Started by upstream project "BIOFORMATS-test-repo" build number 240
originally caused by:
Started by upstream project "Trigger" build number 265
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4
[BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins6765135719101225513.sh
+ '[' imagepro = slidebook ']'
++ date +%u
+ '[' 4 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_37834_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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[javac] warning: [options] source value 8 is obsolete and will be removed in a future release
[javac] warning: [options] target value 8 is obsolete and will be removed in a future release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] 03:59:01,144 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 03:59:01,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service.
[testng] 03:59:01,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:59:01,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 03:59:01,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 03:59:01,147 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 03:59:01,147 |-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] 03:59:01,147 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:59:01,148 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 03:59:01,148 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 03:59:01,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 03:59:01,149 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 03:59:01,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 03:59:01,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 03:59:01,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 03:59:01,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 03:59:01,325 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 03:59:01,325 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 03:59:01,325 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 03:59:01,325 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 03:59:01,325 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration.
[testng] 03:59:01,326 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point
[testng] 03:59:01,327 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 178 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-31 03:59:01,335] [main] java.version = 21
[testng] 03:59:01,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 03:59:01,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:01,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-31_03-59-01.log]
[testng] 03:59:01,378 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration.
[testng] [2024-10-31 03:59:01,380] [main] testng.directory = /data
[testng] [2024-10-31 03:59:01,380] [main] testng.configDirectory = /config
[testng] [2024-10-31 03:59:01,388] [main] testng.multiplier = 1.0
[testng] [2024-10-31 03:59:01,389] [main] testng.in-memory = false
[testng] [2024-10-31 03:59:01,389] [main] testng.allow-missing = false
[testng] [2024-10-31 03:59:01,389] [main] user.language = en
[testng] [2024-10-31 03:59:01,389] [main] user.country = ${user.country}
[testng] [2024-10-31 03:59:01,389] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-31 03:59:05,179] [main] ----------------------------------------
[testng] [2024-10-31 03:59:05,179] [main] Total files: 22
[testng] [2024-10-31 03:59:05,179] [main] Scan time: 3.79 s (172 ms/file)
[testng] [2024-10-31 03:59:05,179] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 21 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-31 03:59:19,111] [pool-1-thread-1] Initializing /data/converted/dub01.seq:
[testng] 03:59:19,111 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 03:59:19,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:19,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-31_03-59-19.log]
[testng] 03:59:19,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a458425 - End of configuration.
[testng] [2024-10-31 03:59:19,427] [pool-1-thread-12] Initializing /data/converted/mitosis-test.tif:
[testng] 03:59:19,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 03:59:19,427 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:19,428 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-31_03-59-19.log]
[testng] 03:59:19,429 |-INFO in ch.qos.logback.core.sift.SiftProcessor@361b4519 - End of configuration.
[testng] [2024-10-31 03:59:20,202] [pool-1-thread-11] Initializing /data/converted/clown8c.ipw:
[testng] 03:59:20,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 03:59:20,202 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:20,203 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-31_03-59-20.log]
[testng] 03:59:20,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42344517 - End of configuration.
[testng] [2024-10-31 03:59:20,477] [pool-1-thread-10] Initializing /data/converted/NESb_C2_TP7.seq:
[testng] 03:59:20,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 03:59:20,478 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:20,478 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-31_03-59-20.log]
[testng] 03:59:20,479 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5000dd6c - End of configuration.
[testng] [2024-10-31 03:59:20,767] [pool-1-thread-9] Initializing /data/converted/NESb_C2_TP7.ipw:
[testng] 03:59:20,767 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 03:59:20,767 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:20,768 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-31_03-59-20.log]
[testng] 03:59:20,768 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8cafe4 - End of configuration.
[testng] [2024-10-31 03:59:21,055] [pool-1-thread-8] Initializing /data/converted/clown.seq:
[testng] 03:59:21,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 03:59:21,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:21,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-31_03-59-21.log]
[testng] 03:59:21,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c88d79d - End of configuration.
[testng] [2024-10-31 03:59:21,350] [pool-1-thread-7] Initializing /data/converted/mitosis-test.ipw:
[testng] 03:59:21,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 03:59:21,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:21,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-31_03-59-21.log]
[testng] 03:59:21,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@443e61b1 - End of configuration.
[testng] [2024-10-31 03:59:21,662] [pool-1-thread-6] Initializing /data/samples/PROBE.TIF:
[testng] 03:59:21,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 03:59:21,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:21,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-31_03-59-21.log]
[testng] 03:59:21,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@401df70b - End of configuration.
[testng] [2024-10-31 03:59:21,951] [pool-1-thread-5] Initializing /data/xiuwen/head2.seq:
[testng] 03:59:21,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 03:59:21,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:21,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-31_03-59-21.log]
[testng] 03:59:21,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ab2a2a - End of configuration.
[testng] [2024-10-31 03:59:22,327] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.tiff:
[testng] 03:59:22,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 03:59:22,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:22,328 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-31_03-59-22.log]
[testng] 03:59:22,328 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93d1b98 - End of configuration.
[testng] [2024-10-31 03:59:23,115] [pool-1-thread-3] Initializing /data/alex/AFAset0003.ips:
[testng] 03:59:23,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 03:59:23,115 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:23,116 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-31_03-59-23.log]
[testng] 03:59:23,116 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e800c9f - End of configuration.
[testng] [2024-10-31 03:59:23,463] [pool-1-thread-2] Initializing /data/samples/HEART.SEQ:
[testng] 03:59:23,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 03:59:23,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 03:59:23,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-31_03-59-23.log]
[testng] 03:59:23,464 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13e8abbb - End of configuration.
[testng] [2024-10-31 03:59:27,261] [pool-1-thread-7] Initializing /data/converted/clown8c.tif:
[testng] [2024-10-31 03:59:28,043] [pool-1-thread-2] Initializing /data/converted/clown.ipw:
[testng] [2024-10-31 03:59:28,384] [pool-1-thread-6] Initializing /data/samples/TISSUE.TIF:
[testng] [2024-10-31 03:59:29,181] [pool-1-thread-11] Initializing /data/converted/dub01.pic:
[testng] [2024-10-31 03:59:29,471] [pool-1-thread-8] Initializing /data/converted/clown8c.seq:
[testng] [2024-10-31 03:59:29,895] [pool-1-thread-9] Initializing /data/converted/clown.tif:
[testng] [2024-10-31 03:59:30,379] [pool-1-thread-10] Initializing /data/converted/mitosis-test.seq:
[testng] [2024-10-31 03:59:30,730] [pool-1-thread-1] Initializing /data/converted/dub01.ipw:
[testng] [2024-10-31 03:59:31,776] [pool-1-thread-4] Initializing /data/samples/FLDUAL.TIF:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1113, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 18 seconds
Finished: SUCCESS