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Started by upstream project "BIOFORMATS-test-repo" build number 219 originally caused by: Started by upstream project "Trigger" build number 246 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins4726106082317364745.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34854_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] 07:00:41,617 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:00:41,618 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 07:00:41,618 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:00:41,619 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:00:41,620 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:00:41,620 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:00:41,620 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:00:41,620 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:00:41,621 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:00:41,621 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:00:41,622 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:00:41,622 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:00:41,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:00:41,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:00:41,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:00:41,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:00:41,806 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:00:41,806 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:00:41,806 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:00:41,806 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:00:41,806 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 07:00:41,807 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 07:00:41,807 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 186 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-13 07:00:41,815] [main] java.version = 17.0.2 [testng] 07:00:41,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:00:41,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:00:41,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-13_07-00-41.log] [testng] 07:00:41,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-13 07:00:41,862] [main] testng.directory = /data [testng] [2024-10-13 07:00:41,862] [main] testng.configDirectory = /config [testng] [2024-10-13 07:00:41,870] [main] testng.multiplier = 1.0 [testng] [2024-10-13 07:00:41,871] [main] testng.in-memory = false [testng] [2024-10-13 07:00:41,871] [main] testng.allow-missing = false [testng] [2024-10-13 07:00:41,871] [main] user.language = en [testng] [2024-10-13 07:00:41,871] [main] user.country = ${user.country} [testng] [2024-10-13 07:00:41,872] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-13 07:00:51,784] [main] ---------------------------------------- [testng] [2024-10-13 07:00:51,784] [main] Total files: 22 [testng] [2024-10-13 07:00:51,784] [main] Scan time: 9.912 s (450 ms/file) [testng] [2024-10-13 07:00:51,784] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-13 07:01:18,956] [pool-1-thread-1] Initializing /data/converted/clown.ipw: [testng] 07:01:18,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:01:18,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:18,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-13_07-01-18.log] [testng] 07:01:18,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7568d5e - End of configuration. [testng] [2024-10-13 07:01:19,692] [pool-1-thread-12] Initializing /data/converted/dub01.seq: [testng] 07:01:19,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:01:19,692 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:19,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-13_07-01-19.log] [testng] 07:01:19,693 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cc6db54 - End of configuration. [testng] [2024-10-13 07:01:20,563] [pool-1-thread-11] Initializing /data/samples/FLDUAL.TIF: [testng] 07:01:20,563 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:01:20,563 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:20,564 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-13_07-01-20.log] [testng] 07:01:20,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@365325a - End of configuration. [testng] [2024-10-13 07:01:22,565] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 07:01:22,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:01:22,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:22,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-13_07-01-22.log] [testng] 07:01:22,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e6cae32 - End of configuration. [testng] [2024-10-13 07:01:23,330] [pool-1-thread-9] Initializing /data/converted/clown8c.seq: [testng] 07:01:23,330 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:01:23,331 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:23,331 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-13_07-01-23.log] [testng] 07:01:23,331 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dd89eed - End of configuration. [testng] [2024-10-13 07:01:24,145] [pool-1-thread-8] Initializing /data/xiuwen/head2.seq: [testng] 07:01:24,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:01:24,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:24,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-13_07-01-24.log] [testng] 07:01:24,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e883dad - End of configuration. [testng] [2024-10-13 07:01:25,027] [pool-1-thread-7] Initializing /data/converted/mitosis-test.ipw: [testng] 07:01:25,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:01:25,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:25,028 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-13_07-01-25.log] [testng] 07:01:25,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@854b0d3 - End of configuration. [testng] [2024-10-13 07:01:25,786] [pool-1-thread-6] Initializing /data/converted/clown8c.tif: [testng] 07:01:25,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:01:25,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:25,787 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-13_07-01-25.log] [testng] 07:01:25,788 |-INFO in ch.qos.logback.core.sift.SiftProcessor@567fb3f1 - End of configuration. [testng] [2024-10-13 07:01:27,671] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] 07:01:27,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:01:27,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:27,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-13_07-01-27.log] [testng] 07:01:27,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b6d87e0 - End of configuration. [testng] [2024-10-13 07:01:28,435] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 07:01:28,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:01:28,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:28,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-13_07-01-28.log] [testng] 07:01:28,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f8f5386 - End of configuration. [testng] [2024-10-13 07:01:29,089] [pool-1-thread-3] Initializing /data/converted/dub01.pic: [testng] 07:01:29,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:01:29,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:29,090 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-13_07-01-29.log] [testng] 07:01:29,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4acc8fc1 - End of configuration. [testng] [2024-10-13 07:01:29,804] [pool-1-thread-2] Initializing /data/converted/mitosis-test.seq: [testng] 07:01:29,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:01:29,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:29,805 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-13_07-01-29.log] [testng] 07:01:29,805 |-INFO in ch.qos.logback.core.sift.SiftProcessor@673bbc81 - End of configuration. [testng] [2024-10-13 07:01:37,313] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-10-13 07:01:39,047] [pool-1-thread-10] Initializing /data/converted/clown.seq: [testng] [2024-10-13 07:01:39,821] [pool-1-thread-7] Initializing /data/samples/HEART.SEQ: [testng] [2024-10-13 07:01:40,489] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] [2024-10-13 07:01:42,435] [pool-1-thread-5] Initializing /data/converted/clown8c.ipw: [testng] [2024-10-13 07:01:43,157] [pool-1-thread-9] Initializing /data/alex/AFAset0003.ips: [testng] [2024-10-13 07:01:43,977] [pool-1-thread-2] Initializing /data/samples/TISSUE.TIF: [testng] [2024-10-13 07:01:45,799] [pool-1-thread-4] Initializing /data/samples/PROBE.TIF: [testng] [2024-10-13 07:01:46,812] [pool-1-thread-12] Initializing /data/converted/clown.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 49 seconds Finished: SUCCESS