Started by upstream project "BIOFORMATS-test-repo" build number 2 originally caused by: Started by upstream project "Trigger" build number 3 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/jenkins1409293769665824876.sh + '[' bmp = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_159_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] 00:25:05,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:25:05,015 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:25:05,015 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:25:05,017 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:25:05,017 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:25:05,017 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:25:05,018 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:25:05,018 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:25:05,019 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:25:05,019 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:25:05,019 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:25:05,019 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:25:05,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:25:05,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:25:05,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:25:05,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:25:05,309 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:25:05,309 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:25:05,309 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:25:05,310 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:25:05,310 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:25:05,311 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:25:05,311 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 292 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-15 00:25:05,320] [main] java.version = 1.8.0_342 [testng] 00:25:05,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:25:05,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:05,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-15_00-25-05.log] [testng] 00:25:05,378 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-15 00:25:05,380] [main] testng.directory = /data [testng] [2024-03-15 00:25:05,380] [main] testng.configDirectory = /config [testng] [2024-03-15 00:25:05,392] [main] testng.multiplier = 1.0 [testng] [2024-03-15 00:25:05,392] [main] testng.in-memory = false [testng] [2024-03-15 00:25:05,392] [main] testng.allow-missing = false [testng] [2024-03-15 00:25:05,392] [main] user.language = en [testng] [2024-03-15 00:25:05,392] [main] user.country = ${user.country} [testng] [2024-03-15 00:25:05,392] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-15 00:25:05,854] [main] ---------------------------------------- [testng] [2024-03-15 00:25:05,854] [main] Total files: 31 [testng] [2024-03-15 00:25:05,854] [main] Scan time: 0.462 s (14 ms/file) [testng] [2024-03-15 00:25:05,854] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 31 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-15 00:25:09,110] [pool-1-thread-1] Initializing /data/bk/ch_00.bmp: [testng] 00:25:09,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:25:09,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-15_00-25-09.log] [testng] 00:25:09,114 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e89ea27 - End of configuration. [testng] [2024-03-15 00:25:09,169] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Five.bmp: [testng] 00:25:09,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:25:09,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,173 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-15_00-25-09.log] [testng] 00:25:09,174 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6da0d268 - End of configuration. [testng] [2024-03-15 00:25:09,207] [pool-1-thread-11] Initializing /data/ticket-12971/foo.bmp: [testng] 00:25:09,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:25:09,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-15_00-25-09.log] [testng] 00:25:09,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c9677ad - End of configuration. [testng] [2024-03-15 00:25:09,239] [pool-1-thread-10] Initializing /data/brian/images/raw_a.bmp: [testng] 00:25:09,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:25:09,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-15_00-25-09.log] [testng] 00:25:09,240 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18a2475a - End of configuration. [testng] [2024-03-15 00:25:09,272] [pool-1-thread-9] Initializing /data/big-images/6kx6k.bmp: [testng] 00:25:09,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:25:09,273 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,274 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-15_00-25-09.log] [testng] 00:25:09,274 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53a0c7ff - End of configuration. [testng] [2024-03-15 00:25:09,306] [pool-1-thread-8] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp: [testng] 00:25:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:25:09,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-15_00-25-09.log] [testng] 00:25:09,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f531603 - End of configuration. [testng] [2024-03-15 00:25:09,379] [pool-1-thread-7] Initializing /data/brian/images/23srp5dksub.bmp: [testng] 00:25:09,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:25:09,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-15_00-25-09.log] [testng] 00:25:09,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8890f9f - End of configuration. [testng] [2024-03-15 00:25:09,414] [pool-1-thread-6] Initializing /data/curtis/image3.bmp: [testng] 00:25:09,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:25:09,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-15_00-25-09.log] [testng] 00:25:09,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@561895fa - End of configuration. [testng] [2024-03-15 00:25:09,438] [pool-1-thread-5] Initializing /data/big-images/6kx6k-grey.bmp: [testng] 00:25:09,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:25:09,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,439 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-15_00-25-09.log] [testng] 00:25:09,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35367a55 - End of configuration. [testng] [2024-03-15 00:25:09,470] [pool-1-thread-4] Initializing /data/big-images/8kx8k.bmp: [testng] 00:25:09,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:25:09,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,472 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-15_00-25-09.log] [testng] 00:25:09,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@89d2fc3 - End of configuration. [testng] [2024-03-15 00:25:09,502] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_One.bmp: [testng] 00:25:09,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:25:09,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,504 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-15_00-25-09.log] [testng] 00:25:09,504 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15e45103 - End of configuration. [testng] [2024-03-15 00:25:09,534] [pool-1-thread-2] Initializing /data/curtis/image5.bmp: [testng] 00:25:09,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:25:09,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-15_00-25-09.log] [testng] 00:25:09,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1733e608 - End of configuration. [testng] [2024-03-15 00:25:11,699] [pool-1-thread-10] Initializing /data/curtis/image1.bmp: [testng] [2024-03-15 00:25:11,763] [pool-1-thread-3] Initializing /data/dennis/kidney_TFl_Eight.bmp: [testng] [2024-03-15 00:25:11,817] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Seven.bmp: [testng] [2024-03-15 00:25:11,873] [pool-1-thread-11] Initializing /data/curtis/image2.bmp: [testng] [2024-03-15 00:25:11,927] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Six.bmp: [testng] [2024-03-15 00:25:11,986] [pool-1-thread-2] Initializing /data/big-images/8kx8k-grey.bmp: [testng] [2024-03-15 00:25:12,046] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Three.bmp: [testng] [2024-03-15 00:25:12,757] [pool-1-thread-7] Initializing /data/frank/cell_mask_error.bmp: [testng] [2024-03-15 00:25:13,366] [pool-1-thread-1] Initializing /data/stephane/holo0908.bmp: [testng] [2024-03-15 00:25:13,829] [pool-1-thread-10] Initializing /data/brian/images/raw_a_rg.tiff: [testng] [2024-03-15 00:25:14,385] [pool-1-thread-11] Initializing /data/brian/images/DMSOHigh_001.bmp: [testng] [2024-03-15 00:25:14,684] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_Two.bmp: [testng] [2024-03-15 00:25:14,972] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.bmp: [testng] [2024-03-15 00:25:15,051] [pool-1-thread-8] Initializing /data/dennis/kidney_TFl_Nine.bmp: [testng] [2024-03-15 00:25:15,097] [pool-1-thread-12] Initializing /data/curtis/image4.bmp: [testng] [2024-03-15 00:25:15,137] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Four.bmp: [testng] [2024-03-15 00:25:15,348] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp: [testng] [2024-03-15 00:25:15,563] [pool-1-thread-7] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp: [testng] [2024-03-15 00:25:15,657] [pool-1-thread-12] Initializing /data/brian/images/kidney_TFl_1.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1643, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 28 seconds Finished: SUCCESS