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/**
* Author: Mark Larkin
*
* Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
*/
/**
* 10-02-07,Nigel Brown(EMBL): Removed delimiter and findDelimiter()
* members, as functionality now handled by the stream class.
*/
#ifdef HAVE_CONFIG_H
#include "config.h"
#endif
#include "FileParser.h"
const char LF = 0x0a; //linefeed
const char CR = 0x0d; //carriage return
namespace clustalw
{
FileParser::FileParser()
{
parseExitCode = OK;
}
FileParser::~FileParser()
{
// Dont do anything!!!!
}
void FileParser::fillCharTab(void)
{
register int i;
register char c;
for (i = 0; i < 128; chartab[i++] = 0)
;
for (i = 0; i <= userParameters->getMaxAA() + 1; i++)
{
c = userParameters->getAminoAcidCode(i);
chartab[(int)c] = chartab[tolower(c)] = c;
}
}
void FileParser::freeFileResources(InFileStream* filePtr)
{
if(filePtr != 0)
{
filePtr->close();
delete filePtr;
filePtr = 0;
}
}
char FileParser::getDelimiter(string filename)
{
ifstream in;
int type = 0;
char delim;
in.open(filename.c_str(), ios::in);
in.seekg(0, ios::beg);
//look for CR or LF or CRLF (or LFCR)
if (in.is_open()) {
char c;
while (in.get(c)) {
if (c == CR)
type |= 1;
else if (c == LF)
type |= 2;
else if (type)
break;
}
}
in.close();
switch (type) {
case 1:
//cout << "file is Mac System 9" << endl;
delim = '\r';
break;
case 2:
//cout << "file is UNIX" << endl;
delim = '\n';
break;
case 3:
//cout << "file is DOS" << endl;
delim = '\n';
break;
default: //short or empty file
//cout << "file is UNIX (default)" << endl;
delim = '\n';
}
return delim;
}
}
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