Started by upstream project "BIOFORMATS-test-repo" build number 398
originally caused by:
Started by upstream project "Trigger" build number 484
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@15
[BIOFORMATS-test-folder@15] $ /bin/bash -xe /tmp/jenkins1558208806613001635.sh
+ '[' amira = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_62819_merge_ci -v /uod/idr/repos/curated/amira:/data -v /uod/idr-scratch/merge-ci/curated/amira:/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] 01:33:54,010 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
[testng] 01:33:54,011 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service.
[testng] 01:33:54,011 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:33:54,012 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:33:54,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:33:54,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:33:54,013 |-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] 01:33:54,013 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:33:54,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:33:54,014 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:33:54,014 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:33:54,015 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:33:54,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:33:54,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:33:54,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:33:54,201 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:33:54,206 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:33:54,207 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:33:54,207 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:33:54,207 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:33:54,207 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration.
[testng] 01:33:54,208 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point
[testng] 01:33:54,208 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2025-05-18 01:33:54,217] [main] java.version = 17.0.2
[testng] 01:33:54,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:33:54,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:33:54,261 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-05-18_01-33-54.log]
[testng] 01:33:54,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration.
[testng] [2025-05-18 01:33:54,265] [main] testng.directory = /data
[testng] [2025-05-18 01:33:54,265] [main] testng.configDirectory = /config
[testng] [2025-05-18 01:33:54,274] [main] testng.multiplier = 1.0
[testng] [2025-05-18 01:33:54,274] [main] testng.in-memory = false
[testng] [2025-05-18 01:33:54,274] [main] testng.allow-missing = false
[testng] [2025-05-18 01:33:54,274] [main] user.language = en
[testng] [2025-05-18 01:33:54,275] [main] user.country = ${user.country}
[testng] [2025-05-18 01:33:54,275] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2025-05-18 01:34:16,759] [main] ----------------------------------------
[testng] [2025-05-18 01:34:16,759] [main] Total files: 15
[testng] [2025-05-18 01:34:16,759] [main] Scan time: 22.484 s (1498 ms/file)
[testng] [2025-05-18 01:34:16,759] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 12 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2025-05-18 01:35:21,118] [pool-1-thread-1] Initializing /data/public/ignacio/test.am:
[testng] 01:35:21,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:35:21,119 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:21,120 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-05-18_01-35-21.log]
[testng] 01:35:21,121 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71f65226 - End of configuration.
[testng] [2025-05-18 01:35:26,033] [pool-1-thread-12] Initializing /data/jeremy/Virus_Membrane7.am:
[testng] 01:35:26,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:35:26,034 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:26,035 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-05-18_01-35-26.log]
[testng] 01:35:26,035 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19112e36 - End of configuration.
[testng] [2025-05-18 01:35:27,825] [pool-1-thread-11] Initializing /data/public/imagesc-50585/BF_CheckAmira.am:
[testng] 01:35:27,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:35:27,826 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:27,827 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-05-18_01-35-27.log]
[testng] 01:35:27,828 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8c1471c - End of configuration.
[testng] [2025-05-18 01:35:28,984] [pool-1-thread-10] Initializing /data/samples/emptykey/test.am:
[testng] 01:35:28,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:35:28,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:28,985 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-05-18_01-35-28.log]
[testng] 01:35:28,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@48ba7317 - End of configuration.
[testng] [2025-05-18 01:35:31,184] [pool-1-thread-9] Initializing /data/johannes/template.grey:
[testng] 01:35:31,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:35:31,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:31,185 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-05-18_01-35-31.log]
[testng] 01:35:31,186 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f33869 - End of configuration.
[testng] [2025-05-18 01:35:33,884] [pool-1-thread-8] Initializing /data/jeremy/Virus_Membrane7-screenshot.PNG:
[testng] 01:35:33,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:35:33,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:33,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-05-18_01-35-33.log]
[testng] 01:35:33,885 |-INFO in ch.qos.logback.core.sift.SiftProcessor@176382f5 - End of configuration.
[testng] [2025-05-18 01:35:34,055] [pool-1-thread-7] Initializing /data/public/imagesc-50585/BF_Check.tif:
[testng] 01:35:34,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:35:34,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:34,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-05-18_01-35-34.log]
[testng] 01:35:34,057 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7eb0c2da - End of configuration.
[testng] [2025-05-18 01:35:43,473] [pool-1-thread-6] Initializing /data/ilya/test.am:
[testng] 01:35:43,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:35:43,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:43,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-05-18_01-35-43.log]
[testng] 01:35:43,474 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78ec7cc2 - End of configuration.
[testng] [2025-05-18 01:35:47,001] [pool-1-thread-5] Initializing /data/johannes/template.labels:
[testng] 01:35:47,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:35:47,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:47,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-05-18_01-35-47.log]
[testng] 01:35:47,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38105904 - End of configuration.
[testng] [2025-05-18 01:35:48,927] [pool-1-thread-4] Initializing /data/jeremy/Hiv_spikes.am:
[testng] 01:35:48,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:35:48,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:48,929 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-05-18_01-35-48.log]
[testng] 01:35:48,929 |-INFO in ch.qos.logback.core.sift.SiftProcessor@243e9552 - End of configuration.
[testng] [2025-05-18 01:35:52,131] [pool-1-thread-3] Initializing /data/public/imagesc-50585/BF_CheckMIB.am:
[testng] 01:35:52,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:35:52,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:52,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-05-18_01-35-52.log]
[testng] 01:35:52,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53d9392d - End of configuration.
[testng] [2025-05-18 01:35:56,352] [pool-1-thread-2] Initializing /data/jcb/201108088/Haberman-Fig4A-original.am:
[testng] 01:35:56,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:35:56,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:35:56,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-05-18_01-35-56.log]
[testng] 01:35:56,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@644add94 - End of configuration.
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 636, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 2 minutes 51 seconds
Finished: SUCCESS