Started by upstream project "BIOFORMATS-test-repo" build number 216
originally caused by:
Started by upstream project "Trigger" build number 243
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/jenkins5531614939597686877.sh
+ '[' analyze = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_34316_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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release
[javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.
[javac] 4 warnings
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] 05:25:28,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:25:28,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 05:25:28,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:25:28,962 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:25:28,963 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:25:28,963 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:25:28,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 05:25:28,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:25:28,964 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:25:28,964 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:25:28,965 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:25:28,965 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:25:29,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:25:29,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:25:29,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:25:29,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:25:29,170 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:25:29,170 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:25:29,170 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:25:29,171 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:25:29,171 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 05:25:29,171 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 05:25:29,172 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 208 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-10 05:25:29,181] [main] java.version = 21
[testng] 05:25:29,184 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:25:29,184 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:25:29,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-10_05-25-29.log]
[testng] 05:25:29,227 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-10-10 05:25:29,229] [main] testng.directory = /data
[testng] [2024-10-10 05:25:29,229] [main] testng.configDirectory = /config
[testng] [2024-10-10 05:25:29,238] [main] testng.multiplier = 1.0
[testng] [2024-10-10 05:25:29,238] [main] testng.in-memory = false
[testng] [2024-10-10 05:25:29,238] [main] testng.allow-missing = false
[testng] [2024-10-10 05:25:29,238] [main] user.language = en
[testng] [2024-10-10 05:25:29,238] [main] user.country = ${user.country}
[testng] [2024-10-10 05:25:29,238] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-10 05:25:42,451] [main] ----------------------------------------
[testng] [2024-10-10 05:25:42,451] [main] Total files: 21
[testng] [2024-10-10 05:25:42,451] [main] Scan time: 13.212 s (629 ms/file)
[testng] [2024-10-10 05:25:42,451] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-10 05:25:57,708] [pool-1-thread-1] Initializing /data/frans/CT_CHEST.hdr:
[testng] 05:25:57,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:25:57,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:25:57,710 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-10_05-25-57.log]
[testng] 05:25:57,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12a944eb - End of configuration.
[testng] [2024-10-10 05:25:58,601] [pool-1-thread-12] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr:
[testng] 05:25:58,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:25:58,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:25:58,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-10_05-25-58.log]
[testng] 05:25:58,603 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c6ce2c6 - End of configuration.
[testng] [2024-10-10 05:25:59,322] [pool-1-thread-11] Initializing /data/frans/brodmann.hdr:
[testng] 05:25:59,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:25:59,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:25:59,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-10_05-25-59.log]
[testng] 05:25:59,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ad4fb32 - End of configuration.
[testng] [2024-10-10 05:25:59,876] [pool-1-thread-10] Initializing /data/frans/CT_HAND.hdr:
[testng] 05:25:59,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:25:59,877 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:25:59,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-10_05-25-59.log]
[testng] 05:25:59,878 |-INFO in ch.qos.logback.core.sift.SiftProcessor@317aa3e - End of configuration.
[testng] [2024-10-10 05:26:00,388] [pool-1-thread-9] Initializing /data/frans/CT_WHOLE.hdr:
[testng] 05:26:00,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:26:00,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:00,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-10_05-26-00.log]
[testng] 05:26:00,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@954c1f5 - End of configuration.
[testng] [2024-10-10 05:26:00,904] [pool-1-thread-8] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr:
[testng] 05:26:00,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:26:00,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:00,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-10_05-26-00.log]
[testng] 05:26:00,906 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bda9005 - End of configuration.
[testng] [2024-10-10 05:26:01,450] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr:
[testng] 05:26:01,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:26:01,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:01,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-10_05-26-01.log]
[testng] 05:26:01,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d865230 - End of configuration.
[testng] [2024-10-10 05:26:01,966] [pool-1-thread-6] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr:
[testng] 05:26:01,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:26:01,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:01,967 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-10_05-26-01.log]
[testng] 05:26:01,968 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60770a2e - End of configuration.
[testng] [2024-10-10 05:26:02,498] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr:
[testng] 05:26:02,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:26:02,498 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:02,499 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-10_05-26-02.log]
[testng] 05:26:02,499 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d2e6af6 - End of configuration.
[testng] [2024-10-10 05:26:03,012] [pool-1-thread-4] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr:
[testng] 05:26:03,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:26:03,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:03,013 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-10_05-26-03.log]
[testng] 05:26:03,013 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1627a0fd - End of configuration.
[testng] [2024-10-10 05:26:03,458] [pool-1-thread-3] Initializing /data/frans/betmask.hdr:
[testng] 05:26:03,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:26:03,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:03,459 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-10_05-26-03.log]
[testng] 05:26:03,460 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ef91a63 - End of configuration.
[testng] [2024-10-10 05:26:03,923] [pool-1-thread-2] Initializing /data/frans/CT_APERT.hdr:
[testng] 05:26:03,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:26:03,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:26:03,924 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-10_05-26-03.log]
[testng] 05:26:03,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e9e0358 - End of configuration.
[testng] [2024-10-10 05:26:13,817] [pool-1-thread-8] Initializing /data/frans/ch2.hdr:
[testng] [2024-10-10 05:26:14,751] [pool-1-thread-5] Initializing /data/frans/CT_FOOT.hdr:
[testng] [2024-10-10 05:26:15,579] [pool-1-thread-9] Initializing /data/frans/MR_CHEST.hdr:
[testng] [2024-10-10 05:26:16,381] [pool-1-thread-11] Initializing /data/frans/m000-MR_CHEST.gif:
[testng] [2024-10-10 05:26:16,559] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr:
[testng] [2024-10-10 05:26:17,451] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr:
[testng] [2024-10-10 05:26:18,175] [pool-1-thread-7] Initializing /data/frans/MR_SEGBRAIN.hdr:
[testng] [2024-10-10 05:26:18,754] [pool-1-thread-1] Initializing /data/frans/ch2bet.hdr:
[testng] [2024-10-10 05:26:19,252] [pool-1-thread-10] Initializing /data/frans/aal.hdr:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 1 minute 0 seconds
Finished: SUCCESS