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/*
* Copyright (C) 2010-2011 Regents of the University of Michigan,
* Hyun Min Kang, Matthew Flickenger, Matthew Snyder,
* and Goncalo Abecasis
*
* 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 3 of the License, or
* (at your option) any later version.
*
* 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, see <http://www.gnu.org/licenses/>.
*/
#include "VcfFile.h"
VcfFile::VcfFile()
{
myFilePtr = NULL;
mySiteOnly = false;
myNumRecords = 0;
}
VcfFile::~VcfFile()
{
// Close the file.
if (myFilePtr != NULL)
{
// If we already have an open file, close it.
ifclose(myFilePtr);
myFilePtr = NULL;
}
}
bool VcfFile::open(const char* filename, const char* mode,
InputFile::ifileCompression compressionMode)
{
// Reset for any previously operated on files.
reset();
myFilePtr = ifopen(filename, mode, compressionMode);
if(myFilePtr == NULL)
{
std::string errorMessage = "Failed to Open ";
errorMessage += filename;
errorMessage += " for ";
errorMessage += mode;
myStatus.setStatus(StatGenStatus::FAIL_IO, errorMessage.c_str());
return(false);
}
return(true);
}
void VcfFile::close()
{
reset();
}
void VcfFile::reset()
{
// Reset the child class.
resetFile();
// Close the file.
if (myFilePtr != NULL)
{
// If we already have an open file, close it.
ifclose(myFilePtr);
myFilePtr = NULL;
}
myNumRecords = 0;
}
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