Started by upstream project "BIOFORMATS-test-repo" build number 287
originally caused by:
Started by upstream project "Trigger" build number 306
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/jenkins15316027700719580971.sh
+ '[' bmp = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_45282_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] 00:29:01,198 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 00:29:01,200 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service.
[testng] 00:29:01,200 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:29:01,201 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 00:29:01,202 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 00:29:01,202 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 00:29:01,202 |-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] 00:29:01,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:29:01,203 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 00:29:01,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 00:29:01,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 00:29:01,205 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 00:29:01,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 00:29:01,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 00:29:01,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 00:29:01,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 00:29:01,420 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 00:29:01,420 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 00:29:01,420 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 00:29:01,421 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 00:29:01,421 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration.
[testng] 00:29:01,422 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point
[testng] 00:29:01,422 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 219 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-11 00:29:01,431] [main] java.version = 17.0.2
[testng] 00:29:01,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 00:29:01,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:01,480 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-11_00-29-01.log]
[testng] 00:29:01,482 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration.
[testng] [2024-12-11 00:29:01,484] [main] testng.directory = /data
[testng] [2024-12-11 00:29:01,485] [main] testng.configDirectory = /config
[testng] [2024-12-11 00:29:01,493] [main] testng.multiplier = 1.0
[testng] [2024-12-11 00:29:01,494] [main] testng.in-memory = false
[testng] [2024-12-11 00:29:01,494] [main] testng.allow-missing = false
[testng] [2024-12-11 00:29:01,494] [main] user.language = en
[testng] [2024-12-11 00:29:01,494] [main] user.country = ${user.country}
[testng] [2024-12-11 00:29:01,494] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-11 00:29:02,271] [main] ----------------------------------------
[testng] [2024-12-11 00:29:02,271] [main] Total files: 31
[testng] [2024-12-11 00:29:02,271] [main] Scan time: 0.777 s (25 ms/file)
[testng] [2024-12-11 00:29:02,271] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 31 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-11 00:29:09,974] [pool-1-thread-1] Initializing /data/dennis/kidney_TFl_Six.bmp:
[testng] 00:29:09,975 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 00:29:09,975 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:09,976 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-11_00-29-09.log]
[testng] 00:29:09,977 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c84a2af - End of configuration.
[testng] [2024-12-11 00:29:10,099] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Eight.bmp:
[testng] 00:29:10,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 00:29:10,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:10,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-11_00-29-10.log]
[testng] 00:29:10,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b5badd5 - End of configuration.
[testng] [2024-12-11 00:29:10,216] [pool-1-thread-11] Initializing /data/big-images/6kx6k-grey.bmp:
[testng] 00:29:10,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 00:29:10,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:10,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-11_00-29-10.log]
[testng] 00:29:10,218 |-INFO in ch.qos.logback.core.sift.SiftProcessor@735b60d1 - End of configuration.
[testng] [2024-12-11 00:29:10,330] [pool-1-thread-10] Initializing /data/dennis/kidney_TFl_Five.bmp:
[testng] 00:29:10,330 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 00:29:10,330 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:10,331 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-11_00-29-10.log]
[testng] 00:29:10,331 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47bfbaa8 - End of configuration.
[testng] [2024-12-11 00:29:10,469] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Seven.bmp:
[testng] 00:29:10,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 00:29:10,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:10,470 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-11_00-29-10.log]
[testng] 00:29:10,470 |-INFO in ch.qos.logback.core.sift.SiftProcessor@362a0c31 - End of configuration.
[testng] [2024-12-11 00:29:10,707] [pool-1-thread-8] Initializing /data/curtis/image2.bmp:
[testng] 00:29:10,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 00:29:10,707 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:10,708 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-11_00-29-10.log]
[testng] 00:29:10,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59198ba9 - End of configuration.
[testng] [2024-12-11 00:29:11,103] [pool-1-thread-7] Initializing /data/dennis/kidney_TFl_One.bmp:
[testng] 00:29:11,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 00:29:11,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:11,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-11_00-29-11.log]
[testng] 00:29:11,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11bb4551 - End of configuration.
[testng] [2024-12-11 00:29:11,233] [pool-1-thread-6] Initializing /data/curtis/image5.bmp:
[testng] 00:29:11,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 00:29:11,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:11,234 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-11_00-29-11.log]
[testng] 00:29:11,235 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ddf602 - End of configuration.
[testng] [2024-12-11 00:29:11,348] [pool-1-thread-5] Initializing /data/curtis/image3.bmp:
[testng] 00:29:11,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 00:29:11,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:11,349 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-11_00-29-11.log]
[testng] 00:29:11,349 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3965c4cc - End of configuration.
[testng] [2024-12-11 00:29:11,488] [pool-1-thread-4] Initializing /data/big-images/8kx8k-grey.bmp:
[testng] 00:29:11,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 00:29:11,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:11,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-11_00-29-11.log]
[testng] 00:29:11,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eaf757a - End of configuration.
[testng] [2024-12-11 00:29:11,615] [pool-1-thread-3] Initializing /data/brian/images/raw_a_rg.tiff:
[testng] 00:29:11,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 00:29:11,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:11,616 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-11_00-29-11.log]
[testng] 00:29:11,616 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58ffd31b - End of configuration.
[testng] [2024-12-11 00:29:13,323] [pool-1-thread-2] Initializing /data/brian/images/kidney_TFl_1_greyscale.bmp:
[testng] 00:29:13,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 00:29:13,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 00:29:13,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-11_00-29-13.log]
[testng] 00:29:13,324 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e2e5006 - End of configuration.
[testng] [2024-12-11 00:29:17,184] [pool-1-thread-5] Initializing /data/big-images/6kx6k.bmp:
[testng] [2024-12-11 00:29:17,301] [pool-1-thread-6] Initializing /data/frank/cell_mask_error.bmp:
[testng] [2024-12-11 00:29:17,421] [pool-1-thread-8] Initializing /data/big-images/8kx8k.bmp:
[testng] [2024-12-11 00:29:17,537] [pool-1-thread-2] Initializing /data/qa-4538/22577136_Figure 2_A_ATF6 (GST)_13572.bmp:
[testng] [2024-12-11 00:29:17,651] [pool-1-thread-12] Initializing /data/dennis/kidney_TFl_Two.bmp:
[testng] [2024-12-11 00:29:17,812] [pool-1-thread-9] Initializing /data/dennis/kidney_TFl_Nine.bmp:
[testng] [2024-12-11 00:29:17,960] [pool-1-thread-1] Initializing /data/bk/100427RBTLPC_FD3__A___5_T_001_ch_00_image_00025_Z_001.bmp:
[testng] [2024-12-11 00:29:18,151] [pool-1-thread-7] Initializing /data/curtis/image4.bmp:
[testng] [2024-12-11 00:29:18,305] [pool-1-thread-10] Initializing /data/brian/images/DMSOHigh_001.bmp:
[testng] [2024-12-11 00:29:20,599] [pool-1-thread-11] Initializing /data/dennis/kidney_TFl_Four.bmp:
[testng] [2024-12-11 00:29:21,488] [pool-1-thread-7] Initializing /data/ticket-12971/foo.bmp:
[testng] [2024-12-11 00:29:21,615] [pool-1-thread-9] Initializing /data/bk/ch_00.bmp:
[testng] [2024-12-11 00:29:21,802] [pool-1-thread-10] Initializing /data/brian/images/kidney_TFl_1.bmp:
[testng] [2024-12-11 00:29:21,965] [pool-1-thread-12] Initializing /data/brian/images/23srp5dksub.bmp:
[testng] [2024-12-11 00:29:22,176] [pool-1-thread-6] Initializing /data/dennis/kidney_TFl_Three.bmp:
[testng] [2024-12-11 00:29:22,815] [pool-1-thread-1] Initializing /data/brian/images/raw_a.bmp:
[testng] [2024-12-11 00:29:23,015] [pool-1-thread-2] Initializing /data/brian/images/raw_a_rg.bmp:
[testng] [2024-12-11 00:29:23,475] [pool-1-thread-11] Initializing /data/curtis/image1.bmp:
[testng] [2024-12-11 00:29:25,110] [pool-1-thread-7] 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: 46 seconds
Finished: SUCCESS