![[Jenkins]](/jenkins/static/f5fa13f0/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 213 originally caused by: Started by upstream project "Trigger" build number 240 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins4343823293575649900.sh + '[' samples = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33794_merge_ci -v /uod/idr/repos/curated/samples:/data -v /uod/idr-scratch/merge-ci/curated/samples:/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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 06:19:27,499 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:19:27,501 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 06:19:27,501 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:19:27,501 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:19:27,502 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:19:27,502 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:19:27,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:19:27,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:19:27,503 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:19:27,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:19:27,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:19:27,504 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:19:27,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:19:27,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:19:27,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:19:27,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:19:27,712 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:19:27,712 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:19:27,712 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:19:27,712 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:19:27,712 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 06:19:27,713 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 06:19:27,713 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 210 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-08 06:19:27,722] [main] java.version = 11.0.16 [testng] 06:19:27,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:19:27,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:27,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-08_06-19-27.log] [testng] 06:19:27,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-08 06:19:27,771] [main] testng.directory = /data [testng] [2024-10-08 06:19:27,771] [main] testng.configDirectory = /config [testng] [2024-10-08 06:19:27,781] [main] testng.multiplier = 1.0 [testng] [2024-10-08 06:19:27,782] [main] testng.in-memory = false [testng] [2024-10-08 06:19:27,782] [main] testng.allow-missing = false [testng] [2024-10-08 06:19:27,782] [main] user.language = en [testng] [2024-10-08 06:19:27,782] [main] user.country = ${user.country} [testng] [2024-10-08 06:19:27,783] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-08 06:20:01,981] [main] ---------------------------------------- [testng] [2024-10-08 06:20:01,982] [main] Total files: 164 [testng] [2024-10-08 06:20:01,982] [main] Scan time: 34.198 s (208 ms/file) [testng] [2024-10-08 06:20:01,982] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-08 06:20:54,053] [pool-1-thread-1] Initializing /data/openjpeg/Rome.bmp: [testng] 06:20:54,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:20:54,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:54,057 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-08_06-20-54.log] [testng] 06:20:54,057 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5179aca2 - End of configuration. [testng] [2024-10-08 06:20:54,145] [pool-1-thread-12] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 06:20:54,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:20:54,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:54,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-08_06-20-54.log] [testng] 06:20:54,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44313a2d - End of configuration. [testng] [2024-10-08 06:20:54,795] [pool-1-thread-11] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 06:20:54,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:20:54,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:54,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-08_06-20-54.log] [testng] 06:20:54,797 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13947669 - End of configuration. [testng] [2024-10-08 06:20:54,880] [pool-1-thread-10] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] 06:20:54,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:20:54,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:54,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-08_06-20-54.log] [testng] 06:20:54,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ff65c0b - End of configuration. [testng] [2024-10-08 06:20:54,974] [pool-1-thread-9] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 06:20:54,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:20:54,975 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:54,975 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-08_06-20-54.log] [testng] 06:20:54,976 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f73678b - End of configuration. [testng] [2024-10-08 06:20:55,658] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 06:20:55,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:20:55,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:55,659 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-08_06-20-55.log] [testng] 06:20:55,659 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c87c667 - End of configuration. [testng] [2024-10-08 06:20:55,936] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 06:20:55,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:20:55,936 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:55,937 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-08_06-20-55.log] [testng] 06:20:55,937 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f412141 - End of configuration. [testng] [2024-10-08 06:20:56,567] [pool-1-thread-6] Initializing /data/openjpeg/Cevennes2.bmp: [testng] 06:20:56,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:20:56,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:56,569 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-08_06-20-56.log] [testng] 06:20:56,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75327488 - End of configuration. [testng] [2024-10-08 06:20:56,636] [pool-1-thread-5] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] 06:20:56,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:20:56,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:56,637 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-08_06-20-56.log] [testng] 06:20:56,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54538a92 - End of configuration. [testng] [2024-10-08 06:20:57,264] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.j2k: [testng] 06:20:57,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:20:57,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:57,265 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-08_06-20-57.log] [testng] 06:20:57,266 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58787402 - End of configuration. [testng] [2024-10-08 06:20:57,494] [pool-1-thread-3] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] 06:20:57,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:20:57,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:57,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-08_06-20-57.log] [testng] 06:20:57,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@290324c - End of configuration. [testng] [2024-10-08 06:20:57,680] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 06:20:57,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:20:57,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:20:57,681 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-08_06-20-57.log] [testng] 06:20:57,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16a8001b - End of configuration. [testng] [2024-10-08 06:21:00,532] [pool-1-thread-1] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-10-08 06:21:01,127] [pool-1-thread-6] Initializing /data/ome/embryo.lsm: [testng] [2024-10-08 06:21:01,774] [pool-1-thread-3] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-10-08 06:21:14,380] [pool-1-thread-7] Initializing /data/ome/cb_1.r3d: [testng] [2024-10-08 06:21:14,516] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-10-08 06:21:14,606] [pool-1-thread-12] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-10-08 06:21:15,038] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-10-08 06:21:15,126] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-10-08 06:21:15,205] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-10-08 06:21:15,793] [pool-1-thread-8] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-10-08 06:21:17,853] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-10-08 06:21:17,920] [pool-1-thread-6] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-10-08 06:21:18,143] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-10-08 06:21:18,372] [pool-1-thread-11] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-10-08 06:21:18,656] [pool-1-thread-10] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-10-08 06:21:18,888] [pool-1-thread-1] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-10-08 06:21:19,078] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-10-08 06:21:19,481] [pool-1-thread-2] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-10-08 06:21:20,422] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-10-08 06:21:20,730] [pool-1-thread-8] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-10-08 06:21:21,249] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-10-08 06:21:21,673] [pool-1-thread-6] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-10-08 06:21:22,999] [pool-1-thread-11] Initializing /data/ome/654Atemp.stk: [testng] [2024-10-08 06:21:23,720] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-10-08 06:21:24,525] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2024-10-08 06:21:24,995] [pool-1-thread-9] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-10-08 06:21:25,321] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-10-08 06:21:25,485] [pool-1-thread-8] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-10-08 06:21:25,762] [pool-1-thread-2] Initializing /data/ome/worm.tiff: [testng] [2024-10-08 06:21:27,473] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-10-08 06:21:27,637] [pool-1-thread-12] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-10-08 06:21:28,164] [pool-1-thread-5] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-10-08 06:21:29,250] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-10-08 06:21:29,560] [pool-1-thread-7] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-10-08 06:21:29,619] [pool-1-thread-11] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-10-08 06:21:30,221] [pool-1-thread-8] Initializing /data/ome/C1.lsm: [testng] [2024-10-08 06:21:30,595] [pool-1-thread-12] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-10-08 06:21:31,394] [pool-1-thread-12] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-10-08 06:21:31,954] [pool-1-thread-5] Initializing /data/sdub/sdub.pattern: [testng] [2024-10-08 06:21:34,762] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-10-08 06:21:34,811] [pool-1-thread-8] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-10-08 06:21:35,153] [pool-1-thread-12] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-10-08 06:21:35,216] [pool-1-thread-10] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-10-08 06:21:35,282] [pool-1-thread-2] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-10-08 06:21:35,334] [pool-1-thread-7] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-10-08 06:21:35,982] [pool-1-thread-4] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-10-08 06:21:36,537] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 26 seconds Finished: SUCCESS