![[Jenkins]](/jenkins/static/8dc2a4ee/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 241 originally caused by: Started by upstream project "Trigger" build number 266 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/jenkins6968878737296940467.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37870_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 test-automated: [testng] File leak detector installed [testng] 00:34:10,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:34:10,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:34:10,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:10,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:34:10,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:34:10,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:34:10,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:34:10,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:10,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:34:10,902 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:34:10,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:34:10,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:34:11,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:34:11,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:34:11,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:34:11,194 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:34:11,203 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:34:11,203 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:34:11,203 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:34:11,204 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:34:11,204 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:34:11,205 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:34:11,205 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 303 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-01 00:34:11,215] [main] java.version = 1.8.0_342 [testng] 00:34:11,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:34:11,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:34:11,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-01_00-34-11.log] [testng] 00:34:11,268 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-01 00:34:11,270] [main] testng.directory = /data [testng] [2024-11-01 00:34:11,270] [main] testng.configDirectory = /config [testng] [2024-11-01 00:34:11,282] [main] testng.multiplier = 1.0 [testng] [2024-11-01 00:34:11,283] [main] testng.in-memory = false [testng] [2024-11-01 00:34:11,283] [main] testng.allow-missing = false [testng] [2024-11-01 00:34:11,283] [main] user.language = en [testng] [2024-11-01 00:34:11,283] [main] user.country = ${user.country} [testng] [2024-11-01 00:34:11,283] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-01 00:34:46,926] [main] ---------------------------------------- [testng] [2024-11-01 00:34:47,014] [main] Total files: 164 [testng] [2024-11-01 00:34:47,015] [main] Scan time: 35.643 s (217 ms/file) [testng] [2024-11-01 00:34:47,015] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-01 00:35:52,835] [pool-1-thread-1] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 00:35:52,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:35:52,837 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:52,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-01_00-35-52.log] [testng] 00:35:52,841 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4bfb2b0c - End of configuration. [testng] [2024-11-01 00:35:54,031] [pool-1-thread-12] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 00:35:54,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:35:54,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:54,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-01_00-35-54.log] [testng] 00:35:54,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6be0a617 - End of configuration. [testng] [2024-11-01 00:35:54,173] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] 00:35:54,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:35:54,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:54,174 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-01_00-35-54.log] [testng] 00:35:54,174 |-INFO in ch.qos.logback.core.sift.SiftProcessor@127d9477 - End of configuration. [testng] [2024-11-01 00:35:54,915] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] 00:35:54,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:35:54,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:54,916 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-01_00-35-54.log] [testng] 00:35:54,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29c17683 - End of configuration. [testng] [2024-11-01 00:35:55,602] [pool-1-thread-9] Initializing /data/ome/654Atemp.stk: [testng] 00:35:55,602 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:35:55,603 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:55,603 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-01_00-35-55.log] [testng] 00:35:55,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c5ea143 - End of configuration. [testng] [2024-11-01 00:35:57,826] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 00:35:57,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:35:57,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:57,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-01_00-35-57.log] [testng] 00:35:57,827 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c46f658 - End of configuration. [testng] [2024-11-01 00:35:57,949] [pool-1-thread-7] Initializing /data/ome/embryo.lsm: [testng] 00:35:57,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:35:57,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:57,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-01_00-35-57.log] [testng] 00:35:57,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@588cc7d2 - End of configuration. [testng] [2024-11-01 00:35:58,680] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] 00:35:58,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:35:58,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:58,681 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-01_00-35-58.log] [testng] 00:35:58,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44deeb35 - End of configuration. [testng] [2024-11-01 00:35:58,850] [pool-1-thread-5] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 00:35:58,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:35:58,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:58,851 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-01_00-35-58.log] [testng] 00:35:58,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51b5eb98 - End of configuration. [testng] [2024-11-01 00:35:59,410] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 00:35:59,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:35:59,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:59,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-01_00-35-59.log] [testng] 00:35:59,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5790e2a5 - End of configuration. [testng] [2024-11-01 00:35:59,478] [pool-1-thread-3] Initializing /data/ome/worm.tiff: [testng] 00:35:59,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:35:59,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:35:59,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-01_00-35-59.log] [testng] 00:35:59,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7569b8db - End of configuration. [testng] [2024-11-01 00:36:00,606] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 00:36:00,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:36:00,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:00,607 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-01_00-36-00.log] [testng] 00:36:00,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ca400f8 - End of configuration. [testng] [2024-11-01 00:36:04,771] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] [2024-11-01 00:36:05,238] [pool-1-thread-4] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-11-01 00:36:05,314] [pool-1-thread-12] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-11-01 00:36:05,563] [pool-1-thread-8] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-11-01 00:36:06,345] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-11-01 00:36:06,476] [pool-1-thread-10] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-11-01 00:36:07,071] [pool-1-thread-7] Initializing /data/sdub/sdub.pattern: [testng] [2024-11-01 00:36:12,995] [pool-1-thread-11] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-11-01 00:36:13,896] [pool-1-thread-2] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-11-01 00:36:15,010] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-11-01 00:36:15,532] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-11-01 00:36:16,575] [pool-1-thread-5] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-11-01 00:36:16,710] [pool-1-thread-1] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-11-01 00:36:16,865] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-11-01 00:36:17,927] [pool-1-thread-9] Initializing /data/ome/cb_1.r3d: [testng] [2024-11-01 00:36:18,262] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2024-11-01 00:36:18,921] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-11-01 00:36:19,000] [pool-1-thread-11] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-11-01 00:36:19,919] [pool-1-thread-12] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-11-01 00:36:20,911] [pool-1-thread-1] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-11-01 00:36:21,974] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-11-01 00:36:22,107] [pool-1-thread-9] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-11-01 00:36:22,915] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-11-01 00:36:23,045] [pool-1-thread-1] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-11-01 00:36:23,280] [pool-1-thread-2] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-11-01 00:36:23,411] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-11-01 00:36:24,315] [pool-1-thread-5] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-11-01 00:36:25,642] [pool-1-thread-9] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-11-01 00:36:25,887] [pool-1-thread-6] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-11-01 00:36:26,300] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-11-01 00:36:26,399] [pool-1-thread-12] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-11-01 00:36:26,961] [pool-1-thread-11] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-11-01 00:36:28,052] [pool-1-thread-2] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-11-01 00:36:28,373] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-11-01 00:36:28,577] [pool-1-thread-4] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-11-01 00:36:29,577] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-11-01 00:36:29,798] [pool-1-thread-9] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-11-01 00:36:31,066] [pool-1-thread-3] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-11-01 00:36:46,265] [pool-1-thread-2] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-11-01 00:36:47,084] [pool-1-thread-1] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-11-01 00:36:47,708] [pool-1-thread-12] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-11-01 00:36:47,847] [pool-1-thread-8] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-11-01 00:36:50,026] [pool-1-thread-6] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-11-01 00:36:50,318] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-11-01 00:36:50,685] [pool-1-thread-12] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-11-01 00:36:52,006] [pool-1-thread-8] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-11-01 00:36:52,702] [pool-1-thread-9] Initializing /data/openjpeg/thumb_Speedway.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 2 seconds Finished: SUCCESS