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Started by upstream project "BIOFORMATS-test-repo" build number 381 originally caused by: Started by upstream project "Trigger" build number 403 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9738574065785803277.sh + '[' flex = 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_60284_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 -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] 06:00:09,137 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 06:00:09,139 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 06:00:09,139 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:00:09,140 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:00:09,140 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:00:09,140 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:00:09,141 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 06:00:09,141 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:00:09,141 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:00:09,141 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:00:09,142 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:00:09,142 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:00:09,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:00:09,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:00:09,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:00:09,391 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:00:09,399 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:00:09,399 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:00:09,399 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:00:09,400 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:00:09,400 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 06:00:09,401 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 06:00:09,401 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 260 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-17 06:00:09,411] [main] java.version = 1.8.0_342 [testng] 06:00:09,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:00:09,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:00:09,459 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-17_06-00-09.log] [testng] 06:00:09,460 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-17 06:00:09,462] [main] testng.directory = /data [testng] [2025-03-17 06:00:09,462] [main] testng.configDirectory = /config [testng] [2025-03-17 06:00:09,473] [main] testng.multiplier = 1.0 [testng] [2025-03-17 06:00:09,474] [main] testng.in-memory = false [testng] [2025-03-17 06:00:09,474] [main] testng.allow-missing = false [testng] [2025-03-17 06:00:09,474] [main] user.language = fr [testng] [2025-03-17 06:00:09,474] [main] user.country = FR [testng] [2025-03-17 06:00:09,474] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-17 06:05:56,570] [main] ---------------------------------------- [testng] [2025-03-17 06:05:56,570] [main] Total files: 791 [testng] [2025-03-17 06:05:56,570] [main] Scan time: 347.096 s (438 ms/file) [testng] [2025-03-17 06:05:56,570] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-17 06:26:57,853] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: [testng] 06:26:57,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:26:57,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:26:57,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-17_06-26-57.log] [testng] 06:26:57,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3eb91a04 - End of configuration. [testng] [2025-03-17 06:26:59,908] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: [testng] 06:26:59,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:26:59,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:26:59,910 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-17_06-26-59.log] [testng] 06:26:59,910 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58a1051f - End of configuration. [testng] [2025-03-17 06:27:01,822] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: [testng] 06:27:01,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:27:01,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:01,823 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-17_06-27-01.log] [testng] 06:27:01,823 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1350c617 - End of configuration. [testng] [2025-03-17 06:27:03,849] [pool-1-thread-10] Initializing /data/manuel/003003001.flex: [testng] 06:27:03,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:27:03,849 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:03,850 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-17_06-27-03.log] [testng] 06:27:03,850 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26abb663 - End of configuration. [testng] [2025-03-17 06:27:06,583] [pool-1-thread-9] Initializing /data/stephane/006013000.flex: [testng] 06:27:06,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:27:06,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:06,584 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-17_06-27-06.log] [testng] 06:27:06,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@227449e4 - End of configuration. [testng] [2025-03-17 06:27:08,620] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: [testng] 06:27:08,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:27:08,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:08,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-17_06-27-08.log] [testng] 06:27:08,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@576a7 - End of configuration. [testng] [2025-03-17 06:27:10,193] [pool-1-thread-7] Initializing /data/qa-17190/002002011.flex: [testng] 06:27:10,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:27:10,193 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:10,194 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-17_06-27-10.log] [testng] 06:27:10,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f8c1634 - End of configuration. [testng] [2025-03-17 06:27:12,278] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: [testng] 06:27:12,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:27:12,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:12,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-17_06-27-12.log] [testng] 06:27:12,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d713235 - End of configuration. [testng] [2025-03-17 06:27:18,955] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] 06:27:18,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:27:18,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:18,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-17_06-27-18.log] [testng] 06:27:18,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27722c2a - End of configuration. [testng] [2025-03-17 06:27:54,179] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] 06:27:54,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:27:54,179 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:27:54,179 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-17_06-27-54.log] [testng] 06:27:54,180 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a72d5df - End of configuration. [testng] [2025-03-17 06:29:08,780] [pool-1-thread-3] Initializing /data/tony/001014000 - from flex.tif: [testng] 06:29:08,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:29:08,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:29:08,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-17_06-29-08.log] [testng] 06:29:08,782 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42a7aaa7 - End of configuration. [testng] [2025-03-17 06:29:28,571] [pool-1-thread-2] Initializing /data/tony/test.tiff: [testng] 06:29:28,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:29:28,571 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:29:28,572 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-17_06-29-28.log] [testng] 06:29:28,573 |-INFO in ch.qos.logback.core.sift.SiftProcessor@518a434b - End of configuration. [testng] [2025-03-17 06:30:19,457] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: [testng] [2025-03-17 06:30:23,392] [pool-1-thread-7] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] [2025-03-17 06:30:46,815] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: [testng] [2025-03-17 06:30:53,475] [pool-1-thread-2] Initializing /data/ghislain/test.flex: [testng] [2025-03-17 06:30:59,368] [pool-1-thread-6] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] [2025-03-17 06:31:28,241] [pool-1-thread-8] Initializing /data/tony/test1.flex: [testng] [2025-03-17 06:31:35,621] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: [testng] [2025-03-17 06:31:40,465] [pool-1-thread-9] Initializing /data/qa-7469/002002.flex: [testng] [2025-03-17 06:31:44,839] [pool-1-thread-11] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2025-03-17 06:32:22,180] [pool-1-thread-6] Initializing /data/achim/003003000.flex: [testng] [2025-03-17 06:32:26,795] [pool-1-thread-10] Initializing /data/qa-18096/002003001.flex: [testng] [2025-03-17 06:32:29,351] [pool-1-thread-3] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] [2025-03-17 06:33:00,575] [pool-1-thread-2] Initializing /data/tony/015002000.tiff: [testng] [2025-03-17 06:33:42,458] [pool-1-thread-9] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] [2025-03-17 06:33:47,493] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2025-03-17 06:33:59,432] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: [testng] [2025-03-17 06:34:11,670] [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] [2025-03-17 06:34:16,833] [pool-1-thread-10] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2025-03-17 06:34:35,812] [pool-1-thread-6] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2025-03-17 06:34:55,850] [pool-1-thread-9] Initializing /data/anatole/001004000.flex: [testng] [2025-03-17 06:35:00,712] [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] [2025-03-17 06:35:15,328] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] [2025-03-17 06:35:57,358] [pool-1-thread-12] Initializing /data/tamjid/006003000.flex: [testng] [2025-03-17 06:36:14,533] [pool-1-thread-2] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] [2025-03-17 06:37:20,657] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] [2025-03-17 06:38:11,821] [pool-1-thread-1] Initializing /data/stephane/002007000.flex: [testng] [2025-03-17 06:38:35,383] [pool-1-thread-12] Initializing /data/qa-18096/002002001.flex: [testng] [2025-03-17 06:39:19,563] [pool-1-thread-11] Initializing /data/tamjid/006005000.flex: [testng] [2025-03-17 06:39:23,762] [pool-1-thread-1] Initializing /data/tony/003003000.tiff: [testng] [2025-03-17 06:39:33,600] [pool-1-thread-9] Initializing /data/tony/003008000.flex: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2226, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 71 minutes 48 seconds Finished: SUCCESS