![[Jenkins]](/jenkins/static/695419c3/images/svgs/logo.svg){kind=logo}
Started by upstream project "BIOFORMATS-test-repo" build number 202 originally caused by: Started by upstream project "Trigger" build number 228 originally caused by: Started by user devspace 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/jenkins14662623267202230808.sh + '[' flex = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32017_merge_ci -v /uod/idr/repos/curated/flex:/data -v /uod/idr-scratch/merge-ci/curated/flex:/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] 05:49:48,819 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:49:48,821 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 05:49:48,821 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:49:48,823 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:49:48,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:49:48,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:49:48,823 |-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] 05:49:48,823 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:49:48,824 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:49:48,825 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:49:48,825 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:49:48,825 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:49:49,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:49:49,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:49:49,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:49:49,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:49:49,113 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:49:49,113 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:49:49,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:49:49,114 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:49:49,114 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 05:49:49,115 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 05:49:49,115 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 291 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-27 05:49:49,125] [main] java.version = 1.8.0_342 [testng] 05:49:49,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:49:49,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:49,183 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-27_05-49-49.log] [testng] 05:49:49,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-27 05:49:49,188] [main] testng.directory = /data [testng] [2024-09-27 05:49:49,188] [main] testng.configDirectory = /config [testng] [2024-09-27 05:49:49,202] [main] testng.multiplier = 1.0 [testng] [2024-09-27 05:49:49,203] [main] testng.in-memory = false [testng] [2024-09-27 05:49:49,203] [main] testng.allow-missing = false [testng] [2024-09-27 05:49:49,203] [main] user.language = en [testng] [2024-09-27 05:49:49,203] [main] user.country = ${user.country} [testng] [2024-09-27 05:49:49,203] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-27 05:50:44,624] [main] ---------------------------------------- [testng] [2024-09-27 05:50:44,625] [main] Total files: 791 [testng] [2024-09-27 05:50:44,625] [main] Scan time: 55.421 s (70 ms/file) [testng] [2024-09-27 05:50:44,625] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-27 05:56:33,550] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: [testng] 05:56:33,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:56:33,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:33,552 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-27_05-56-33.log] [testng] 05:56:33,552 |-INFO in ch.qos.logback.core.sift.SiftProcessor@725ea980 - End of configuration. [testng] [2024-09-27 05:56:34,478] [pool-1-thread-12] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] 05:56:34,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:56:34,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:34,479 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-27_05-56-34.log] [testng] 05:56:34,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d444e2 - End of configuration. [testng] [2024-09-27 05:56:36,084] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] 05:56:36,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:56:36,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:36,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-27_05-56-36.log] [testng] 05:56:36,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6cc8345b - End of configuration. [testng] [2024-09-27 05:56:37,367] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] 05:56:37,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:56:37,367 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:37,367 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-27_05-56-37.log] [testng] 05:56:37,368 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a3ab076 - End of configuration. [testng] [2024-09-27 05:56:42,983] [pool-1-thread-9] Initializing /data/tamjid/006004000.flex: [testng] 05:56:42,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:56:42,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:42,985 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-27_05-56-42.log] [testng] 05:56:42,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2ddf71 - End of configuration. [testng] [2024-09-27 05:56:43,657] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: [testng] 05:56:43,657 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:56:43,657 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:43,658 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-27_05-56-43.log] [testng] 05:56:43,658 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a5c17f6 - End of configuration. [testng] [2024-09-27 05:56:44,409] [pool-1-thread-7] Initializing /data/qa-18096/002003001.flex: [testng] 05:56:44,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:56:44,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:44,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-27_05-56-44.log] [testng] 05:56:44,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@608f2855 - End of configuration. [testng] [2024-09-27 05:56:45,142] [pool-1-thread-6] Initializing /data/tony/003003000.tiff: [testng] 05:56:45,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:56:45,142 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:45,143 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-27_05-56-45.log] [testng] 05:56:45,143 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b41ee59 - End of configuration. [testng] [2024-09-27 05:56:46,698] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] 05:56:46,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:56:46,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:46,699 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-27_05-56-46.log] [testng] 05:56:46,699 |-INFO in ch.qos.logback.core.sift.SiftProcessor@568c57fb - End of configuration. [testng] [2024-09-27 05:56:52,313] [pool-1-thread-4] Initializing /data/anatole/001004000.flex: [testng] 05:56:52,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:56:52,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:52,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-27_05-56-52.log] [testng] 05:56:52,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31e0d5a8 - End of configuration. [testng] [2024-09-27 05:56:53,413] [pool-1-thread-3] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] 05:56:53,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:56:53,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:56:53,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-27_05-56-53.log] [testng] 05:56:53,414 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c4159a5 - End of configuration. [testng] [2024-09-27 05:57:00,457] [pool-1-thread-2] Initializing /data/tony/003008000.flex: [testng] 05:57:00,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:57:00,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:57:00,458 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-27_05-57-00.log] [testng] 05:57:00,458 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2283dc68 - End of configuration. [testng] [2024-09-27 05:57:12,496] [pool-1-thread-9] Initializing /data/stephane/002007000.flex: [testng] [2024-09-27 05:57:13,554] [pool-1-thread-7] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: [testng] [2024-09-27 05:57:14,674] [pool-1-thread-12] Initializing /data/qa-18096/002002001.flex: [testng] [2024-09-27 05:57:15,944] [pool-1-thread-6] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: [testng] [2024-09-27 05:57:20,921] [pool-1-thread-1] Initializing /data/tony/001014000 - from flex.tif: [testng] [2024-09-27 05:57:22,776] [pool-1-thread-8] Initializing /data/manuel/003003001.flex: [testng] [2024-09-27 05:57:23,742] [pool-1-thread-11] Initializing /data/achim/003003000.flex: [testng] [2024-09-27 05:57:24,487] [pool-1-thread-2] Initializing /data/ghislain/test.flex: [testng] [2024-09-27 05:57:29,089] [pool-1-thread-12] Initializing /data/stephane/006013000.flex: [testng] [2024-09-27 05:57:31,227] [pool-1-thread-9] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2024-09-27 05:57:32,907] [pool-1-thread-1] Initializing /data/qa-7469/002002.flex: [testng] [2024-09-27 05:57:34,812] [pool-1-thread-6] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] [2024-09-27 05:57:44,647] [pool-1-thread-7] Initializing /data/tony/test1.flex: [testng] [2024-09-27 05:57:45,801] [pool-1-thread-2] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: [testng] [2024-09-27 05:57:49,105] [pool-1-thread-4] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: [testng] [2024-09-27 05:57:52,544] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: [testng] [2024-09-27 05:57:54,907] [pool-1-thread-11] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2024-09-27 05:57:57,839] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] [2024-09-27 05:58:07,251] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2024-09-27 05:58:09,858] [pool-1-thread-7] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2024-09-27 05:58:15,563] [pool-1-thread-2] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: [testng] [2024-09-27 05:58:17,584] [pool-1-thread-11] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] [2024-09-27 05:58:28,313] [pool-1-thread-4] Initializing /data/tamjid/006005000.flex: [testng] [2024-09-27 05:58:42,848] [pool-1-thread-2] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] [2024-09-27 05:58:52,562] [pool-1-thread-4] Initializing /data/qa-17190/002002011.flex: [testng] [2024-09-27 05:59:02,327] [pool-1-thread-12] Initializing /data/tamjid/006003000.flex: [testng] [2024-09-27 05:59:07,812] [pool-1-thread-4] Initializing /data/qa-2983/004007000.flex: [testng] [2024-09-27 05:59:17,745] [pool-1-thread-1] Initializing /data/tony/001001000_objects.flex: [testng] [2024-09-27 05:59:20,707] [pool-1-thread-12] Initializing /data/tony/015002000.tiff: [testng] [2024-09-27 05:59:27,190] [pool-1-thread-4] Initializing /data/tony/test.tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2226, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 17 minutes 46 seconds Finished: SUCCESS