analyses.result

Class FVAResult

java.lang.Object

analyses.result.AnalysisResult

analyses.result.FVAResult

Direct Known Subclasses:

DRResult

public class FVAResult
extends AnalysisResult

Class representing the result of an FVA analysis.

Author:

lmarmiesse 13 mars 2013

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
(package private) class	FVAResult.MyDocumentListener

Field Summary

Fields

Modifier and Type	Field and Description
protected java.util.Map<parsebionet.biodata.BioEntity,double[]>	map Map containig all result values.
private javax.swing.JTextField	maxField Field to search for entities in the plot.
private javax.swing.JTextField	minField Field to search for entities in the plot.
private double	objValue Value of the original objective value that was used as a constraint.
private javax.swing.JTable	resultTable Table with all results.
private javax.swing.JTextField	searchField Field to search for entities in the plot.
(package private) javax.swing.table.TableRowSorter<javax.swing.table.TableModel>	sorter

Constructor Summary

Constructors

Constructor and Description
FVAResult(double objValue)

Method Summary

Methods

Modifier and Type	Method and Description
void	addLine(parsebionet.biodata.BioEntity entity, double[] values) Adds a line to the plot.
java.util.List<parsebionet.biodata.BioEntity>	getEssentialReactions()
java.util.Map<parsebionet.biodata.BioEntity,double[]>	getMap()
double	getObjValue()
javax.swing.JPanel	getReactionsPanel(java.util.List<parsebionet.biodata.BioEntity> essentialReactions) Creates a JPanel for reactions.
double[]	getValuesForEntity(parsebionet.biodata.BioEntity ent) Get the values for an entity
void	plot() Plots the results.
void	setMax(parsebionet.biodata.BioEntity entity, double max) Set the maximum value of an entity.
void	setMin(parsebionet.biodata.BioEntity entity, double min) Set the minimum value of an entity.
private void	updateTable(javax.swing.table.TableRowSorter<javax.swing.table.TableModel> sorter, javax.swing.event.DocumentEvent arg0) Update the table when a search is made.
void	writeToFile(java.lang.String path) Writes the results to a file.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

objValue

private double objValue

Value of the original objective value that was used as a constraint.

map

protected java.util.Map<parsebionet.biodata.BioEntity,double[]> map

Map containig all result values.

sorter

javax.swing.table.TableRowSorter<javax.swing.table.TableModel> sorter

searchField

private javax.swing.JTextField searchField

Field to search for entities in the plot.

minField

private javax.swing.JTextField minField

Field to search for entities in the plot.

maxField

private javax.swing.JTextField maxField

Field to search for entities in the plot.

resultTable

private javax.swing.JTable resultTable

Table with all results.

Constructor Detail

FVAResult

public FVAResult(double objValue)

Method Detail

addLine

public void addLine(parsebionet.biodata.BioEntity entity,
           double[] values)

Adds a line to the plot.

Parameters:

entity - The entity to add

values - Its values.

setMin

public void setMin(parsebionet.biodata.BioEntity entity,
          double min)

Set the minimum value of an entity.

Parameters:

entity - The entity to set.

min - Its minimum value.

setMax

public void setMax(parsebionet.biodata.BioEntity entity,
          double max)

Set the maximum value of an entity.

Parameters:

entity - The entity to set.

max - Its maximum value.

getValuesForEntity

public double[] getValuesForEntity(parsebionet.biodata.BioEntity ent)

Get the values for an entity

Parameters:

ent - The entity to get.

Returns:

a double[] with the minimum value in [0] and the maximum value in [1].

getObjValue

public double getObjValue()

getMap

public java.util.Map<parsebionet.biodata.BioEntity,double[]> getMap()

getEssentialReactions

public java.util.List<parsebionet.biodata.BioEntity> getEssentialReactions()

Returns:

The list of essential reactions.

writeToFile

public void writeToFile(java.lang.String path)

Description copied from class: AnalysisResult

Writes the results to a file.

Specified by:

writeToFile in class AnalysisResult

Parameters:

path - Path to the file to write the results.

plot

public void plot()

Description copied from class: AnalysisResult

Plots the results.

Specified by:

plot in class AnalysisResult

updateTable

private void updateTable(javax.swing.table.TableRowSorter<javax.swing.table.TableModel> sorter,
               javax.swing.event.DocumentEvent arg0)

Update the table when a search is made.

getReactionsPanel

public javax.swing.JPanel getReactionsPanel(java.util.List<parsebionet.biodata.BioEntity> essentialReactions)

Creates a JPanel for reactions.

Parameters:

essentialReactions - Essential reaction.

Returns:

a JPanel with each essential reaction, their pathway, minimum and maximum values.