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Started by upstream project "BIOFORMATS-test-repo" build number 10 originally caused by: Started by upstream project "Trigger" build number 13 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/jenkins13289706145698549443.sh + '[' bigtiff = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1489_merge_ci -v /uod/idr/repos/curated/bigtiff:/data -v /uod/idr-scratch/merge-ci/curated/bigtiff:/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] 00:30:29,027 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:30:29,028 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 00:30:29,028 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:29,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:30:29,029 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:30:29,029 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:30:29,030 |-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] 00:30:29,030 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:29,030 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:30:29,031 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:30:29,031 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:30:29,031 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:30:29,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:30:29,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:30:29,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:30:29,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:30:29,241 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:30:29,241 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:30:29,241 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:30:29,241 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:30:29,241 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 00:30:29,242 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 00:30:29,242 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 212 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-24 00:30:29,251] [main] java.version = 17.0.2 [testng] 00:30:29,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:30:29,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:29,300 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-24_00-30-29.log] [testng] 00:30:29,302 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-03-24 00:30:29,304] [main] testng.directory = /data [testng] [2024-03-24 00:30:29,304] [main] testng.configDirectory = /config [testng] [2024-03-24 00:30:29,312] [main] testng.multiplier = 1.0 [testng] [2024-03-24 00:30:29,313] [main] testng.in-memory = false [testng] [2024-03-24 00:30:29,313] [main] testng.allow-missing = false [testng] [2024-03-24 00:30:29,313] [main] user.language = en [testng] [2024-03-24 00:30:29,314] [main] user.country = ${user.country} [testng] [2024-03-24 00:30:29,314] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-24 00:30:29,824] [main] ---------------------------------------- [testng] [2024-03-24 00:30:29,824] [main] Total files: 14 [testng] [2024-03-24 00:30:29,824] [main] Scan time: 0.51 s (36 ms/file) [testng] [2024-03-24 00:30:29,824] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 13 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-24 00:30:38,345] [pool-1-thread-1] Initializing /data/samples/BigTIFFLong.tif: [testng] 00:30:38,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:30:38,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:38,347 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-24_00-30-38.log] [testng] 00:30:38,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4627290e - End of configuration. [testng] [2024-03-24 00:30:38,506] [pool-1-thread-12] Initializing /data/colin/7S59P8I1_F00000012.btf: [testng] 00:30:38,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:30:38,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:38,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-24_00-30-38.log] [testng] 00:30:38,508 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e748460 - End of configuration. [testng] [2024-03-24 00:30:40,887] [pool-1-thread-11] Initializing /data/samples/BigTIFFSubIFD4.tif: [testng] 00:30:40,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:30:40,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:40,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-24_00-30-40.log] [testng] 00:30:40,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a6edaaf - End of configuration. [testng] [2024-03-24 00:30:40,945] [pool-1-thread-10] Initializing /data/samples/BigTIFFLong8Tiles.tif: [testng] 00:30:40,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:30:40,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:40,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-24_00-30-40.log] [testng] 00:30:40,946 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24819205 - End of configuration. [testng] [2024-03-24 00:30:40,998] [pool-1-thread-9] Initializing /data/carlsen/Olympics8-raw.tif: [testng] 00:30:40,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:30:40,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:40,999 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-24_00-30-40.log] [testng] 00:30:41,000 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56c0c053 - End of configuration. [testng] [2024-03-24 00:30:41,074] [pool-1-thread-8] Initializing /data/samples/BigTIFFMotorola.tif: [testng] 00:30:41,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:41,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-24_00-30-41.log] [testng] 00:30:41,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e10517c - End of configuration. [testng] [2024-03-24 00:30:41,139] [pool-1-thread-7] Initializing /data/carlsen/Olympics8-lzw.tif: [testng] 00:30:41,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:41,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-24_00-30-41.log] [testng] 00:30:41,141 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17be8144 - End of configuration. [testng] [2024-03-24 00:30:41,231] [pool-1-thread-6] Initializing /data/samples/BigTIFFSubIFD8.tif: [testng] 00:30:41,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:41,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-24_00-30-41.log] [testng] 00:30:41,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61d952ca - End of configuration. [testng] [2024-03-24 00:30:41,309] [pool-1-thread-5] Initializing /data/samples/BigTIFF.tif: [testng] 00:30:41,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:41,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-24_00-30-41.log] [testng] 00:30:41,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a7fb80 - End of configuration. [testng] [2024-03-24 00:30:41,378] [pool-1-thread-4] Initializing /data/samples/BigTIFFLong8.tif: [testng] 00:30:41,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:41,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-24_00-30-41.log] [testng] 00:30:41,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b43939a - End of configuration. [testng] [2024-03-24 00:30:41,464] [pool-1-thread-3] Initializing /data/samples/Classic.tif: [testng] 00:30:41,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:41,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,466 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-24_00-30-41.log] [testng] 00:30:41,466 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60cb4eda - End of configuration. [testng] [2024-03-24 00:30:41,549] [pool-1-thread-2] Initializing /data/carlsen/Olympics8.tif: [testng] 00:30:41,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:41,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:41,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-24_00-30-41.log] [testng] 00:30:41,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17189322 - End of configuration. [testng] [2024-03-24 00:30:44,907] [pool-1-thread-5] Initializing /data/samples/BigTIFFMotorolaLongStrips.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 689, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 35 seconds Finished: SUCCESS