lindenb · December 31, 2010 12:46
diff --git a/translate.js b/translate.js
 /**
 * Author:
 *    Pierre Lindenbaum
 * Mail:
 *    plindenbaum@yahoo.fr
 * WWW:
 *    http://plindenbaum.blogspot.com
 * Motivation:
 *    my first Node.js script . translate a DNA to a protein
 * Usage:
 *    ${nodejs.dir}/node script.js
 */
 var sys = require('sys');
 querystring = require('querystring');

 /** class GeneticCode */
 function GeneticCode(name,ncbiString)
   {
   this.name=name;
   this.ncbiString=ncbiString;
   };
 /** std genetic code */
 GeneticCode.STANDARD=new GeneticCode(
   "standard",
   "FFLLSSSSYY**CC*WLLLLPPPPHHQQRRRRIIIMTTTTNNKKSSRRVVVVAAAADDEEGGGG"
   );

 GeneticCode.prototype.base2index=function(c)
   {
   switch(c)
         {
         case 'T':case 't': return 0;
         case 'C':case 'c': return 1;
         case 'A':case 'a': return 2;
         case 'G':case 'g': return 3;
         default: return -1;
         }
   };


 GeneticCode.prototype.translate=function( b1, b2, b3)
   {
   if(arguments.length==1)
      {
      var prot="";
      for(var i=0;i+2 < b1.length;i+=3)
         {
         prot+= this.translate(b1[i],b1[i+1],b1[i+2]);
         }
      return prot;
      }
    
   var base1= this.base2index(b1);
   var base2= this.base2index(b2);
   var base3= this.base2index(b3);
   if(base1==-1 || base2==-1 || base3==-1)
         {
         return '?';
         }
   else
         {
         return this.ncbiString[base1*16+base2*4+base3];
         }
   }

 function TranslateDna(req,res)
   {
   if(req.method == 'GET')
      {
      var params = require('url').parse(req.url,true);
      
      if(params && params.query && params.query.dna)
         {
         res.writeHead(200, {'Content-type': 'text/plain'});
         res.write(JSON.stringify({'protein':GeneticCode.STANDARD.translate(params.query.dna.replace(/\s/g,"")),'query':params.query.dna}));
         res.end();
         return;
         }
      }
    else if(req.method=='POST')
      {
      var query = "";
      req.addListener('data', function (chunk) {
           query+=chunk;
        });
      req.addListener('end', function (chunk)
         { 
         var params = querystring.parse(query);
         if(params && params.dna)
            {
            res.writeHead(200, {'Content-type': 'text/plain'});
            res.write(JSON.stringify({'protein':GeneticCode.STANDARD.translate(params.dna.replace(/\s/g,"")),'query': params.dna}));
            res.end();
            return;
            }
        });
      return;
      }
  
     res.writeHead(200, {'Content-type': 'text/html'});
     res.end(
      '<html><body><form action="/" method=\"'+
      (Math.random()<0.5?"GET":"POST")
       +'\">'+
      '<h1>DNA</h1>'+
      '<textarea name="dna"></textarea><br/>' +
      '<input type="submit" value="Submit">' +
      '</form></body></html>'
       );
     
    }
   



 http = require('http');
 var nodeserver = http.createServer(TranslateDna);
 nodeserver.listen(8080); 
 console.log('Server running at http://127.0.0.1:8080/');
	/**
	* Author:
	* Pierre Lindenbaum
	* Mail:
	* plindenbaum@yahoo.fr
	* WWW:
	* http://plindenbaum.blogspot.com
	* Motivation:
	* my first Node.js script . translate a DNA to a protein
	* Usage:
	* ${nodejs.dir}/node script.js
	*/
	var sys = require('sys');
	querystring = require('querystring');

	/** class GeneticCode */
	function GeneticCode(name,ncbiString)
	{
	this.name=name;
	this.ncbiString=ncbiString;
	};
	/** std genetic code */
	GeneticCode.STANDARD=new GeneticCode(
	"standard",
	"FFLLSSSSYY*CCWLLLLPPPPHHQQRRRRIIIMTTTTNNKKSSRRVVVVAAAADDEEGGGG"
	);

	GeneticCode.prototype.base2index=function(c)
	{
	switch(c)
	{
	case 'T':case 't': return 0;
	case 'C':case 'c': return 1;
	case 'A':case 'a': return 2;
	case 'G':case 'g': return 3;
	default: return -1;
	}
	};


	GeneticCode.prototype.translate=function( b1, b2, b3)
	{
	if(arguments.length==1)
	{
	var prot="";
	for(var i=0;i+2 < b1.length;i+=3)
	{
	prot+= this.translate(b1[i],b1[i+1],b1[i+2]);
	}
	return prot;
	}

	var base1= this.base2index(b1);
	var base2= this.base2index(b2);
	var base3= this.base2index(b3);
	if(base1==-1 \|\| base2==-1 \|\| base3==-1)
	{
	return '?';
	}
	else
	{
	return this.ncbiString[base116+base24+base3];
	}
	}

	function TranslateDna(req,res)
	{
	if(req.method == 'GET')
	{
	var params = require('url').parse(req.url,true);

	if(params && params.query && params.query.dna)
	{
	res.writeHead(200, {'Content-type': 'text/plain'});
	res.write(JSON.stringify({'protein':GeneticCode.STANDARD.translate(params.query.dna.replace(/\s/g,"")),'query':params.query.dna}));
	res.end();
	return;
	}
	}
	else if(req.method=='POST')
	{
	var query = "";
	req.addListener('data', function (chunk) {
	query+=chunk;
	});
	req.addListener('end', function (chunk)
	{
	var params = querystring.parse(query);
	if(params && params.dna)
	{
	res.writeHead(200, {'Content-type': 'text/plain'});
	res.write(JSON.stringify({'protein':GeneticCode.STANDARD.translate(params.dna.replace(/\s/g,"")),'query': params.dna}));
	res.end();
	return;
	}
	});
	return;
	}

	res.writeHead(200, {'Content-type': 'text/html'});
	res.end(
	'<html><body><form action="/" method=\"'+
	(Math.random()<0.5?"GET":"POST")
	+'\">'+
	'<h1>DNA</h1>'+
	'<textarea name="dna"></textarea><br/>' +
	'<input type="submit" value="Submit">' +
	'</form></body></html>'
	);

	}




	http = require('http');
	var nodeserver = http.createServer(TranslateDna);
	nodeserver.listen(8080);
	console.log('Server running at http://127.0.0.1:8080/');
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