Package eu.isas.peptideshaker.gui.tablemodels

Class ProteinGoTableModel

java.lang.Object

javax.swing.table.AbstractTableModel

javax.swing.table.DefaultTableModel

eu.isas.peptideshaker.gui.tablemodels.ProteinGoTableModel

All Implemented Interfaces:

Serializable, TableModel

public class ProteinGoTableModel
extends DefaultTableModel

Model for a the GO mappings protein table.

Author:

Marc Vaudel, Harald Barsnes

See Also:

• Serialized Form

Field Summary

Fields inherited from class javax.swing.table.DefaultTableModel

columnIdentifiers, dataVector

Fields inherited from class javax.swing.table.AbstractTableModel

listenerList

Constructor Summary

Constructors

Constructor

Description

ProteinGoTableModel(com.compomics.util.experiment.identification.Identification identification, com.compomics.util.experiment.io.biology.protein.ProteinDetailsProvider proteinDetailsProvider, com.compomics.util.experiment.identification.features.IdentificationFeaturesGenerator identificationFeaturesGenerator, DisplayFeaturesGenerator displayFeaturesGenerator, ArrayList<Long> proteinGroupKeys, boolean showScores)

Constructor which sets a new table.

Method Summary

Modifier and Type	Method	Description
Class	getColumnClass(int columnIndex)
int	getColumnCount()
String	getColumnName(int column)
ArrayList<Long>	getProteins()	Returns the list of protein groups in the model.
int	getRowCount()
Object	getValueAt(int row, int column)
boolean	isCellEditable(int rowIndex, int columnIndex)
void	reset()	Reset the protein keys.
void	updateDataModel(ArrayList<Long> proteinGroupKeys)	Update the data in the table model without having to reset the whole table model.

Methods inherited from class javax.swing.table.DefaultTableModel

addColumn, addColumn, addColumn, addRow, addRow, convertToVector, convertToVector, getDataVector, insertRow, insertRow, moveRow, newDataAvailable, newRowsAdded, removeRow, rowsRemoved, setColumnCount, setColumnIdentifiers, setColumnIdentifiers, setDataVector, setDataVector, setNumRows, setRowCount, setValueAt

Methods inherited from class javax.swing.table.AbstractTableModel

addTableModelListener, findColumn, fireTableCellUpdated, fireTableChanged, fireTableDataChanged, fireTableRowsDeleted, fireTableRowsInserted, fireTableRowsUpdated, fireTableStructureChanged, getListeners, getTableModelListeners, removeTableModelListener

Methods inherited from class java.lang.Object

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

Constructor Details

ProteinGoTableModel

public ProteinGoTableModel(com.compomics.util.experiment.identification.Identification identification,
 com.compomics.util.experiment.io.biology.protein.ProteinDetailsProvider proteinDetailsProvider,
 com.compomics.util.experiment.identification.features.IdentificationFeaturesGenerator identificationFeaturesGenerator,
 DisplayFeaturesGenerator displayFeaturesGenerator,
 ArrayList<Long> proteinGroupKeys,
 boolean showScores)

Constructor which sets a new table.

Parameters:

identification - the identification object

proteinDetailsProvider - the protein details provider

identificationFeaturesGenerator - the identification features generator

displayFeaturesGenerator - the display features generator

proteinGroupKeys - the keys of the protein groups to display

showScores - boolean indicating whether scores should be displayed

Method Details

updateDataModel

public void updateDataModel(ArrayList<Long> proteinGroupKeys)

Update the data in the table model without having to reset the whole table model. This keeps the sorting order of the table.

Parameters:

proteinGroupKeys - the keys of the protein groups to display

reset

public void reset()

Reset the protein keys.

getRowCount

public int getRowCount()

Specified by:

getRowCount in interface TableModel

Overrides:

getRowCount in class DefaultTableModel

getColumnCount

public int getColumnCount()

Specified by:

getColumnCount in interface TableModel

Overrides:

getColumnCount in class DefaultTableModel

getColumnName

public String getColumnName(int column)

Specified by:

getColumnName in interface TableModel

Overrides:

getColumnName in class DefaultTableModel

getValueAt

public Object getValueAt(int row,
 int column)

Specified by:

getValueAt in interface TableModel

Overrides:

getValueAt in class DefaultTableModel

getColumnClass

public Class getColumnClass(int columnIndex)

Specified by:

getColumnClass in interface TableModel

Overrides:

getColumnClass in class AbstractTableModel

isCellEditable

public boolean isCellEditable(int rowIndex,
 int columnIndex)

Specified by:

isCellEditable in interface TableModel

Overrides:

isCellEditable in class DefaultTableModel

getProteins

public ArrayList<Long> getProteins()

Returns the list of protein groups in the model.

Returns:

the list of protein groups in the model