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Started by upstream project "BIOFORMATS-test-repo" build number 208 originally caused by: Started by upstream project "Trigger" build number 234 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins5862468933784914699.sh + '[' specs = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32971_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 01:29:22,394 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:29:22,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 01:29:22,395 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:29:22,396 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:29:22,396 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:29:22,397 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:29:22,397 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:29:22,397 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:29:22,397 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:29:22,398 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:29:22,398 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:29:22,399 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:29:22,563 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:29:22,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:29:22,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:29:22,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:29:22,602 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:29:22,603 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:29:22,603 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:29:22,603 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:29:22,603 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 01:29:22,604 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 01:29:22,604 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 207 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-03 01:29:22,614] [main] java.version = 21 [testng] 01:29:22,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:29:22,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:22,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-03_01-29-22.log] [testng] 01:29:22,664 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-10-03 01:29:22,666] [main] testng.directory = /data [testng] [2024-10-03 01:29:22,666] [main] testng.configDirectory = /config [testng] [2024-10-03 01:29:22,675] [main] testng.multiplier = 1.0 [testng] [2024-10-03 01:29:22,676] [main] testng.in-memory = false [testng] [2024-10-03 01:29:22,676] [main] testng.allow-missing = false [testng] [2024-10-03 01:29:22,676] [main] user.language = en [testng] [2024-10-03 01:29:22,676] [main] user.country = ${user.country} [testng] [2024-10-03 01:29:22,676] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-03 01:32:06,304] [main] ---------------------------------------- [testng] [2024-10-03 01:32:06,305] [main] Total files: 226 [testng] [2024-10-03 01:32:06,305] [main] Scan time: 163.628 s (724 ms/file) [testng] [2024-10-03 01:32:06,305] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-03 01:33:15,598] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 01:33:15,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:33:15,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:15,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-03_01-33-15.log] [testng] 01:33:15,601 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13cb270b - End of configuration. [testng] [2024-10-03 01:33:15,673] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 01:33:15,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:33:15,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:15,674 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-03_01-33-15.log] [testng] 01:33:15,675 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ee168cb - End of configuration. [testng] [2024-10-03 01:33:15,924] [pool-1-thread-11] Initializing /data/iplab/Color Image.IPL: [testng] 01:33:15,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:33:15,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:15,925 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-03_01-33-15.log] [testng] 01:33:15,925 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b25825 - End of configuration. [testng] [2024-10-03 01:33:15,965] [pool-1-thread-10] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 01:33:15,965 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:33:15,965 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:15,966 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-03_01-33-15.log] [testng] 01:33:15,966 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67fbeca0 - End of configuration. [testng] [2024-10-03 01:33:16,223] [pool-1-thread-9] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 01:33:16,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:33:16,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,225 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-03_01-33-16.log] [testng] 01:33:16,225 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10221a1d - End of configuration. [testng] [2024-10-03 01:33:16,264] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 01:33:16,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:33:16,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,265 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-03_01-33-16.log] [testng] 01:33:16,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@511e2292 - End of configuration. [testng] [2024-10-03 01:33:16,321] [pool-1-thread-7] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 01:33:16,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:33:16,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-03_01-33-16.log] [testng] 01:33:16,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54bd2649 - End of configuration. [testng] [2024-10-03 01:33:16,559] [pool-1-thread-6] Initializing /data/iplab/Color Histology.IPL: [testng] 01:33:16,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:33:16,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-03_01-33-16.log] [testng] 01:33:16,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e9ab45e - End of configuration. [testng] [2024-10-03 01:33:16,599] [pool-1-thread-5] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 01:33:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:33:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-03_01-33-16.log] [testng] 01:33:16,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f690185 - End of configuration. [testng] [2024-10-03 01:33:16,638] [pool-1-thread-4] Initializing /data/fluoview/Sample_XT.tif: [testng] 01:33:16,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:33:16,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-03_01-33-16.log] [testng] 01:33:16,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f6bbd77 - End of configuration. [testng] [2024-10-03 01:33:16,856] [pool-1-thread-3] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 01:33:16,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:33:16,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,857 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-03_01-33-16.log] [testng] 01:33:16,857 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f8054c7 - End of configuration. [testng] [2024-10-03 01:33:16,907] [pool-1-thread-2] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 01:33:16,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:33:16,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:16,908 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-03_01-33-16.log] [testng] 01:33:16,909 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4409ab1d - End of configuration. [testng] [2024-10-03 01:33:19,173] [pool-1-thread-6] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-03 01:33:19,773] [pool-1-thread-11] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-10-03 01:33:20,277] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-10-03 01:33:20,736] [pool-1-thread-3] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-03 01:33:20,917] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-03 01:33:21,483] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-03 01:33:21,837] [pool-1-thread-9] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-03 01:33:22,304] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-03 01:33:22,843] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-10-03 01:33:23,247] [pool-1-thread-10] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-10-03 01:33:23,341] [pool-1-thread-7] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-10-03 01:33:23,669] [pool-1-thread-4] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-10-03 01:33:23,903] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-10-03 01:33:24,612] [pool-1-thread-10] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-10-03 01:33:24,750] [pool-1-thread-7] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2024-10-03 01:33:24,842] [pool-1-thread-3] Initializing /data/iplab/3t3 Cell.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 10 seconds Finished: SUCCESS