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/*
* sharedSharedSAbundVector.cpp
* Dotur
*
* Created by Sarah Westcott on 12/10/08.
* Copyright 2008 Schloss Lab UMASS Amherst. All rights reserved.
*
*/
#include "sharedsabundvector.h"
#include "sabundvector.hpp"
/***********************************************************************/
SharedSAbundVector::SharedSAbundVector() : DataVector(), maxRank(0), numBins(0), numSeqs(0){ }
/***********************************************************************/
SharedSAbundVector::SharedSAbundVector(int size) : DataVector(), maxRank(0), numBins(0), numSeqs(0) {
individual newGuy;
//initialize data
for (int i=0; i< size; i++) {
newGuy.bin = i;
newGuy.abundance = 0;
data.push_back(newGuy);
}
}
/***********************************************************************/
void SharedSAbundVector::set(int bin, int abundance, string groupName){
try {
int initSize = data[bin].abundance;
data[bin].abundance = abundance;
data[bin].group = groupName;
if(bin != 0){
numBins += (abundance - initSize);
}
numSeqs += bin * (abundance - initSize);
if(bin > maxRank) { maxRank = bin; }
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "set");
exit(1);
}
}
/***********************************************************************/
individual SharedSAbundVector::get(int index){
return data[index];
}
/***********************************************************************/
int SharedSAbundVector::getAbundance(int index){
return data[index].abundance;
}
/***********************************************************************/
void SharedSAbundVector::push_back(int abundance, int bin, string groupName){
try {
individual newGuy;
newGuy.abundance = abundance;
newGuy.bin = bin;
newGuy.group = groupName;
data.push_back(newGuy);
maxRank++;
numBins += abundance;
numSeqs += (maxRank * abundance);
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "push_back");
exit(1);
}
}
/***********************************************************************/
void SharedSAbundVector::resize(int size){
data.resize(size);
}
/***********************************************************************/
int SharedSAbundVector::size(){
return data.size();
}
/***********************************************************************/
void SharedSAbundVector::print(ostream& output){
try {
output << label << '\t' << maxRank << '\t';
for(int i=1;i<=maxRank;i++){
output << data[i].abundance << '\t';
}
output << endl;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "print");
exit(1);
}
}
/***********************************************************************/
string SharedSAbundVector::getGroup(){
return group;
}
/***********************************************************************/
void SharedSAbundVector::setGroup(string groupName){
group = groupName;
}
/**********************************************************************/
int SharedSAbundVector::getNumBins(){
return numBins;
}
/***********************************************************************/
int SharedSAbundVector::getNumSeqs(){
return numSeqs;
}
/***********************************************************************/
int SharedSAbundVector::getMaxRank(){
return maxRank;
}
/***********************************************************************/
RAbundVector SharedSAbundVector::getRAbundVector(){
try {
RAbundVector rav;
for(int i=1;i<data.size();i++){
for(int j=0;j<data[i].abundance;j++){
rav.push_back(i);
}
}
sort(rav.rbegin(), rav.rend());
rav.setLabel(label);
return rav;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "getRAbundVector");
exit(1);
}
}
/***********************************************************************/
SAbundVector SharedSAbundVector::getSAbundVector(){
try {
RAbundVector rav;
SAbundVector sav;
rav = getRAbundVector();
sav = rav.getSAbundVector();
return sav;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "getSAbundVector");
exit(1);
}
}
/***********************************************************************/
bool compareMembers (individual member, individual member2){
if(member.abundance < member2.abundance){
return true; }
else{
return false;
}
}
/***********************************************************************/
SharedRAbundVector SharedSAbundVector::getSharedRAbundVector(){
try {
SharedRAbundVector rav;
for(int i=1;i<data.size();i++){
for(int j=0;j<data[i].abundance;j++){
rav.push_back(i, data[i].group);
}
}
sort(rav.rbegin(), rav.rend(), compareMembers);
rav.setLabel(label);
rav.setGroup(group);
return rav;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "getSharedRAbundVector");
exit(1);
}
}
/***********************************************************************/
SharedSAbundVector SharedSAbundVector::getSharedSAbundVector(){
return *this;
}
/***********************************************************************/
SharedOrderVector SharedSAbundVector::getSharedOrderVector() {
try {
SharedRAbundVector rav;
SharedOrderVector ov;
rav = this->getSharedRAbundVector();
ov = rav.getSharedOrderVector();
ov.updateStats();
return ov;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "getSharedOrderVector");
exit(1);
}
}
/***********************************************************************/
void SharedSAbundVector::clear(){
numBins = 0;
maxRank = 0;
numSeqs = 0;
data.clear();
}
/***********************************************************************/
OrderVector SharedSAbundVector::getOrderVector(map<string,int>* hold = NULL){
try {
OrderVector ov;
int binIndex = 0;
for(int i=1;i<data.size();i++){
for(int j=0;j<data[i].abundance;j++){
for(int k=0;k<i;k++){
ov.push_back(binIndex);
}
binIndex++;
}
}
random_shuffle(ov.begin(), ov.end());
ov.setLabel(label);
ov.getNumBins();
return ov;
}
catch(exception& e) {
m->errorOut(e, "SharedSAbundVector", "getOrderVector");
exit(1);
}
}
/***********************************************************************/
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