![[Jenkins]](/jenkins/static/9bac06d9/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 367 originally caused by: Started by upstream project "Trigger" build number 393 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins2510889399165086890.sh + '[' leica = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58456_merge_ci -v /uod/idr/repos/curated/leica:/data -v /uod/idr-scratch/merge-ci/curated/leica:/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] 00:23:48,810 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:23:48,812 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 00:23:48,812 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:48,813 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:48,813 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:23:48,813 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:23:48,813 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:23:48,813 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:48,814 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:48,814 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:23:48,814 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:23:48,814 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:23:49,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:23:49,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:23:49,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:23:49,058 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:23:49,066 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:23:49,066 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:23:49,066 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:23:49,066 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:23:49,067 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 00:23:49,067 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 00:23:49,067 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 253 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-07 00:23:49,077] [main] java.version = 1.8.0_342 [testng] 00:23:49,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:23:49,080 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:49,124 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-07_00-23-49.log] [testng] 00:23:49,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-07 00:23:49,128] [main] testng.directory = /data [testng] [2025-03-07 00:23:49,128] [main] testng.configDirectory = /config [testng] [2025-03-07 00:23:49,140] [main] testng.multiplier = 1.0 [testng] [2025-03-07 00:23:49,140] [main] testng.in-memory = false [testng] [2025-03-07 00:23:49,140] [main] testng.allow-missing = false [testng] [2025-03-07 00:23:49,140] [main] user.language = en [testng] [2025-03-07 00:23:49,140] [main] user.country = ${user.country} [testng] [2025-03-07 00:23:49,140] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-07 00:24:11,039] [main] ---------------------------------------- [testng] [2025-03-07 00:24:11,039] [main] Total files: 5651 [testng] [2025-03-07 00:24:11,039] [main] Scan time: 21.899 s (3 ms/file) [testng] [2025-03-07 00:24:11,040] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 44 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-07 00:25:05,775] [pool-1-thread-1] Initializing /data/julie/c164_1.tif: [testng] 00:25:05,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:25:05,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:05,776 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-07_00-25-05.log] [testng] 00:25:05,777 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bbfb405 - End of configuration. [testng] [2025-03-07 00:25:06,699] [pool-1-thread-12] Initializing /data/vytas/4voxels/4voxels.lei: [testng] 00:25:06,699 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:25:06,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:06,700 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-07_00-25-06.log] [testng] 00:25:06,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e71189d - End of configuration. [testng] [2025-03-07 00:25:07,196] [pool-1-thread-11] Initializing /data/simon/Leica demo/fish/fish.lei: [testng] 00:25:07,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:25:07,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:07,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-07_00-25-07.log] [testng] 00:25:07,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66613516 - End of configuration. [testng] [2025-03-07 00:25:08,191] [pool-1-thread-10] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/Exemple.tif: [testng] 00:25:08,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:25:08,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:08,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-07_00-25-08.log] [testng] 00:25:08,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@491ed874 - End of configuration. [testng] [2025-03-07 00:25:09,382] [pool-1-thread-9] Initializing /data/oliver/o459/o459.lei: [testng] 00:25:09,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:25:09,383 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:09,383 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-07_00-25-09.log] [testng] 00:25:09,384 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d9d5ce9 - End of configuration. [testng] [2025-03-07 00:25:10,093] [pool-1-thread-8] Initializing /data/clay/leica_stack-exported/leica_stack-exported.lei: [testng] 00:25:10,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:25:10,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:10,094 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-07_00-25-10.log] [testng] 00:25:10,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dd8cde3 - End of configuration. [testng] [2025-03-07 00:25:10,577] [pool-1-thread-7] Initializing /data/brian/050627-leica/050628-leica.lei: [testng] 00:25:10,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:25:10,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:10,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-07_00-25-10.log] [testng] 00:25:10,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20e35fa - End of configuration. [testng] [2025-03-07 00:25:12,941] [pool-1-thread-6] Initializing /data/samples/Leica_sample.lei: [testng] 00:25:12,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:25:12,941 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:12,942 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-07_00-25-12.log] [testng] 00:25:12,943 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a0954a4 - End of configuration. [testng] [2025-03-07 00:25:13,262] [pool-1-thread-5] Initializing /data/julie/biorad/8291mcd8_raw01.pic: [testng] 00:25:13,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:25:13,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-07_00-25-13.log] [testng] 00:25:13,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5239e225 - End of configuration. [testng] [2025-03-07 00:25:13,568] [pool-1-thread-4] Initializing /data/constantin/cell6/cell6/Quant_Image_00.jpg: [testng] 00:25:13,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:25:13,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,569 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-07_00-25-13.log] [testng] 00:25:13,570 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14055d4b - End of configuration. [testng] [2025-03-07 00:25:13,634] [pool-1-thread-3] Initializing /data/david/intestine/intestine.lei: [testng] 00:25:13,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:25:13,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:13,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-07_00-25-13.log] [testng] 00:25:13,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c375f68 - End of configuration. [testng] [2025-03-07 00:25:14,103] [pool-1-thread-2] Initializing /data/christophe/Leica stacks/Nf5.lei: [testng] 00:25:14,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:25:14,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:14,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-07_00-25-14.log] [testng] 00:25:14,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@781dfba5 - End of configuration. [testng] [2025-03-07 00:25:19,420] [pool-1-thread-4] Initializing /data/constantin/cell6/Quant_Image_01.jpg: [testng] [2025-03-07 00:25:22,840] [pool-1-thread-4] Initializing /data/julie/biorad/25-65.tif: [testng] [2025-03-07 00:25:25,475] [pool-1-thread-10] Initializing /data/simon/Leica demo/test/test.lei: [testng] [2025-03-07 00:25:29,680] [pool-1-thread-1] Initializing /data/clay/leica_stack.tif: [testng] [2025-03-07 00:25:34,133] [pool-1-thread-6] Initializing /data/matija/PapilioScale40x/PapilioScale40x.lei: [testng] [2025-03-07 00:25:36,183] [pool-1-thread-5] Initializing /data/constantin/cell6/Quant_Image_00.jpg: [testng] [2025-03-07 00:25:40,557] [pool-1-thread-4] Initializing /data/constantin/cell6/cell6/Quant_Image_02.jpg: [testng] [2025-03-07 00:25:40,834] [pool-1-thread-1] Initializing /data/martin/100422_02-rg-100x_CF1/100422_02-rg-100x_CF1.lei: [testng] [2025-03-07 00:25:45,848] [pool-1-thread-5] Initializing /data/brian/tropo/tropo.lei: [testng] [2025-03-07 00:25:47,283] [pool-1-thread-8] Initializing /data/joel/sequential scan 2/sequential scan 2.lei: [testng] [2025-03-07 00:25:48,536] [pool-1-thread-4] Initializing /data/simon/Leica demo/RNA FISH/RNA FISH.lei: [testng] [2025-03-07 00:26:16,216] [pool-1-thread-5] Initializing /data/clay/leica_stack.lei: [testng] [2025-03-07 00:26:43,324] [pool-1-thread-5] Initializing /data/martin/samples-SP2/samples-SP2.lei: [testng] [2025-03-07 00:29:30,863] [pool-1-thread-2] Initializing /data/david/megan/megan.lei: [testng] [2025-03-07 00:31:01,050] [pool-1-thread-4] Initializing /data/brian/leica-original/050118.lei: [testng] [2025-03-07 00:31:39,391] [pool-1-thread-6] Initializing /data/joel/sequential scan 3/sequential scan 3.lei: [testng] [2025-03-07 00:35:50,954] [pool-1-thread-3] Initializing /data/constantin/cell6/cell6.lei: [testng] [2025-03-07 00:36:39,582] [pool-1-thread-8] Initializing /data/constantin/cell6/cell6/Logo.jpg: [testng] [2025-03-07 00:36:43,495] [pool-1-thread-8] Initializing /data/constantin/cell6/Graphs_1_00.jpg: [testng] [2025-03-07 00:36:49,871] [pool-1-thread-8] Initializing /data/andrey/10310500/10310500.lei: [testng] [2025-03-07 00:37:41,027] [pool-1-thread-5] Initializing /data/grant/Leica SP2 (25-11-10).lei: [testng] [2025-03-07 00:39:27,488] [pool-1-thread-10] Initializing /data/mark/071026-561nm check/071026-561nm check.lei: [testng] [2025-03-07 00:41:46,637] [pool-1-thread-2] Initializing /data/simon/Leica demo/CFP-DsRed YFP neg/CFP-DsRed YFP neg.lei: [testng] [2025-03-07 00:42:29,730] [pool-1-thread-6] Initializing /data/stjude/NIHSSE02-3.lei: [testng] [2025-03-07 00:43:59,707] [pool-1-thread-11] Initializing /data/christophe/LEI_Saturated_Bug/Saturated_Problem.tif: [testng] [2025-03-07 00:44:13,185] [pool-1-thread-11] Initializing /data/constantin/cell6/cell6/Quant_Image_01.jpg: [testng] [2025-03-07 00:44:18,737] [pool-1-thread-11] Initializing /data/simon/Leica demo/GFP-YFPcaax/GFP-YFPcaax.lei: [testng] [2025-03-07 00:44:38,401] [pool-1-thread-6] Initializing /data/berra/eggcmgfp230909/eggcmgfp230909.lei: [testng] [2025-03-07 00:44:52,659] [pool-1-thread-7] Initializing /data/constantin/cell6/Logo.jpg: [testng] [2025-03-07 00:44:56,433] [pool-1-thread-7] Initializing /data/constantin/cell6/Quant_Image_02.jpg: [testng] [2025-03-07 00:45:00,433] [pool-1-thread-7] Initializing /data/michael/2007-01-31_zres_sp2.lei: [testng] [2025-03-07 00:45:31,744] [pool-1-thread-7] Initializing /data/christophe/LEI_Saturated_Bug/070123_HippoQ2Q3/070123_HippoQ2Q3.lei: [testng] 02:16:58,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:16:58,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:16:58,230 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-07_02-16-58.log] [testng] 02:16:58,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50b624da - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2332, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 113 minutes 14 seconds Finished: SUCCESS