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Started by upstream project "BIOFORMATS-test-repo" build number 314 originally caused by: Started by upstream project "Trigger" build number 336 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/jenkins11350675391277548302.sh + '[' samples = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_49738_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] 01:33:14,144 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:33:14,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 01:33:14,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:33:14,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:33:14,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:33:14,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:33:14,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:33:14,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:33:14,148 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:33:14,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:33:14,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:33:14,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:33:14,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:33:14,364 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:33:14,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:33:14,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:33:14,401 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:33:14,401 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:33:14,402 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:33:14,402 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:33:14,402 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 01:33:14,403 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 01:33:14,403 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 255 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-10 01:33:14,414] [main] java.version = 1.8.0_342 [testng] 01:33:14,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:33:14,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:33:14,465 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-10_01-33-14.log] [testng] 01:33:14,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2025-01-10 01:33:14,469] [main] testng.directory = /data [testng] [2025-01-10 01:33:14,469] [main] testng.configDirectory = /config [testng] [2025-01-10 01:33:14,482] [main] testng.multiplier = 1.0 [testng] [2025-01-10 01:33:14,482] [main] testng.in-memory = false [testng] [2025-01-10 01:33:14,482] [main] testng.allow-missing = false [testng] [2025-01-10 01:33:14,482] [main] user.language = en [testng] [2025-01-10 01:33:14,482] [main] user.country = ${user.country} [testng] [2025-01-10 01:33:14,482] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-01-10 01:33:45,900] [main] ---------------------------------------- [testng] [2025-01-10 01:33:45,900] [main] Total files: 164 [testng] [2025-01-10 01:33:45,900] [main] Scan time: 31.417 s (191 ms/file) [testng] [2025-01-10 01:33:45,900] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-10 01:34:32,131] [pool-1-thread-1] Initializing /data/TAABA/TAABA.pattern: [testng] 01:34:32,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:34:32,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:32,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-10_01-34-32.log] [testng] 01:34:32,133 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63fc09c1 - End of configuration. [testng] [2025-01-10 01:34:44,090] [pool-1-thread-12] Initializing /data/ome/worm.tiff: [testng] 01:34:44,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:34:44,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:44,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-10_01-34-44.log] [testng] 01:34:44,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52c085b1 - End of configuration. [testng] [2025-01-10 01:34:44,471] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne1.ppm: [testng] 01:34:44,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:34:44,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:44,472 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-10_01-34-44.log] [testng] 01:34:44,473 |-INFO in ch.qos.logback.core.sift.SiftProcessor@214b25ab - End of configuration. [testng] [2025-01-10 01:34:44,504] [pool-1-thread-10] Initializing /data/ome/Cpharynxzs1.lsm: [testng] 01:34:44,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:34:44,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:44,505 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-10_01-34-44.log] [testng] 01:34:44,506 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56195d8c - End of configuration. [testng] [2025-01-10 01:34:45,013] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] 01:34:45,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:34:45,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:45,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-10_01-34-45.log] [testng] 01:34:45,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@223fad19 - End of configuration. [testng] [2025-01-10 01:34:46,186] [pool-1-thread-8] Initializing /data/ome/C1.lsm: [testng] 01:34:46,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:34:46,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:46,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-10_01-34-46.log] [testng] 01:34:46,187 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22c10d98 - End of configuration. [testng] [2025-01-10 01:34:46,484] [pool-1-thread-7] Initializing /data/openjpeg/Cevennes2.jp2: [testng] 01:34:46,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:34:46,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:46,484 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-10_01-34-46.log] [testng] 01:34:46,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3edad09 - End of configuration. [testng] [2025-01-10 01:34:46,995] [pool-1-thread-6] Initializing /data/openjpeg/thumb_facade.jpg: [testng] 01:34:46,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:34:46,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:46,996 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-10_01-34-46.log] [testng] 01:34:46,996 |-INFO in ch.qos.logback.core.sift.SiftProcessor@122c6b61 - End of configuration. [testng] [2025-01-10 01:34:47,174] [pool-1-thread-5] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] 01:34:47,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:34:47,174 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:47,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-10_01-34-47.log] [testng] 01:34:47,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a45989e - End of configuration. [testng] [2025-01-10 01:34:47,591] [pool-1-thread-4] Initializing /data/ome/anusgfpzs.lsm: [testng] 01:34:47,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:34:47,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:47,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-10_01-34-47.log] [testng] 01:34:47,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22e730c9 - End of configuration. [testng] [2025-01-10 01:34:47,891] [pool-1-thread-3] Initializing /data/openjpeg/Rome.jp2: [testng] 01:34:47,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:34:47,892 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:47,892 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-10_01-34-47.log] [testng] 01:34:47,893 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6031b94b - End of configuration. [testng] [2025-01-10 01:34:48,095] [pool-1-thread-2] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 01:34:48,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:34:48,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:34:48,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-10_01-34-48.log] [testng] 01:34:48,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fd811db - End of configuration. [testng] [2025-01-10 01:34:50,114] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2025-01-10 01:34:50,777] [pool-1-thread-6] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2025-01-10 01:34:52,867] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2025-01-10 01:34:53,193] [pool-1-thread-11] Initializing /data/sdub/sdub.pattern: [testng] [2025-01-10 01:34:57,389] [pool-1-thread-8] Initializing /data/ome/011B1_Morph.HTD: [testng] [2025-01-10 01:34:58,110] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2025-01-10 01:34:58,161] [pool-1-thread-10] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2025-01-10 01:34:58,211] [pool-1-thread-5] Initializing /data/openjpeg/Rome.ppm: [testng] [2025-01-10 01:34:58,255] [pool-1-thread-7] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2025-01-10 01:34:59,196] [pool-1-thread-9] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2025-01-10 01:34:59,788] [pool-1-thread-3] Initializing /data/ome/tiffany.color.tiff: [testng] [2025-01-10 01:35:01,500] [pool-1-thread-6] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2025-01-10 01:35:01,684] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2025-01-10 01:35:01,983] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2025-01-10 01:35:03,463] [pool-1-thread-10] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2025-01-10 01:35:03,888] [pool-1-thread-5] Initializing /data/ome/654Atemp.stk: [testng] [2025-01-10 01:35:04,993] [pool-1-thread-12] Initializing /data/ome/cb_1.r3d: [testng] [2025-01-10 01:35:07,671] [pool-1-thread-6] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2025-01-10 01:35:08,143] [pool-1-thread-12] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2025-01-10 01:35:08,575] [pool-1-thread-4] Initializing /data/ome/Adultmidsection.lsm: [testng] [2025-01-10 01:35:09,102] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2025-01-10 01:35:11,110] [pool-1-thread-10] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2025-01-10 01:35:12,065] [pool-1-thread-7] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] [2025-01-10 01:35:12,129] [pool-1-thread-12] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2025-01-10 01:35:12,306] [pool-1-thread-3] Initializing /data/openjpeg/Facade.pnm: [testng] [2025-01-10 01:35:12,604] [pool-1-thread-4] Initializing /data/ome/embryo.lsm: [testng] [2025-01-10 01:35:14,051] [pool-1-thread-6] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2025-01-10 01:35:14,822] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2025-01-10 01:35:15,071] [pool-1-thread-12] Initializing /data/openjpeg/Rome.bmp: [testng] [2025-01-10 01:35:15,510] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2025-01-10 01:35:15,913] [pool-1-thread-3] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2025-01-10 01:35:18,246] [pool-1-thread-12] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2025-01-10 01:35:18,573] [pool-1-thread-5] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2025-01-10 01:35:18,980] [pool-1-thread-9] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2025-01-10 01:35:19,116] [pool-1-thread-4] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2025-01-10 01:35:19,811] [pool-1-thread-2] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2025-01-10 01:35:20,591] [pool-1-thread-12] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2025-01-10 01:35:21,613] [pool-1-thread-6] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2025-01-10 01:35:21,737] [pool-1-thread-9] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2025-01-10 01:35:22,247] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2025-01-10 01:35:22,480] [pool-1-thread-4] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2025-01-10 01:35:23,175] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2025-01-10 01:35:25,086] [pool-1-thread-5] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2025-01-10 01:35:25,893] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2025-01-10 01:35:26,159] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [2025-01-10 01:35:26,493] [pool-1-thread-3] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2025-01-10 01:35:26,793] [pool-1-thread-12] Initializing /data/openjpeg/Facade.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