* Gradleized project

* updated cp-common-utils
* updated cp-openrf-utils
* bumped rev

.gitignore

@@ -1,12 +1,11 @@
 .DS_Store
-core/lib
-jena/lib
-sesame/lib
 build
-dist
 out
-settings/ivy-cache
-settings/repo
 *.iml
+*.iws
+*.ipr
 .idea
 target
+
+gradle.properties
+.gradle

ACKNOWLEDGEMENTS.txt

@@ -7,9 +7,10 @@ Manuel Blechschmidt
 Ultan O'Carroll
 Laurent Bihanic
 Nicolas Delsaux
-Adri�n Quintana
+Adrian Quintana
 Davide Sottara
 Laurent Bihanic
+Fernando Hernandez
 
 Others who preferred not to be named: you know who you are.
 

CHANGES.txt

@@ -4,7 +4,7 @@ Change Log
 Empire 0.9 (TBD)
 =======================
 	* FIXED:    Resolved perm-gen leak (issue #86)
-	* MODIFIED: Upgraded to Sesame 2.7.12, Guava 17, CP Utils 3.1.1 & CP OpenRDF Utils 2.0.4
+	* MODIFIED: Upgraded to Sesame 2.7.14, Guava 18, CP Utils 4.0 & CP OpenRDF Utils 3.0
 
 Empire 0.8 (2013-09-30)
 =======================

build.gradle

@@ -0,0 +1,166 @@
+/*
+ * Copyright (c) 2009-2010 Clark & Parsia, LLC. <http://www.clarkparsia.com>
+ *
+ * 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.
+ */
+
+ if (!project.hasProperty('stardogRepo')) {
+	throw new InvalidUserDataException("Url to Stardog repository is not defined." +
+									   " Set up the property 'stardogRepo' in gradle.properties.")
+}
+
+apply plugin: 'java'
+apply plugin: 'idea'
+
+task wrapper(type: Wrapper) {
+	gradleVersion = '2.0'
+	distributionUrl = "http://services.gradle.org/distributions/gradle-${gradleVersion}-all.zip"
+}
+
+ext {
+	projectVersion		= "0.9.0"
+	projectDescription	= "JPA implementation for RDF"
+	projectUrl			= "https://github.com/mhgrove/Empire"
+}
+
+allprojects {
+	group = "com.clarkparsia.empire"
+	version = projectVersion
+	sourceCompatibility = '1.6'
+	targetCompatibility = '1.6'
+
+	repositories {
+		mavenCentral()
+		maven {
+			url stardogRepo
+			// todo: remove this once we go live
+			credentials {
+				username artifactoryUsername
+				password artifactoryPassword
+			}
+		}
+	}
+
+
+}
+
+subprojects {
+	apply plugin: "java"
+	apply plugin: "maven"
+
+	dependencies {
+		compile 'org.slf4j:slf4j-api:1.7.7'
+		compile 'org.slf4j:slf4j-jdk14:1.7.7'
+
+		testCompile 'junit:junit:4.8.2'
+	}
+
+	configurations {
+		// ignore 
+		compile.dependencies.all { dep ->
+			if (dep instanceof ExternalModuleDependency
+				&& (dep.group == 'org.openrdf.sesame' || dep.group == 'com.complexible.common')) {
+				dep.exclude group: "junit"
+			}
+		}
+	}
+
+	sourceSets {
+		main {
+			java {
+				srcDir 'main/src'
+			}
+			resources {
+				srcDir 'main/resources'
+			}
+		}
+		test {
+			java {
+				srcDir 'test/src'
+			}
+			resources {
+				srcDir 'test/resources'
+			}
+		}
+	}
+
+	// create a 'tests' conf for importing test classes from other sub-projects
+	task testJar(type: Jar, dependsOn: testClasses) {
+		classifier = 'tests'
+		from sourceSets.test.output
+	}
+
+	artifacts {
+		testRuntime testJar // include the tests of other subprojects
+	}
+
+	if (project.hasProperty('publishUrl')
+		&& project.hasProperty('artifactoryUser')
+		&& project.hasProperty('artifactoryPassword')) {
+
+		// this task is just so artifactory picks up the pom changes
+		task('uploadMvn', type: Upload) {
+			configuration = configurations.archives
+			repositories {
+				mavenDeployer {
+					repository(url: publishUrl)
+					pom.project {
+						name = archivesBaseName
+						packaging = 'jar'
+						description projectDescription
+						url  projectUrl
+					}
+
+					//mess with the generated pom to remove test dependencies from published artifacts
+					pom.withXml { XmlProvider xmlProvider ->
+						def xml = xmlProvider.asString()
+						def pomXml = new XmlParser().parse(new ByteArrayInputStream(xml.toString().bytes))
+
+						pomXml.dependencies.dependency.each { dep ->
+							if (dep.scope.text() != 'compile') {
+								def parent = dep.parent()
+								parent.remove(dep)
+							}
+						}
+
+						def newXml = new StringWriter()
+						def printer = new XmlNodePrinter(new PrintWriter(newXml))
+						printer.preserveWhitespace = true
+						printer.print(pomXml)
+						xml.setLength(0)
+						xml.append(newXml.toString())
+					}
+
+				}
+			}
+		}
+	}
+}
+
+evaluationDependsOnChildren()
+
+subprojects {
+	task javadocs(type: Javadoc) {
+		source sourceSets.main.allJava
+		classpath = configurations.compile
+		destinationDir = file("${rootProject.buildDir}/javadocs/${project.name}")
+		configure(options) {
+			windowTitle "${project.archivesBaseName}-${project.version} API"
+			docTitle "${project.archivesBaseName}-${project.version}"
+			bottom "Copyright &#169; 2010-2015 Complexible. All Rights Reserved."
+			links "http://docs.oracle.com/javase/6/docs/api/",
+				  "http://docs.guava-libraries.googlecode.com/git-history/v17.0/javadoc/"
+		}
+	}
+}
+
+

core/build.gradle

@@ -0,0 +1,58 @@
+/*
+ * Copyright (c) 2009-2010 Clark & Parsia, LLC. <http://www.clarkparsia.com>
+ *
+ * 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.
+ */
+
+dependencies {
+	// make sure to have the $JAVA_HOME env variable declared in your system
+	compile files("${System.properties['java.home']}/../lib/tools.jar")
+
+	compile "org.javassist:javassist:3.17.1-GA"
+    compile "org.ow2.spec.ee:ow2-jpa-1.0-spec:1.0.12"
+
+    compile "com.complexible.common:cp-common-utils:4.0"
+
+	compile "com.complexible.common:cp-openrdf-utils:3.0"
+
+	compile "commons-dbcp:commons-dbcp:1.3"
+
+	compile ("com.google.guava:guava:18.0") {
+		exclude group: "com.google.code.findbugs"
+	}
+
+	compile ("org.openrdf.sesame:sesame-runtime:2.7.12") {
+		exclude group: "org.slf4j"
+	}
+	compile ("org.openrdf.sesame:sesame-queryrender:2.7.12") {
+		exclude group: "org.slf4j"
+	}
+	compile ("org.openrdf.sesame:sesame-queryparser-serql:2.7.12") {
+		exclude group: "org.slf4j"
+	}
+
+	// Guice and related
+	compile "com.google.inject:guice:3.0"
+	compile "com.google.inject.extensions:guice-multibindings:3.0"
+	compile "com.google.inject.extensions:guice-assistedinject:3.0"
+	compile "com.google.inject.extensions:guice-throwingproviders:3.0"
+	compile "aopalliance:aopalliance:1.0"
+}
+
+test {
+	workingDir = projectDir
+//	debug = true // for attaching the IDE to the gradle cli
+
+	// set JVM arguments for the test JVM(s)
+	jvmArgs '-XX:MaxPermSize=256m', '-enableassertions'
+	include"**/TestEmpireCore.class"
+}

core/main/src/com/clarkparsia/empire/codegen/BeanGenerator.java

@@ -15,6 +15,7 @@
 
 package com.clarkparsia.empire.codegen;
 
+import com.clarkparsia.empire.util.Repositories2;
 import com.complexible.common.collect.Iterables2;
 import com.complexible.common.collect.Iterators2;
 import com.complexible.common.openrdf.model.Statements;
@@ -438,7 +439,7 @@ private static String className(Resource theClass) {
 	public static void generateSourceFiles(String thePackageName, URL theOntology, RDFFormat theFormat, File theDirToSave) throws Exception {
 		NAMES_TO_COUNT.clear();
 
-		Repository aRepository = Repositories.createInMemoryRepo();
+		Repository aRepository = Repositories2.createInMemoryRepo();
 
 		Repositories.add(aRepository, theOntology.openStream(), theFormat);
 

core/main/src/com/clarkparsia/empire/util/Repositories2.java

@@ -0,0 +1,37 @@
+package com.clarkparsia.empire.util;
+
+import org.openrdf.repository.Repository;
+import org.openrdf.repository.RepositoryException;
+import org.openrdf.repository.sail.SailRepository;
+import org.openrdf.sail.memory.MemoryStore;
+
+/**
+ * @author  Fernando Hernandez
+ * @since   0.8.7
+ * @version 0.8.7
+ */
+public class Repositories2 {
+
+	private Repositories2() {
+		throw new AssertionError();
+	}
+
+	/**
+	 * Create a simple in-memory {@link Repository} which is already initialized
+	 *
+	 * @return an in memory Repository
+	 */
+	public static Repository createInMemoryRepo() {
+		try {
+			Repository aRepo = new SailRepository(new MemoryStore());
+
+			aRepo.initialize();
+
+			return aRepo;
+		}
+		catch (RepositoryException e) {
+			// impossible?
+			throw new AssertionError(e);
+		}
+	}
+}