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Started by upstream project "BIOFORMATS-test-repo" build number 34 originally caused by: Started by upstream project "Trigger" build number 38 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins13556392158232236813.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_4594_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] 01:26:04,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:26:04,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:26:04,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:26:04,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:26:04,497 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:26:04,497 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:26:04,498 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:26:04,498 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:26:04,499 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@5c30a9b0 - End of configuration. [testng] 01:26:04,500 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@7a69b07 - Registering current configuration as safe fallback point [testng] 01:26:04,501 |-INFO in ch.qos.logback.classic.util.ContextInitializer@5e82df6a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 462 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-15 01:26:04,526] [main] java.version = 1.8.0_342 [testng] 01:26:04,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:26:04,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:04,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-15_01-26-04.log] [testng] 01:26:04,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-15 01:26:04,626] [main] testng.directory = /data [testng] [2024-04-15 01:26:04,627] [main] testng.configDirectory = /config [testng] [2024-04-15 01:26:04,648] [main] testng.multiplier = 1.0 [testng] [2024-04-15 01:26:04,648] [main] testng.in-memory = false [testng] [2024-04-15 01:26:04,648] [main] testng.allow-missing = false [testng] [2024-04-15 01:26:04,649] [main] user.language = fr [testng] [2024-04-15 01:26:04,649] [main] user.country = FR [testng] [2024-04-15 01:26:04,649] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-15 01:26:28,138] [main] ---------------------------------------- [testng] [2024-04-15 01:26:28,138] [main] Total files: 164 [testng] [2024-04-15 01:26:28,138] [main] Scan time: 23.489 s (143 ms/file) [testng] [2024-04-15 01:26:28,138] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-15 01:26:38,954] [pool-1-thread-2] Initializing /data/ome/nfat10x3 good2_D12_w3.TIF: [testng] 01:26:38,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:26:38,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:38,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-15_01-26-38.log] [testng] 01:26:38,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@645630df - End of configuration. [testng] [2024-04-15 01:26:39,023] [pool-1-thread-11] Initializing /data/ome/t0_pos1-0_5x.lsm: [testng] 01:26:39,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:26:39,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-15_01-26-39.log] [testng] 01:26:39,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72912c4c - End of configuration. [testng] [2024-04-15 01:26:39,079] [pool-1-thread-12] Initializing /data/openjpeg/FacadeERROPJW.bmp: [testng] 01:26:39,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:26:39,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,080 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-15_01-26-39.log] [testng] 01:26:39,081 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63df2aef - End of configuration. [testng] [2024-04-15 01:26:39,090] [pool-1-thread-10] Initializing /data/ome/Adultmidsection.lsm: [testng] 01:26:39,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:26:39,090 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,091 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-15_01-26-39.log] [testng] 01:26:39,091 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ba50fe4 - End of configuration. [testng] [2024-04-15 01:26:39,130] [pool-1-thread-9] Initializing /data/ome/654Atemp.stk: [testng] 01:26:39,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:26:39,130 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-15_01-26-39.log] [testng] 01:26:39,131 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20d604cc - End of configuration. [testng] [2024-04-15 01:26:39,295] [pool-1-thread-8] Initializing /data/openjpeg/Cevennes1.bmp: [testng] 01:26:39,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:26:39,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-15_01-26-39.log] [testng] 01:26:39,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cf5c0b1 - End of configuration. [testng] [2024-04-15 01:26:39,307] [pool-1-thread-7] Initializing /data/ome/embryo.lsm: [testng] 01:26:39,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:26:39,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,308 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-15_01-26-39.log] [testng] 01:26:39,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e0ad73a - End of configuration. [testng] [2024-04-15 01:26:39,346] [pool-1-thread-6] Initializing /data/openjpeg/thumb_FacadeCOMP.jpg: [testng] 01:26:39,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:26:39,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,347 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-15_01-26-39.log] [testng] 01:26:39,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25e7363b - End of configuration. [testng] [2024-04-15 01:26:39,360] [pool-1-thread-3] Initializing /data/ome/worm.tiff: [testng] 01:26:39,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:26:39,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,361 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-15_01-26-39.log] [testng] 01:26:39,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79e800fb - End of configuration. [testng] [2024-04-15 01:26:39,455] [pool-1-thread-1] Initializing /data/ome/EXPERIMENT38_w1FITC_t1.STK: [testng] 01:26:39,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:26:39,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-15_01-26-39.log] [testng] 01:26:39,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ddce935 - End of configuration. [testng] [2024-04-15 01:26:39,493] [pool-1-thread-5] Initializing /data/ome/Cmidmusgfp1.lsm: [testng] 01:26:39,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:26:39,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-15_01-26-39.log] [testng] 01:26:39,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@739e75e5 - End of configuration. [testng] [2024-04-15 01:26:39,540] [pool-1-thread-4] Initializing /data/openjpeg/Cevennes1.ppm: [testng] 01:26:39,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:26:39,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:39,541 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-15_01-26-39.log] [testng] 01:26:39,542 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b89f - End of configuration. [testng] [2024-04-15 01:26:41,769] [pool-1-thread-6] Initializing /data/ome/C1.lsm: [testng] [2024-04-15 01:26:41,795] [pool-1-thread-1] Initializing /data/sdub/sdub.pattern: [testng] [2024-04-15 01:26:42,001] [pool-1-thread-5] Initializing /data/openjpeg/thumb_Bretagne2.jpg: [testng] [2024-04-15 01:26:42,011] [pool-1-thread-7] Initializing /data/ome/arwen0205_raw00201.pic: [testng] [2024-04-15 01:26:42,053] [pool-1-thread-10] Initializing /data/openjpeg/Rome.ppm: [testng] [2024-04-15 01:26:42,059] [pool-1-thread-2] Initializing /data/openjpeg/Facade.bmp: [testng] [2024-04-15 01:26:42,538] [pool-1-thread-11] Initializing /data/ome/anusgfpzs.lsm: [testng] [2024-04-15 01:26:42,585] [pool-1-thread-9] Initializing /data/ome/PA-SDS-RFP-CenB_w1GFP_t1.stk: [testng] [2024-04-15 01:26:42,689] [pool-1-thread-4] Initializing /data/ome/C1midmusnorm.lsm: [testng] [2024-04-15 01:26:42,880] [pool-1-thread-5] Initializing /data/openjpeg/Bretagne1.bmp: [testng] [2024-04-15 01:26:43,017] [pool-1-thread-10] Initializing /data/openjpeg/Cevennes2.jp2: [testng] [2024-04-15 01:26:43,810] [pool-1-thread-12] Initializing /data/openjpeg/Facade.pnm: [testng] [2024-04-15 01:26:43,823] [pool-1-thread-6] Initializing /data/openjpeg/Rome.bmp: [testng] [2024-04-15 01:26:43,955] [pool-1-thread-4] Initializing /data/ome/tiffany.color.tiff: [testng] [2024-04-15 01:26:44,167] [pool-1-thread-5] Initializing /data/ome/cb_1.r3d: [testng] [2024-04-15 01:26:44,385] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.j2k: [testng] [2024-04-15 01:26:44,419] [pool-1-thread-6] Initializing /data/openjpeg/Bretagne2.ppm: [testng] [2024-04-15 01:26:44,669] [pool-1-thread-11] Initializing /data/ome/nfat10x3 good2_D12_w1.TIF: [testng] [2024-04-15 01:26:44,950] [pool-1-thread-8] Initializing /data/ome/compressed2ChZ.lsm: [testng] [2024-04-15 01:26:45,052] [pool-1-thread-9] Initializing /data/ome/tinyTest.d3d.dv: [testng] [2024-04-15 01:26:45,204] [pool-1-thread-1] Initializing /data/openjpeg/Cevennes2.ppm: [testng] [2024-04-15 01:26:45,270] [pool-1-thread-9] Initializing /data/openjpeg/thumb_facade.jpg: [testng] [2024-04-15 01:26:45,460] [pool-1-thread-10] Initializing /data/openjpeg/Bretagne2.bmp: [testng] [2024-04-15 01:26:45,828] [pool-1-thread-5] Initializing /data/mouse-kidney/mouse-kidney.lif: [testng] [2024-04-15 01:26:45,887] [pool-1-thread-1] Initializing /data/ome/210502-0min-NFKB-4.r3d: [testng] [2024-04-15 01:26:45,910] [pool-1-thread-4] Initializing /data/ome/011B1_Morph.HTD: [testng] [2024-04-15 01:26:46,566] [pool-1-thread-9] Initializing /data/openjpeg/Cevennes1.j2k: [testng] [2024-04-15 01:26:46,627] [pool-1-thread-7] Initializing /data/ome/CHOBI_d3d.dv: [testng] [2024-04-15 01:26:46,726] [pool-1-thread-2] Initializing /data/openjpeg/Rome.jp2: [testng] [2024-04-15 01:26:46,787] [pool-1-thread-11] Initializing /data/openjpeg/Cevennes2.bmp: [testng] [2024-04-15 01:26:46,815] [pool-1-thread-12] Initializing /data/ome/C1lowmusgfp.lsm: [testng] [2024-04-15 01:26:47,030] [pool-1-thread-8] Initializing /data/kidney_TFl/kidney_TFl.pattern: [testng] [2024-04-15 01:26:47,115] [pool-1-thread-3] Initializing /data/openjpeg/thumb_Cevennes2.jpg: [testng] [2024-04-15 01:26:47,165] [pool-1-thread-7] Initializing /data/openjpeg/thumb_Cevennes1.jpg: [testng] [2024-04-15 01:26:47,288] [pool-1-thread-12] Initializing /data/ome/nfat10x3 good2_D12_w2.TIF: [testng] [2024-04-15 01:26:47,375] [pool-1-thread-3] Initializing /data/openjpeg/Bretagne1.ppm: [testng] [2024-04-15 01:26:47,382] [pool-1-thread-6] Initializing /data/ome/n2_plate18_P24_w1.tif: [testng] [2024-04-15 01:26:47,494] [pool-1-thread-11] Initializing /data/TAABA/TAABA.pattern: [testng] [2024-04-15 01:26:48,807] [pool-1-thread-5] Initializing /data/ome/t1_pos1-0_5x.lsm: [testng] [2024-04-15 01:26:48,847] [pool-1-thread-7] Initializing /data/openjpeg/Bretagne2.j2k: [testng] [2024-04-15 01:26:48,917] [pool-1-thread-1] Initializing /data/openjpeg/thumb_Rome.jpg: [testng] [2024-04-15 01:26:49,048] [pool-1-thread-1] Initializing /data/ome/Cpharynxzs1.lsm: [testng] [2024-04-15 01:26:49,114] [pool-1-thread-3] Initializing /data/openjpeg/FacadeERROPJ.bmp: [testng] [2024-04-15 01:26:49,240] [pool-1-thread-8] Initializing /data/openjpeg/thumb_Bretagne1.jpg: [testng] [2024-04-15 01:26:49,274] [pool-1-thread-6] Initializing /data/10-31 E1/10-31 E1.tif: [testng] [2024-04-15 01:26:49,619] [pool-1-thread-12] Initializing /data/ome/PA-tub-wtmcakthurs-5_w1GFP_t1.STK: [testng] [2024-04-15 01:26:49,844] [pool-1-thread-8] 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: 2 minutes 35 seconds Finished: SUCCESS