Started by upstream project "BIOFORMATS-test-repo" build number 19 originally caused by: Started by upstream project "Trigger" build number 22 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins4178935164935529412.sh + '[' gatan-dm2 = 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_2335_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] 01:46:27,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:46:27,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:46:27,900 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:46:27,901 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:46:27,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:46:27,901 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:46:27,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:46:27,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:46:27,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:46:27,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:46:27,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:46:27,903 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:46:28,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:46:28,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:46:28,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:46:28,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:46:28,160 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:46:28,160 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:46:28,161 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:46:28,161 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:46:28,161 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:46:28,162 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:46:28,162 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 260 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-01 01:46:28,172] [main] java.version = 1.8.0_342 [testng] 01:46:28,175 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:46:28,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:28,222 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-01_01-46-28.log] [testng] 01:46:28,223 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-01 01:46:28,225] [main] testng.directory = /data [testng] [2024-04-01 01:46:28,226] [main] testng.configDirectory = /config [testng] [2024-04-01 01:46:28,238] [main] testng.multiplier = 1.0 [testng] [2024-04-01 01:46:28,238] [main] testng.in-memory = false [testng] [2024-04-01 01:46:28,238] [main] testng.allow-missing = false [testng] [2024-04-01 01:46:28,238] [main] user.language = fr [testng] [2024-04-01 01:46:28,238] [main] user.country = FR [testng] [2024-04-01 01:46:28,239] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-01 01:46:29,278] [main] ---------------------------------------- [testng] [2024-04-01 01:46:29,279] [main] Total files: 25 [testng] [2024-04-01 01:46:29,279] [main] Scan time: 1.039 s (41 ms/file) [testng] [2024-04-01 01:46:29,279] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-01 01:46:30,353] [pool-1-thread-1] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 01:46:30,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:46:30,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-01_01-46-30.log] [testng] 01:46:30,355 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3946140e - End of configuration. [testng] [2024-04-01 01:46:30,384] [pool-1-thread-12] Initializing /data/imagic/13008.dm2: [testng] 01:46:30,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:46:30,385 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,386 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-01_01-46-30.log] [testng] 01:46:30,387 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28fc5e8f - End of configuration. [testng] [2024-04-01 01:46:30,403] [pool-1-thread-11] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:46:30,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:46:30,403 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,404 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-01_01-46-30.log] [testng] 01:46:30,405 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a939cda - End of configuration. [testng] [2024-04-01 01:46:30,416] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:46:30,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:46:30,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,417 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-01_01-46-30.log] [testng] 01:46:30,418 |-INFO in ch.qos.logback.core.sift.SiftProcessor@349ace04 - End of configuration. [testng] [2024-04-01 01:46:30,423] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 01:46:30,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:46:30,424 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-01_01-46-30.log] [testng] 01:46:30,425 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41594b5b - End of configuration. [testng] [2024-04-01 01:46:30,429] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:46:30,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:46:30,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,430 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-01_01-46-30.log] [testng] 01:46:30,430 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51d3c972 - End of configuration. [testng] [2024-04-01 01:46:30,435] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:46:30,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:46:30,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,437 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-01_01-46-30.log] [testng] 01:46:30,437 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3734af7e - End of configuration. [testng] [2024-04-01 01:46:30,457] [pool-1-thread-6] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 01:46:30,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:46:30,457 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,458 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-01_01-46-30.log] [testng] 01:46:30,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69376478 - End of configuration. [testng] [2024-04-01 01:46:30,476] [pool-1-thread-5] Initializing /data/imagic/TEM 10118.dm2: [testng] 01:46:30,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:46:30,477 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-01_01-46-30.log] [testng] 01:46:30,478 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a3d7c67 - End of configuration. [testng] [2024-04-01 01:46:30,497] [pool-1-thread-4] Initializing /data/pang/grating025k.dm2: [testng] 01:46:30,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:46:30,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-01_01-46-30.log] [testng] 01:46:30,499 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fb0b8cd - End of configuration. [testng] [2024-04-01 01:46:30,515] [pool-1-thread-3] Initializing /data/pang/unproc-auto: [testng] 01:46:30,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:46:30,516 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,516 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-01_01-46-30.log] [testng] 01:46:30,517 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56060397 - End of configuration. [testng] [2024-04-01 01:46:30,533] [pool-1-thread-2] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 01:46:30,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:46:30,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:30,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-01_01-46-30.log] [testng] 01:46:30,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42756717 - End of configuration. [testng] [2024-04-01 01:46:32,130] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] [2024-04-01 01:46:32,132] [pool-1-thread-6] Initializing /data/imagic/1-1.dm2: [testng] [2024-04-01 01:46:32,155] [pool-1-thread-11] Initializing /data/pang/signed: [testng] [2024-04-01 01:46:32,165] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] [2024-04-01 01:46:32,168] [pool-1-thread-12] Initializing /data/pang/10500x-o4: [testng] [2024-04-01 01:46:32,177] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 seconds Finished: SUCCESS