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git-svn-id: https://svn.d4science.research-infrastructures.eu/gcube/trunk/data-analysis/EcologicalEngine@61441 82a268e6-3cf1-43bd-a215-b396298e98cf

This commit is contained in:
Gianpaolo Coro 2012-11-23 20:18:08 +00:00
parent c1c80828c6
commit 0600d8c346
853 changed files with 3720 additions and 3357 deletions
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3
src/main/java/org/gcube/dataanalysis/ecoengine/models/cores/neuralnetworks/Neural_Network.java
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@ -336,12 +336,13 @@ public class Neural_Network implements Serializable {
}
}
public float status=0;
public double en;
public void train(double[][] inputvet, double[][] correctoutputvet) {
if (griglia[griglia.length - 1].length != correctoutputvet[0].length)
AnalysisLogger.getLogger().debug("Error : the vector of outputs has not a lenght equal to the output of the network");
else {
double en = 2;
en = 2;
int counter = 0;
double enprec=2;
while ((en > soglia) && (counter <= maxcycle)) {

233
src/main/java/org/gcube/dataanalysis/ecoengine/models/testing/FeedForwardNNFile.java Normal file
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@ -0,0 +1,233 @@
package org.gcube.dataanalysis.ecoengine.models.testing;
import java.io.File;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.HashMap;
import java.util.List;
import org.gcube.contentmanagement.lexicalmatcher.utils.AnalysisLogger;
import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
import org.gcube.dataanalysis.ecoengine.datatypes.ColumnType;
import org.gcube.dataanalysis.ecoengine.datatypes.ColumnTypesList;
import org.gcube.dataanalysis.ecoengine.datatypes.DatabaseType;
import org.gcube.dataanalysis.ecoengine.datatypes.InputTable;
import org.gcube.dataanalysis.ecoengine.datatypes.OutputTable;
import org.gcube.dataanalysis.ecoengine.datatypes.PrimitiveType;
import org.gcube.dataanalysis.ecoengine.datatypes.PrimitiveTypesList;
import org.gcube.dataanalysis.ecoengine.datatypes.ServiceType;
import org.gcube.dataanalysis.ecoengine.datatypes.StatisticalType;
import org.gcube.dataanalysis.ecoengine.datatypes.enumtypes.PrimitiveTypes;
import org.gcube.dataanalysis.ecoengine.datatypes.enumtypes.ServiceParameters;
import org.gcube.dataanalysis.ecoengine.datatypes.enumtypes.TableTemplates;
import org.gcube.dataanalysis.ecoengine.interfaces.Model;
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;
public class FeedForwardNNFile extends ModelAquamapsNN{
@Override
public String getName() {
return "FEED_FORWARD_ANN";
}
@Override
public String getDescription() {
return "A Neural Networks to be trained on features of Real values";
}
@Override
public StatisticalType getOutput() {
HashMap<String,StatisticalType> map = new HashMap<String, StatisticalType>();
PrimitiveType p = new PrimitiveType(File.class.getName(), new File(fileName), PrimitiveTypes.FILE, "NeuralNetwork","Trained Neural Network");
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");
map.put("NeuralNetwork", p);
map.put("LearningScore", score);
map.put("FormerInputTable", outTable);
PrimitiveType output = new PrimitiveType(HashMap.class.getName(), map, PrimitiveTypes.MAP, "ResultsMap","Results Map");
return output;
}
@Override
public float getStatus() {
if (status==100)
return status;
else if ((nn!=null) && (nn.status>0))
return nn.status*100f;
else
return status;
}
protected static String TrainingDataSet = "TrainingDataSet";
protected String trainingDataSet;
protected static String TrainingDataSetColumns = "TrainingColumns";
protected String trainingDataSetColumns;
protected static String TrainingDataSetTargetColumn = "TargetColumn";
protected String trainingColumn;
protected String dbcolumns;
protected String[] dbcolumnsList;
protected static String LayersNeurons = "LayersNeurons";
protected static String Reference = "Reference";
protected static String LearningThreshold = "LearningThreshold";
protected static String MaxIterations = "MaxIterations";
protected static String ModelName = "ModelName";
protected static String UserName= "UserName";
protected float learningThr;
protected int maxiter;
@Override
public List<StatisticalType> getInputParameters() {
List<StatisticalType> parameters = new ArrayList<StatisticalType>();
List<TableTemplates> templatesOccurrences = new ArrayList<TableTemplates>();
templatesOccurrences.add(TableTemplates.GENERIC);
InputTable p1 = new InputTable(templatesOccurrences,TrainingDataSet,"a table containing real values colums for training the ANN");
ColumnTypesList p2 = new ColumnTypesList(TrainingDataSet, TrainingDataSetColumns, "column names to use as features vectors", false);
ColumnType p3 = new ColumnType(TrainingDataSet, TrainingDataSetTargetColumn, "the column to use as target", "probability", false);
PrimitiveTypesList p4 = new PrimitiveTypesList(Integer.class.getName(), PrimitiveTypes.NUMBER,LayersNeurons,"a list of neurons number for each inner layer",true);
PrimitiveType p5 = new PrimitiveType(String.class.getName(), null, PrimitiveTypes.STRING, Reference,"the phenomenon this ANN is trying to model - can be a generic identifier. Put 1 for not specifying","1");
PrimitiveType p6 = new PrimitiveType(Float.class.getName(), null, PrimitiveTypes.NUMBER, LearningThreshold,"the learning threshold for this ANN","0.01");
PrimitiveType p7 = new PrimitiveType(Integer.class.getName(), null, PrimitiveTypes.NUMBER, MaxIterations,"the maximum number of iterations in the training","100");
PrimitiveType p11 = new PrimitiveType(String.class.getName(), null, PrimitiveTypes.STRING, ModelName,"The name of this Neural Network - insert without spaces","neuralnet_");
ServiceType p10 = new ServiceType(ServiceParameters.USERNAME, UserName,"LDAP username");
PrimitiveType p12 = new PrimitiveType(File.class.getName(), null, PrimitiveTypes.FILE, "PreviousNeuralNetwork","Previous Neural Network");
parameters.add(p1);
parameters.add(p2);
parameters.add(p3);
parameters.add(p4);
parameters.add(p5);
parameters.add(p6);
parameters.add(p7);
parameters.add(p11);
parameters.add(p10);
parameters.add(p12);
DatabaseType.addDefaultDBPars(parameters);
return parameters;
}
@Override
public void init(AlgorithmConfiguration config, Model previousModel) {
AnalysisLogger.setLogger(config.getConfigPath() + AlgorithmConfiguration.defaultLoggerFile);
// init the database
try {
connection = DatabaseUtils.initDBSession(config);
} catch (Exception e) {
e.printStackTrace();
AnalysisLogger.getLogger().trace("ERROR initializing connection");
}
fileName = config.getPersistencePath()+Neural_Network.generateNNName(config.getParam(Reference), config.getParam(UserName), config.getParam(ModelName));
trainingDataSet = config.getParam(TrainingDataSet);
trainingDataSetColumns = config.getParam(TrainingDataSetColumns);
trainingColumn = config.getParam(TrainingDataSetTargetColumn);
File previousfile = new File (config.getParam("PreviousNeuralNetwork"));
AnalysisLogger.getLogger().info("Previous File is "+previousfile.getAbsolutePath());
learningThr = Float.parseFloat(config.getParam(LearningThreshold));
maxiter = Integer.parseInt(config.getParam(MaxIterations));
String layersNeurons$ = config.getParam(LayersNeurons);
if ((layersNeurons$!=null)&&(layersNeurons$.length()>0))
{
String [] split = layersNeurons$.split(AlgorithmConfiguration.getListSeparator());
layersNeurons = new int[split.length];
boolean nullhyp=true;
for (int i = 0;i<split.length;i++){
layersNeurons[i] = Integer.parseInt(split[i]);
if ((layersNeurons[i]>0)&&(nullhyp))
nullhyp=false;
}
if (nullhyp)
layersNeurons=null;
}
dbcolumns = "";
dbcolumnsList = trainingDataSetColumns.split(AlgorithmConfiguration.getListSeparator());
for (int i=0;i<dbcolumnsList.length;i++){
dbcolumns+=dbcolumnsList[i];
if (i<dbcolumnsList.length-1)
dbcolumns+=",";
}
}
private String takeElementsQuery = "select %1$s from %2$s d order by %3$s";
protected Neural_Network nn;
protected double maxfactor=1;
protected double minfactor=0;
@Override
public void train(AlgorithmConfiguration Input, Model previousModel) {
try {
// take all features input vectors
String query = String.format(takeElementsQuery, trainingColumn+","+dbcolumns,trainingDataSet,trainingColumn);
AnalysisLogger.getLogger().debug("Query to execute: "+query);
List<Object> features = DatabaseFactory.executeSQLQuery(query, connection);
int numbOfFeatures = features.size();
//get reduction factor for normalizing the outputs
List<Object> maxmin = DatabaseFactory.executeSQLQuery("select max("+trainingColumn+"), min("+trainingColumn+") from "+trainingDataSet, connection);
maxfactor = Double.parseDouble(""+((Object[])maxmin.get(0))[0]);
minfactor = Double.parseDouble(""+((Object[])maxmin.get(0))[1]);
AnalysisLogger.getLogger().debug("Calculated max: "+maxfactor+" min: "+minfactor);
// setup Neural Network
int numberOfInputNodes = dbcolumnsList.length;
int numberOfOutputNodes = 1;
AnalysisLogger.getLogger().debug("Training the ANN with "+numbOfFeatures+" training data and "+numberOfInputNodes+" inputs");
if (layersNeurons!=null){
int[] innerLayers = Neural_Network.setupInnerLayers(layersNeurons);
nn = new Neural_Network(numberOfInputNodes, numberOfOutputNodes, innerLayers, Neural_Network.ACTIVATIONFUNCTION.SIGMOID);
}
else
nn = new Neural_Network(numberOfInputNodes, numberOfOutputNodes, Neural_Network.ACTIVATIONFUNCTION.SIGMOID);
nn.maxfactor=maxfactor;
nn.minfactor=minfactor;
nn.setThreshold(learningThr);
nn.setCycles(maxiter);
AnalysisLogger.getLogger().debug("network parameters: M: "+maxfactor+", m: "+minfactor+", lt: "+learningThr+", it: "+maxiter);
AnalysisLogger.getLogger().debug("topology: "+nn.griglia.length+"X"+nn.griglia[0].length);
AnalysisLogger.getLogger().debug("Features preprocessing");
double[][] in = new double[numbOfFeatures][];
double[][] out = new double[numbOfFeatures][];
// build NN input
for (int i = 0; i < numbOfFeatures; i++) {
// out[i] = new double[0];
Object[] feats = (Object[]) features.get(i);
in[i] = Neural_Network.preprocessObjects(Arrays.copyOfRange((Object[]) features.get(i), 1, feats.length));
out[i] = Neural_Network.preprocessObjects(Arrays.copyOfRange((Object[]) features.get(i), 0, 1));
//apply reduction factor
// AnalysisLogger.getLogger().debug("Output Transformed from "+out[i][0]);
out[i][0] =nn.getCorrectValueForOutput(out[i][0]);
// AnalysisLogger.getLogger().debug("To "+out[i][0]);
}
AnalysisLogger.getLogger().debug("Features were correctly preprocessed - Training");
// train the NN
nn.train(in, out);
AnalysisLogger.getLogger().debug("Saving Network");
save(fileName, nn);
AnalysisLogger.getLogger().debug("Done");
} catch (Exception e) {
e.printStackTrace();
AnalysisLogger.getLogger().error("ERROR during training");
}
status = 100f;
}
}

8
target/apidocs/allclasses-frame.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
All Classes (ecological-engine 1.4.0-SNAPSHOT API)
All Classes (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
@ -374,6 +374,8 @@ All Classes (ecological-engine 1.4.0-SNAPSHOT API)
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers" target="classFrame">OccurrencePointsMerger</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers" target="classFrame">OccurrencePointsSubtraction</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/utils/Operations.html" title="class in org.gcube.dataanalysis.ecoengine.utils" target="classFrame">Operations</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/datatypes/OutputTable.html" title="class in org.gcube.dataanalysis.ecoengine.datatypes" target="classFrame">OutputTable</A>

8
target/apidocs/allclasses-noframe.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
All Classes (ecological-engine 1.4.0-SNAPSHOT API)
All Classes (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
@ -374,6 +374,8 @@ All Classes (ecological-engine 1.4.0-SNAPSHOT API)
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsSubtraction</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/utils/Operations.html" title="class in org.gcube.dataanalysis.ecoengine.utils">Operations</A>
<BR>
<A HREF="org/gcube/dataanalysis/ecoengine/datatypes/OutputTable.html" title="class in org.gcube.dataanalysis.ecoengine.datatypes">OutputTable</A>

8
target/apidocs/constant-values.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Constant Field Values (ecological-engine 1.4.0-SNAPSHOT API)
Constant Field Values (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Constant Field Values (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Constant Field Values (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Constant Field Values (ecological-engine 1.5.0-SNAPSHOT API)";
}
}
</SCRIPT>

8
target/apidocs/deprecated-list.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Deprecated List (ecological-engine 1.4.0-SNAPSHOT API)
Deprecated List (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Deprecated List (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Deprecated List (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Deprecated List (ecological-engine 1.5.0-SNAPSHOT API)";
}
}
</SCRIPT>

8
target/apidocs/help-doc.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
API Help (ecological-engine 1.4.0-SNAPSHOT API)
API Help (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ API Help (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="API Help (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="API Help (ecological-engine 1.5.0-SNAPSHOT API)";
}
}
</SCRIPT>

29
target/apidocs/index-all.html
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@ -2,13 +2,13 @@
<!--NewPage-->
<HTML>
<HEAD>
<!-- Generated by javadoc (build 1.6.0_26) on Wed Oct 31 16:08:44 CET 2012 -->
<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:51 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Index (ecological-engine 1.4.0-SNAPSHOT API)
Index (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="./stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Index (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Index (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Index (ecological-engine 1.5.0-SNAPSHOT API)";
}
}
</SCRIPT>
@ -1697,6 +1697,9 @@ Static method in class org.gcube.contentmanagement.graphtools.utils.<A HREF="./o
<DT><A HREF="./org/gcube/contentmanagement/graphtools/utils/MathFunctions.html#findZeros(double[])"><B>findZeros(double[])</B></A> -
Static method in class org.gcube.contentmanagement.graphtools.utils.<A HREF="./org/gcube/contentmanagement/graphtools/utils/MathFunctions.html" title="class in org.gcube.contentmanagement.graphtools.utils">MathFunctions</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html#firstbest"><B>firstbest</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger</A>
<DD>&nbsp;
</DL>
<HR>
<A NAME="_G_"><!-- --></A><H2>
@ -2287,6 +2290,9 @@ Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcub
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html#getDescription()"><B>getDescription()</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html#getDescription()"><B>getDescription()</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsSubtraction</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/QueryExecutor.html#getDescription()"><B>getDescription()</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/QueryExecutor.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">QueryExecutor</A>
<DD>&nbsp;
@ -4916,12 +4922,18 @@ Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcub
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html#manageHighProbability(float, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord)"><B>manageHighProbability(float, OccurrencePointsMerger.OccurrenceRecord, OccurrencePointsMerger.OccurrenceRecord)</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html#manageHighProbability(float, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord)"><B>manageHighProbability(float, OccurrencePointsMerger.OccurrenceRecord, OccurrencePointsMerger.OccurrenceRecord)</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsSubtraction</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsIntersector.html#manageLowProbability(float, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord)"><B>manageLowProbability(float, OccurrencePointsMerger.OccurrenceRecord, OccurrencePointsMerger.OccurrenceRecord)</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsIntersector.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsIntersector</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html#manageLowProbability(float, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord)"><B>manageLowProbability(float, OccurrencePointsMerger.OccurrenceRecord, OccurrencePointsMerger.OccurrenceRecord)</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html#manageLowProbability(float, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord, org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger.OccurrenceRecord)"><B>manageLowProbability(float, OccurrencePointsMerger.OccurrenceRecord, OccurrencePointsMerger.OccurrenceRecord)</B></A> -
Method in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsSubtraction</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/simplequeryexecutors/MarineAbsencePointsFromAquamapsDistribution.html" title="class in org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors"><B>MarineAbsencePointsFromAquamapsDistribution</B></A> - Class in <A HREF="./org/gcube/dataanalysis/ecoengine/transducers/simplequeryexecutors/package-summary.html">org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors</A><DD>&nbsp;<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/simplequeryexecutors/MarineAbsencePointsFromAquamapsDistribution.html#MarineAbsencePointsFromAquamapsDistribution()"><B>MarineAbsencePointsFromAquamapsDistribution()</B></A> -
Constructor for class org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/simplequeryexecutors/MarineAbsencePointsFromAquamapsDistribution.html" title="class in org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors">MarineAbsencePointsFromAquamapsDistribution</A>
<DD>&nbsp;
@ -5233,6 +5245,9 @@ Constructor for class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./or
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers"><B>OccurrencePointsMerger.OccurrenceRecord</B></A> - Class in <A HREF="./org/gcube/dataanalysis/ecoengine/transducers/package-summary.html">org.gcube.dataanalysis.ecoengine.transducers</A><DD>&nbsp;<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html#OccurrencePointsMerger.OccurrenceRecord()"><B>OccurrencePointsMerger.OccurrenceRecord()</B></A> -
Constructor for class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger.OccurrenceRecord</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers"><B>OccurrencePointsSubtraction</B></A> - Class in <A HREF="./org/gcube/dataanalysis/ecoengine/transducers/package-summary.html">org.gcube.dataanalysis.ecoengine.transducers</A><DD>&nbsp;<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html#OccurrencePointsSubtraction()"><B>OccurrencePointsSubtraction()</B></A> -
Constructor for class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsSubtraction.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsSubtraction</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/clustering/DBScan.html#OccurrencePointsTable"><B>OccurrencePointsTable</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.clustering.<A HREF="./org/gcube/dataanalysis/ecoengine/clustering/DBScan.html" title="class in org.gcube.dataanalysis.ecoengine.clustering">DBScan</A>
<DD>&nbsp;
@ -7548,6 +7563,9 @@ Method in class org.gcube.dataanalysis.ecoengine.models.cores.neuralnetworks.<A
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html#x"><B>x</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger.OccurrenceRecord</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html#x$"><B>x$</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger.OccurrenceRecord</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/clustering/XMeans.html" title="class in org.gcube.dataanalysis.ecoengine.clustering"><B>XMeans</B></A> - Class in <A HREF="./org/gcube/dataanalysis/ecoengine/clustering/package-summary.html">org.gcube.dataanalysis.ecoengine.clustering</A><DD>Cluster data using the X-means algorithm.<DT><A HREF="./org/gcube/dataanalysis/ecoengine/clustering/XMeans.html#XMeans()"><B>XMeans()</B></A> -
Constructor for class org.gcube.dataanalysis.ecoengine.clustering.<A HREF="./org/gcube/dataanalysis/ecoengine/clustering/XMeans.html" title="class in org.gcube.dataanalysis.ecoengine.clustering">XMeans</A>
<DD>the default constructor.
@ -7565,6 +7583,9 @@ Constructor for class org.gcube.dataanalysis.ecoengine.clustering.<A HREF="./org
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html#y"><B>y</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger.OccurrenceRecord</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html#y$"><B>y$</B></A> -
Variable in class org.gcube.dataanalysis.ecoengine.transducers.<A HREF="./org/gcube/dataanalysis/ecoengine/transducers/OccurrencePointsMerger.OccurrenceRecord.html" title="class in org.gcube.dataanalysis.ecoengine.transducers">OccurrencePointsMerger.OccurrenceRecord</A>
<DD>&nbsp;
<DT><A HREF="./org/gcube/contentmanagement/graphtools/utils/DateGuesser.html#YEAR"><B>YEAR</B></A> -
Static variable in class org.gcube.contentmanagement.graphtools.utils.<A HREF="./org/gcube/contentmanagement/graphtools/utils/DateGuesser.html" title="class in org.gcube.contentmanagement.graphtools.utils">DateGuesser</A>
<DD>&nbsp;

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<TITLE>
ecological-engine 1.4.0-SNAPSHOT API
ecological-engine 1.5.0-SNAPSHOT API
</TITLE>
<SCRIPT type="text/javascript">
targetPage = "" + window.location.search;

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<HTML>
<HEAD>
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<!-- Generated by javadoc (build 1.6.0_26) on Fri Nov 23 12:25:46 CET 2012 -->
<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
GenericDBExtractor (ecological-engine 1.4.0-SNAPSHOT API)
GenericDBExtractor (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ GenericDBExtractor (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
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<HTML>
<HEAD>
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
GenericStandaloneGraph (ecological-engine 1.4.0-SNAPSHOT API)
GenericStandaloneGraph (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ GenericStandaloneGraph (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
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<HTML>
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
SamplesTable (ecological-engine 1.4.0-SNAPSHOT API)
SamplesTable (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ SamplesTable (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
{
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtractor (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtractor (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtr
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtractor (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Uses of Interface org.gcube.contentmanagement.graphtools.abstracts.GenericDBExtractor (ecological-engine 1.5.0-SNAPSHOT API)";
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<HTML>
<HEAD>
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Uses of Class org.gcube.contentmanagement.graphtools.abstracts.GenericStandaloneGraph (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Class org.gcube.contentmanagement.graphtools.abstracts.GenericStandaloneGraph (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Uses of Class org.gcube.contentmanagement.graphtools.abstracts.GenericStandalone
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Uses of Class org.gcube.contentmanagement.graphtools.abstracts.GenericStandaloneGraph (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Uses of Class org.gcube.contentmanagement.graphtools.abstracts.GenericStandaloneGraph (ecological-engine 1.5.0-SNAPSHOT API)";
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<HTML>
<HEAD>
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Uses of Class org.gcube.contentmanagement.graphtools.abstracts.SamplesTable (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Class org.gcube.contentmanagement.graphtools.abstracts.SamplesTable (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Uses of Class org.gcube.contentmanagement.graphtools.abstracts.SamplesTable (eco
function windowTitle()
{
if (location.href.indexOf('is-external=true') == -1) {
parent.document.title="Uses of Class org.gcube.contentmanagement.graphtools.abstracts.SamplesTable (ecological-engine 1.4.0-SNAPSHOT API)";
parent.document.title="Uses of Class org.gcube.contentmanagement.graphtools.abstracts.SamplesTable (ecological-engine 1.5.0-SNAPSHOT API)";
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org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.4.0-SNAPSHOT API)
org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
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org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.4.0-SNAPSHOT API)
org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.4.0-SNAPSH
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{
if (location.href.indexOf('is-external=true') == -1) {
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
org.gcube.contentmanagement.graphtools.abstracts Class Hierarchy (ecological-engine 1.4.0-SNAPSHOT API)
org.gcube.contentmanagement.graphtools.abstracts Class Hierarchy (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ org.gcube.contentmanagement.graphtools.abstracts Class Hierarchy (ecological-eng
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Uses of Package org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Package org.gcube.contentmanagement.graphtools.abstracts (ecological-engine 1.5.0-SNAPSHOT API)
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@ -16,7 +16,7 @@ Uses of Package org.gcube.contentmanagement.graphtools.abstracts (ecological-eng
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
StatisticsGenerator (ecological-engine 1.4.0-SNAPSHOT API)
StatisticsGenerator (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ StatisticsGenerator (ecological-engine 1.4.0-SNAPSHOT API)
function windowTitle()
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<TITLE>
Uses of Class org.gcube.contentmanagement.graphtools.core.StatisticsGenerator (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Class org.gcube.contentmanagement.graphtools.core.StatisticsGenerator (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Uses of Class org.gcube.contentmanagement.graphtools.core.StatisticsGenerator (e
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<META http-equiv="Content-Type" content="text/html; charset=UTF-8">
<TITLE>
Filter (ecological-engine 1.4.0-SNAPSHOT API)
Filter (ecological-engine 1.5.0-SNAPSHOT API)
</TITLE>
<META NAME="date" CONTENT="2012-10-31">
<META NAME="date" CONTENT="2012-11-23">
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../../../../stylesheet.css" TITLE="Style">
@ -16,7 +16,7 @@ Filter (ecological-engine 1.4.0-SNAPSHOT API)
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Uses of Class org.gcube.contentmanagement.graphtools.core.filters.Filter (ecological-engine 1.4.0-SNAPSHOT API)
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ExampleNormalDistribution (ecological-engine 1.4.0-SNAPSHOT API)
ExampleNormalDistribution (ecological-engine 1.5.0-SNAPSHOT API)
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@ -2,13 +2,13 @@
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ExampleNumericSeries (ecological-engine 1.4.0-SNAPSHOT API)
ExampleNumericSeries (ecological-engine 1.5.0-SNAPSHOT API)
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@ -2,13 +2,13 @@
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ExamplePie (ecological-engine 1.4.0-SNAPSHOT API)
ExamplePie (ecological-engine 1.5.0-SNAPSHOT API)
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ExampleRadar (ecological-engine 1.4.0-SNAPSHOT API)
ExampleRadar (ecological-engine 1.5.0-SNAPSHOT API)
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@ -2,13 +2,13 @@
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ExampleScatter (ecological-engine 1.4.0-SNAPSHOT API)
ExampleScatter (ecological-engine 1.5.0-SNAPSHOT API)
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ExampleTimeSeries (ecological-engine 1.4.0-SNAPSHOT API)
ExampleTimeSeries (ecological-engine 1.5.0-SNAPSHOT API)
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ExampleTimeSeries2 (ecological-engine 1.4.0-SNAPSHOT API)
ExampleTimeSeries2 (ecological-engine 1.5.0-SNAPSHOT API)
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@ -2,13 +2,13 @@
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Uses of Class org.gcube.contentmanagement.graphtools.examples.graphsTypes.ExampleTimeSeries2 (ecological-engine 1.4.0-SNAPSHOT API)
Uses of Class org.gcube.contentmanagement.graphtools.examples.graphsTypes.ExampleTimeSeries2 (ecological-engine 1.5.0-SNAPSHOT API)
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@ -16,7 +16,7 @@ Uses of Class org.gcube.contentmanagement.graphtools.examples.graphsTypes.Exampl
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6
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@ -2,13 +2,13 @@
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org.gcube.contentmanagement.graphtools.examples.graphsTypes (ecological-engine 1.4.0-SNAPSHOT API)
org.gcube.contentmanagement.graphtools.examples.graphsTypes (ecological-engine 1.5.0-SNAPSHOT API)
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org.gcube.contentmanagement.graphtools.examples.graphsTypes (ecological-engine 1.4.0-SNAPSHOT API)
org.gcube.contentmanagement.graphtools.examples.graphsTypes (ecological-engine 1.5.0-SNAPSHOT API)
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@ -16,7 +16,7 @@ org.gcube.contentmanagement.graphtools.examples.graphsTypes (ecological-engine 1
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