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Started by upstream project "BIOFORMATS-test-repo" build number 383 originally caused by: Started by upstream project "Trigger" build number 405 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins14244584102019118102.sh + '[' specs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60544_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] 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] 00:39:17,130 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:39:17,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 00:39:17,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:39:17,132 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:39:17,132 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:39:17,132 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:39:17,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:39:17,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:39:17,133 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:39:17,134 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:39:17,134 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:39:17,134 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:39:17,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:39:17,283 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:39:17,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:39:17,303 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:39:17,308 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:39:17,308 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:39:17,308 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:39:17,309 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:39:17,309 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 00:39:17,309 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 00:39:17,310 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 177 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-19 00:39:17,318] [main] java.version = 17.0.2 [testng] 00:39:17,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:39:17,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:39:17,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-19_00-39-17.log] [testng] 00:39:17,360 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-19 00:39:17,361] [main] testng.directory = /data [testng] [2025-03-19 00:39:17,362] [main] testng.configDirectory = /config [testng] [2025-03-19 00:39:17,370] [main] testng.multiplier = 1.0 [testng] [2025-03-19 00:39:17,370] [main] testng.in-memory = false [testng] [2025-03-19 00:39:17,370] [main] testng.allow-missing = false [testng] [2025-03-19 00:39:17,370] [main] user.language = en [testng] [2025-03-19 00:39:17,370] [main] user.country = ${user.country} [testng] [2025-03-19 00:39:17,371] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-19 00:47:35,896] [main] ---------------------------------------- [testng] [2025-03-19 00:47:35,896] [main] Total files: 226 [testng] [2025-03-19 00:47:35,896] [main] Scan time: 498.525 s (2205 ms/file) [testng] [2025-03-19 00:47:35,896] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-19 00:54:26,976] [pool-1-thread-1] Initializing /data/iplab/16Bit XRay.IPL: [testng] 00:54:26,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:54:26,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:26,978 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-19_00-54-26.log] [testng] 00:54:26,978 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67c1bbab - End of configuration. [testng] [2025-03-19 00:54:27,125] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 00:54:27,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:54:27,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:27,126 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-19_00-54-27.log] [testng] 00:54:27,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@90076a9 - End of configuration. [testng] [2025-03-19 00:54:27,956] [pool-1-thread-11] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 00:54:27,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:54:27,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:27,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-19_00-54-27.log] [testng] 00:54:27,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a291575 - End of configuration. [testng] [2025-03-19 00:54:28,825] [pool-1-thread-10] Initializing /data/iplab/Blend_Final.IPL: [testng] 00:54:28,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:54:28,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:28,826 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-19_00-54-28.log] [testng] 00:54:28,827 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79bf7af0 - End of configuration. [testng] [2025-03-19 00:54:28,980] [pool-1-thread-9] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] 00:54:28,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:54:28,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:28,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-19_00-54-28.log] [testng] 00:54:28,981 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dc42b5a - End of configuration. [testng] [2025-03-19 00:54:29,841] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 00:54:29,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:54:29,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:29,842 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-19_00-54-29.log] [testng] 00:54:29,842 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fde1eb4 - End of configuration. [testng] [2025-03-19 00:54:31,653] [pool-1-thread-7] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:54:31,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:54:31,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:31,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-19_00-54-31.log] [testng] 00:54:31,654 |-INFO in ch.qos.logback.core.sift.SiftProcessor@671da89c - End of configuration. [testng] [2025-03-19 00:54:33,101] [pool-1-thread-6] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:54:33,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:54:33,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:33,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-19_00-54-33.log] [testng] 00:54:33,102 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ed9c18d - End of configuration. [testng] [2025-03-19 00:54:34,732] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 00:54:34,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:54:34,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:34,732 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-19_00-54-34.log] [testng] 00:54:34,733 |-INFO in ch.qos.logback.core.sift.SiftProcessor@344708d2 - End of configuration. [testng] [2025-03-19 00:54:35,106] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:54:35,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:54:35,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:35,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-19_00-54-35.log] [testng] 00:54:35,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32bc5080 - End of configuration. [testng] [2025-03-19 00:54:36,539] [pool-1-thread-3] Initializing /data/iplab/3t3 Cell.IPL: [testng] 00:54:36,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:54:36,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:36,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-19_00-54-36.log] [testng] 00:54:36,541 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67a4a550 - End of configuration. [testng] [2025-03-19 00:54:36,758] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL: [testng] 00:54:36,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:54:36,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:36,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-19_00-54-36.log] [testng] 00:54:36,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e5b4dca - End of configuration. [testng] [2025-03-19 00:54:40,841] [pool-1-thread-2] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2025-03-19 00:54:41,311] [pool-1-thread-3] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2025-03-19 00:54:41,628] [pool-1-thread-1] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2025-03-19 00:54:41,916] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] [2025-03-19 00:54:42,144] [pool-1-thread-5] Initializing /data/iplab/Color Histology.IPL: [testng] [2025-03-19 00:54:45,796] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2025-03-19 00:54:46,307] [pool-1-thread-5] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2025-03-19 00:54:46,759] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2025-03-19 00:54:48,728] [pool-1-thread-3] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2025-03-19 00:54:50,351] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2025-03-19 00:54:52,447] [pool-1-thread-6] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2025-03-19 00:54:52,744] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2025-03-19 00:54:54,204] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2025-03-19 00:54:56,371] [pool-1-thread-11] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2025-03-19 00:54:59,850] [pool-1-thread-2] Initializing /data/iplab/Actin.IPL: [testng] [2025-03-19 00:55:00,158] [pool-1-thread-5] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 15 minutes 58 seconds Finished: SUCCESS