git-svn-id: https://svn.d4science.research-infrastructures.eu/gcube/trunk/data-analysis/EcologicalEngine@62248 82a268e6-3cf1-43bd-a215-b396298e98cf

cfg/transducerers.properties

@@ -1,7 +1,7 @@
 BIOCLIMATE_HSPEC=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPECTransducer
 BIOCLIMATE_HCAF=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHCAFTransducer
 BIOCLIMATE_HSPEN=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPENTransducer
-#HCAF_INTERPOLATION=org.gcube.dataanalysis.ecoengine.transducers.InterpolationTransducer
+HCAF_INTERPOLATION=org.gcube.dataanalysis.ecoengine.transducers.InterpolationTransducer
 HCAF_FILTER=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.HcafFilter
 HSPEN_FILTER=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.HspenFilter
 ABSENCE_CELLS_FROM_AQUAMAPS=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.MarineAbsencePointsFromAquamapsDistribution

cfg/userperspective.properties

@@ -1,6 +1,6 @@
 ANOMALIES_DETECTION=DBSCAN,KMEANS,XMEANS
 CLASSIFICATION=FEED_FORWARD_A_N_N_DISTRIBUTION
-CLIMATE=BIOCLIMATE_HSPEC,BIOCLIMATE_HCAF,BIOCLIMATE_HSPEN
+CLIMATE=BIOCLIMATE_HSPEC,BIOCLIMATE_HCAF,BIOCLIMATE_HSPEN,HCAF_INTERPOLATION
 CORRELATION_ANALYSIS=HRS
 DATA_CLUSTERING=DBSCAN,KMEANS,XMEANS
 FILTERING=HCAF_FILTER,HSPEN_FILTER

deployDesktop.jardesc

@@ -1,6 +1,6 @@
 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
 <jardesc>
-    <jar path="C:/Users/coro/Desktop/ecological-engine-1.5.0-SNAPSHOT.jar"/>
+    <jar path="C:/Users/coro/Desktop/ecological-engine-1.6.0-SNAPSHOT.jar"/>
     <options buildIfNeeded="true" compress="true" descriptionLocation="/EcologicalEngine/deployDesktop.jardesc" exportErrors="true" exportWarnings="true" includeDirectoryEntries="false" overwrite="true" saveDescription="true" storeRefactorings="false" useSourceFolders="false"/>
     <storedRefactorings deprecationInfo="true" structuralOnly="false"/>
     <selectedProjects/>

src/main/java/org/gcube/contentmanagement/graphtools/abstracts/GenericStandaloneGraph.java

@@ -184,4 +184,5 @@ public abstract class GenericStandaloneGraph extends ApplicationFrame {
 		return dataset;
 	}
 
+	
 }

src/main/java/org/gcube/dataanalysis/ecoengine/models/testing/FeedForwardNNFile.java

@@ -1,11 +1,14 @@
 package org.gcube.dataanalysis.ecoengine.models.testing;
 
+import java.awt.Color;
+import java.awt.Image;
 import java.io.File;
 import java.util.ArrayList;
 import java.util.Arrays;
 import java.util.HashMap;
 import java.util.List;
 
+import org.gcube.contentmanagement.graphtools.data.conversions.ImageTools;
 import org.gcube.contentmanagement.lexicalmatcher.utils.AnalysisLogger;
 import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
 import org.gcube.dataanalysis.ecoengine.datatypes.ColumnType;
@@ -25,9 +28,57 @@ import org.gcube.dataanalysis.ecoengine.models.ModelAquamapsNN;
 import org.gcube.dataanalysis.ecoengine.models.cores.neuralnetworks.Neural_Network;
 import org.gcube.dataanalysis.ecoengine.utils.DatabaseFactory;
 import org.gcube.dataanalysis.ecoengine.utils.DatabaseUtils;
+import org.jfree.chart.JFreeChart;
+import org.jfree.chart.axis.NumberAxis;
+import org.jfree.chart.plot.XYPlot;
+import org.jfree.chart.renderer.xy.XYSplineRenderer;
+import org.jfree.data.general.Dataset;
+import org.jfree.data.xy.XYDataset;
+import org.jfree.data.xy.XYSeriesCollection;
+import org.jfree.ui.RectangleInsets;
 
 public class FeedForwardNNFile extends ModelAquamapsNN {
 
+	final float frequency = 0.3f;// 1f;
+	int samplingRate = 32;
+	float timeShift = 1f / (float) samplingRate;
+
+	double[] generateSinSignal() {
+		double samples[] = new double[200];
+		float time = 0;
+		for (int i = 0; i < samples.length; i++) {
+			samples[i] = (float) Math.sin(2f * Math.PI * frequency * time);
+			time += timeShift;
+		}
+		return samples;
+	}
+
+	public static Image displaySignal(double[] signal, float timeshift) {
+		org.jfree.data.xy.XYSeries xyseries = new org.jfree.data.xy.XYSeries("signal");
+		float time = 0;
+		for (int i = 0; i < signal.length; i++) {
+			xyseries.add(time, signal[i]);
+			time = time + timeshift;
+		}
+
+		XYSeriesCollection collection = new XYSeriesCollection(xyseries);
+
+		NumberAxis numberaxis = new NumberAxis("X");
+		numberaxis.setAutoRangeIncludesZero(true);
+		NumberAxis numberaxis1 = new NumberAxis("Y");
+		numberaxis1.setAutoRangeIncludesZero(true);
+		XYSplineRenderer xysplinerenderer = new XYSplineRenderer();
+		XYPlot xyplot = new XYPlot((XYDataset) collection, numberaxis, numberaxis1, xysplinerenderer);
+		xyplot.setBackgroundPaint(Color.lightGray);
+		xyplot.setDomainGridlinePaint(Color.white);
+		xyplot.setRangeGridlinePaint(Color.white);
+		xyplot.setAxisOffset(new RectangleInsets(4D, 4D, 4D, 4D));
+		JFreeChart chart = new JFreeChart("Numeric Series", JFreeChart.DEFAULT_TITLE_FONT, xyplot, true);
+		Image image = ImageTools.toImage(chart.createBufferedImage(640, 480));
+
+		return image;
+
+	}
 
 	@Override
 	public String getName() {
@@ -46,10 +97,17 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 		PrimitiveType score = new PrimitiveType(String.class.getName(), "" + nn.en, PrimitiveTypes.STRING, "LearningScore", "Learning Score");
 		List<TableTemplates> template = new ArrayList<TableTemplates>();
 		template.add(TableTemplates.GENERIC);
-		OutputTable outTable = new OutputTable(template, trainingDataSet, trainingDataSet, "Output table");
+		OutputTable outTable = new OutputTable(template, "Example Trained Table", trainingDataSet, "Output table");
 		map.put("NeuralNetwork", p);
 		map.put("LearningScore", score);
 		map.put("FormerInputTable", outTable);
+		HashMap<String, Image> producedImages = new HashMap<String, Image>();
+		producedImages.put("Random img", displaySignal(generateSinSignal(), timeShift));
+
+		PrimitiveType images = new PrimitiveType("Random Images", producedImages, PrimitiveTypes.IMAGES, "Charts", "A map with keys and Images");
+
+		map.put("Images", images);
+
 		PrimitiveType output = new PrimitiveType(HashMap.class.getName(), map, PrimitiveTypes.MAP, "ResultsMap", "Results Map");
 
 		return output;
@@ -136,8 +194,7 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 		maxiter = Integer.parseInt(config.getParam(MaxIterations));
 
 		String layersNeurons$ = config.getParam(LayersNeurons);
-		if ((layersNeurons$!=null)&&(layersNeurons$.length()>0))
+		if ((layersNeurons$ != null) && (layersNeurons$.length() > 0)) {
-		{
 			String[] split = layersNeurons$.split(AlgorithmConfiguration.getListSeparator());
 			layersNeurons = new int[split.length];
 			boolean nullhyp = true;
@@ -150,7 +207,6 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 			if (nullhyp)
 				layersNeurons = null;
 
-				
 		}
 		dbcolumns = "";
 		dbcolumnsList = trainingDataSetColumns.split(AlgorithmConfiguration.getListSeparator());
@@ -166,6 +222,7 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 	protected Neural_Network nn;
 	protected double maxfactor = 1;
 	protected double minfactor = 0;
+
 	@Override
 	public void train(AlgorithmConfiguration Input, Model previousModel) {
 		try {
@@ -189,8 +246,7 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 			if (layersNeurons != null) {
 				int[] innerLayers = Neural_Network.setupInnerLayers(layersNeurons);
 				nn = new Neural_Network(numberOfInputNodes, numberOfOutputNodes, innerLayers, Neural_Network.ACTIVATIONFUNCTION.SIGMOID);
-			}
+			} else
-			else
 				nn = new Neural_Network(numberOfInputNodes, numberOfOutputNodes, Neural_Network.ACTIVATIONFUNCTION.SIGMOID);
 
 			nn.maxfactor = maxfactor;
@@ -229,5 +285,4 @@ public class FeedForwardNNFile extends ModelAquamapsNN{
 		status = 100f;
 	}
 
-	
 }

src/main/java/org/gcube/dataanalysis/ecoengine/transducers/InterpolationTransducer.java

@@ -1,6 +1,7 @@
 package org.gcube.dataanalysis.ecoengine.transducers;
 
 import java.util.ArrayList;
+import java.util.HashMap;
 import java.util.List;
 
 import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
@@ -88,20 +89,27 @@ public class InterpolationTransducer implements Transducerer{
 
 	@Override
 	public StatisticalType getOutput() {
+		HashMap<String, StatisticalType> map = new HashMap<String, StatisticalType>();
+		
 		
 		List<TableTemplates> template = new ArrayList<TableTemplates>();
 		template.add(TableTemplates.HCAF);
-		TablesList p = new TablesList(template, "INTEPOLATED_HCAF_TABLE_LIST", "List of HCAF tables produced by the interpolation", false);
+//		TablesList p = new TablesList(template, "INTEPOLATED_HCAF_TABLE_LIST", "List of HCAF tables produced by the interpolation", false);
 		
 		if ((producedtables!=null) &&(producedtables.length>0)){
 			int i=1;
 			for (String table:producedtables){
-				p.add(new OutputTable(template,table,table,"Interpolation point number "+i));
+//				p.add(new OutputTable(template,table,table,"Interpolation number "+i));
+				map.put("Interpolation "+i, new OutputTable(template,table,table,"Interpolation number "+i));
 				i++;
+				
 			}
 		}
 		
-		return p;
+		PrimitiveType output = new PrimitiveType(HashMap.class.getName(), map, PrimitiveTypes.MAP, "INTEPOLATED_HCAF_TABLE_LIST", "List of HCAF tables produced by the interpolation");
+		
+		
+		return output;
 	
 	}
 

target/apidocs/allclasses-frame.html

@@ -2,13 +2,13 @@
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 <TITLE>
 All Classes (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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+<META NAME="date" CONTENT="2012-12-07">
 
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 All Classes (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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target/apidocs/constant-values.html

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 <TITLE>
 Constant Field Values (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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 <META http-equiv="Content-Type" content="text/html; charset=UTF-8">
 <TITLE>
 Deprecated List (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
-<META NAME="date" CONTENT="2012-12-04">
+<META NAME="date" CONTENT="2012-12-07">
 
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@@ -2,13 +2,13 @@
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 <META http-equiv="Content-Type" content="text/html; charset=UTF-8">
 <TITLE>
 API Help (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
-<META NAME="date" CONTENT="2012-12-04">
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target/apidocs/index-all.html

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 <TITLE>
 Index (ecological-engine 1.6.0-SNAPSHOT API)
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target/apidocs/index.html

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 <TITLE>
 ecological-engine 1.6.0-SNAPSHOT API

target/apidocs/org/gcube/contentmanagement/graphtools/abstracts/GenericDBExtractor.html

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 GenericDBExtractor (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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 <TITLE>
 GenericStandaloneGraph (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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 <TITLE>
 SamplesTable (ecological-engine 1.6.0-SNAPSHOT API)
 </TITLE>
 
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 Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtractor (ecological-engine 1.6.0-SNAPSHOT API)
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