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/******************************************************************************
* Copyright © 2009-2016 -- LIRMM/CNRS *
* (Laboratoire d'Informatique, de Robotique et de *
* Microélectronique de Montpellier / *
* Centre National de la Recherche Scientifique) *
* LIFL/INRIA *
* (Laboratoire d'Informatique Fondamentale de *
* Lille / Institut National de Recherche en *
* Informatique et Automatique) *
* LITIS *
* (Laboratoire d'Informatique, du Traitement de *
* l'Information et des Systèmes). *
* *
* Copyright © 2011-2016 -- IRB/INSERM *
* (Institut de Recherches en Biothérapie / *
* Institut National de la Santé et de la Recherche *
* Médicale). *
* *
* Copyright © 2015-2016 -- AxLR/SATT *
* (Lanquedoc Roussilon / *
* Societe d'Acceleration de Transfert de *
* Technologie). *
* *
* Programmeurs/Progammers: *
* Nicolas PHILIPPE <nphilippe.resear@gmail.com> *
* Mikaël SALSON <mikael.salson@lifl.fr> *
* Jérôme Audoux <jerome.audoux@gmail.com> *
* with additional contribution for the packaging of: *
* Alban MANCHERON <alban.mancheron@lirmm.fr> *
* *
* Contact: CRAC list <crac-bugs@lists.gforge.inria.fr> *
* Paper: CRAC: An integrated RNA-Seq read analysis *
* Philippe N., Salson M., Commes T., Rivals E. *
* Genome Biology 2013; 14:R30. *
* *
* ------------------------------------------------------------------------- *
* *
* This File is part of the CRAC program. *
* *
* 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 "chrPosition.h"
ChrPosition::ChrPosition():rel_position(0), chr(NULL), strand(0) {}
ChrPosition::ChrPosition(ulong rel_position, char *chr, int chr_id, int strand):
rel_position(rel_position), chr(chr), chr_id(chr_id), strand(strand) {}
ChrPosition::ChrPosition(const ChrPosition &pos) {
rel_position = pos.getRelativePosition();
chr = pos.getChrPosition();
chr_id = pos.getChrId();
strand = pos.getStrand();
}
ulong ChrPosition::getRelativePosition() const {
return rel_position;
}
char *ChrPosition::getChrPosition() const {
return chr;
}
int ChrPosition::getChrId() const {
return chr_id;
}
int ChrPosition::getStrand() const {
return strand;
}
void ChrPosition::setStrand(int new_strand) {
strand = new_strand;
}
ostream &operator<<(ostream &os, ChrPosition &p) {
os << p.getChrPosition() << "|"<< p.getStrand() << "," << p.getRelativePosition();
return os;
}
ChrPosition ChrPosition::operator+(int i) {
return ChrPosition(*this) += i;
// return pos;
}
ChrPosition &ChrPosition::operator+=(int i) {
rel_position += i;
return *this;
}
ChrPosition ChrPosition::operator-(int i) {
return ChrPosition(*this) -= i;
}
ChrPosition &ChrPosition::operator-=(int i) {
*this += -i;
return *this;
}
ChrPosition ChrPosition::operator+(ulong i) {
return ChrPosition(*this) += i;
}
ChrPosition &ChrPosition::operator+=(ulong i) {
rel_position += i;
return *this;
}
ChrPosition ChrPosition::operator-(ulong i) {
return ChrPosition(*this) -= i;
}
ChrPosition &ChrPosition::operator-=(ulong i) {
*this += -i;
return *this;
}
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