![[Jenkins]](/jenkins/static/8dc2a4ee/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 268 originally caused by: Started by upstream project "Trigger" build number 291 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/jenkins7333619518405371945.sh + '[' samples = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42298_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] 00:54:02,763 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:54:02,764 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:54:02,764 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:02,765 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:54:02,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:54:02,766 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:54:02,766 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:54:02,766 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:02,767 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:54:02,767 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:54:02,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:54:02,768 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:54:02,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:54:02,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:54:02,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:54:02,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:54:02,959 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:54:02,959 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:54:02,959 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:54:02,960 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:54:02,960 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:54:02,961 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:54:02,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-26 00:54:02,969] [main] java.version = 11.0.16 [testng] 00:54:02,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:54:02,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:54:03,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-26_00-54-02.log] [testng] 00:54:03,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-26 00:54:03,017] [main] testng.directory = /data [testng] [2024-11-26 00:54:03,017] [main] testng.configDirectory = /config [testng] [2024-11-26 00:54:03,026] [main] testng.multiplier = 1.0 [testng] [2024-11-26 00:54:03,027] [main] testng.in-memory = false [testng] [2024-11-26 00:54:03,028] [main] testng.allow-missing = false [testng] [2024-11-26 00:54:03,028] [main] user.language = en [testng] [2024-11-26 00:54:03,028] [main] user.country = ${user.country} [testng] [2024-11-26 00:54:03,028] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-26 00:58:03,779] [main] ---------------------------------------- [testng] [2024-11-26 00:58:03,779] [main] Total files: 164 [testng] [2024-11-26 00:58:03,779] [main] Scan time: 240.751 s (1467 ms/file) [testng] [2024-11-26 00:58:03,780] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-26 01:04:59,648] [pool-1-thread-1] Initializing /data/openjpeg/Rome.bmp: [testng] 01:04:59,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:04:59,649 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:04:59,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-26_01-04-59.log] [testng] 01:04:59,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ac8ac2b - End of configuration. [testng] [2024-11-26 01:05:00,077] [pool-1-thread-12] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:05:00,078 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:05:00,078 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:00,078 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-26_01-05-00.log] [testng] 01:05:00,079 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b4b3397 - End of configuration. [testng] [2024-11-26 01:05:03,669] [pool-1-thread-11] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 01:05:03,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:05:03,670 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:03,671 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-26_01-05-03.log] [testng] 01:05:03,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74ba4d68 - End of configuration. [testng] [2024-11-26 01:05:04,463] [pool-1-thread-10] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] 01:05:04,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:05:04,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:04,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-26_01-05-04.log] [testng] 01:05:04,464 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67f97f73 - End of configuration. [testng] [2024-11-26 01:05:05,304] [pool-1-thread-9] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 01:05:05,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:05:05,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:05,305 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-26_01-05-05.log] [testng] 01:05:05,306 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4abdf866 - End of configuration. [testng] [2024-11-26 01:05:10,134] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne1.j2k: [testng] 01:05:10,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:05:10,135 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:10,135 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-26_01-05-10.log] [testng] 01:05:10,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63863370 - End of configuration. [testng] [2024-11-26 01:05:13,386] [pool-1-thread-7] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 01:05:13,386 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:05:13,386 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:13,387 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-26_01-05-13.log] [testng] 01:05:13,388 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d38aa9f - End of configuration. [testng] [2024-11-26 01:05:17,919] [pool-1-thread-6] Initializing /data/openjpeg/Cevennes2.bmp: [testng] 01:05:17,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:05:17,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:17,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-26_01-05-17.log] [testng] 01:05:17,921 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7939567 - End of configuration. [testng] [2024-11-26 01:05:18,452] [pool-1-thread-5] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] 01:05:18,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:05:18,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:18,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-26_01-05-18.log] [testng] 01:05:18,453 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53dcabf8 - End of configuration. [testng] [2024-11-26 01:05:24,262] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.j2k: [testng] 01:05:24,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:05:24,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:24,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-26_01-05-24.log] [testng] 01:05:24,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7762e4d4 - End of configuration. [testng] [2024-11-26 01:05:27,305] [pool-1-thread-3] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] 01:05:27,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:05:27,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:27,305 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-26_01-05-27.log] [testng] 01:05:27,306 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cf525ef - End of configuration. [testng] [2024-11-26 01:05:28,654] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 01:05:28,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:05:28,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:05:28,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-26_01-05-28.log] [testng] 01:05:28,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a9a706d - End of configuration. [testng] [2024-11-26 01:05:43,838] [pool-1-thread-1] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-11-26 01:05:50,913] [pool-1-thread-6] Initializing /data/ome/cb_1.r3d: [testng] [2024-11-26 01:05:51,671] [pool-1-thread-10] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-11-26 01:08:13,518] [pool-1-thread-11] Initializing /data/ome/embryo.lsm: [testng] [2024-11-26 01:08:16,827] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-11-26 01:08:28,528] [pool-1-thread-2] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-11-26 01:08:32,957] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-11-26 01:08:33,737] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-11-26 01:08:39,919] [pool-1-thread-9] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-11-26 01:08:46,253] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-11-26 01:08:47,111] [pool-1-thread-12] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-11-26 01:08:52,275] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-11-26 01:08:55,244] [pool-1-thread-11] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-11-26 01:08:59,416] [pool-1-thread-4] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-11-26 01:09:06,831] [pool-1-thread-8] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-11-26 01:09:10,813] [pool-1-thread-6] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-11-26 01:09:13,352] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-11-26 01:09:15,157] [pool-1-thread-7] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-11-26 01:09:24,972] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-11-26 01:09:29,022] [pool-1-thread-2] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-11-26 01:09:37,803] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-11-26 01:09:40,217] [pool-1-thread-12] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-11-26 01:09:46,484] [pool-1-thread-9] Initializing /data/ome/654Atemp.stk: [testng] [2024-11-26 01:09:56,229] [pool-1-thread-3] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-11-26 01:10:00,422] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2024-11-26 01:10:01,253] [pool-1-thread-11] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-11-26 01:10:04,721] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-11-26 01:10:09,106] [pool-1-thread-6] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-11-26 01:10:16,000] [pool-1-thread-4] Initializing /data/ome/worm.tiff: [testng] [2024-11-26 01:10:26,378] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-11-26 01:10:27,746] [pool-1-thread-6] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-11-26 01:10:32,188] [pool-1-thread-8] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-11-26 01:10:35,733] [pool-1-thread-5] Initializing /data/ome/Adultmidsection.lsm: [testng] [2024-11-26 01:10:39,700] [pool-1-thread-3] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-11-26 01:10:40,438] [pool-1-thread-7] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-11-26 01:10:52,839] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] [2024-11-26 01:10:57,490] [pool-1-thread-2] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-11-26 01:11:02,052] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-11-26 01:11:06,798] [pool-1-thread-2] Initializing /data/sdub/sdub.pattern: [testng] [2024-11-26 01:11:50,044] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-11-26 01:11:55,163] [pool-1-thread-3] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-11-26 01:12:03,179] [pool-1-thread-5] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-11-26 01:12:04,205] [pool-1-thread-8] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-11-26 01:12:05,157] [pool-1-thread-1] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-11-26 01:12:09,172] [pool-1-thread-4] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-11-26 01:12:15,677] [pool-1-thread-9] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-11-26 01:12:25,555] [pool-1-thread-6] 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: 36 minutes 31 seconds Finished: SUCCESS