Started by upstream project "BIOFORMATS-test-repo" build number 192
originally caused by:
Started by upstream project "Trigger" build number 214
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6
[BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins13508717297971779827.sh
+ '[' analyze = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_30433_merge_ci -v /uod/idr/repos/curated/analyze:/data -v /uod/idr-scratch/merge-ci/curated/analyze:/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] 02:18:38,551 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:18:38,552 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:18:38,552 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:18:38,554 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:18:38,554 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:18:38,554 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:18:38,555 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 02:18:38,555 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:18:38,555 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:18:38,556 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:18:38,556 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:18:38,556 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:18:38,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:18:38,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:18:38,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:18:38,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:18:38,750 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:18:38,750 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:18:38,751 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:18:38,751 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:18:38,751 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:18:38,752 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:18:38,752 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-09-18 02:18:38,761] [main] java.version = 17.0.2
[testng] 02:18:38,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:18:38,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:38,804 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-18_02-18-38.log]
[testng] 02:18:38,806 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-09-18 02:18:38,808] [main] testng.directory = /data
[testng] [2024-09-18 02:18:38,808] [main] testng.configDirectory = /config
[testng] [2024-09-18 02:18:38,816] [main] testng.multiplier = 1.0
[testng] [2024-09-18 02:18:38,817] [main] testng.in-memory = false
[testng] [2024-09-18 02:18:38,817] [main] testng.allow-missing = false
[testng] [2024-09-18 02:18:38,817] [main] user.language = en
[testng] [2024-09-18 02:18:38,818] [main] user.country = ${user.country}
[testng] [2024-09-18 02:18:38,818] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-09-18 02:18:40,366] [main] ----------------------------------------
[testng] [2024-09-18 02:18:40,366] [main] Total files: 21
[testng] [2024-09-18 02:18:40,367] [main] Scan time: 1.548 s (73 ms/file)
[testng] [2024-09-18 02:18:40,367] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-09-18 02:18:42,537] [pool-1-thread-1] Initializing /data/frans/CT_CHEST.hdr:
[testng] 02:18:42,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:18:42,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-18_02-18-42.log]
[testng] 02:18:42,541 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29da512a - End of configuration.
[testng] [2024-09-18 02:18:42,677] [pool-1-thread-12] Initializing /data/frans/CT_CRANI.hdr:
[testng] 02:18:42,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:18:42,678 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,680 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-18_02-18-42.log]
[testng] 02:18:42,681 |-INFO in ch.qos.logback.core.sift.SiftProcessor@672ba01e - End of configuration.
[testng] [2024-09-18 02:18:42,752] [pool-1-thread-11] Initializing /data/frans/CT_APERT.hdr:
[testng] 02:18:42,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:18:42,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-18_02-18-42.log]
[testng] 02:18:42,755 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443be920 - End of configuration.
[testng] [2024-09-18 02:18:42,803] [pool-1-thread-10] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr:
[testng] 02:18:42,804 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:18:42,804 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,807 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-18_02-18-42.log]
[testng] 02:18:42,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a64d02e - End of configuration.
[testng] [2024-09-18 02:18:42,846] [pool-1-thread-9] Initializing /data/frans/CT_FOOT.hdr:
[testng] 02:18:42,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:18:42,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,849 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-18_02-18-42.log]
[testng] 02:18:42,851 |-INFO in ch.qos.logback.core.sift.SiftProcessor@685fc38c - End of configuration.
[testng] [2024-09-18 02:18:42,920] [pool-1-thread-8] Initializing /data/frans/m000-MR_CHEST.gif:
[testng] 02:18:42,920 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:18:42,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,921 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-18_02-18-42.log]
[testng] 02:18:42,922 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b116928 - End of configuration.
[testng] [2024-09-18 02:18:42,963] [pool-1-thread-6] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr:
[testng] 02:18:42,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:18:42,963 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:42,964 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-18_02-18-42.log]
[testng] 02:18:42,965 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ff965f2 - End of configuration.
[testng] [2024-09-18 02:18:43,025] [pool-1-thread-7] Initializing /data/frans/ch2.hdr:
[testng] 02:18:43,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:18:43,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:43,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-18_02-18-43.log]
[testng] 02:18:43,028 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ef384dd - End of configuration.
[testng] [2024-09-18 02:18:43,051] [pool-1-thread-5] Initializing /data/frans/MR_CHEST.hdr:
[testng] 02:18:43,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:18:43,051 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:43,053 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-18_02-18-43.log]
[testng] 02:18:43,053 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11e0d101 - End of configuration.
[testng] [2024-09-18 02:18:43,080] [pool-1-thread-4] Initializing /data/frans/CT_WHOLE.hdr:
[testng] 02:18:43,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:18:43,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:43,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-18_02-18-43.log]
[testng] 02:18:43,083 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a54b9bf - End of configuration.
[testng] [2024-09-18 02:18:43,134] [pool-1-thread-3] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr:
[testng] 02:18:43,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:18:43,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:43,135 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-18_02-18-43.log]
[testng] 02:18:43,136 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bf8a947 - End of configuration.
[testng] [2024-09-18 02:18:43,207] [pool-1-thread-2] Initializing /data/frans/CT_HAND.hdr:
[testng] 02:18:43,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:18:43,208 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:18:43,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-18_02-18-43.log]
[testng] 02:18:43,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39b78610 - End of configuration.
[testng] [2024-09-18 02:18:46,025] [pool-1-thread-8] Initializing /data/frans/brodmann.hdr:
[testng] [2024-09-18 02:18:46,176] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr:
[testng] [2024-09-18 02:18:46,279] [pool-1-thread-6] Initializing /data/frans/betmask.hdr:
[testng] [2024-09-18 02:18:46,473] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr:
[testng] [2024-09-18 02:18:46,596] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr:
[testng] [2024-09-18 02:18:47,032] [pool-1-thread-9] Initializing /data/frans/aal.hdr:
[testng] [2024-09-18 02:18:47,159] [pool-1-thread-10] Initializing /data/frans/ch2bet.hdr:
[testng] [2024-09-18 02:18:47,240] [pool-1-thread-3] Initializing /data/frans/CT_KNEE.hdr:
[testng] [2024-09-18 02:18:47,621] [pool-1-thread-12] Initializing /data/frans/MR_SEGBRAIN.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 13 seconds
Finished: SUCCESS