Started by upstream project "BIOFORMATS-test-repo" build number 111 originally caused by: Started by upstream project "Trigger" build number 124 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins1059956769812283367.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17215_merge_ci -v /uod/idr/repos/curated/zip:/data -v /uod/idr-scratch/merge-ci/curated/zip:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 01:23:14,647 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:14,648 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 01:23:14,648 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:14,650 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:14,650 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:14,650 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:14,651 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:23:14,651 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:14,651 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:14,652 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:14,652 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:14,652 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:14,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:14,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:14,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:14,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:14,839 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:14,839 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:14,839 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:14,839 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:14,839 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 01:23:14,840 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 01:23:14,841 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 190 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-04 01:23:14,852] [main] java.version = 21 [testng] 01:23:14,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:14,856 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:14,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-04_01-23-14.log] [testng] 01:23:14,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-07-04 01:23:14,901] [main] testng.directory = /data [testng] [2024-07-04 01:23:14,901] [main] testng.configDirectory = /config [testng] [2024-07-04 01:23:14,910] [main] testng.multiplier = 1.0 [testng] [2024-07-04 01:23:14,911] [main] testng.in-memory = false [testng] [2024-07-04 01:23:14,911] [main] testng.allow-missing = false [testng] [2024-07-04 01:23:14,911] [main] user.language = en [testng] [2024-07-04 01:23:14,911] [main] user.country = ${user.country} [testng] [2024-07-04 01:23:14,911] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-04 01:23:15,292] [main] ---------------------------------------- [testng] [2024-07-04 01:23:15,292] [main] Total files: 22 [testng] [2024-07-04 01:23:15,292] [main] Scan time: 0.381 s (17 ms/file) [testng] [2024-07-04 01:23:15,293] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-04 01:24:07,972] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:24:07,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:07,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:07,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-04_01-24-07.log] [testng] 01:24:07,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7da9ca16 - End of configuration. [testng] [2024-07-04 01:24:09,413] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:24:09,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:09,413 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:09,414 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-04_01-24-09.log] [testng] 01:24:09,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dff213a - End of configuration. [testng] [2024-07-04 01:24:09,627] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:24:09,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:09,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:09,628 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-04_01-24-09.log] [testng] 01:24:09,629 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e8a4f - End of configuration. [testng] [2024-07-04 01:24:09,890] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:24:09,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:09,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:09,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-04_01-24-09.log] [testng] 01:24:09,892 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4697ea3b - End of configuration. [testng] [2024-07-04 01:24:11,261] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:24:11,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:11,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:11,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-04_01-24-11.log] [testng] 01:24:11,262 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b55955f - End of configuration. [testng] [2024-07-04 01:24:11,550] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:24:11,550 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:11,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:11,551 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-04_01-24-11.log] [testng] 01:24:11,552 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6924f8ee - End of configuration. [testng] [2024-07-04 01:24:13,482] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:24:13,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:13,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:13,483 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-04_01-24-13.log] [testng] 01:24:13,483 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34486a12 - End of configuration. [testng] [2024-07-04 01:24:13,905] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] 01:24:13,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:13,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:13,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-04_01-24-13.log] [testng] 01:24:13,906 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f1ad6e4 - End of configuration. [testng] [2024-07-04 01:24:14,785] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:24:14,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:14,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:14,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-04_01-24-14.log] [testng] 01:24:14,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fb216bc - End of configuration. [testng] [2024-07-04 01:24:15,005] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] 01:24:15,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:15,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:15,006 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-04_01-24-15.log] [testng] 01:24:15,006 |-INFO in ch.qos.logback.core.sift.SiftProcessor@629fa43d - End of configuration. [testng] [2024-07-04 01:24:21,185] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:24:21,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:21,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:21,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-04_01-24-21.log] [testng] 01:24:21,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a10c7ca - End of configuration. [testng] [2024-07-04 01:24:28,805] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 01:24:28,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:28,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:28,806 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-04_01-24-28.log] [testng] 01:24:28,807 |-INFO in ch.qos.logback.core.sift.SiftProcessor@148c9c87 - End of configuration. [testng] [2024-07-04 01:24:31,457] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2024-07-04 01:24:37,115] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-07-04 01:24:39,398] [pool-1-thread-12] Initializing /data/imagej/RatBrain.zip: [testng] [2024-07-04 01:24:40,224] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-07-04 01:24:51,228] [pool-1-thread-9] Initializing /data/imagej/scala-media.zip: [testng] [2024-07-04 01:24:51,876] [pool-1-thread-7] Initializing /data/imagej/m51.zip: [testng] [2024-07-04 01:24:53,077] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-07-04 01:24:59,672] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] [2024-07-04 01:25:05,669] [pool-1-thread-7] Initializing /data/samples/sdub.zip: [testng] [2024-07-04 01:25:13,442] [pool-1-thread-7] Initializing /data/imagej/fat-cells.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 minutes 11 seconds Finished: SUCCESS