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Started by upstream project "BIOFORMATS-test-repo" build number 207 originally caused by: Started by upstream project "Trigger" build number 233 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins11389511789795417926.sh + '[' specs = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32807_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] 01:49:10,837 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:49:10,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:49:10,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:49:10,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:49:10,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:49:10,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:49:10,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:49:10,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:49:10,841 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:49:10,841 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:49:10,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:49:10,842 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:49:11,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:49:11,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:49:11,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:49:11,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:49:11,036 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:49:11,036 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:49:11,037 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:49:11,037 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:49:11,037 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:49:11,038 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:49:11,038 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-02 01:49:11,048] [main] java.version = 17.0.2 [testng] 01:49:11,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:49:11,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:11,092 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-02_01-49-11.log] [testng] 01:49:11,094 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-10-02 01:49:11,096] [main] testng.directory = /data [testng] [2024-10-02 01:49:11,096] [main] testng.configDirectory = /config [testng] [2024-10-02 01:49:11,104] [main] testng.multiplier = 1.0 [testng] [2024-10-02 01:49:11,105] [main] testng.in-memory = false [testng] [2024-10-02 01:49:11,106] [main] testng.allow-missing = false [testng] [2024-10-02 01:49:11,106] [main] user.language = en [testng] [2024-10-02 01:49:11,106] [main] user.country = ${user.country} [testng] [2024-10-02 01:49:11,106] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-02 01:55:22,430] [main] ---------------------------------------- [testng] [2024-10-02 01:55:22,430] [main] Total files: 226 [testng] [2024-10-02 01:55:22,430] [main] Scan time: 371.324 s (1643 ms/file) [testng] [2024-10-02 01:55:22,430] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-02 02:02:13,806] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 02:02:13,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:02:13,806 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:13,808 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-02_02-02-13.log] [testng] 02:02:13,808 |-INFO in ch.qos.logback.core.sift.SiftProcessor@408656cb - End of configuration. [testng] [2024-10-02 02:02:14,456] [pool-1-thread-12] Initializing /data/fluoview/SpineAnimation.tif: [testng] 02:02:14,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:02:14,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:14,457 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-02_02-02-14.log] [testng] 02:02:14,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f66d38 - End of configuration. [testng] [2024-10-02 02:02:15,276] [pool-1-thread-11] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 02:02:15,276 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:02:15,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:15,277 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-02_02-02-15.log] [testng] 02:02:15,278 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19db13c8 - End of configuration. [testng] [2024-10-02 02:02:15,368] [pool-1-thread-10] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 02:02:15,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:02:15,369 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:15,369 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-02_02-02-15.log] [testng] 02:02:15,370 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16b972ac - End of configuration. [testng] [2024-10-02 02:02:15,500] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 02:02:15,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:02:15,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:15,501 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-02_02-02-15.log] [testng] 02:02:15,501 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35f6774d - End of configuration. [testng] [2024-10-02 02:02:15,599] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 02:02:15,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:02:15,600 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:15,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-02_02-02-15.log] [testng] 02:02:15,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a994f56 - End of configuration. [testng] [2024-10-02 02:02:16,173] [pool-1-thread-7] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 02:02:16,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:02:16,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:16,174 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-02_02-02-16.log] [testng] 02:02:16,174 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67bee2ae - End of configuration. [testng] [2024-10-02 02:02:16,352] [pool-1-thread-6] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 02:02:16,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:02:16,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:16,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-02_02-02-16.log] [testng] 02:02:16,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6efd9437 - End of configuration. [testng] [2024-10-02 02:02:16,789] [pool-1-thread-5] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 02:02:16,789 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:02:16,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:16,790 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-02_02-02-16.log] [testng] 02:02:16,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18349045 - End of configuration. [testng] [2024-10-02 02:02:17,379] [pool-1-thread-4] Initializing /data/iplab/Blend_Final.IPL: [testng] 02:02:17,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:02:17,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:17,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-02_02-02-17.log] [testng] 02:02:17,380 |-INFO in ch.qos.logback.core.sift.SiftProcessor@678c12e4 - End of configuration. [testng] [2024-10-02 02:02:17,471] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 02:02:17,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:02:17,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:17,472 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-02_02-02-17.log] [testng] 02:02:17,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5244f91f - End of configuration. [testng] [2024-10-02 02:02:18,070] [pool-1-thread-2] Initializing /data/iplab/Actin.IPL: [testng] 02:02:18,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:02:18,070 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:18,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-02_02-02-18.log] [testng] 02:02:18,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19a19720 - End of configuration. [testng] [2024-10-02 02:02:20,441] [pool-1-thread-9] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-10-02 02:02:20,507] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-02 02:02:21,529] [pool-1-thread-10] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-10-02 02:02:21,599] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-02 02:02:22,310] [pool-1-thread-4] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-02 02:02:22,741] [pool-1-thread-11] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-10-02 02:02:24,282] [pool-1-thread-11] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-02 02:02:24,487] [pool-1-thread-10] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-02 02:02:25,145] [pool-1-thread-9] Initializing /data/iplab/Color Image.IPL: [testng] [2024-10-02 02:02:25,343] [pool-1-thread-5] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-10-02 02:02:25,452] [pool-1-thread-1] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-02 02:02:25,528] [pool-1-thread-6] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-10-02 02:02:26,148] [pool-1-thread-3] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-02 02:02:26,580] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-10-02 02:02:28,212] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-02 02:02:28,356] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 13 minutes 30 seconds Finished: SUCCESS