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Started by upstream project "BIOFORMATS-test-repo" build number 219 originally caused by: Started by upstream project "Trigger" build number 246 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/jenkins2549947398300657740.sh + '[' zip = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34718_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] 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] 01:26:57,293 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:26:57,294 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 01:26:57,294 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:26:57,295 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:26:57,296 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:26:57,296 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:26:57,297 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:26:57,297 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:26:57,297 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:26:57,298 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:26:57,298 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:26:57,299 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:26:57,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:26:57,470 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:26:57,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:26:57,494 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:26:57,499 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:26:57,499 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:26:57,500 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:26:57,500 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:26:57,500 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 01:26:57,501 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 01:26:57,501 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-13 01:26:57,511] [main] java.version = 17.0.2 [testng] 01:26:57,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:26:57,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:26:57,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-13_01-26-57.log] [testng] 01:26:57,558 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-13 01:26:57,560] [main] testng.directory = /data [testng] [2024-10-13 01:26:57,560] [main] testng.configDirectory = /config [testng] [2024-10-13 01:26:57,569] [main] testng.multiplier = 1.0 [testng] [2024-10-13 01:26:57,570] [main] testng.in-memory = false [testng] [2024-10-13 01:26:57,570] [main] testng.allow-missing = false [testng] [2024-10-13 01:26:57,570] [main] user.language = en [testng] [2024-10-13 01:26:57,570] [main] user.country = ${user.country} [testng] [2024-10-13 01:26:57,570] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-13 01:26:58,575] [main] ---------------------------------------- [testng] [2024-10-13 01:26:58,575] [main] Total files: 22 [testng] [2024-10-13 01:26:58,575] [main] Scan time: 1.004 s (45 ms/file) [testng] [2024-10-13 01:26:58,575] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-13 01:29:37,258] [pool-1-thread-1] Initializing /data/imagej/fat-cells.zip: [testng] 01:29:37,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:29:37,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:37,260 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-13_01-29-37.log] [testng] 01:29:37,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6815b0ce - End of configuration. [testng] [2024-10-13 01:29:44,604] [pool-1-thread-12] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:29:44,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:29:44,605 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:44,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-13_01-29-44.log] [testng] 01:29:44,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fdc1a62 - End of configuration. [testng] [2024-10-13 01:29:50,409] [pool-1-thread-11] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:29:50,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:29:50,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:50,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-13_01-29-50.log] [testng] 01:29:50,411 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e9ab45e - End of configuration. [testng] [2024-10-13 01:29:55,237] [pool-1-thread-10] Initializing /data/imagej/xrays.zip: [testng] 01:29:55,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:29:55,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:55,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-13_01-29-55.log] [testng] 01:29:55,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e8584b3 - End of configuration. [testng] [2024-10-13 01:29:58,749] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip: [testng] 01:29:58,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:29:58,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:29:58,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-13_01-29-58.log] [testng] 01:29:58,750 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ca9e1b7 - End of configuration. [testng] [2024-10-13 01:30:12,207] [pool-1-thread-8] Initializing /data/imagej/m51.zip: [testng] 01:30:12,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:30:12,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:12,209 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-13_01-30-12.log] [testng] 01:30:12,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fe7b522 - End of configuration. [testng] [2024-10-13 01:30:15,726] [pool-1-thread-7] Initializing /data/imagej/se3.zip: [testng] 01:30:15,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:30:15,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:15,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-13_01-30-15.log] [testng] 01:30:15,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12dc94da - End of configuration. [testng] [2024-10-13 01:30:28,122] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:30:28,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:30:28,122 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:28,123 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-13_01-30-28.log] [testng] 01:30:28,123 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25065365 - End of configuration. [testng] [2024-10-13 01:30:34,188] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:30:34,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:30:34,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:34,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-13_01-30-34.log] [testng] 01:30:34,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@227cee7b - End of configuration. [testng] [2024-10-13 01:30:40,507] [pool-1-thread-4] Initializing /data/imagej/RatBrain.zip: [testng] 01:30:40,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:30:40,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:40,508 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-13_01-30-40.log] [testng] 01:30:40,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78a31396 - End of configuration. [testng] [2024-10-13 01:30:44,952] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:30:44,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:30:44,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:44,953 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-13_01-30-44.log] [testng] 01:30:44,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b1ea9ec - End of configuration. [testng] [2024-10-13 01:30:57,629] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip: [testng] 01:30:57,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:30:57,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:30:57,630 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-13_01-30-57.log] [testng] 01:30:57,630 |-INFO in ch.qos.logback.core.sift.SiftProcessor@444d1f58 - End of configuration. [testng] [2024-10-13 01:31:46,127] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-10-13 01:31:52,984] [pool-1-thread-8] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-10-13 01:32:04,683] [pool-1-thread-4] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-10-13 01:32:18,427] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] [2024-10-13 01:32:24,625] [pool-1-thread-6] Initializing /data/samples/sdub.zip: [testng] [2024-10-13 01:32:42,763] [pool-1-thread-6] Initializing /data/imagej/mri-stack.zip: [testng] [2024-10-13 01:32:54,302] [pool-1-thread-2] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-10-13 01:33:13,607] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-10-13 01:33:17,588] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-10-13 01:33:27,041] [pool-1-thread-11] Initializing /data/imagej/confocal-series.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 minutes 32 seconds Finished: SUCCESS