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Started by upstream project "BIOFORMATS-test-repo" build number 297 originally caused by: Started by upstream project "Trigger" build number 319 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/jenkins1097834737136225003.sh + '[' pcx = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46903_merge_ci -v /uod/idr/repos/curated/pcx:/data -v /uod/idr-scratch/merge-ci/curated/pcx:/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] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml compile-tests: [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [resolver:resolve] Resolving artifacts [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-mdbtools/5.3.4-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/metakit/5.3.8-SNAPSHOT/maven-metadata.xml [resolver:resolve] Downloading https://maven.imagej.net/content/groups/public/org/openmicroscopy/ome-poi/5.3.10-SNAPSHOT/maven-metadata.xml [javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test test-automated: [testng] File leak detector installed [testng] 00:08:01,957 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:08:01,958 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:08:01,958 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:08:01,959 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:08:01,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:08:01,960 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:08:01,960 |-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] 00:08:01,960 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:08:01,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:08:01,961 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:08:01,961 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:08:01,961 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:08:02,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:08:02,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:08:02,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:08:02,222 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:08:02,230 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:08:02,230 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:08:02,231 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:08:02,231 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:08:02,231 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:08:02,232 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:08:02,232 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 271 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-24 00:08:02,242] [main] java.version = 1.8.0_342 [testng] 00:08:02,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:08:02,245 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:02,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-24_00-08-02.log] [testng] 00:08:02,297 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-24 00:08:02,300] [main] testng.directory = /data [testng] [2024-12-24 00:08:02,300] [main] testng.configDirectory = /config [testng] [2024-12-24 00:08:02,311] [main] testng.multiplier = 1.0 [testng] [2024-12-24 00:08:02,312] [main] testng.in-memory = false [testng] [2024-12-24 00:08:02,312] [main] testng.allow-missing = false [testng] [2024-12-24 00:08:02,312] [main] user.language = en [testng] [2024-12-24 00:08:02,312] [main] user.country = ${user.country} [testng] [2024-12-24 00:08:02,312] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-24 00:08:03,132] [main] ---------------------------------------- [testng] [2024-12-24 00:08:03,132] [main] Total files: 36 [testng] [2024-12-24 00:08:03,133] [main] Scan time: 0.82 s (22 ms/file) [testng] [2024-12-24 00:08:03,133] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 35 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-24 00:08:04,880] [pool-1-thread-1] Initializing /data/generated/mri-stack10.pcx: [testng] 00:08:04,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:08:04,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-24_00-08-04.log] [testng] 00:08:04,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@440c6a28 - End of configuration. [testng] [2024-12-24 00:08:04,927] [pool-1-thread-12] Initializing /data/josh/Screenshots/deltavision.pcx: [testng] 00:08:04,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:08:04,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,928 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-24_00-08-04.log] [testng] 00:08:04,928 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f5cef8b - End of configuration. [testng] [2024-12-24 00:08:04,947] [pool-1-thread-11] Initializing /data/generated/mri-stack14.pcx: [testng] 00:08:04,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:08:04,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,948 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-24_00-08-04.log] [testng] 00:08:04,948 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75d2a5de - End of configuration. [testng] [2024-12-24 00:08:04,961] [pool-1-thread-10] Initializing /data/generated/mri-stack26.pcx: [testng] 00:08:04,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:08:04,961 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,962 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-24_00-08-04.log] [testng] 00:08:04,962 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7318d48f - End of configuration. [testng] [2024-12-24 00:08:04,976] [pool-1-thread-9] Initializing /data/generated/mri-stack4.pcx: [testng] 00:08:04,976 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:08:04,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,977 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-24_00-08-04.log] [testng] 00:08:04,977 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1118801a - End of configuration. [testng] [2024-12-24 00:08:04,990] [pool-1-thread-8] Initializing /data/generated/mri-stack0.pcx: [testng] 00:08:04,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:08:04,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:04,991 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-24_00-08-04.log] [testng] 00:08:04,991 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34d15fa3 - End of configuration. [testng] [2024-12-24 00:08:05,005] [pool-1-thread-7] Initializing /data/josh/Screenshots/leica-lif.pcx: [testng] 00:08:05,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:08:05,005 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,005 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-24_00-08-05.log] [testng] 00:08:05,006 |-INFO in ch.qos.logback.core.sift.SiftProcessor@795da992 - End of configuration. [testng] [2024-12-24 00:08:05,018] [pool-1-thread-6] Initializing /data/generated/mri-stack25.pcx: [testng] 00:08:05,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:08:05,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,019 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-24_00-08-05.log] [testng] 00:08:05,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5235277 - End of configuration. [testng] [2024-12-24 00:08:05,032] [pool-1-thread-5] Initializing /data/generated/mri-stack12.pcx: [testng] 00:08:05,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:08:05,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-24_00-08-05.log] [testng] 00:08:05,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3176f977 - End of configuration. [testng] [2024-12-24 00:08:05,047] [pool-1-thread-4] Initializing /data/generated/mri-stack17.pcx: [testng] 00:08:05,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:08:05,047 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,048 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-24_00-08-05.log] [testng] 00:08:05,049 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74c8119f - End of configuration. [testng] [2024-12-24 00:08:05,060] [pool-1-thread-3] Initializing /data/generated/mri-stack15.pcx: [testng] 00:08:05,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:08:05,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,060 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-24_00-08-05.log] [testng] 00:08:05,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@184bf2e3 - End of configuration. [testng] [2024-12-24 00:08:05,073] [pool-1-thread-2] Initializing /data/generated/mri-stack5.pcx: [testng] 00:08:05,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:08:05,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:08:05,074 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-24_00-08-05.log] [testng] 00:08:05,074 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f31517f - End of configuration. [testng] [2024-12-24 00:08:07,665] [pool-1-thread-3] Initializing /data/generated/mri-stack20.pcx: [testng] [2024-12-24 00:08:07,675] [pool-1-thread-8] Initializing /data/generated/mri-stack16.pcx: [testng] [2024-12-24 00:08:07,683] [pool-1-thread-10] Initializing /data/josh/Screenshots/epscolor.pcx: [testng] [2024-12-24 00:08:07,696] [pool-1-thread-7] Initializing /data/generated/mri-stack13.pcx: [testng] [2024-12-24 00:08:07,704] [pool-1-thread-5] Initializing /data/josh/Screenshots/fv1000color.pcx: [testng] [2024-12-24 00:08:07,728] [pool-1-thread-2] Initializing /data/josh/Screenshots/slidebooksamezposition.pcx: [testng] [2024-12-24 00:08:07,740] [pool-1-thread-6] Initializing /data/generated/mri-stack21.pcx: [testng] [2024-12-24 00:08:07,764] [pool-1-thread-12] Initializing /data/generated/mri-stack19.pcx: [testng] [2024-12-24 00:08:07,789] [pool-1-thread-11] Initializing /data/josh/Screenshots/nd2 color.pcx: [testng] [2024-12-24 00:08:07,812] [pool-1-thread-9] Initializing /data/generated/mri-stack8.pcx: [testng] [2024-12-24 00:08:07,833] [pool-1-thread-1] Initializing /data/generated/mri-stack7.pcx: [testng] [2024-12-24 00:08:07,858] [pool-1-thread-4] Initializing /data/generated/mri-stack24.pcx: [testng] [2024-12-24 00:08:08,970] [pool-1-thread-7] Initializing /data/generated/mri-stack18.pcx: [testng] [2024-12-24 00:08:08,989] [pool-1-thread-9] Initializing /data/generated/mri-stack22.pcx: [testng] [2024-12-24 00:08:08,996] [pool-1-thread-12] Initializing /data/generated/mri-stack2.pcx: [testng] [2024-12-24 00:08:09,014] [pool-1-thread-8] Initializing /data/generated/mri-stack23.pcx: [testng] [2024-12-24 00:08:09,027] [pool-1-thread-6] Initializing /data/generated/mri-stack6.pcx: [testng] [2024-12-24 00:08:09,037] [pool-1-thread-3] Initializing /data/generated/mri-stack9.pcx: [testng] [2024-12-24 00:08:09,045] [pool-1-thread-1] Initializing /data/generated/mri-stack3.pcx: [testng] [2024-12-24 00:08:09,068] [pool-1-thread-4] Initializing /data/generated/mri-stack11.pcx: [testng] [2024-12-24 00:08:09,388] [pool-1-thread-10] Initializing /data/generated/mri-stack1.pcx: [testng] [2024-12-24 00:08:09,517] [pool-1-thread-5] Initializing /data/josh/Screenshots/Metamorph image-stack.pcx: [testng] [2024-12-24 00:08:09,607] [pool-1-thread-2] Initializing /data/josh/Screenshots/biorad color off.pcx: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1855, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 18 seconds Finished: SUCCESS