org.emboss.jemboss.editor
Class Matrix
java.lang.Object
  |
  +--org.emboss.jemboss.editor.Matrix
- public class Matrix- extends java.lang.Object
 
| Constructor Summary | 
| Matrix(java.io.File matrixFile)
 | 
| Matrix(java.lang.String matrixJar,
       java.lang.String matrixFileName)
 | 
 
 
| Methods inherited from class java.lang.Object | 
| clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait | 
 
matrix
private int[][] matrix
idimension
private int idimension
jdimension
private int jdimension
i
private int i
k
private int k
residueMatrixPosition
private java.util.Hashtable residueMatrixPosition
keys
private java.lang.Object[] keys
cons
private java.lang.String cons
matrixString
private java.lang.String matrixString
matrixFileName
private java.lang.String matrixFileName
Matrix
public Matrix(java.io.File matrixFile)
Matrix
public Matrix(java.lang.String matrixJar,
              java.lang.String matrixFileName)
getMatrix
public int[][] getMatrix()
- 
 
getMatrixTable
public java.lang.String getMatrixTable()
- 
 
getCurrentMatrixName
public java.lang.String getCurrentMatrixName()
- 
 
getKeys
public java.lang.Object[] getKeys()
- 
 
getKeyNames
public java.lang.Object[] getKeyNames()
- 
 
getResidueMatrixPosition
public java.util.Hashtable getResidueMatrixPosition()
- 
 
getMatrixIndex
public int getMatrixIndex(java.lang.String s)
- 
 
getIDimension
public int getIDimension()
- 
 
getJDimension
public int getJDimension()
- 
 
getRegularExpression
private org.apache.regexp.RE getRegularExpression()
- 
 
matrixLineCount
private void matrixLineCount(java.lang.String line,
                             org.apache.regexp.RE regexp)
- 
 
matrixLineParse
private void matrixLineParse(java.lang.String line,
                             org.apache.regexp.RE regexp)
- 
 
matrixRead
private int[][] matrixRead(java.io.File matrixFile)
- 
 
matrixReadString
private int[][] matrixReadString(java.lang.String matrixString)
-