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Started by upstream project "BIOFORMATS-test-repo" build number 266 originally caused by: Started by upstream project "Trigger" build number 289 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins3521879136382922213.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41965_merge_ci -v /uod/idr/repos/curated/bmp:/data -v /uod/idr-scratch/merge-ci/curated/bmp:/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] 00:29:03,956 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:29:03,957 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 00:29:03,957 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:03,958 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:03,958 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:03,959 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:03,959 |-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] 00:29:03,959 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:03,960 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:03,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:03,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:03,961 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:29:04,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:29:04,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:29:04,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:29:04,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:29:04,152 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:29:04,152 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:29:04,152 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:29:04,153 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:29:04,153 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 00:29:04,154 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 00:29:04,154 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-24 00:29:04,163] [main] java.version = 17.0.2 [testng] 00:29:04,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:29:04,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:04,206 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-24_00-29-04.log] [testng] 00:29:04,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-24 00:29:04,210] [main] testng.directory = /data [testng] [2024-11-24 00:29:04,210] [main] testng.configDirectory = /config [testng] [2024-11-24 00:29:04,218] [main] testng.multiplier = 1.0 [testng] [2024-11-24 00:29:04,219] [main] testng.in-memory = false [testng] [2024-11-24 00:29:04,219] [main] testng.allow-missing = false [testng] [2024-11-24 00:29:04,219] [main] user.language = en [testng] [2024-11-24 00:29:04,219] [main] user.country = ${user.country} [testng] [2024-11-24 00:29:04,219] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-24 00:29:05,028] [main] ---------------------------------------- [testng] [2024-11-24 00:29:05,028] [main] Total files: 31 [testng] [2024-11-24 00:29:05,028] [main] Scan time: 0.809 s (26 ms/file) [testng] [2024-11-24 00:29:05,028] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-24 00:29:10,955] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] 00:29:10,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:29:10,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:10,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-24_00-29-10.log] [testng] 00:29:10,958 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38f53f71 - End of configuration. [testng] [2024-11-24 00:29:11,069] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 00:29:11,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:29:11,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-24_00-29-11.log] [testng] 00:29:11,070 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e8769ef - End of configuration. [testng] [2024-11-24 00:29:11,178] [pool-1-thread-11] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:29:11,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:29:11,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,179 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-24_00-29-11.log] [testng] 00:29:11,179 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47bfbaa8 - End of configuration. [testng] [2024-11-24 00:29:11,295] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 00:29:11,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:29:11,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-24_00-29-11.log] [testng] 00:29:11,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@362a0c31 - End of configuration. [testng] [2024-11-24 00:29:11,409] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] 00:29:11,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:29:11,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-24_00-29-11.log] [testng] 00:29:11,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11bb4551 - End of configuration. [testng] [2024-11-24 00:29:11,528] [pool-1-thread-8] Initializing /data/curtis/image2.bmp: [testng] 00:29:11,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:29:11,528 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-24_00-29-11.log] [testng] 00:29:11,529 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ddf602 - End of configuration. [testng] [2024-11-24 00:29:11,639] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 00:29:11,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:29:11,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-24_00-29-11.log] [testng] 00:29:11,640 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eaf757a - End of configuration. [testng] [2024-11-24 00:29:11,751] [pool-1-thread-6] Initializing /data/curtis/image5.bmp: [testng] 00:29:11,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:29:11,752 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,752 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-24_00-29-11.log] [testng] 00:29:11,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58ffd31b - End of configuration. [testng] [2024-11-24 00:29:11,859] [pool-1-thread-5] Initializing /data/curtis/image3.bmp: [testng] 00:29:11,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:29:11,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-24_00-29-11.log] [testng] 00:29:11,861 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e2e5006 - End of configuration. [testng] [2024-11-24 00:29:11,968] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp: [testng] 00:29:11,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:29:11,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:11,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-24_00-29-11.log] [testng] 00:29:11,969 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25e0d02c - End of configuration. [testng] [2024-11-24 00:29:12,068] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] 00:29:12,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:29:12,068 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:12,069 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-24_00-29-12.log] [testng] 00:29:12,069 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a4f9280 - End of configuration. [testng] [2024-11-24 00:29:13,422] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:29:13,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:29:13,422 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:13,423 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-24_00-29-13.log] [testng] 00:29:13,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f2a0562 - End of configuration. [testng] [2024-11-24 00:29:16,557] [pool-1-thread-6] Initializing /data/big-images/6kx6k.bmp: [testng] [2024-11-24 00:29:16,681] [pool-1-thread-12] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-11-24 00:29:16,815] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-11-24 00:29:16,937] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-11-24 00:29:17,057] [pool-1-thread-5] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-11-24 00:29:17,180] [pool-1-thread-2] Initializing /data/curtis/image4.bmp: [testng] [2024-11-24 00:29:17,294] [pool-1-thread-10] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-11-24 00:29:17,416] [pool-1-thread-7] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-11-24 00:29:17,544] [pool-1-thread-1] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-11-24 00:29:19,772] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-11-24 00:29:19,947] [pool-1-thread-8] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-11-24 00:29:20,094] [pool-1-thread-9] Initializing /data/bk/ch_00.bmp: [testng] [2024-11-24 00:29:20,275] [pool-1-thread-1] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [2024-11-24 00:29:20,472] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-11-24 00:29:20,675] [pool-1-thread-5] Initializing /data/brian/images/23srp5dksub.bmp: [testng] [2024-11-24 00:29:21,115] [pool-1-thread-12] Initializing /data/brian/images/raw_a.bmp: [testng] [2024-11-24 00:29:22,214] [pool-1-thread-2] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-11-24 00:29:22,401] [pool-1-thread-8] Initializing /data/curtis/image1.bmp: [testng] [2024-11-24 00:29:22,763] [pool-1-thread-1] Initializing /data/stephane/holo0908.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 42 seconds Finished: SUCCESS