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Started by upstream project "BIOFORMATS-test-repo" build number 269 originally caused by: Started by upstream project "Trigger" build number 292 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins12066194398337772626.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42590_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] 05:39:30,989 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:39:30,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:39:30,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:39:30,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:39:30,992 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:39:30,992 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:39:30,992 |-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] 05:39:30,992 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:39:30,993 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:39:30,993 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:39:30,994 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:39:30,994 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:39:31,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:39:31,149 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:39:31,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:39:31,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:39:31,175 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:39:31,175 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:39:31,175 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:39:31,176 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:39:31,176 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:39:31,177 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:39:31,177 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 184 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-27 05:39:31,185] [main] java.version = 17.0.2 [testng] 05:39:31,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:39:31,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:39:31,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-27_05-39-31.log] [testng] 05:39:31,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-27 05:39:31,232] [main] testng.directory = /data [testng] [2024-11-27 05:39:31,232] [main] testng.configDirectory = /config [testng] [2024-11-27 05:39:31,240] [main] testng.multiplier = 1.0 [testng] [2024-11-27 05:39:31,241] [main] testng.in-memory = false [testng] [2024-11-27 05:39:31,241] [main] testng.allow-missing = false [testng] [2024-11-27 05:39:31,241] [main] user.language = en [testng] [2024-11-27 05:39:31,241] [main] user.country = ${user.country} [testng] [2024-11-27 05:39:31,241] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-27 05:39:36,646] [main] ---------------------------------------- [testng] [2024-11-27 05:39:36,646] [main] Total files: 22 [testng] [2024-11-27 05:39:36,646] [main] Scan time: 5.405 s (245 ms/file) [testng] [2024-11-27 05:39:36,646] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-27 05:40:01,194] [pool-1-thread-1] Initializing /data/converted/clown.ipw: [testng] 05:40:01,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:40:01,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:01,195 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-27_05-40-01.log] [testng] 05:40:01,196 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b79f98e - End of configuration. [testng] [2024-11-27 05:40:01,848] [pool-1-thread-12] Initializing /data/converted/dub01.seq: [testng] 05:40:01,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:40:01,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:01,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-27_05-40-01.log] [testng] 05:40:01,849 |-INFO in ch.qos.logback.core.sift.SiftProcessor@718c0848 - End of configuration. [testng] [2024-11-27 05:40:02,535] [pool-1-thread-11] Initializing /data/samples/FLDUAL.TIF: [testng] 05:40:02,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:40:02,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:02,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-27_05-40-02.log] [testng] 05:40:02,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d183be5 - End of configuration. [testng] [2024-11-27 05:40:04,236] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 05:40:04,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:40:04,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:04,237 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-27_05-40-04.log] [testng] 05:40:04,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50f6351b - End of configuration. [testng] [2024-11-27 05:40:05,155] [pool-1-thread-9] Initializing /data/converted/clown8c.seq: [testng] 05:40:05,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:40:05,155 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:05,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-27_05-40-05.log] [testng] 05:40:05,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54e41f70 - End of configuration. [testng] [2024-11-27 05:40:06,075] [pool-1-thread-8] Initializing /data/xiuwen/head2.seq: [testng] 05:40:06,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:40:06,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:06,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-27_05-40-06.log] [testng] 05:40:06,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6475a73b - End of configuration. [testng] [2024-11-27 05:40:06,931] [pool-1-thread-7] Initializing /data/converted/mitosis-test.ipw: [testng] 05:40:06,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:40:06,931 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:06,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-27_05-40-06.log] [testng] 05:40:06,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ef80fab - End of configuration. [testng] [2024-11-27 05:40:07,843] [pool-1-thread-6] Initializing /data/converted/clown8c.tif: [testng] 05:40:07,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:40:07,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:07,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-27_05-40-07.log] [testng] 05:40:07,845 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c84b24c - End of configuration. [testng] [2024-11-27 05:40:09,637] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] 05:40:09,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:40:09,638 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:09,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-27_05-40-09.log] [testng] 05:40:09,639 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3da10a4e - End of configuration. [testng] [2024-11-27 05:40:10,470] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 05:40:10,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:40:10,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:10,471 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-27_05-40-10.log] [testng] 05:40:10,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a65fe9a - End of configuration. [testng] [2024-11-27 05:40:11,260] [pool-1-thread-3] Initializing /data/converted/dub01.pic: [testng] 05:40:11,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:40:11,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:11,261 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-27_05-40-11.log] [testng] 05:40:11,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a13c7 - End of configuration. [testng] [2024-11-27 05:40:12,130] [pool-1-thread-2] Initializing /data/converted/mitosis-test.seq: [testng] 05:40:12,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:40:12,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:40:12,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-27_05-40-12.log] [testng] 05:40:12,131 |-INFO in ch.qos.logback.core.sift.SiftProcessor@250475be - End of configuration. [testng] [2024-11-27 05:40:20,070] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-11-27 05:40:22,174] [pool-1-thread-2] Initializing /data/samples/HEART.SEQ: [testng] [2024-11-27 05:40:23,201] [pool-1-thread-7] Initializing /data/converted/mitosis-test.tif: [testng] [2024-11-27 05:40:25,118] [pool-1-thread-3] Initializing /data/converted/clown8c.ipw: [testng] [2024-11-27 05:40:25,859] [pool-1-thread-9] Initializing /data/alex/AFAset0003.ips: [testng] [2024-11-27 05:40:26,627] [pool-1-thread-5] Initializing /data/samples/TISSUE.TIF: [testng] [2024-11-27 05:40:28,388] [pool-1-thread-4] Initializing /data/converted/clown.seq: [testng] [2024-11-27 05:40:29,045] [pool-1-thread-12] Initializing /data/converted/clown.tif: [testng] [2024-11-27 05:40:29,667] [pool-1-thread-10] Initializing /data/samples/PROBE.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 38 seconds Finished: SUCCESS