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Started by upstream project "BIOFORMATS-test-repo" build number 355 originally caused by: Started by upstream project "Trigger" build number 381 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/jenkins6609515272963292753.sh + '[' nifti = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_56627_merge_ci -v /uod/idr/repos/curated/nifti:/data -v /uod/idr-scratch/merge-ci/curated/nifti:/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] 04:17:03,630 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 04:17:03,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 04:17:03,631 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:17:03,632 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:17:03,632 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:17:03,633 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:17:03,633 |-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] 04:17:03,633 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:17:03,634 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:17:03,634 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:17:03,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:17:03,635 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:17:03,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:17:03,797 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:17:03,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:17:03,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:17:03,823 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:17:03,823 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:17:03,823 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:17:03,824 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:17:03,824 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 04:17:03,824 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 04:17:03,825 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-02-23 04:17:03,833] [main] java.version = 17.0.2 [testng] 04:17:03,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:17:03,836 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:03,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-02-23_04-17-03.log] [testng] 04:17:03,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-02-23 04:17:03,879] [main] testng.directory = /data [testng] [2025-02-23 04:17:03,879] [main] testng.configDirectory = /config [testng] [2025-02-23 04:17:03,888] [main] testng.multiplier = 1.0 [testng] [2025-02-23 04:17:03,888] [main] testng.in-memory = false [testng] [2025-02-23 04:17:03,888] [main] testng.allow-missing = false [testng] [2025-02-23 04:17:03,888] [main] user.language = en [testng] [2025-02-23 04:17:03,889] [main] user.country = ${user.country} [testng] [2025-02-23 04:17:03,889] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-02-23 04:17:10,923] [main] ---------------------------------------- [testng] [2025-02-23 04:17:10,924] [main] Total files: 23 [testng] [2025-02-23 04:17:10,924] [main] Scan time: 7.034 s (305 ms/file) [testng] [2025-02-23 04:17:10,924] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 20 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-02-23 04:17:29,835] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.nii: [testng] 04:17:29,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:17:29,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:29,836 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-02-23_04-17-29.log] [testng] 04:17:29,837 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77631ee7 - End of configuration. [testng] [2025-02-23 04:17:30,232] [pool-1-thread-12] Initializing /data/public/NIH/avg152T1_RL_nifti.nii: [testng] 04:17:30,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:17:30,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:30,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-02-23_04-17-30.log] [testng] 04:17:30,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23dedc0 - End of configuration. [testng] [2025-02-23 04:17:30,581] [pool-1-thread-11] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_27_conf_86.hdr: [testng] 04:17:30,581 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:17:30,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:30,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-02-23_04-17-30.log] [testng] 04:17:30,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a27df4 - End of configuration. [testng] [2025-02-23 04:17:30,937] [pool-1-thread-10] Initializing /data/public/NIH/avg152T1_RL_nifti.hdr: [testng] 04:17:30,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:17:30,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:30,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-02-23_04-17-30.log] [testng] 04:17:30,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@217ceeab - End of configuration. [testng] [2025-02-23 04:17:31,278] [pool-1-thread-9] Initializing /data/public/NIH/zstat1.nii.gz: [testng] 04:17:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:17:31,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:31,279 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-02-23_04-17-31.log] [testng] 04:17:31,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3618916f - End of configuration. [testng] [2025-02-23 04:17:32,798] [pool-1-thread-8] Initializing /data/public/NIH/minimal.nii: [testng] 04:17:32,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:17:32,798 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:32,799 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-02-23_04-17-32.log] [testng] 04:17:32,799 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5be85835 - End of configuration. [testng] [2025-02-23 04:17:33,152] [pool-1-thread-7] Initializing /data/public/NIH/filtered_func_data.nii.gz: [testng] 04:17:33,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:17:33,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:33,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-02-23_04-17-33.log] [testng] 04:17:33,153 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2130687b - End of configuration. [testng] [2025-02-23 04:17:37,128] [pool-1-thread-6] Initializing /data/public/NIH/avg152T1_LR_nifti.hdr: [testng] 04:17:37,128 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:17:37,128 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:37,128 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-02-23_04-17-37.log] [testng] 04:17:37,129 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53516a5c - End of configuration. [testng] [2025-02-23 04:17:37,476] [pool-1-thread-5] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_100.hdr: [testng] 04:17:37,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:17:37,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:37,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-02-23_04-17-37.log] [testng] 04:17:37,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25df1e1f - End of configuration. [testng] [2025-02-23 04:17:37,837] [pool-1-thread-4] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_100.hdr: [testng] 04:17:37,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:17:37,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:37,838 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-02-23_04-17-37.log] [testng] 04:17:37,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c51fcfb - End of configuration. [testng] [2025-02-23 04:17:38,181] [pool-1-thread-3] Initializing /data/qa-17334/volume4d.nii: [testng] 04:17:38,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:17:38,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:38,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-02-23_04-17-38.log] [testng] 04:17:38,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16bb1278 - End of configuration. [testng] [2025-02-23 04:17:38,522] [pool-1-thread-2] Initializing /data/public/NIH/minimal.hdr: [testng] 04:17:38,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:17:38,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:17:38,522 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-02-23_04-17-38.log] [testng] 04:17:38,523 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cb446ec - End of configuration. [testng] [2025-02-23 04:17:42,521] [pool-1-thread-8] Initializing /data/public/NIH/zstat1.nii: [testng] [2025-02-23 04:17:42,864] [pool-1-thread-12] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_28_conf_94.hdr: [testng] [2025-02-23 04:17:43,223] [pool-1-thread-1] Initializing /data/public/NIH/avg152T1_LR_nifti.nii.gz: [testng] [2025-02-23 04:17:44,672] [pool-1-thread-3] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_26_conf_91.hdr: [testng] [2025-02-23 04:17:45,411] [pool-1-thread-2] Initializing /data/public/NIH/newsirp_final_XML.nii: [testng] [2025-02-23 04:17:45,849] [pool-1-thread-10] Initializing /data/public/NIH/filtered_func_data.nii: [testng] [2025-02-23 04:17:46,436] [pool-1-thread-11] Initializing /data/public/NIH/avg152T1_RL_nifti.nii.gz: [testng] [2025-02-23 04:17:48,103] [pool-1-thread-6] Initializing /data/frans/eNlf-02-05-08-rats25-28_v1_rat_25_conf_94.hdr: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1060, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 16 seconds Finished: SUCCESS