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//
// biom.cpp
// Mothur
//
// Created by Sarah Westcott on 10/26/20.
// Copyright © 2020 Schloss Lab. All rights reserved.
//
#include "biom.hpp"
/**************************************************************************************************/
Biom::Biom() {
try {
m = MothurOut::getInstance();
formatURL = "http://biom-format.org";
label = ""; version = "";
tableID = "No Table ID";
mothurVersion = ""; sharedFileName = "";
shared = nullptr; sharedFloat = nullptr;
}
catch(exception& e) {
m->errorOut(e, "Biom", "Biom");
exit(1);
}
}
/**************************************************************************************************/
Biom::Biom(string v) : version(v) {
try {
m = MothurOut::getInstance();
formatURL = "http://biom-format.org";
label = "";
tableID = "No Table ID";
mothurVersion = ""; sharedFileName = "";
shared = nullptr; sharedFloat = nullptr;
}
catch(exception& e) {
m->errorOut(e, "Biom", "Biom");
exit(1);
}
}
/**************************************************************************************************/
Biom::~Biom() {
if (shared != nullptr) { delete shared; }
if (sharedFloat != nullptr) { delete sharedFloat; }
}
/**************************************************************************************************/
void Biom::load(SharedRAbundVectors* s, vector<Taxonomy> c){
try {
shared = new SharedRAbundVectors(*s);
consTax = c;
matrixElementType = "int";
label = s->getLabel();
}
catch(exception& e) {
m->errorOut(e, "Biom", "load-shared");
exit(1);
}
}
/**************************************************************************************************/
void Biom::load(SharedRAbundFloatVectors* s, vector<Taxonomy> c){
try {
sharedFloat = new SharedRAbundFloatVectors(*s);
consTax = c;
matrixElementType = "float";
label = s->getLabel();
vector<SharedRAbundVector*> sharedRabunds = s->getSharedRAbundVectors();
shared = new SharedRAbundVectors();
for (int i = 0; i < sharedRabunds.size(); i++) {
if (m->getControl_pressed()) { break; }
shared->push_back(sharedRabunds[i]);
}
}
catch(exception& e) {
m->errorOut(e, "Biom", "load-float");
exit(1);
}
}
/**************************************************************************************************/
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