![[Jenkins]](/jenkins/static/c7b3cdfa/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 302 originally caused by: Started by upstream project "Trigger" build number 324 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins17097925702611393863.sh + '[' samples = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47758_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] 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] 00:39:54,845 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:39:54,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 00:39:54,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:39:54,847 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:39:54,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:39:54,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:39:54,848 |-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] 00:39:54,849 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:39:54,849 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:39:54,850 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:39:54,850 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:39:54,850 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:39:55,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:39:55,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:39:55,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:39:55,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:39:55,046 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:39:55,046 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:39:55,046 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:39:55,047 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:39:55,047 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 00:39:55,048 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 00:39:55,048 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 199 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-29 00:39:55,057] [main] java.version = 17.0.2 [testng] 00:39:55,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:39:55,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:39:55,106 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-29_00-39-55.log] [testng] 00:39:55,108 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-29 00:39:55,110] [main] testng.directory = /data [testng] [2024-12-29 00:39:55,110] [main] testng.configDirectory = /config [testng] [2024-12-29 00:39:55,119] [main] testng.multiplier = 1.0 [testng] [2024-12-29 00:39:55,120] [main] testng.in-memory = false [testng] [2024-12-29 00:39:55,120] [main] testng.allow-missing = false [testng] [2024-12-29 00:39:55,120] [main] user.language = en [testng] [2024-12-29 00:39:55,120] [main] user.country = ${user.country} [testng] [2024-12-29 00:39:55,120] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-29 00:40:41,196] [main] ---------------------------------------- [testng] [2024-12-29 00:40:41,197] [main] Total files: 164 [testng] [2024-12-29 00:40:41,197] [main] Scan time: 46.075 s (280 ms/file) [testng] [2024-12-29 00:40:41,197] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-29 00:42:03,239] [pool-1-thread-1] Initializing /data/ome/anusgfpzs.lsm: [testng] 00:42:03,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:42:03,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:03,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-29_00-42-03.log] [testng] 00:42:03,241 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62722401 - End of configuration. [testng] [2024-12-29 00:42:04,136] [pool-1-thread-12] Initializing /data/ome/Adultmidsection.lsm: [testng] 00:42:04,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:42:04,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:04,138 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-29_00-42-04.log] [testng] 00:42:04,138 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39a17fe6 - End of configuration. [testng] [2024-12-29 00:42:05,531] [pool-1-thread-11] Initializing /data/ome/compressed2ChZ.lsm: [testng] 00:42:05,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:42:05,532 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:05,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-29_00-42-05.log] [testng] 00:42:05,533 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71f9d315 - End of configuration. [testng] [2024-12-29 00:42:06,033] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] 00:42:06,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:42:06,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:06,034 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-29_00-42-06.log] [testng] 00:42:06,034 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e09d04b - End of configuration. [testng] [2024-12-29 00:42:06,158] [pool-1-thread-9] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] 00:42:06,158 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:42:06,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:06,159 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-29_00-42-06.log] [testng] 00:42:06,159 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765a4c1 - End of configuration. [testng] [2024-12-29 00:42:06,271] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 00:42:06,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:42:06,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:06,272 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-29_00-42-06.log] [testng] 00:42:06,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d4a1534 - End of configuration. [testng] [2024-12-29 00:42:06,377] [pool-1-thread-7] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] 00:42:06,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:42:06,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:06,378 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-29_00-42-06.log] [testng] 00:42:06,379 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21fc554c - End of configuration. [testng] [2024-12-29 00:42:08,777] [pool-1-thread-6] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 00:42:08,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:42:08,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:08,778 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-29_00-42-08.log] [testng] 00:42:08,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53c9e90a - End of configuration. [testng] [2024-12-29 00:42:09,538] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 00:42:09,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:42:09,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:09,538 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-29_00-42-09.log] [testng] 00:42:09,539 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74c8b280 - End of configuration. [testng] [2024-12-29 00:42:10,828] [pool-1-thread-4] Initializing /data/sdub/sdub.pattern: [testng] 00:42:10,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:42:10,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:10,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-29_00-42-10.log] [testng] 00:42:10,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a5e5610 - End of configuration. [testng] [2024-12-29 00:42:16,960] [pool-1-thread-3] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 00:42:16,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:42:16,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:16,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-29_00-42-16.log] [testng] 00:42:16,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66dd7483 - End of configuration. [testng] [2024-12-29 00:42:18,287] [pool-1-thread-2] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 00:42:18,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:42:18,287 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:42:18,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-29_00-42-18.log] [testng] 00:42:18,288 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57423d07 - End of configuration. [testng] [2024-12-29 00:42:22,768] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-12-29 00:42:23,411] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-12-29 00:42:23,593] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-12-29 00:42:26,362] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-12-29 00:42:27,932] [pool-1-thread-6] Initializing /data/ome/embryo.lsm: [testng] [2024-12-29 00:42:28,435] [pool-1-thread-1] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-12-29 00:42:28,611] [pool-1-thread-2] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-12-29 00:42:29,053] [pool-1-thread-12] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-12-29 00:42:29,894] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-12-29 00:42:30,777] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-12-29 00:42:31,466] [pool-1-thread-3] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-12-29 00:42:32,255] [pool-1-thread-8] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2024-12-29 00:42:33,102] [pool-1-thread-11] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-12-29 00:42:34,212] [pool-1-thread-1] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-12-29 00:42:37,082] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-12-29 00:42:37,199] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-12-29 00:42:37,740] [pool-1-thread-9] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-12-29 00:42:37,859] [pool-1-thread-6] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-12-29 00:42:38,479] [pool-1-thread-3] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-12-29 00:42:39,242] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-12-29 00:42:39,587] [pool-1-thread-8] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-12-29 00:42:41,431] [pool-1-thread-9] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-12-29 00:42:42,387] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-12-29 00:42:42,561] [pool-1-thread-10] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-12-29 00:42:43,060] [pool-1-thread-1] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-12-29 00:42:43,551] [pool-1-thread-3] Initializing /data/ome/cb_1.r3d: [testng] [2024-12-29 00:42:44,642] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-12-29 00:42:46,416] [pool-1-thread-12] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-12-29 00:42:47,435] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2024-12-29 00:42:47,620] [pool-1-thread-11] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-12-29 00:42:47,815] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-12-29 00:42:48,515] [pool-1-thread-6] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-12-29 00:43:17,504] [pool-1-thread-10] Initializing /data/ome/C1.lsm: [testng] [2024-12-29 00:43:19,664] [pool-1-thread-11] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-12-29 00:43:20,791] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-12-29 00:43:22,704] [pool-1-thread-1] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2024-12-29 00:43:23,807] [pool-1-thread-12] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-12-29 00:43:23,958] [pool-1-thread-7] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-12-29 00:43:24,786] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-12-29 00:43:26,698] [pool-1-thread-10] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-12-29 00:43:28,671] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-12-29 00:43:29,634] [pool-1-thread-11] Initializing /data/ome/654Atemp.stk: [testng] [2024-12-29 00:43:32,034] [pool-1-thread-12] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-12-29 00:43:32,824] [pool-1-thread-2] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-12-29 00:43:33,608] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2024-12-29 00:43:34,667] [pool-1-thread-7] Initializing /data/ome/worm.tiff: [testng] [2024-12-29 00:43:36,398] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 19 seconds Finished: SUCCESS