Started by upstream project "BIOFORMATS-test-repo" build number 64
originally caused by:
Started by upstream project "Trigger" build number 71
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder
[BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins8771506163421162845.sh
+ '[' biorad-gel = slidebook ']'
++ date +%u
+ '[' 3 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_9619_merge_ci -v /uod/idr/repos/curated/biorad-gel:/data -v /uod/idr-scratch/merge-ci/curated/biorad-gel:/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] 02:24:58,944 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:24:58,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service.
[testng] 02:24:58,945 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:24:58,946 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:24:58,947 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:24:58,947 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:24:58,947 |-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] 02:24:58,947 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:24:58,948 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:24:58,948 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:24:58,948 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:24:58,949 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:24:59,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:24:59,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:24:59,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:24:59,136 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:24:59,142 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:24:59,143 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:24:59,143 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:24:59,144 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:24:59,144 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration.
[testng] 02:24:59,145 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point
[testng] 02:24:59,146 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-05-15 02:24:59,159] [main] java.version = 17.0.2
[testng] 02:24:59,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:24:59,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:24:59,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-15_02-24-59.log]
[testng] 02:24:59,212 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration.
[testng] [2024-05-15 02:24:59,214] [main] testng.directory = /data
[testng] [2024-05-15 02:24:59,214] [main] testng.configDirectory = /config
[testng] [2024-05-15 02:24:59,224] [main] testng.multiplier = 1.0
[testng] [2024-05-15 02:24:59,224] [main] testng.in-memory = false
[testng] [2024-05-15 02:24:59,224] [main] testng.allow-missing = false
[testng] [2024-05-15 02:24:59,225] [main] user.language = en
[testng] [2024-05-15 02:24:59,225] [main] user.country = ${user.country}
[testng] [2024-05-15 02:24:59,225] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-05-15 02:24:59,953] [main] ----------------------------------------
[testng] [2024-05-15 02:24:59,953] [main] Total files: 32
[testng] [2024-05-15 02:24:59,954] [main] Scan time: 0.728 s (22 ms/file)
[testng] [2024-05-15 02:24:59,954] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 32 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-05-15 02:25:03,253] [pool-1-thread-1] Initializing /data/david/Opened in imageJ.tiff:
[testng] 02:25:03,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:25:03,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,255 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-15_02-25-03.log]
[testng] 02:25:03,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c4acc41 - End of configuration.
[testng] [2024-05-15 02:25:03,306] [pool-1-thread-12] Initializing /data/keith/test2.1sc:
[testng] 02:25:03,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:25:03,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,308 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-15_02-25-03.log]
[testng] 02:25:03,309 |-INFO in ch.qos.logback.core.sift.SiftProcessor@edbdead - End of configuration.
[testng] [2024-05-15 02:25:03,336] [pool-1-thread-11] Initializing /data/keith/PF020328saur v3.1sc:
[testng] 02:25:03,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:25:03,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-15_02-25-03.log]
[testng] 02:25:03,339 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e76f6d3 - End of configuration.
[testng] [2024-05-15 02:25:03,357] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg:
[testng] 02:25:03,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:25:03,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-15_02-25-03.log]
[testng] 02:25:03,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f06ac30 - End of configuration.
[testng] [2024-05-15 02:25:03,400] [pool-1-thread-9] Initializing /data/adrian/test_img.1sc:
[testng] 02:25:03,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:25:03,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-15_02-25-03.log]
[testng] 02:25:03,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cd74fe7 - End of configuration.
[testng] [2024-05-15 02:25:03,453] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc:
[testng] 02:25:03,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:25:03,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-15_02-25-03.log]
[testng] 02:25:03,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18b76c7e - End of configuration.
[testng] [2024-05-15 02:25:03,501] [pool-1-thread-7] Initializing /data/geert/good example1.1sc:
[testng] 02:25:03,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:25:03,502 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-15_02-25-03.log]
[testng] 02:25:03,503 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a9ea571 - End of configuration.
[testng] [2024-05-15 02:25:03,552] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min:
[testng] 02:25:03,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:25:03,553 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,553 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-15_02-25-03.log]
[testng] 02:25:03,554 |-INFO in ch.qos.logback.core.sift.SiftProcessor@109f3fbb - End of configuration.
[testng] [2024-05-15 02:25:03,579] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc:
[testng] 02:25:03,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:25:03,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-15_02-25-03.log]
[testng] 02:25:03,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@529be425 - End of configuration.
[testng] [2024-05-15 02:25:03,607] [pool-1-thread-4] Initializing /data/keith/test.1sc:
[testng] 02:25:03,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:25:03,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-15_02-25-03.log]
[testng] 02:25:03,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f489524 - End of configuration.
[testng] [2024-05-15 02:25:03,629] [pool-1-thread-3] Initializing /data/qa-29459/bad.1sc:
[testng] 02:25:03,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:25:03,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,630 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-15_02-25-03.log]
[testng] 02:25:03,631 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e00f3cb - End of configuration.
[testng] [2024-05-15 02:25:03,669] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif:
[testng] 02:25:03,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:25:03,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:25:03,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-15_02-25-03.log]
[testng] 02:25:03,670 |-INFO in ch.qos.logback.core.sift.SiftProcessor@640fd262 - End of configuration.
[testng] [2024-05-15 02:25:05,702] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif:
[testng] [2024-05-15 02:25:05,775] [pool-1-thread-4] Initializing /data/geert/bad example1.1sc.jpg:
[testng] [2024-05-15 02:25:05,815] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min:
[testng] [2024-05-15 02:25:05,854] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 57min.tif:
[testng] [2024-05-15 02:25:05,916] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc:
[testng] [2024-05-15 02:25:05,932] [pool-1-thread-5] Initializing /data/david/Converted in Quantity One (Biorad).tiff:
[testng] [2024-05-15 02:25:05,961] [pool-1-thread-10] Initializing /data/david/Original Biorad Gel format file.1sc:
[testng] [2024-05-15 02:25:05,993] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min:
[testng] [2024-05-15 02:25:06,033] [pool-1-thread-9] Initializing /data/geert/good example1.1sc.jpg:
[testng] [2024-05-15 02:25:06,157] [pool-1-thread-7] Initializing /data/keith/pg020410saur3.1sc:
[testng] [2024-05-15 02:25:06,282] [pool-1-thread-6] Initializing /data/qa-29459/bad.jpg:
[testng] [2024-05-15 02:25:06,292] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min:
[testng] [2024-05-15 02:25:06,578] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc:
[testng] [2024-05-15 02:25:06,602] [pool-1-thread-7] Initializing /data/samples/Criterion.1sc:
[testng] [2024-05-15 02:25:06,685] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min.tif:
[testng] [2024-05-15 02:25:06,836] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc:
[testng] [2024-05-15 02:25:06,981] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min.tif:
[testng] [2024-05-15 02:25:07,027] [pool-1-thread-5] Initializing /data/qa-29469/bad2.1sc:
[testng] [2024-05-15 02:25:07,088] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min:
[testng] [2024-05-15 02:25:07,150] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1696, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 12 seconds
Finished: SUCCESS