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Started by upstream project "BIOFORMATS-test-repo" build number 232 originally caused by: Started by upstream project "Trigger" build number 257 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins1526623376560135761.sh + '[' mias = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_36524_merge_ci -v /uod/idr/repos/curated/mias:/data -v /uod/idr-scratch/merge-ci/curated/mias:/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] 05:35:54,027 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:35:54,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:35:54,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:54,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:35:54,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:35:54,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:35:54,030 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:35:54,030 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:54,031 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:35:54,031 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:35:54,032 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:35:54,032 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:35:54,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:35:54,185 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:35:54,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:35:54,205 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:35:54,211 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:35:54,211 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:35:54,211 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:35:54,211 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:35:54,211 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:35:54,212 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:35:54,212 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 181 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-23 05:35:54,220] [main] java.version = 17.0.2 [testng] 05:35:54,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:35:54,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:54,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-23_05-35-54.log] [testng] 05:35:54,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-23 05:35:54,265] [main] testng.directory = /data [testng] [2024-10-23 05:35:54,266] [main] testng.configDirectory = /config [testng] [2024-10-23 05:35:54,274] [main] testng.multiplier = 1.0 [testng] [2024-10-23 05:35:54,275] [main] testng.in-memory = false [testng] [2024-10-23 05:35:54,275] [main] testng.allow-missing = false [testng] [2024-10-23 05:35:54,275] [main] user.language = en [testng] [2024-10-23 05:35:54,275] [main] user.country = ${user.country} [testng] [2024-10-23 05:35:54,275] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-23 05:36:40,949] [main] ---------------------------------------- [testng] [2024-10-23 05:36:40,950] [main] Total files: 12 [testng] [2024-10-23 05:36:40,950] [main] Scan time: 46.674 s (3889 ms/file) [testng] [2024-10-23 05:36:40,950] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 7 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-23 05:38:03,126] [pool-1-thread-1] Initializing /data/frans/siRNA_PRIM1_03102008/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 05:38:03,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:38:03,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:03,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-23_05-38-03.log] [testng] 05:38:03,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@287bc888 - End of configuration. [testng] [2024-10-23 05:38:04,423] [pool-1-thread-7] Initializing /data/frans/NEO-Exp13072008-long-protokol/001-365700055641/Well0001/mode1_z000_t000_im1_1.tif: [testng] 05:38:04,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:38:04,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:04,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-23_05-38-04.log] [testng] 05:38:04,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14de67f8 - End of configuration. [testng] [2024-10-23 05:38:05,875] [pool-1-thread-6] Initializing /data/frans/One MNU Plate/001/Well0014/mode1_z000_t000_im1_1.tif: [testng] 05:38:05,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:38:05,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:05,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-23_05-38-05.log] [testng] 05:38:05,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@498bbb23 - End of configuration. [testng] [2024-10-23 05:38:06,556] [pool-1-thread-5] Initializing /data/frans/MIAS 3 D set 2 july 13 2009/001/0018/1/001_001_000_000.tif: [testng] 05:38:06,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:38:06,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:06,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-23_05-38-06.log] [testng] 05:38:06,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@326caeaf - End of configuration. [testng] [2024-10-23 05:38:07,250] [pool-1-thread-4] Initializing /data/frans/NEO-Exp13072008-long-protokol/005-365700055480/Well0001/mode1_z000_t000_im1_1.tif: [testng] 05:38:07,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:38:07,251 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:07,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-23_05-38-07.log] [testng] 05:38:07,252 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22487505 - End of configuration. [testng] [2024-10-23 05:38:08,605] [pool-1-thread-3] Initializing /data/frans/NEO-Exp13072008-long-protokol/004-365700055549/Well0001/mode1_z000_t000_im1_1.tif: [testng] 05:38:08,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:38:08,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:08,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-23_05-38-08.log] [testng] 05:38:08,606 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a3c1a9a - End of configuration. [testng] [2024-10-23 05:38:10,144] [pool-1-thread-2] Initializing /data/frans/MIAS 3D set 3 july 13 2009/001/0074/1/001_001_000_000.tif: [testng] 05:38:10,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:38:10,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:38:10,145 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-23_05-38-10.log] [testng] 05:38:10,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74d0d93 - End of configuration. [testng] 06:38:08,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:38:08,224 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:38:08,226 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-23_06-38-08.log] [testng] 06:38:08,226 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d5a51b1 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 371, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 62 minutes 18 seconds Finished: SUCCESS