Started by upstream project "BIOFORMATS-test-repo" build number 205 originally caused by: Started by upstream project "Trigger" build number 231 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins16386531014966552683.sh + '[' samples = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_32482_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 -Duser.language=fr -Duser.country=FR 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] 01:31:16,525 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:31:16,527 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:31:16,527 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:31:16,529 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:31:16,529 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:31:16,529 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:31:16,529 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:31:16,529 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:31:16,530 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:31:16,530 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:31:16,530 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:31:16,530 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:31:16,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:31:16,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:31:16,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:31:16,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:31:16,838 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:31:16,839 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:31:16,839 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:31:16,839 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:31:16,839 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:31:16,840 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:31:16,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 310 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-30 01:31:16,851] [main] java.version = 1.8.0_342 [testng] 01:31:16,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:31:16,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:31:16,903 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-30_01-31-16.log] [testng] 01:31:16,904 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-30 01:31:16,907] [main] testng.directory = /data [testng] [2024-09-30 01:31:16,907] [main] testng.configDirectory = /config [testng] [2024-09-30 01:31:16,920] [main] testng.multiplier = 1.0 [testng] [2024-09-30 01:31:16,920] [main] testng.in-memory = false [testng] [2024-09-30 01:31:16,920] [main] testng.allow-missing = false [testng] [2024-09-30 01:31:16,920] [main] user.language = fr [testng] [2024-09-30 01:31:16,920] [main] user.country = FR [testng] [2024-09-30 01:31:16,921] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-30 01:31:47,078] [main] ---------------------------------------- [testng] [2024-09-30 01:31:47,078] [main] Total files: 164 [testng] [2024-09-30 01:31:47,078] [main] Scan time: 30.157 s (183 ms/file) [testng] [2024-09-30 01:31:47,078] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-30 01:32:06,914] [pool-1-thread-1] Initializing /data/ome/654Atemp.stk: [testng] 01:32:06,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:32:06,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:06,916 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-30_01-32-06.log] [testng] 01:32:06,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ee99e2a - End of configuration. [testng] [2024-09-30 01:32:07,203] [pool-1-thread-12] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] 01:32:07,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:32:07,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-30_01-32-07.log] [testng] 01:32:07,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f16d2f6 - End of configuration. [testng] [2024-09-30 01:32:07,326] [pool-1-thread-11] Initializing /data/ome/Adultmidsection.lsm: [testng] 01:32:07,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:32:07,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,327 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-30_01-32-07.log] [testng] 01:32:07,327 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cadbc86 - End of configuration. [testng] [2024-09-30 01:32:07,432] [pool-1-thread-10] Initializing /data/ome/arwen0205_raw00201.pic: [testng] 01:32:07,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:32:07,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,433 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-30_01-32-07.log] [testng] 01:32:07,433 |-INFO in ch.qos.logback.core.sift.SiftProcessor@257fc65b - End of configuration. [testng] [2024-09-30 01:32:07,522] [pool-1-thread-9] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] 01:32:07,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:32:07,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,523 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-30_01-32-07.log] [testng] 01:32:07,524 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fe28b54 - End of configuration. [testng] [2024-09-30 01:32:07,758] [pool-1-thread-8] Initializing /data/openjpeg/Bretagne2.j2k: [testng] 01:32:07,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:32:07,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-30_01-32-07.log] [testng] 01:32:07,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@699ed949 - End of configuration. [testng] [2024-09-30 01:32:07,860] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] 01:32:07,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:32:07,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,861 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-30_01-32-07.log] [testng] 01:32:07,862 |-INFO in ch.qos.logback.core.sift.SiftProcessor@284792a4 - End of configuration. [testng] [2024-09-30 01:32:07,898] [pool-1-thread-6] Initializing /data/ome/compressed2ChZ.lsm: [testng] 01:32:07,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:32:07,898 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:07,899 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-30_01-32-07.log] [testng] 01:32:07,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5757863 - End of configuration. [testng] [2024-09-30 01:32:08,026] [pool-1-thread-5] Initializing /data/ome/CHOBI_d3d.dv: [testng] 01:32:08,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:32:08,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:08,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-30_01-32-08.log] [testng] 01:32:08,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a6141c - End of configuration. [testng] [2024-09-30 01:32:08,087] [pool-1-thread-4] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] 01:32:08,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:32:08,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:08,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-30_01-32-08.log] [testng] 01:32:08,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c545d24 - End of configuration. [testng] [2024-09-30 01:32:08,123] [pool-1-thread-3] Initializing /data/openjpeg/thumb_facade.jpg: [testng] 01:32:08,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:32:08,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:08,124 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-30_01-32-08.log] [testng] 01:32:08,124 |-INFO in ch.qos.logback.core.sift.SiftProcessor@673aa7f2 - End of configuration. [testng] [2024-09-30 01:32:08,156] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes2.ppm: [testng] 01:32:08,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:32:08,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:32:08,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-30_01-32-08.log] [testng] 01:32:08,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77bd3c3e - End of configuration. [testng] [2024-09-30 01:32:10,977] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-09-30 01:32:11,384] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-09-30 01:32:11,421] [pool-1-thread-7] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-09-30 01:32:11,446] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm: [testng] [2024-09-30 01:32:11,473] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2024-09-30 01:32:11,655] [pool-1-thread-11] Initializing /data/ome/worm.tiff: [testng] [2024-09-30 01:32:12,047] [pool-1-thread-6] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-09-30 01:32:12,277] [pool-1-thread-12] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] [2024-09-30 01:32:12,872] [pool-1-thread-7] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-09-30 01:32:13,379] [pool-1-thread-3] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-09-30 01:32:13,797] [pool-1-thread-9] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] [2024-09-30 01:32:14,145] [pool-1-thread-4] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-09-30 01:32:14,785] [pool-1-thread-1] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-09-30 01:32:15,118] [pool-1-thread-6] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-09-30 01:32:15,589] [pool-1-thread-2] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-09-30 01:32:15,801] [pool-1-thread-5] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-09-30 01:32:15,966] [pool-1-thread-12] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-09-30 01:32:16,633] [pool-1-thread-3] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-09-30 01:32:22,788] [pool-1-thread-7] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-09-30 01:32:23,353] [pool-1-thread-10] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-09-30 01:32:23,648] [pool-1-thread-9] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-09-30 01:32:23,826] [pool-1-thread-11] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-09-30 01:32:24,136] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-09-30 01:32:24,419] [pool-1-thread-2] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-09-30 01:32:24,811] [pool-1-thread-4] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-09-30 01:32:25,680] [pool-1-thread-5] Initializing /data/sdub/sdub.pattern: [testng] [2024-09-30 01:32:27,084] [pool-1-thread-1] Initializing /data/ome/cb_1.r3d: [testng] [2024-09-30 01:32:27,274] [pool-1-thread-10] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-09-30 01:32:27,632] [pool-1-thread-6] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-09-30 01:32:27,831] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Speedway.jpg: [testng] [2024-09-30 01:32:27,915] [pool-1-thread-11] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-09-30 01:32:28,116] [pool-1-thread-1] Initializing /data/ome/embryo.lsm: [testng] [2024-09-30 01:32:28,732] [pool-1-thread-10] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-09-30 01:32:29,227] [pool-1-thread-11] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-09-30 01:32:29,341] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-09-30 01:32:29,398] [pool-1-thread-7] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-09-30 01:32:29,754] [pool-1-thread-10] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] [2024-09-30 01:32:29,810] [pool-1-thread-9] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] [2024-09-30 01:32:30,049] [pool-1-thread-4] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-09-30 01:32:30,268] [pool-1-thread-1] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-09-30 01:32:30,383] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] [2024-09-30 01:32:30,716] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-09-30 01:32:31,348] [pool-1-thread-9] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-09-30 01:32:31,660] [pool-1-thread-4] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-09-30 01:32:31,865] [pool-1-thread-7] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] [2024-09-30 01:32:32,038] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-09-30 01:32:32,114] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes1.bmp: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 3127, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 45 seconds Finished: SUCCESS