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Started by upstream project "BIOFORMATS-test-repo" build number 216 originally caused by: Started by upstream project "Trigger" build number 243 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins11492472566206447942.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34361_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 07:32:12,072 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:32:12,073 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 07:32:12,073 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:32:12,074 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:32:12,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:32:12,075 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:32:12,075 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:32:12,075 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:32:12,076 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:32:12,076 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:32:12,077 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:32:12,077 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:32:12,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:32:12,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:32:12,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:32:12,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:32:12,251 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:32:12,251 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:32:12,251 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:32:12,251 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:32:12,251 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 07:32:12,252 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 07:32:12,252 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 176 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-10 07:32:12,260] [main] java.version = 21 [testng] 07:32:12,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:32:12,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:12,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-10_07-32-12.log] [testng] 07:32:12,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-10-10 07:32:12,305] [main] testng.directory = /data [testng] [2024-10-10 07:32:12,305] [main] testng.configDirectory = /config [testng] [2024-10-10 07:32:12,313] [main] testng.multiplier = 1.0 [testng] [2024-10-10 07:32:12,313] [main] testng.in-memory = false [testng] [2024-10-10 07:32:12,313] [main] testng.allow-missing = false [testng] [2024-10-10 07:32:12,313] [main] user.language = en [testng] [2024-10-10 07:32:12,313] [main] user.country = ${user.country} [testng] [2024-10-10 07:32:12,313] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-10 07:32:20,048] [main] ---------------------------------------- [testng] [2024-10-10 07:32:20,049] [main] Total files: 22 [testng] [2024-10-10 07:32:20,049] [main] Scan time: 7.734 s (351 ms/file) [testng] [2024-10-10 07:32:20,049] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-10 07:32:43,681] [pool-1-thread-1] Initializing /data/converted/dub01.seq: [testng] 07:32:43,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:32:43,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:43,682 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-10_07-32-43.log] [testng] 07:32:43,683 |-INFO in ch.qos.logback.core.sift.SiftProcessor@693fab38 - End of configuration. [testng] [2024-10-10 07:32:44,333] [pool-1-thread-12] Initializing /data/converted/mitosis-test.tif: [testng] 07:32:44,333 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:32:44,334 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:44,334 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-10_07-32-44.log] [testng] 07:32:44,335 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4db84aa6 - End of configuration. [testng] [2024-10-10 07:32:45,961] [pool-1-thread-11] Initializing /data/converted/clown8c.ipw: [testng] 07:32:45,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:32:45,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:45,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-10_07-32-45.log] [testng] 07:32:45,962 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dbe3b09 - End of configuration. [testng] [2024-10-10 07:32:46,585] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 07:32:46,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:32:46,585 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:46,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-10_07-32-46.log] [testng] 07:32:46,586 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f042255 - End of configuration. [testng] [2024-10-10 07:32:47,230] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 07:32:47,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:32:47,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:47,231 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-10_07-32-47.log] [testng] 07:32:47,231 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37e05dad - End of configuration. [testng] [2024-10-10 07:32:47,830] [pool-1-thread-8] Initializing /data/converted/clown.seq: [testng] 07:32:47,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:32:47,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:47,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-10_07-32-47.log] [testng] 07:32:47,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e943307 - End of configuration. [testng] [2024-10-10 07:32:48,489] [pool-1-thread-7] Initializing /data/converted/mitosis-test.ipw: [testng] 07:32:48,489 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:32:48,489 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:48,490 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-10_07-32-48.log] [testng] 07:32:48,490 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dbcf442 - End of configuration. [testng] [2024-10-10 07:32:49,093] [pool-1-thread-6] Initializing /data/samples/PROBE.TIF: [testng] 07:32:49,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:32:49,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:49,094 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-10_07-32-49.log] [testng] 07:32:49,094 |-INFO in ch.qos.logback.core.sift.SiftProcessor@232b3191 - End of configuration. [testng] [2024-10-10 07:32:49,750] [pool-1-thread-5] Initializing /data/xiuwen/head2.seq: [testng] 07:32:49,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:32:49,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:49,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-10_07-32-49.log] [testng] 07:32:49,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c88d79d - End of configuration. [testng] [2024-10-10 07:32:50,494] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] 07:32:50,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:32:50,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:50,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-10_07-32-50.log] [testng] 07:32:50,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443e61b1 - End of configuration. [testng] [2024-10-10 07:32:52,127] [pool-1-thread-3] Initializing /data/alex/AFAset0003.ips: [testng] 07:32:52,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:32:52,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:52,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-10_07-32-52.log] [testng] 07:32:52,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@401df70b - End of configuration. [testng] [2024-10-10 07:32:52,731] [pool-1-thread-2] Initializing /data/samples/HEART.SEQ: [testng] 07:32:52,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:32:52,731 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:52,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-10_07-32-52.log] [testng] 07:32:52,732 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ab2a2a - End of configuration. [testng] [2024-10-10 07:32:59,314] [pool-1-thread-11] Initializing /data/converted/clown8c.tif: [testng] [2024-10-10 07:33:01,020] [pool-1-thread-9] Initializing /data/converted/dub01.ipw: [testng] [2024-10-10 07:33:01,734] [pool-1-thread-6] Initializing /data/converted/clown.tif: [testng] [2024-10-10 07:33:02,446] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] [2024-10-10 07:33:03,102] [pool-1-thread-8] Initializing /data/samples/TISSUE.TIF: [testng] [2024-10-10 07:33:04,758] [pool-1-thread-2] Initializing /data/converted/dub01.pic: [testng] [2024-10-10 07:33:05,413] [pool-1-thread-1] Initializing /data/converted/clown8c.seq: [testng] [2024-10-10 07:33:06,163] [pool-1-thread-10] Initializing /data/converted/mitosis-test.seq: [testng] [2024-10-10 07:33:07,956] [pool-1-thread-5] Initializing /data/samples/FLDUAL.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 16 seconds Finished: SUCCESS