org.jaga.individualRepresentation.proteinLocation
Class SimplifiedFastaFileParser

java.lang.Object
  org.jaga.individualRepresentation.proteinLocation.SimplifiedFastaFileParser

All Implemented Interfaces:

ProteinFileParser

public class SimplifiedFastaFileParser

extends java.lang.Object

implements ProteinFileParser

TODO: Complete these comments.

Project: JAGA - Java API for Genetic Algorithms.

Company: University College London and JAGA.Org (http://www.jaga.org).

Copyright: (c) 2004 by G. Paperin.
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, ONLY if you include a note of the original author(s) in any redistributed/modified copy.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA or see http://www.gnu.org/licenses/gpl.html

Version:

JAGA public release 1.0 beta

Author:

Greg Paperin (greg@jaga.org)

Constructor Summary

SimplifiedFastaFileParser()

Method Summary

private java.lang.String	copyReplace(java.lang.String str, char oldChar, char newChar)
void	readFromFile(java.lang.String fileName, ProteinGroup callbackAccumulator)

Methods inherited from class java.lang.Object

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

Constructor Detail

SimplifiedFastaFileParser

public SimplifiedFastaFileParser()

Method Detail

readFromFile

public void readFromFile(java.lang.String fileName,
                         ProteinGroup callbackAccumulator)
                  throws java.io.IOException

Specified by:

readFromFile in interface ProteinFileParser

Throws:

java.io.IOException

copyReplace

private java.lang.String copyReplace(java.lang.String str,
                                     char oldChar,
                                     char newChar)