Started by upstream project "BIOFORMATS-test-repo" build number 209 originally caused by: Started by upstream project "Trigger" build number 235 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/jenkins10790961643729133275.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33133_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 test-automated: [testng] File leak detector installed [testng] 01:28:01,524 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:28:01,526 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:28:01,526 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:28:01,527 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:28:01,527 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:28:01,527 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:28:01,527 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:28:01,527 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:28:01,528 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:28:01,528 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:28:01,528 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:28:01,528 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:28:01,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:28:01,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:28:01,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:28:01,786 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:28:01,794 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:28:01,794 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:28:01,794 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:28:01,795 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:28:01,795 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:28:01,796 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:28:01,796 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 268 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-04 01:28:01,806] [main] java.version = 1.8.0_342 [testng] 01:28:01,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:28:01,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:01,858 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-04_01-28-01.log] [testng] 01:28:01,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-10-04 01:28:01,862] [main] testng.directory = /data [testng] [2024-10-04 01:28:01,862] [main] testng.configDirectory = /config [testng] [2024-10-04 01:28:01,874] [main] testng.multiplier = 1.0 [testng] [2024-10-04 01:28:01,875] [main] testng.in-memory = false [testng] [2024-10-04 01:28:01,875] [main] testng.allow-missing = false [testng] [2024-10-04 01:28:01,875] [main] user.language = en [testng] [2024-10-04 01:28:01,875] [main] user.country = ${user.country} [testng] [2024-10-04 01:28:01,875] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-04 01:28:02,969] [main] ---------------------------------------- [testng] [2024-10-04 01:28:02,969] [main] Total files: 31 [testng] [2024-10-04 01:28:02,969] [main] Scan time: 1.094 s (35 ms/file) [testng] [2024-10-04 01:28:02,969] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-04 01:28:06,606] [pool-1-thread-1] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] 01:28:06,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:28:06,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-04_01-28-06.log] [testng] 01:28:06,608 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13269581 - End of configuration. [testng] [2024-10-04 01:28:06,666] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] 01:28:06,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:28:06,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,667 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-04_01-28-06.log] [testng] 01:28:06,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178fef86 - End of configuration. [testng] [2024-10-04 01:28:06,718] [pool-1-thread-11] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] 01:28:06,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:28:06,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,719 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-04_01-28-06.log] [testng] 01:28:06,719 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b8b99b6 - End of configuration. [testng] [2024-10-04 01:28:06,785] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] 01:28:06,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:28:06,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-04_01-28-06.log] [testng] 01:28:06,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73211d8a - End of configuration. [testng] [2024-10-04 01:28:06,843] [pool-1-thread-9] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] 01:28:06,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:28:06,843 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-04_01-28-06.log] [testng] 01:28:06,845 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31d9da6b - End of configuration. [testng] [2024-10-04 01:28:06,900] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] 01:28:06,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:28:06,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,902 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-04_01-28-06.log] [testng] 01:28:06,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57a0f1da - End of configuration. [testng] [2024-10-04 01:28:06,948] [pool-1-thread-7] Initializing /data/big-images/6kx6k.bmp: [testng] 01:28:06,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:28:06,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:06,949 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-04_01-28-06.log] [testng] 01:28:06,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52b2536e - End of configuration. [testng] [2024-10-04 01:28:07,003] [pool-1-thread-6] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 01:28:07,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:28:07,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:07,004 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-04_01-28-07.log] [testng] 01:28:07,005 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c5948b0 - End of configuration. [testng] [2024-10-04 01:28:07,120] [pool-1-thread-5] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 01:28:07,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:28:07,120 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:07,121 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-04_01-28-07.log] [testng] 01:28:07,121 |-INFO in ch.qos.logback.core.sift.SiftProcessor@666731ab - End of configuration. [testng] [2024-10-04 01:28:07,191] [pool-1-thread-4] Initializing /data/curtis/image1.bmp: [testng] 01:28:07,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:28:07,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:07,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-04_01-28-07.log] [testng] 01:28:07,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42ddcc5 - End of configuration. [testng] [2024-10-04 01:28:07,269] [pool-1-thread-3] Initializing /data/frank/cell_mask_error.bmp: [testng] 01:28:07,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:28:07,269 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:07,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-04_01-28-07.log] [testng] 01:28:07,270 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6664e677 - End of configuration. [testng] [2024-10-04 01:28:07,337] [pool-1-thread-2] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] 01:28:07,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:28:07,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:28:07,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-04_01-28-07.log] [testng] 01:28:07,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@302a3f22 - End of configuration. [testng] [2024-10-04 01:28:10,208] [pool-1-thread-10] Initializing /data/curtis/image4.bmp: [testng] [2024-10-04 01:28:10,259] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-10-04 01:28:10,479] [pool-1-thread-8] Initializing /data/big-images/8kx8k.bmp: [testng] [2024-10-04 01:28:10,582] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-10-04 01:28:10,636] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] [2024-10-04 01:28:10,697] [pool-1-thread-1] Initializing /data/curtis/image2.bmp: [testng] [2024-10-04 01:28:10,758] [pool-1-thread-12] Initializing /data/bk/ch_00.bmp: [testng] [2024-10-04 01:28:10,812] [pool-1-thread-5] Initializing /data/curtis/image3.bmp: [testng] [2024-10-04 01:28:10,923] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-10-04 01:28:11,094] [pool-1-thread-11] Initializing /data/curtis/image5.bmp: [testng] [2024-10-04 01:28:11,864] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-10-04 01:28:11,915] [pool-1-thread-5] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-10-04 01:28:11,965] [pool-1-thread-10] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-10-04 01:28:12,017] [pool-1-thread-4] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] [2024-10-04 01:28:12,060] [pool-1-thread-2] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-10-04 01:28:12,108] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-10-04 01:28:13,050] [pool-1-thread-9] Initializing /data/stephane/holo0908.bmp: [testng] [2024-10-04 01:28:13,153] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] [2024-10-04 01:28:13,370] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 30 seconds Finished: SUCCESS