Started by upstream project "BIOFORMATS-test-repo" build number 362
originally caused by:
Started by upstream project "Trigger" build number 388
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins6766385367244068127.sh
+ '[' nifti = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_57782_merge_ci -v /uod/idr/repos/curated/nifti:/data -v /uod/idr-scratch/merge-ci/curated/nifti:/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
[javac] warning: [options] bootstrap class path not set in conjunction with -source 8
[javac] 1 warning
test-automated:
[testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket
[testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket
[testng] File leak detector installed
[testng] 04:17:48,255 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 04:17:48,257 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service.
[testng] 04:17:48,257 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:17:48,258 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:17:48,258 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:17:48,258 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:17:48,259 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 04:17:48,259 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:17:48,259 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:17:48,260 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:17:48,260 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:17:48,260 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:17:48,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:17:48,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:17:48,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:17:48,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:17:48,460 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:17:48,461 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:17:48,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:17:48,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:17:48,462 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration.
[testng] 04:17:48,463 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point
[testng] 04:17:48,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-03-02 04:17:48,479] [main] java.version = 17.0.2
[testng] 04:17:48,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:17:48,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:17:48,525 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-02_04-17-48.log]
[testng] 04:17:48,527 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration.
[testng] [2025-03-02 04:17:48,529] [main] testng.directory = /data
[testng] [2025-03-02 04:17:48,529] [main] testng.configDirectory = /config
[testng] [2025-03-02 04:17:48,538] [main] testng.multiplier = 1.0
[testng] [2025-03-02 04:17:48,538] [main] testng.in-memory = false
[testng] [2025-03-02 04:17:48,539] [main] testng.allow-missing = false
[testng] [2025-03-02 04:17:48,539] [main] user.language = en
[testng] [2025-03-02 04:17:48,539] [main] user.country = ${user.country}
[testng] [2025-03-02 04:17:48,539] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-03-02 04:17:58,076] [main] ----------------------------------------
[testng] [2025-03-02 04:17:58,076] [main] Total files: 23
[testng] [2025-03-02 04:17:58,076] [main] Scan time: 9.537 s (414 ms/file)
[testng] [2025-03-02 04:17:58,077] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 20 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-03-02 04:18:24,535] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.nii:
[testng] 04:18:24,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:18:24,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:24,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-02_04-18-24.log]
[testng] 04:18:24,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77631ee7 - End of configuration.
[testng] [2025-03-02 04:18:24,999] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_RL_nifti.nii:
[testng] 04:18:24,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:18:25,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:25,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-02_04-18-25.log]
[testng] 04:18:25,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23dedc0 - End of configuration.
[testng] [2025-03-02 04:18:25,476] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr:
[testng] 04:18:25,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:18:25,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:25,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-02_04-18-25.log]
[testng] 04:18:25,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a27df4 - End of configuration.
[testng] [2025-03-02 04:18:25,978] [pool-1-thread-10] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr:
[testng] 04:18:25,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:18:25,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:25,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-02_04-18-25.log]
[testng] 04:18:25,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f735ca9 - End of configuration.
[testng] [2025-03-02 04:18:26,484] [pool-1-thread-9] Initializing /data/public/NIH/zstat1.nii.gz:
[testng] 04:18:26,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:18:26,484 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:26,485 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-02_04-18-26.log]
[testng] 04:18:26,485 |-INFO in ch.qos.logback.core.sift.SiftProcessor@985f857 - End of configuration.
[testng] [2025-03-02 04:18:28,398] [pool-1-thread-8] Initializing /data/public/NIH/minimal.nii:
[testng] 04:18:28,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:18:28,398 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:28,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-02_04-18-28.log]
[testng] 04:18:28,399 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c8f6f59 - End of configuration.
[testng] [2025-03-02 04:18:28,848] [pool-1-thread-7] Initializing /data/public/NIH/filtered_func_data.nii.gz:
[testng] 04:18:28,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:18:28,848 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:28,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-02_04-18-28.log]
[testng] 04:18:28,849 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2130687b - End of configuration.
[testng] [2025-03-02 04:18:33,787] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr:
[testng] 04:18:33,787 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:18:33,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:33,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-02_04-18-33.log]
[testng] 04:18:33,789 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53516a5c - End of configuration.
[testng] [2025-03-02 04:18:34,272] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr:
[testng] 04:18:34,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:18:34,272 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:34,273 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-02_04-18-34.log]
[testng] 04:18:34,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25df1e1f - End of configuration.
[testng] [2025-03-02 04:18:34,774] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr:
[testng] 04:18:34,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:18:34,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:34,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-02_04-18-34.log]
[testng] 04:18:34,775 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c51fcfb - End of configuration.
[testng] [2025-03-02 04:18:35,285] [pool-1-thread-3] Initializing /data/qa-17334/volume4d.nii:
[testng] 04:18:35,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:18:35,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:35,286 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-02_04-18-35.log]
[testng] 04:18:35,287 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16bb1278 - End of configuration.
[testng] [2025-03-02 04:18:35,765] [pool-1-thread-2] Initializing /data/public/NIH/minimal.hdr:
[testng] 04:18:35,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:18:35,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:18:35,766 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-02_04-18-35.log]
[testng] 04:18:35,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cb446ec - End of configuration.
[testng] [2025-03-02 04:18:40,812] [pool-1-thread-8] Initializing /data/public/NIH/zstat1.nii:
[testng] [2025-03-02 04:18:41,324] [pool-1-thread-1] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr:
[testng] [2025-03-02 04:18:41,886] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz:
[testng] [2025-03-02 04:18:44,198] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr:
[testng] [2025-03-02 04:18:45,689] [pool-1-thread-2] Initializing /data/public/NIH/newsirp_final_XML.nii:
[testng] [2025-03-02 04:18:46,267] [pool-1-thread-10] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr:
[testng] [2025-03-02 04:18:46,838] [pool-1-thread-11] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz:
[testng] [2025-03-02 04:18:49,067] [pool-1-thread-4] Initializing /data/public/NIH/filtered_func_data.nii:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1060, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 36 seconds
Finished: SUCCESS