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Started by upstream project "BIOFORMATS-test-repo" build number 241 originally caused by: Started by upstream project "Trigger" build number 266 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins2523168280955576998.sh + '[' analyze = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_37953_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 test-automated: [testng] File leak detector installed [testng] 02:46:02,861 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:46:02,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 02:46:02,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:46:02,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:46:02,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:46:02,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:46:02,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:46:02,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:46:02,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:46:02,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:46:02,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:46:02,865 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:46:03,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:46:03,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:46:03,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:46:03,110 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:46:03,118 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:46:03,118 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:46:03,118 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:46:03,119 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:46:03,119 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 02:46:03,120 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 02:46:03,120 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 256 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-01 02:46:03,129] [main] java.version = 1.8.0_342 [testng] 02:46:03,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:46:03,133 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:03,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-01_02-46-03.log] [testng] 02:46:03,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-01 02:46:03,180] [main] testng.directory = /data [testng] [2024-11-01 02:46:03,180] [main] testng.configDirectory = /config [testng] [2024-11-01 02:46:03,191] [main] testng.multiplier = 1.0 [testng] [2024-11-01 02:46:03,192] [main] testng.in-memory = false [testng] [2024-11-01 02:46:03,192] [main] testng.allow-missing = false [testng] [2024-11-01 02:46:03,192] [main] user.language = en [testng] [2024-11-01 02:46:03,192] [main] user.country = ${user.country} [testng] [2024-11-01 02:46:03,192] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-01 02:46:06,768] [main] ---------------------------------------- [testng] [2024-11-01 02:46:06,768] [main] Total files: 21 [testng] [2024-11-01 02:46:06,768] [main] Scan time: 3.576 s (170 ms/file) [testng] [2024-11-01 02:46:06,769] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-01 02:46:11,308] [pool-1-thread-1] Initializing /data/frans/m000-MR_CHEST.gif: [testng] 02:46:11,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:46:11,309 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:11,309 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-01_02-46-11.log] [testng] 02:46:11,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20546051 - End of configuration. [testng] [2024-11-01 02:46:11,394] [pool-1-thread-12] Initializing /data/frans/betmask.hdr: [testng] 02:46:11,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:46:11,394 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:11,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-01_02-46-11.log] [testng] 02:46:11,395 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6376be71 - End of configuration. [testng] [2024-11-01 02:46:11,580] [pool-1-thread-11] Initializing /data/frans/Test Files for Frans/PLA-zm2-16mm_1002_MF_V1.hdr: [testng] 02:46:11,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:46:11,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:11,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-01_02-46-11.log] [testng] 02:46:11,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22fcde77 - End of configuration. [testng] [2024-11-01 02:46:11,729] [pool-1-thread-10] Initializing /data/frans/MR_SEGBRAIN.hdr: [testng] 02:46:11,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:46:11,729 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:11,730 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-01_02-46-11.log] [testng] 02:46:11,730 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1853b49a - End of configuration. [testng] [2024-11-01 02:46:11,900] [pool-1-thread-9] Initializing /data/frans/Test Files for Frans/1002-sag-transform-box-est_flip-ord.hdr: [testng] 02:46:11,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:46:11,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:11,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-01_02-46-11.log] [testng] 02:46:11,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cce0d99 - End of configuration. [testng] [2024-11-01 02:46:12,081] [pool-1-thread-8] Initializing /data/frans/aal.hdr: [testng] 02:46:12,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:46:12,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-01_02-46-12.log] [testng] 02:46:12,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55110c33 - End of configuration. [testng] [2024-11-01 02:46:12,247] [pool-1-thread-7] Initializing /data/frans/CT_KNEE.hdr: [testng] 02:46:12,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:46:12,248 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,248 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-01_02-46-12.log] [testng] 02:46:12,249 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fe41c39 - End of configuration. [testng] [2024-11-01 02:46:12,408] [pool-1-thread-6] Initializing /data/frans/MR_CHEST.hdr: [testng] 02:46:12,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:46:12,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-01_02-46-12.log] [testng] 02:46:12,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19391d58 - End of configuration. [testng] [2024-11-01 02:46:12,582] [pool-1-thread-5] Initializing /data/frans/CT_CRANI.hdr: [testng] 02:46:12,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:46:12,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,583 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-01_02-46-12.log] [testng] 02:46:12,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24c1092 - End of configuration. [testng] [2024-11-01 02:46:12,763] [pool-1-thread-4] Initializing /data/frans/ch2.hdr: [testng] 02:46:12,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:46:12,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,764 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-01_02-46-12.log] [testng] 02:46:12,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@477f3814 - End of configuration. [testng] [2024-11-01 02:46:12,927] [pool-1-thread-3] Initializing /data/frans/CT_WHOLE.hdr: [testng] 02:46:12,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:46:12,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:12,928 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-01_02-46-12.log] [testng] 02:46:12,928 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63fb5fb9 - End of configuration. [testng] [2024-11-01 02:46:13,117] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/F005_1002_MF_SCAN1_stat_brain_fdg_JJ_Volume_Corrected.hdr: [testng] 02:46:13,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:46:13,117 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:13,118 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-01_02-46-13.log] [testng] 02:46:13,118 |-INFO in ch.qos.logback.core.sift.SiftProcessor@454507c4 - End of configuration. [testng] [2024-11-01 02:46:15,221] [pool-1-thread-1] Initializing /data/frans/CT_FOOT.hdr: [testng] [2024-11-01 02:46:16,944] [pool-1-thread-11] Initializing /data/frans/CT_CHEST.hdr: [testng] [2024-11-01 02:46:17,188] [pool-1-thread-12] Initializing /data/frans/brodmann.hdr: [testng] [2024-11-01 02:46:17,474] [pool-1-thread-2] Initializing /data/frans/Test Files for Frans/06-101-mask-40pc2dil.hdr: [testng] [2024-11-01 02:46:17,635] [pool-1-thread-10] Initializing /data/frans/ch2bet.hdr: [testng] [2024-11-01 02:46:17,801] [pool-1-thread-5] Initializing /data/frans/CT_HAND.hdr: [testng] [2024-11-01 02:46:17,963] [pool-1-thread-9] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1.img.hdr: [testng] [2024-11-01 02:46:18,117] [pool-1-thread-7] Initializing /data/frans/CT_APERT.hdr: [testng] [2024-11-01 02:46:18,285] [pool-1-thread-3] Initializing /data/frans/Test Files for Frans/200-PLA_sansBD_spmT_0005.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 22 seconds Finished: SUCCESS