Move clust4j from helpers to com package

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/Clust4j.java → src/main/java/com/clust4j/Clust4j.java

@@ -13,7 +13,7 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j;
+package com.clust4j;
 
 import java.io.FileInputStream;
 import java.io.FileOutputStream;

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/GlobalState.java → src/main/java/com/clust4j/GlobalState.java

@@ -13,7 +13,7 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j;
+package com.clust4j;
 
 import java.util.Random;
 import java.util.concurrent.ForkJoinPool;

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/NamedEntity.java → src/main/java/com/clust4j/NamedEntity.java

@@ -13,9 +13,9 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j;
+package com.clust4j;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Loggable;
+import com.clust4j.log.Loggable;
 
 /**
  * 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractAutonomousClusterer.java → src/main/java/com/clust4j/algo/AbstractAutonomousClusterer.java

@@ -13,10 +13,10 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.SupervisedMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.UnsupervisedMetric;
+import com.clust4j.metrics.scoring.SupervisedMetric;
+import com.clust4j.metrics.scoring.UnsupervisedMetric;
 import org.apache.commons.math3.linear.RealMatrix;
 
 public abstract class AbstractAutonomousClusterer extends AbstractClusterer implements UnsupervisedClassifier {

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractCentroidClusterer.java → src/main/java/com/clust4j/algo/AbstractCentroidClusterer.java

@@ -13,25 +13,25 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.ArrayList;
 import java.util.HashSet;
 import java.util.Random;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.NamedEntity;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.kernel.Kernel;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.Distance;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.SupervisedMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.UnsupervisedMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.MatUtils;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.VecUtils;
+import com.clust4j.utils.MatUtils;
+import com.clust4j.utils.VecUtils;
+import com.clust4j.NamedEntity;
+import com.clust4j.kernel.Kernel;
+import com.clust4j.metrics.pairwise.Distance;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
+import com.clust4j.metrics.scoring.SupervisedMetric;
+import com.clust4j.metrics.scoring.UnsupervisedMetric;
 import org.apache.commons.math3.exception.DimensionMismatchException;
 import org.apache.commons.math3.linear.RealMatrix;
 import org.apache.commons.math3.util.FastMath;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.LogTimer;
+import com.clust4j.log.LogTimer;
 
 public abstract class AbstractCentroidClusterer extends AbstractPartitionalClusterer 
 		implements CentroidLearner, Convergeable, UnsupervisedClassifier {

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractClusterer.java → src/main/java/com/clust4j/algo/AbstractClusterer.java

@@ -14,7 +14,7 @@
  *    limitations under the License.
  *******************************************************************************/
 
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.ArrayList;
 import java.util.Collection;
@@ -22,25 +22,25 @@ import java.util.HashSet;
 import java.util.Random;
 import java.util.UUID;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.GlobalState;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.NamedEntity;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.except.ModelNotFitException;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.except.NaNException;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.kernel.Kernel;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Log;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Loggable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.Distance;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.DistanceMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.SimilarityMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.MatUtils;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.TableFormatter;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.VecUtils;
+import com.clust4j.except.ModelNotFitException;
+import com.clust4j.except.NaNException;
+import com.clust4j.utils.MatUtils;
+import com.clust4j.utils.TableFormatter;
+import com.clust4j.utils.VecUtils;
+import com.clust4j.GlobalState;
+import com.clust4j.NamedEntity;
+import com.clust4j.kernel.Kernel;
+import com.clust4j.log.Log;
+import com.clust4j.log.Loggable;
+import com.clust4j.metrics.pairwise.Distance;
+import com.clust4j.metrics.pairwise.DistanceMetric;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
+import com.clust4j.metrics.pairwise.SimilarityMetric;
 import org.apache.commons.math3.linear.Array2DRowRealMatrix;
 import org.apache.commons.math3.linear.RealMatrix;
 import org.apache.commons.math3.util.FastMath;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.LogTimer;
+import com.clust4j.log.LogTimer;
 
 /**
  * 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractDBSCAN.java → src/main/java/com/clust4j/algo/AbstractDBSCAN.java

@@ -13,7 +13,7 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import org.apache.commons.math3.linear.RealMatrix;
 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractDensityClusterer.java → src/main/java/com/clust4j/algo/AbstractDensityClusterer.java

@@ -13,9 +13,9 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.SimilarityMetric;
+import com.clust4j.metrics.pairwise.SimilarityMetric;
 import org.apache.commons.math3.linear.RealMatrix;
 
 public abstract class AbstractDensityClusterer extends AbstractAutonomousClusterer {

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AbstractPartitionalClusterer.java → src/main/java/com/clust4j/algo/AbstractPartitionalClusterer.java

@@ -13,7 +13,7 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import org.apache.commons.math3.linear.RealMatrix;
 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AffinityPropagation.java → src/main/java/com/clust4j/algo/AffinityPropagation.java

@@ -13,22 +13,22 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.ArrayList;
 import java.util.HashSet;
 import java.util.Random;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.GlobalState;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.except.ModelNotFitException;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Log;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.MatUtils;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.VecUtils;
+import com.clust4j.except.ModelNotFitException;
+import com.clust4j.utils.MatUtils;
+import com.clust4j.utils.VecUtils;
+import com.clust4j.GlobalState;
+import com.clust4j.log.Log;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
 import org.apache.commons.math3.linear.RealMatrix;
 import org.apache.commons.math3.util.FastMath;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.LogTimer;
+import com.clust4j.log.LogTimer;
 
 /**
  * <a href="https://en.wikipedia.org/wiki/Affinity_propagation">Affinity Propagation</a> (AP) 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/AffinityPropagationParameters.java → src/main/java/com/clust4j/algo/AffinityPropagationParameters.java

@@ -14,11 +14,11 @@
  *    limitations under the License.
  *******************************************************************************/
 
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.Random;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
 import org.apache.commons.math3.linear.RealMatrix;
 
 /**

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BallTree.java → src/main/java/com/clust4j/algo/BallTree.java

@@ -13,15 +13,15 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.HashSet;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Loggable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.Distance;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.DistanceMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.MinkowskiDistance;
+import com.clust4j.log.Loggable;
+import com.clust4j.metrics.pairwise.Distance;
+import com.clust4j.metrics.pairwise.DistanceMetric;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
+import com.clust4j.metrics.pairwise.MinkowskiDistance;
 import org.apache.commons.math3.linear.RealMatrix;
 import org.apache.commons.math3.linear.Array2DRowRealMatrix;
 import org.apache.commons.math3.util.FastMath;

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BaseClassifier.java → src/main/java/com/clust4j/algo/BaseClassifier.java

@@ -13,10 +13,10 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.SupervisedMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.scoring.UnsupervisedMetric;
+import com.clust4j.metrics.scoring.SupervisedMetric;
+import com.clust4j.metrics.scoring.UnsupervisedMetric;
 import org.apache.commons.math3.linear.RealMatrix;
 
 /**

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BaseClassifierParameters.java → src/main/java/com/clust4j/algo/BaseClassifierParameters.java

@@ -13,9 +13,9 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.DeepCloneable;
+import com.clust4j.utils.DeepCloneable;
 
 public interface BaseClassifierParameters extends DeepCloneable {
 	@Override public BaseClassifierParameters copy();

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BaseClustererParameters.java → src/main/java/com/clust4j/algo/BaseClustererParameters.java

@@ -14,13 +14,13 @@
  *    limitations under the License.
  *******************************************************************************/
 
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.util.Random;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.Clust4j;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.DeepCloneable;
+import com.clust4j.utils.DeepCloneable;
+import com.clust4j.Clust4j;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
 
 /**
  * Base planner class many clustering algorithms

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BaseModel.java → src/main/java/com/clust4j/algo/BaseModel.java

@@ -13,13 +13,13 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import java.text.NumberFormat;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.Clust4j;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.SynchronicityLock;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.TableFormatter;
+import com.clust4j.utils.SynchronicityLock;
+import com.clust4j.utils.TableFormatter;
+import com.clust4j.Clust4j;
 
 abstract public class BaseModel extends Clust4j implements java.io.Serializable {
 	private static final long serialVersionUID = 4707757741169405063L;

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BaseNeighborsModel.java → src/main/java/com/clust4j/algo/BaseNeighborsModel.java

@@ -13,12 +13,12 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.GlobalState;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.except.ModelNotFitException;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.DistanceMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.GeometricallySeparable;
+import com.clust4j.except.ModelNotFitException;
+import com.clust4j.GlobalState;
+import com.clust4j.metrics.pairwise.DistanceMetric;
+import com.clust4j.metrics.pairwise.GeometricallySeparable;
 import org.apache.commons.math3.linear.RealMatrix;
 
 abstract public class BaseNeighborsModel extends AbstractClusterer {

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/BoruvkaAlgorithm.java → src/main/java/com/clust4j/algo/BoruvkaAlgorithm.java

@@ -13,17 +13,17 @@
  *    See the License for the specific language governing permissions and
  *    limitations under the License.
  *******************************************************************************/
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.Loggable;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.DistanceMetric;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.metrics.pairwise.Pairwise;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.utils.VecUtils;
+import com.clust4j.utils.VecUtils;
+import com.clust4j.log.Loggable;
+import com.clust4j.metrics.pairwise.DistanceMetric;
+import com.clust4j.metrics.pairwise.Pairwise;
 import org.apache.commons.math3.linear.Array2DRowRealMatrix;
 import org.apache.commons.math3.util.FastMath;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo.NearestNeighborHeapSearch.NodeData;
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.log.LogTimer;
+import com.clust4j.algo.NearestNeighborHeapSearch.NodeData;
+import com.clust4j.log.LogTimer;
 
 /**
  * A graph traversal algorithm used in identifying the minimum spanning tree 

src/main/java/de/monticore/lang/monticar/generator/middleware/helpers/AffinityPropagationHelper/clust4j/algo/CentroidClustererParameters.java → src/main/java/com/clust4j/algo/CentroidClustererParameters.java

@@ -14,11 +14,11 @@
  *    limitations under the License.
  *******************************************************************************/
 
-package de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo;
+package com.clust4j.algo;
 
 import org.apache.commons.math3.linear.RealMatrix;
 
-import de.monticore.lang.monticar.generator.middleware.helpers.AffinityPropagationHelper.clust4j.algo.AbstractCentroidClusterer.InitializationStrategy;
+import com.clust4j.algo.AbstractCentroidClusterer.InitializationStrategy;
 
 public abstract class CentroidClustererParameters<T extends AbstractCentroidClusterer> extends BaseClustererParameters
 		implements UnsupervisedClassifierParameters<T>, ConvergeablePlanner {