caused by: Started by upstream project "Trigger" build number 123 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins9059095939778397118.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17187_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 02:40:42,291 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:40:42,293 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:40:42,293 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:40:42,293 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:40:42,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:40:42,294 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:40:42,294 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:40:42,294 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:40:42,295 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:40:42,295 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:40:42,296 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:40:42,296 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:40:42,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:40:42,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:40:42,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:40:42,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:40:42,494 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:40:42,494 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:40:42,495 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:40:42,495 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:40:42,495 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:40:42,496 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:40:42,496 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-03 02:40:42,506] [main] java.version = 17.0.2 [testng] 02:40:42,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:40:42,510 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:42,552 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-03_02-40-42.log] [testng] 02:40:42,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-03 02:40:42,556] [main] testng.directory = /data [testng] [2024-07-03 02:40:42,556] [main] testng.configDirectory = /config [testng] [2024-07-03 02:40:42,565] [main] testng.multiplier = 1.0 [testng] [2024-07-03 02:40:42,566] [main] testng.in-memory = false [testng] [2024-07-03 02:40:42,567] [main] testng.allow-missing = false [testng] [2024-07-03 02:40:42,567] [main] user.language = en [testng] [2024-07-03 02:40:42,567] [main] user.country = ${user.country} [testng] [2024-07-03 02:40:42,567] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-03 02:40:43,719] [main] ---------------------------------------- [testng] [2024-07-03 02:40:43,719] [main] Total files: 22 [testng] [2024-07-03 02:40:43,720] [main] Scan time: 1.152 s (52 ms/file) [testng] [2024-07-03 02:40:43,720] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-03 02:40:52,676] [pool-1-thread-1] Initializing /data/converted/mitosis-test.tif: [testng] 02:40:52,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:40:52,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:52,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-03_02-40-52.log] [testng] 02:40:52,679 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21841153 - End of configuration. [testng] [2024-07-03 02:40:52,877] [pool-1-thread-12] Initializing /data/samples/TISSUE.TIF: [testng] 02:40:52,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:40:52,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:52,878 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-03_02-40-52.log] [testng] 02:40:52,878 |-INFO in ch.qos.logback.core.sift.SiftProcessor@693e0549 - End of configuration. [testng] [2024-07-03 02:40:52,920] [pool-1-thread-11] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 02:40:52,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:40:52,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:52,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-03_02-40-52.log] [testng] 02:40:52,922 |-INFO in ch.qos.logback.core.sift.SiftProcessor@174632d0 - End of configuration. [testng] [2024-07-03 02:40:52,953] [pool-1-thread-10] Initializing /data/xiuwen/head2.seq: [testng] 02:40:52,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:40:52,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:52,954 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-03_02-40-52.log] [testng] 02:40:52,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@219e67ce - End of configuration. [testng] [2024-07-03 02:40:53,076] [pool-1-thread-9] Initializing /data/converted/dub01.ipw: [testng] 02:40:53,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:40:53,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-03_02-40-53.log] [testng] 02:40:53,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@704de208 - End of configuration. [testng] [2024-07-03 02:40:53,120] [pool-1-thread-8] Initializing /data/converted/clown.ipw: [testng] 02:40:53,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:40:53,121 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,121 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-03_02-40-53.log] [testng] 02:40:53,122 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1acb2049 - End of configuration. [testng] [2024-07-03 02:40:53,140] [pool-1-thread-7] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 02:40:53,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:40:53,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,141 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-03_02-40-53.log] [testng] 02:40:53,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@343f447c - End of configuration. [testng] [2024-07-03 02:40:53,175] [pool-1-thread-6] Initializing /data/converted/clown8c.seq: [testng] 02:40:53,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:40:53,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-03_02-40-53.log] [testng] 02:40:53,176 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2451a5c5 - End of configuration. [testng] [2024-07-03 02:40:53,206] [pool-1-thread-5] Initializing /data/converted/mitosis-test.ipw: [testng] 02:40:53,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:40:53,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,207 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-03_02-40-53.log] [testng] 02:40:53,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72742fd3 - End of configuration. [testng] [2024-07-03 02:40:53,241] [pool-1-thread-4] Initializing /data/converted/clown.tif: [testng] 02:40:53,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:40:53,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,242 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-03_02-40-53.log] [testng] 02:40:53,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b3adad1 - End of configuration. [testng] [2024-07-03 02:40:53,258] [pool-1-thread-3] Initializing /data/converted/clown.seq: [testng] 02:40:53,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:40:53,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-03_02-40-53.log] [testng] 02:40:53,260 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37f8d89d - End of configuration. [testng] [2024-07-03 02:40:53,285] [pool-1-thread-2] Initializing /data/converted/clown8c.tif: [testng] 02:40:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:40:53,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:53,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-03_02-40-53.log] [testng] 02:40:53,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@521d7542 - End of configuration. [testng] [2024-07-03 02:40:57,674] [pool-1-thread-2] Initializing /data/converted/dub01.seq: [testng] [2024-07-03 02:40:57,707] [pool-1-thread-5] Initializing /data/samples/HEART.SEQ: [testng] [2024-07-03 02:40:57,735] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-07-03 02:40:57,819] [pool-1-thread-4] Initializing /data/samples/FLDUAL.TIF: [testng] [2024-07-03 02:40:57,861] [pool-1-thread-12] Initializing /data/samples/PROBE.TIF: [testng] [2024-07-03 02:40:57,879] [pool-1-thread-6] Initializing /data/converted/dub01.pic: [testng] [2024-07-03 02:40:57,900] [pool-1-thread-7] Initializing /data/converted/clown8c.ipw: [testng] [2024-07-03 02:40:57,911] [pool-1-thread-8] Initializing /data/alex/AFAset0003.ips: [testng] [2024-07-03 02:40:57,926] [pool-1-thread-3] Initializing /data/converted/mitosis-test.seq: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 32 seconds Finished: SUCCESS