SDAP-1 Import all code under the SDAP SGA
Project: http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/repo Commit: http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/commit/7b76fa16 Tree: http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/tree/7b76fa16 Diff: http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/diff/7b76fa16 Branch: refs/heads/master Commit: 7b76fa16848fed24ba3a10abb53049de0985d84f Parents: Author: Lewis John McGibbney <[email protected]> Authored: Fri Oct 27 15:34:34 2017 -0700 Committer: Lewis John McGibbney <[email protected]> Committed: Fri Oct 27 15:34:34 2017 -0700 ---------------------------------------------------------------------- LICENSE-2.0.txt | 202 ++ README.md | 141 ++ codecov.yml | 27 + core/.classpath | 224 ++ .../Maven_Ant_Builder.launch | 25 + core/.project | 36 + core/.settings/org.eclipse.core.resources.prefs | 4 + core/.settings/org.eclipse.jdt.core.prefs | 8 + core/.settings/org.eclipse.m2e.core.prefs | 4 + 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.../recommendation/structure/RecomData.java | 196 ++ .../recommendation/structure/package-info.java | 17 + .../nasa/jpl/mudrod/semantics/SVDAnalyzer.java | 72 + .../jpl/mudrod/semantics/SemanticAnalyzer.java | 148 ++ .../nasa/jpl/mudrod/semantics/package-info.java | 18 + .../jpl/mudrod/ssearch/ClickstreamImporter.java | 114 + .../gov/nasa/jpl/mudrod/ssearch/Dispatcher.java | 128 + .../gov/nasa/jpl/mudrod/ssearch/Ranker.java | 192 ++ .../gov/nasa/jpl/mudrod/ssearch/Searcher.java | 282 +++ .../nasa/jpl/mudrod/ssearch/package-info.java | 18 + .../mudrod/ssearch/ranking/DataGenerator.java | 313 +++ .../jpl/mudrod/ssearch/ranking/Evaluator.java | 145 ++ .../jpl/mudrod/ssearch/ranking/Learner.java | 60 + .../mudrod/ssearch/ranking/SparkFormatter.java | 55 + .../jpl/mudrod/ssearch/ranking/SparkSVM.java | 49 + .../ssearch/ranking/TrainingImporter.java | 91 + .../mudrod/ssearch/ranking/package-info.java | 18 + .../jpl/mudrod/ssearch/structure/SResult.java | 183 ++ 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| 5 + docker/run_services.sh | 17 + eclipse-codeformat.xml | 773 ++++++ pom.xml | 556 ++++ service/.classpath | 230 ++ service/.project | 31 + service/.settings/.jsdtscope | 13 + .../.settings/org.eclipse.core.resources.prefs | 4 + service/.settings/org.eclipse.jdt.core.prefs | 8 + service/.settings/org.eclipse.m2e.core.prefs | 4 + .../.settings/org.eclipse.wst.common.component | 16 + ...ipse.wst.common.project.facet.core.prefs.xml | 7 + ...rg.eclipse.wst.common.project.facet.core.xml | 8 + .../org.eclipse.wst.jsdt.ui.superType.container | 1 + .../org.eclipse.wst.jsdt.ui.superType.name | 1 + .../.settings/org.eclipse.wst.validation.prefs | 2 + service/lib/all-1.1.2.pom | 102 + service/lib/apache-jena-libs-3.1.0.pom | 51 + service/mudrod_service.log | 83 + service/mudrod_service.log.2016-10-13 | 1064 ++++++++ service/pom.xml | 258 ++ .../main/assembly/LICENSE-server-embedded.txt | 219 ++ service/src/main/assembly/LICENSE-with-deps.txt | 217 ++ 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Ensure you have Elasticsearch running locally and that the configuration in [config.xml](https://github.com/mudrod/mudrod/blob/master/core/src/main/resources/config.xml) reflects your ES cluster. +2. Update the `svmSgdModel` configuration option in [config.xml](https://github.com/mudrod/mudrod/blob/master/core/src/main/resources/config.xml). There is a line in config.xml that looks like + ``` + <para name="svmSgdModel">file://YOUNEEDTOCHANGETHIS</para> + ``` + It needs to be changed to an absolute filepath on your system. For example: + ``` + <para name="svmSgdModel">file:///Users/user/githubprojects/mudrod/core/src/main/resources/javaSVMWithSGDModel</para> + ``` +3. (Optional) Depending on your computer's configuration you might run into an error when starting the application: `âService 'sparkDriver' could not bind on port 0â`. The easiest [fix](http://stackoverflow.com/q/29906686/953327) is to export the environment variable `SPARK_LOCAL_IP=127.0.0.1 ` and then start the service. + +``` +$ git clone https://github.com/mudrod/mudrod.git +$ cd mudrod +$ mvn clean install +$ cd service +$ mvn tomcat7:run +``` +You will now be able to access the Mudrod Web Application at [http://localhost:8080/mudrod-service](http://localhost:8080/mudrod-service). **N.B.** The service should not be run this way in production. + +# Documentation + +In another window... +``` +$ cd mudrod +$ ./core/target/appassembler/bin/mudrod-engine -h +usage: MudrodEngine: 'logDir' argument is mandatory. User must also + provide an ingest method. [-a] [-esHost <host_name>] [-esPort + <port_num>] [-esTCPPort <port_num>] [-f] [-h] [-l] -logDir + </path/to/log/directory> [-p] [-s] [-v] + -a,--addSimFromMetadataAndOnto begin adding + metadata and + ontology results + -esHost,--elasticSearchHost <host_name> elasticsearch + cluster unicast + host + -esPort,--elasticSearchHTTPPort <port_num> elasticsearch + HTTP/REST port + -esTCPPort,--elasticSearchTransportTCPPort <port_num> elasticsearch + transport TCP + port + -f,--fullIngest begin full ingest + Mudrod workflow + -h,--help show this help + message + -l,--logIngest begin log ingest + without any + processing only + -logDir,--logDirectory </path/to/log/directory> the log directory + to be processed + by Mudrod + -p,--processingWithPreResults begin processing + with + preprocessing + results + -s,--sessionReconstruction begin session + reconstruction + -v,--vocabSimFromLog begin similarity + calulation from + web log Mudrod + workflow +``` + +## Deploying to Apache Tomcat (or any other Servlet container) +Once you have built the codebase as above, merely copy the genrated .war artifact to the servlet deployment directory. In Tomcat (for example), this would look as follows +``` +$ cp mudrod/service/target/mudrod-service-${version}-SNAPSHOT.war $CATALINA_HOME/webapps/ +``` +Once Tomcat hot deploys the .war artifact, you will be able to browse to the running application similar to what is shown above [http://localhost:8080/mudrod-service](http://localhost:8080/mudrod-service) + +# Publications +* Jiang, Y., Li, Y., Yang, C., Liu, K., Armstrong, E.M., Huang, T., Moroni, D.F. and Finch, C.J., 2017. [A comprehensive methodology for discovering semantic relationships among geospatial vocabularies using oceanographic data discovery as an example](http://www.tandfonline.com/eprint/JgGYJBk4mhdt5NFjEx8f/full). International Journal of Geographical Information Science, pp.1-19. +* Jiang, Y., Y. Li, C. Yang, K. Liu, E. M. Armstrong, T. Huang, D. Moroni & L. Mcgibbney (2016) Towards intelligent geospatial discovery: a machine learning ranking framework (Accepted). International Journal of Digital Earth +* Jiang, Y., Y. Li, C. Yang, E. M. Armstrong, T. Huang & D. Moroni (2016) [Reconstructing Sessions from Data Discovery and Access Logs to Build a Semantic Knowledge Base for Improving Data Discovery](http://www.mdpi.com/2220-9964/5/5/54#stats ). ISPRS International Journal of Geo-Information, 5, 54. +* Y. Li, Jiang, Y., C. Yang, K. Liu, E. M. Armstrong, T. Huang & D. Moroni (2016) Leverage cloud computing to improve data access log mining. IEEE Oceans 2016. + +## Mudrod Wiki + +https://github.com/mudrod/mudrod/wiki + +## Java API Documentation + +``` +$ mvn javadoc:aggregate +$ open target/site/apidocs/index.html +``` + +## REST API Documentation + +``` +$ mvn clean install +$ open service/target/miredot/index.html +``` +The REST API documentation can also be seen at [https://mudrod.github.io/miredot](https://mudrod.github.io/miredot). + +# Team members: + + * Chaowei (Phil) Yang - [NSF Spatiotemporal Innovation Center](http://stcenter.net/), George Mason University + * [Yongyao Jiang](https://www.linkedin.com/in/yongyao-jiang-42516164) - [NSF Spatiotemporal Innovation Center](http://stcenter.net/), George Mason University + * Yun Li - [NSF Spatiotemporal Innovation Center](http://stcenter.net/), George Mason University + * Edward M Armstrong - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + * Thomas Huang - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + * David Moroni - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + * Chris Finch - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + * [Lewis John Mcgibbney](https://www.linkedin.com/in/lmcgibbney) - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + * [Frank Greguska](https://www.linkedin.com/in/frankgreguska/) - [Jet Propulsion Laboratory](http://www.jpl.nasa.gov/), [NASA](http://www.nasa.gov) + +# License +This source code is licensed under the [Apache License v2.0](http://www.apache.org/licenses/LICENSE-2.0), a +copy of which is shipped with this project. http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/codecov.yml ---------------------------------------------------------------------- diff --git a/codecov.yml b/codecov.yml new file mode 100644 index 0000000..e77a686 --- /dev/null +++ b/codecov.yml @@ -0,0 +1,27 @@ +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 Unless +# +# required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" +# BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either +# express or implied. See the License for the specific language +# governing permissions and limitations under the License. + +coverage: + precision: 2 + round: down + range: "70...100" + + status: + project: yes + + patch: yes + + changes: yes + +comment: + layout: "header, diff, changes" + behavior: default http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.classpath ---------------------------------------------------------------------- diff --git a/core/.classpath b/core/.classpath new file mode 100644 index 0000000..ac5dfed --- /dev/null +++ b/core/.classpath @@ -0,0 +1,224 @@ +<?xml version="1.0" encoding="UTF-8"?> +<classpath> + <classpathentry kind="src" path="src/test/java" output="target/test-classes" including="**/*.java"/> + <classpathentry kind="src" path="src/main/java" including="**/*.java"/> + <classpathentry kind="src" path="src/main/resources" excluding="javaSVMWithSGDModel/**|**/*.java"/> + <classpathentry kind="src" path="target" 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at end of file http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.externalToolBuilders/Maven_Ant_Builder.launch ---------------------------------------------------------------------- diff --git a/core/.externalToolBuilders/Maven_Ant_Builder.launch b/core/.externalToolBuilders/Maven_Ant_Builder.launch new file mode 100644 index 0000000..960f867 --- /dev/null +++ b/core/.externalToolBuilders/Maven_Ant_Builder.launch @@ -0,0 +1,25 @@ +<?xml version="1.0" encoding="UTF-8"?> +<launchConfiguration type="org.eclipse.ant.AntBuilderLaunchConfigurationType"> + <booleanAttribute key="org.eclipse.debug.ui.ATTR_LAUNCH_IN_BACKGROUND" value="false"/> + <stringAttribute key="org.eclipse.ui.externaltools.ATTR_RUN_BUILD_KINDS" value="full,incremental,auto,clean"/> + <booleanAttribute key="org.eclipse.ui.externaltools.ATTR_TRIGGERS_CONFIGURED" value="true"/> + <booleanAttribute key="org.eclipse.debug.core.appendEnvironmentVariables" value="true"/> + <stringAttribute 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value="org.eclipse.ant.ui.remoteAntProcessFactory"/> + <booleanAttribute key="org.eclipse.ant.ui.DEFAULT_VM_INSTALL" value="false"/> + <booleanAttribute key="org.eclipse.debug.ui.ATTR_CONSOLE_OUTPUT_ON" value="false"/> + <booleanAttribute key="org.eclipse.ant.ui.ATTR_TARGETS_UPDATED" value="true"/> + <stringAttribute key="org.eclipse.jdt.launching.CLASSPATH_PROVIDER" value="org.eclipse.ant.ui.AntClasspathProvider"/> + <listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_TYPES"> + <listEntry value="1"/> + </listAttribute> + <listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_PATHS"> + <listEntry value="/mudrod-core/maven-eclipse.xml"/> + </listAttribute> +</launchConfiguration> \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.project ---------------------------------------------------------------------- diff --git a/core/.project b/core/.project new file mode 100644 index 0000000..540ea77 --- /dev/null +++ b/core/.project @@ -0,0 +1,36 @@ +<?xml version="1.0" encoding="UTF-8"?> +<projectDescription> + <name>mudrod-core</name> + <comment>Core Mudrod library implementation. NO_M2ECLIPSE_SUPPORT: Project files created with the maven-eclipse-plugin are not supported in M2Eclipse.</comment> + <projects/> + <buildSpec> + <buildCommand> + <name>org.eclipse.wst.common.project.facet.core.builder</name> + </buildCommand> + <buildCommand> + <name>org.eclipse.jdt.core.javabuilder</name> + </buildCommand> + <buildCommand> + <name>org.eclipse.ui.externaltools.ExternalToolBuilder</name> + <arguments> + <dictionary> + <key>LaunchConfigHandle</key> + <value><project>/.externalToolBuilders/Maven_Ant_Builder.launch</value> + </dictionary> + </arguments> + </buildCommand> + <buildCommand> + <name>org.eclipse.m2e.core.maven2Builder</name> + </buildCommand> + <buildCommand> + <name>org.eclipse.wst.validation.validationbuilder</name> + </buildCommand> + </buildSpec> + <natures> + <nature>org.eclipse.jem.workbench.JavaEMFNature</nature> + <nature>org.eclipse.wst.common.modulecore.ModuleCoreNature</nature> + <nature>org.eclipse.m2e.core.maven2Nature</nature> + <nature>org.eclipse.jdt.core.javanature</nature> + <nature>org.eclipse.wst.common.project.facet.core.nature</nature> + </natures> +</projectDescription> \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.settings/org.eclipse.core.resources.prefs ---------------------------------------------------------------------- diff --git a/core/.settings/org.eclipse.core.resources.prefs b/core/.settings/org.eclipse.core.resources.prefs new file mode 100644 index 0000000..abdea9a --- /dev/null +++ b/core/.settings/org.eclipse.core.resources.prefs @@ -0,0 +1,4 @@ +eclipse.preferences.version=1 +encoding//src/main/java=UTF-8 +encoding//src/main/resources=UTF-8 +encoding/<project>=UTF-8 http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.settings/org.eclipse.jdt.core.prefs ---------------------------------------------------------------------- diff --git a/core/.settings/org.eclipse.jdt.core.prefs b/core/.settings/org.eclipse.jdt.core.prefs new file mode 100644 index 0000000..6e80039 --- /dev/null +++ b/core/.settings/org.eclipse.jdt.core.prefs @@ -0,0 +1,8 @@ +eclipse.preferences.version=1 +org.eclipse.jdt.core.compiler.codegen.inlineJsrBytecode=enabled +org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.8 +org.eclipse.jdt.core.compiler.compliance=1.8 +org.eclipse.jdt.core.compiler.problem.assertIdentifier=error +org.eclipse.jdt.core.compiler.problem.enumIdentifier=error +org.eclipse.jdt.core.compiler.problem.forbiddenReference=warning +org.eclipse.jdt.core.compiler.source=1.8 http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.settings/org.eclipse.m2e.core.prefs ---------------------------------------------------------------------- diff --git a/core/.settings/org.eclipse.m2e.core.prefs b/core/.settings/org.eclipse.m2e.core.prefs new file mode 100644 index 0000000..f897a7f --- /dev/null +++ b/core/.settings/org.eclipse.m2e.core.prefs @@ -0,0 +1,4 @@ +activeProfiles= +eclipse.preferences.version=1 +resolveWorkspaceProjects=true +version=1 http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.settings/org.eclipse.wst.common.component ---------------------------------------------------------------------- diff --git a/core/.settings/org.eclipse.wst.common.component b/core/.settings/org.eclipse.wst.common.component new file mode 100644 index 0000000..64b0918 --- /dev/null +++ b/core/.settings/org.eclipse.wst.common.component @@ -0,0 +1,8 @@ +<?xml version="1.0" encoding="UTF-8"?><project-modules id="moduleCoreId" project-version="1.5.0"> + <wb-module deploy-name="mudrod-core"> + <wb-resource deploy-path="/" source-path="/src/main/java"/> + <wb-resource deploy-path="/" source-path="/src/main/resources"/> + <wb-resource deploy-path="/" source-path="/target"/> + <wb-resource deploy-path="/" source-path="/local/mudrod"/> + </wb-module> +</project-modules> http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/.settings/org.eclipse.wst.common.project.facet.core.xml ---------------------------------------------------------------------- diff --git a/core/.settings/org.eclipse.wst.common.project.facet.core.xml b/core/.settings/org.eclipse.wst.common.project.facet.core.xml new file mode 100644 index 0000000..fb95c45 --- /dev/null +++ b/core/.settings/org.eclipse.wst.common.project.facet.core.xml @@ -0,0 +1,5 @@ +<?xml version="1.0" encoding="UTF-8"?> +<faceted-project> + <installed facet="java" version="1.8"/> + <installed facet="jst.utility" version="1.0"/> +</faceted-project> http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/lib/all-1.1.2.pom ---------------------------------------------------------------------- diff --git a/core/lib/all-1.1.2.pom b/core/lib/all-1.1.2.pom new file mode 100644 index 0000000..577dd32 --- /dev/null +++ b/core/lib/all-1.1.2.pom @@ -0,0 +1,102 @@ +<?xml version="1.0" encoding="UTF-8"?> +<project xmlns="http://maven.apache.org/POM/4.0.0"; + xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"; + xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd";> + <modelVersion>4.0.0</modelVersion> + + <parent> + <groupId>com.github.fommil.netlib</groupId> + <artifactId>parent</artifactId> + <version>1.1</version> + </parent> + + <artifactId>all</artifactId> + <packaging>pom</packaging> + <version>1.1.2</version> + + <dependencies> + <dependency> + <!-- WORKAROUND: https://github.com/sbt/sbt/issues/861 --> + <groupId>net.sourceforge.f2j</groupId> + <artifactId>arpack_combined_all</artifactId> + <version>0.1</version> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>core</artifactId> + <version>1.1.2</version> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-osx-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-linux-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-linux-i686</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-win-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-win-i686</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_ref-linux-armhf</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-osx-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-linux-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-linux-i686</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-linux-armhf</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-win-x86_64</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + <dependency> + <groupId>${project.parent.groupId}</groupId> + <artifactId>netlib-native_system-win-i686</artifactId> + <version>${project.parent.version}</version> + <classifier>natives</classifier> + </dependency> + </dependencies> +</project> http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/lib/apache-jena-libs-3.1.0.pom ---------------------------------------------------------------------- diff --git a/core/lib/apache-jena-libs-3.1.0.pom b/core/lib/apache-jena-libs-3.1.0.pom new file mode 100644 index 0000000..3fdb874 --- /dev/null +++ b/core/lib/apache-jena-libs-3.1.0.pom @@ -0,0 +1,51 @@ +<?xml version="1.0" encoding="utf-8"?> +<!-- Licensed to the Apache Software Foundation (ASF) under one or more contributor + license agreements. See the NOTICE file distributed with this work for additional + information regarding copyright ownership. The ASF licenses this file to + You under the Apache License, Version 2.0 (the "License"); you may not use + this file except in compliance with the License. You may obtain a copy of + the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required + by applicable law or agreed to in writing, software distributed under the + License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS + OF ANY KIND, either express or implied. See the License for the specific + language governing permissions and limitations under the License. --> + +<project xmlns="http://maven.apache.org/POM/4.0.0"; xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"; xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd";> + <modelVersion>4.0.0</modelVersion> + <artifactId>apache-jena-libs</artifactId> + <packaging>pom</packaging> + <name>Apache Jena - Libraries POM</name> + <version>3.1.0</version> + + <parent> + <groupId>org.apache.jena</groupId> + <artifactId>jena-parent</artifactId> + <version>16</version> + <relativePath>../jena-parent</relativePath> + </parent> + + <!-- Need if the parent is a snapshot --> + <repositories> + <repository> + <id>apache.snapshots</id> + <name>Apache Snapshot Repository</name> + <url>http://repository.apache.org/snapshots</url> + <releases> + <enabled>false</enabled> + </releases> + </repository> + </repositories> + + <description>A convenience POM artifact that may be referenced to pull in all the standard Jena Libraries (Core, ARQ, IRI, and TDB) with a single dependency.</description> + + <dependencies> + + <dependency> + <groupId>org.apache.jena</groupId> + <artifactId>jena-tdb</artifactId> + <version>3.1.0</version> + </dependency> + + </dependencies> + +</project> http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/maven-eclipse.xml ---------------------------------------------------------------------- diff --git a/core/maven-eclipse.xml b/core/maven-eclipse.xml new file mode 100644 index 0000000..427ace4 --- /dev/null +++ b/core/maven-eclipse.xml @@ -0,0 +1,8 @@ +<project default="copy-resources"> + <target name="init"/> + <target name="copy-resources" depends="init"> + <copy todir="target/classes/META-INF" filtering="false"> + <fileset dir="/usr/local/mudrod" includes="LICENSE.txt|NOTICE.txt" excludes="**/*.java"/> + </copy> + </target> +</project> \ No newline at end of file http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/mudrod.log ---------------------------------------------------------------------- diff --git a/core/mudrod.log b/core/mudrod.log new file mode 100644 index 0000000..8374b97 --- /dev/null +++ b/core/mudrod.log @@ -0,0 +1,81 @@ +2017-10-03 13:56:28,310 INFO process.LocalOntology - Creating new ontology +2017-10-03 13:56:29,221 WARN impl.RDFDefaultErrorHandler - unknown-source: {W136} Relative URIs are not permitted in RDF: specifically <ont-policy.rdf> +2017-10-03 13:56:29,309 INFO process.LocalOntology - Reading and processing https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl +2017-10-03 13:56:29,668 ERROR process.LocalOntology - Failed whilst attempting to read ontology https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl: Error: +org.apache.jena.shared.DoesNotExistException: https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl + at org.apache.jena.rdfxml.xmlinput.JenaReader.read(JenaReader.java:97) + at org.apache.jena.rdf.model.impl.ModelCom.read(ModelCom.java:263) + at org.apache.jena.ontology.impl.OntModelImpl.readDelegate(OntModelImpl.java:3090) + at org.apache.jena.ontology.impl.OntModelImpl.read(OntModelImpl.java:2182) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:133) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:126) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:111) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.<init>(LocalOntology.java:74) + at gov.nasa.jpl.mudrod.ontology.process.TestLocalOntology.setUp(TestLocalOntology.java:53) + at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) + at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) + at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) + at java.lang.reflect.Method.invoke(Method.java:498) + at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:50) + at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) + at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:47) + at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24) + at org.junit.internal.runners.statements.RunAfters.evaluate(RunAfters.java:27) + at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:325) + at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:78) + at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:57) + at org.junit.runners.ParentRunner$3.run(ParentRunner.java:290) + at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:71) + at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:288) + at org.junit.runners.ParentRunner.access$000(ParentRunner.java:58) + at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:268) + at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26) + at org.junit.internal.runners.statements.RunAfters.evaluate(RunAfters.java:27) + at org.junit.runners.ParentRunner.run(ParentRunner.java:363) + at org.apache.maven.surefire.junit4.JUnit4Provider.execute(JUnit4Provider.java:367) + at org.apache.maven.surefire.junit4.JUnit4Provider.executeWithRerun(JUnit4Provider.java:274) + at org.apache.maven.surefire.junit4.JUnit4Provider.executeTestSet(JUnit4Provider.java:238) + at org.apache.maven.surefire.junit4.JUnit4Provider.invoke(JUnit4Provider.java:161) + at org.apache.maven.surefire.booter.ForkedBooter.invokeProviderInSameClassLoader(ForkedBooter.java:290) + at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:242) + at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:121) +2017-10-03 13:56:29,678 INFO process.LocalOntology - Creating new ontology +2017-10-03 13:56:29,678 INFO process.LocalOntology - Reading and processing https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl +2017-10-03 13:56:29,695 ERROR process.LocalOntology - Failed whilst attempting to read ontology https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl: Error: +org.apache.jena.shared.DoesNotExistException: https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl + at org.apache.jena.rdfxml.xmlinput.JenaReader.read(JenaReader.java:97) + at org.apache.jena.rdf.model.impl.ModelCom.read(ModelCom.java:263) + at org.apache.jena.ontology.impl.OntModelImpl.readDelegate(OntModelImpl.java:3090) + at org.apache.jena.ontology.impl.OntModelImpl.read(OntModelImpl.java:2182) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:133) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:126) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.load(LocalOntology.java:111) + at gov.nasa.jpl.mudrod.ontology.process.LocalOntology.<init>(LocalOntology.java:74) + at gov.nasa.jpl.mudrod.ontology.process.TestLocalOntology.setUp(TestLocalOntology.java:53) + at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) + at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) + at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) + at java.lang.reflect.Method.invoke(Method.java:498) + at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:50) + at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) + at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:47) + at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24) + at org.junit.internal.runners.statements.RunAfters.evaluate(RunAfters.java:27) + at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:325) + at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:78) + at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:57) + at org.junit.runners.ParentRunner$3.run(ParentRunner.java:290) + at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:71) + at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:288) + at org.junit.runners.ParentRunner.access$000(ParentRunner.java:58) + at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:268) + at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26) + at org.junit.internal.runners.statements.RunAfters.evaluate(RunAfters.java:27) + at org.junit.runners.ParentRunner.run(ParentRunner.java:363) + at org.apache.maven.surefire.junit4.JUnit4Provider.execute(JUnit4Provider.java:367) + at org.apache.maven.surefire.junit4.JUnit4Provider.executeWithRerun(JUnit4Provider.java:274) + at org.apache.maven.surefire.junit4.JUnit4Provider.executeTestSet(JUnit4Provider.java:238) + at org.apache.maven.surefire.junit4.JUnit4Provider.invoke(JUnit4Provider.java:161) + at org.apache.maven.surefire.booter.ForkedBooter.invokeProviderInSameClassLoader(ForkedBooter.java:290) + at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:242) + at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:121) http://git-wip-us.apache.org/repos/asf/incubator-sdap-mudrod/blob/7b76fa16/core/mudrod.log.2017-06-14 ---------------------------------------------------------------------- diff --git a/core/mudrod.log.2017-06-14 b/core/mudrod.log.2017-06-14 new file mode 100644 index 0000000..7bc924a --- /dev/null +++ b/core/mudrod.log.2017-06-14 @@ -0,0 +1,9 @@ +2017-06-14 10:01:56,775 INFO process.LocalOntology - Creating new ontology +2017-06-14 10:01:57,575 WARN impl.RDFDefaultErrorHandler - unknown-source: {W136} Relative URIs are not permitted in RDF: specifically <ont-policy.rdf> +2017-06-14 10:01:57,647 INFO process.LocalOntology - Reading and processing https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl +2017-06-14 10:02:04,930 WARN impl.RDFDefaultErrorHandler - https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/reprSciUnits.owl(line 683 column 44): {W105} Redefinition of ID: lux +2017-06-14 10:02:04,930 WARN impl.RDFDefaultErrorHandler - https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/reprSciUnits.owl(line 635 column 44): {W105} Previous definition of 'lux'. +2017-06-14 10:02:15,572 INFO process.LocalOntology - Successfully processed https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl +2017-06-14 10:02:18,889 INFO process.LocalOntology - Creating new ontology +2017-06-14 10:02:18,889 INFO process.LocalOntology - Reading and processing https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl +2017-06-14 10:02:18,898 INFO process.LocalOntology - Successfully processed https://raw.githubusercontent.com/ESIPFed/sweet/master/2.4/sweetAll.owl
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