![[Jenkins]](/jenkins/static/d309b76e/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 309 originally caused by: Started by upstream project "Trigger" build number 331 originally caused by: Started by timer 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/jenkins7488678844220218754.sh + '[' samples = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48913_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] 00:34:32,151 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:34:32,153 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 00:34:32,153 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:32,154 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:32,154 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:34:32,155 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:34:32,155 |-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] 00:34:32,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:32,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:32,156 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:34:32,156 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:34:32,156 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:34:32,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:34:32,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:34:32,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:34:32,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:34:32,351 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:34:32,351 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:34:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:34:32,351 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:34:32,351 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 00:34:32,352 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 00:34:32,352 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-05 00:34:32,361] [main] java.version = 17.0.2 [testng] 00:34:32,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:34:32,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:32,421 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-05_00-34-32.log] [testng] 00:34:32,422 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2025-01-05 00:34:32,424] [main] testng.directory = /data [testng] [2025-01-05 00:34:32,425] [main] testng.configDirectory = /config [testng] [2025-01-05 00:34:32,434] [main] testng.multiplier = 1.0 [testng] [2025-01-05 00:34:32,434] [main] testng.in-memory = false [testng] [2025-01-05 00:34:32,434] [main] testng.allow-missing = false [testng] [2025-01-05 00:34:32,434] [main] user.language = en [testng] [2025-01-05 00:34:32,435] [main] user.country = ${user.country} [testng] [2025-01-05 00:34:32,435] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-05 00:35:08,461] [main] ---------------------------------------- [testng] [2025-01-05 00:35:08,461] [main] Total files: 164 [testng] [2025-01-05 00:35:08,461] [main] Scan time: 36.026 s (219 ms/file) [testng] [2025-01-05 00:35:08,461] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-05 00:36:01,868] [pool-1-thread-1] Initializing /data/ome/anusgfpzs.lsm: [testng] 00:36:01,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:36:01,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:01,870 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-05_00-36-01.log] [testng] 00:36:01,870 |-INFO in ch.qos.logback.core.sift.SiftProcessor@409df53a - End of configuration. [testng] [2025-01-05 00:36:02,376] [pool-1-thread-12] Initializing /data/ome/Adultmidsection.lsm: [testng] 00:36:02,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:36:02,376 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:02,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-05_00-36-02.log] [testng] 00:36:02,377 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8837219 - End of configuration. [testng] [2025-01-05 00:36:02,869] [pool-1-thread-11] Initializing /data/ome/compressed2ChZ.lsm: [testng] 00:36:02,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:36:02,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:02,870 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-05_00-36-02.log] [testng] 00:36:02,871 |-INFO in ch.qos.logback.core.sift.SiftProcessor@253987ee - End of configuration. [testng] [2025-01-05 00:36:03,536] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] 00:36:03,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:36:03,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:03,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-05_00-36-03.log] [testng] 00:36:03,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5051355c - End of configuration. [testng] [2025-01-05 00:36:03,707] [pool-1-thread-9] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] 00:36:03,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:36:03,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:03,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-05_00-36-03.log] [testng] 00:36:03,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bc3a1b4 - End of configuration. [testng] [2025-01-05 00:36:03,828] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.ppm: [testng] 00:36:03,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:36:03,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:03,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-05_00-36-03.log] [testng] 00:36:03,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f3087ed - End of configuration. [testng] [2025-01-05 00:36:03,928] [pool-1-thread-7] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] 00:36:03,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:36:03,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:03,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-05_00-36-03.log] [testng] 00:36:03,933 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18eff806 - End of configuration. [testng] [2025-01-05 00:36:04,993] [pool-1-thread-6] Initializing /data/ome/C1lowmusgfp.lsm: [testng] 00:36:04,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:36:04,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:04,995 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-05_00-36-04.log] [testng] 00:36:04,995 |-INFO in ch.qos.logback.core.sift.SiftProcessor@608d87e2 - End of configuration. [testng] [2025-01-05 00:36:06,060] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif: [testng] 00:36:06,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:36:06,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:06,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-05_00-36-06.log] [testng] 00:36:06,062 |-INFO in ch.qos.logback.core.sift.SiftProcessor@409b0aa5 - End of configuration. [testng] [2025-01-05 00:36:06,864] [pool-1-thread-4] Initializing /data/sdub/sdub.pattern: [testng] 00:36:06,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:36:06,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:06,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-05_00-36-06.log] [testng] 00:36:06,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74641eb3 - End of configuration. [testng] [2025-01-05 00:36:12,188] [pool-1-thread-3] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] 00:36:12,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:36:12,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:12,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-05_00-36-12.log] [testng] 00:36:12,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e1d6cdd - End of configuration. [testng] [2025-01-05 00:36:13,036] [pool-1-thread-2] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 00:36:13,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:36:13,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:13,037 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-05_00-36-13.log] [testng] 00:36:13,038 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d1c2a8c - End of configuration. [testng] [2025-01-05 00:36:18,060] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-01-05 00:36:20,543] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-01-05 00:36:20,917] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-01-05 00:36:22,582] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2025-01-05 00:36:23,420] [pool-1-thread-2] Initializing /data/ome/embryo.lsm: [testng] [2025-01-05 00:36:23,918] [pool-1-thread-6] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-01-05 00:36:24,043] [pool-1-thread-12] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-01-05 00:36:24,477] [pool-1-thread-1] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2025-01-05 00:36:25,770] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2025-01-05 00:36:26,432] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2025-01-05 00:36:27,184] [pool-1-thread-8] Initializing /data/openjpeg/Facade.bmp: [testng] [2025-01-05 00:36:27,318] [pool-1-thread-5] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-01-05 00:36:28,225] [pool-1-thread-6] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2025-01-05 00:36:29,484] [pool-1-thread-11] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-01-05 00:36:31,045] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2025-01-05 00:36:31,607] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-01-05 00:36:31,791] [pool-1-thread-10] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-01-05 00:36:31,918] [pool-1-thread-2] Initializing /data/openjpeg/Rome.jp2: [testng] [2025-01-05 00:36:32,484] [pool-1-thread-8] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-01-05 00:36:33,215] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-01-05 00:36:33,872] [pool-1-thread-10] Initializing /data/ome/011B1_Morph.HTD: [testng] [2025-01-05 00:36:35,152] [pool-1-thread-9] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-01-05 00:36:35,764] [pool-1-thread-11] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-01-05 00:36:35,893] [pool-1-thread-8] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-01-05 00:36:36,218] [pool-1-thread-6] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-01-05 00:36:36,468] [pool-1-thread-5] Initializing /data/ome/cb_1.r3d: [testng] [2025-01-05 00:36:37,303] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2025-01-05 00:36:38,774] [pool-1-thread-1] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2025-01-05 00:36:39,623] [pool-1-thread-6] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2025-01-05 00:36:39,746] [pool-1-thread-11] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2025-01-05 00:36:40,066] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-01-05 00:36:40,655] [pool-1-thread-2] Initializing /data/TAABA/TAABA.pattern: [testng] [2025-01-05 00:37:13,462] [pool-1-thread-8] Initializing /data/ome/C1.lsm: [testng] [2025-01-05 00:37:14,782] [pool-1-thread-11] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2025-01-05 00:37:15,295] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2025-01-05 00:37:16,592] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2025-01-05 00:37:17,265] [pool-1-thread-1] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-01-05 00:37:17,343] [pool-1-thread-7] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2025-01-05 00:37:17,983] [pool-1-thread-6] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-01-05 00:37:19,509] [pool-1-thread-8] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-01-05 00:37:21,597] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-01-05 00:37:21,703] [pool-1-thread-11] Initializing /data/ome/654Atemp.stk: [testng] [2025-01-05 00:37:26,929] [pool-1-thread-12] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-01-05 00:37:27,087] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-01-05 00:37:28,153] [pool-1-thread-9] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2025-01-05 00:37:28,789] [pool-1-thread-7] Initializing /data/ome/worm.tiff: [testng] [2025-01-05 00:37:30,024] [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: 4 minutes 23 seconds Finished: SUCCESS