genome.h

此代码经过大量使用

/***************************************************************************
                          genome.h  -  description
                             -------------------
    begin                : Sat Dec 8 2001
    copyright            : (C) 2001 by Rudiger Koch
    email                : [e-mail]
 ***************************************************************************/

/***************************************************************************
 *                                                                         *
 *   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; either version 2 of the License, or     *
 *   (at your option) any later version.                                   *
 *                                                                         *
 ***************************************************************************/

#ifndef GENOME_H
#define GENOME_H

using namespace std;
#include <string>
#include <vector>
#include <pair.h>

#include <amygdala/genomehandler.h>

/** @class Genome genome.h amygdala/genome.h
  * get a genome, either via HTTP or from a file and generate a NN
  * from it. An object of this class needs a handler object specific
  * to the application.
  * @author Rudiger Koch <[e-mail]>
  */

class Genome {
public: 
	Genome();
	~Genome();

  /** get a gene from specified uri.
  * @param uri has to be in URL format, either
  * file:/path/to/file or http://server/path
  * In case of the http variant, the URL must point to
  * a gene server
  */
  void get(string uri);

  /** Submit a score to the server */
  void submit(int score);

  /** set the handler. This handler must be derived from GenomeHandler
   * @param An instance of GenomeHandler that matches the genome
   */
  void setHandler(GenomeHandler *gh);

  /** parse the genome string. Pass all genes to the supplied GenomeHandler object */
  void parse();

  /** parses the format string as given by the server.
   *  Must be called if a gene is loaded from a file.
   * @param format looks like: <i>"Chromosome-format: {genes,size}{genes,size}...."</i>
   */
  void Format(string format);

protected: // Protected methods

  /** load a genome file from a http server. This server must conform 
   *  to the Amygdala genome server conventions. */
  void getHttp(string URL);

 /** load a gene from a file */
  void getFile(string path);

protected: // Protected attributes

    GenomeHandler* gHandler;
    unsigned int geneId;
    string genome;
/** pair <genes, gene_size> */
    vector <pair <int, int> > chromosomes;
    string URL;
};

#endif