}
}
/*********************************************************************************************************************************/
+//groups by dimension
vector< vector<double> > LinearAlgebra::calculateEuclidianDistance(vector< vector<double> >& axes, int dimensions){
try {
//make square matrix
}
}
- }else if (dimensions == 2) { //two dimension calc = sqrt ((x1 - y1)^2 + (x2 - y2)^2)
+ }else if (dimensions > 1) { //two dimension calc = sqrt ((x1 - y1)^2 + (x2 - y2)^2)...
for (int i = 0; i < dists.size(); i++) {
if (m->control_pressed) { return dists; }
for (int j = 0; j < i; j++) {
- double firstDim = ((axes[i][0] - axes[j][0]) * (axes[i][0] - axes[j][0]));
- double secondDim = ((axes[i][1] - axes[j][1]) * (axes[i][1] - axes[j][1]));
+ double sum = 0.0;
+ for (int k = 0; k < dimensions; k++) {
+ sum += ((axes[i][k] - axes[j][k]) * (axes[i][k] - axes[j][k]));
+ }
- dists[i][j] = sqrt((firstDim + secondDim));
+ dists[i][j] = sqrt(sum);
dists[j][i] = dists[i][j];
}
}
- }else if (dimensions == 3) { //two dimension calc = sqrt ((x1 - y1)^2 + (x2 - y2)^2 + (x3 - y3)^2)
+ }
+
+ return dists;
+ }
+ catch(exception& e) {
+ m->errorOut(e, "LinearAlgebra", "calculateEuclidianDistance");
+ exit(1);
+ }
+}
+/*********************************************************************************************************************************/
+//returns groups by dimensions from dimensions by groups
+vector< vector<double> > LinearAlgebra::calculateEuclidianDistance(vector< vector<double> >& axes){
+ try {
+ //make square matrix
+ vector< vector<double> > dists; dists.resize(axes[0].size());
+ for (int i = 0; i < dists.size(); i++) { dists[i].resize(axes[0].size(), 0.0); }
+
+ if (axes.size() == 1) { //one dimension calc = abs(x-y)
for (int i = 0; i < dists.size(); i++) {
if (m->control_pressed) { return dists; }
for (int j = 0; j < i; j++) {
- double firstDim = ((axes[i][0] - axes[j][0]) * (axes[i][0] - axes[j][0]));
- double secondDim = ((axes[i][1] - axes[j][1]) * (axes[i][1] - axes[j][1]));
- double thirdDim = ((axes[i][2] - axes[j][2]) * (axes[i][2] - axes[j][2]));
+ dists[i][j] = abs(axes[0][i] - axes[0][j]);
+ dists[j][i] = dists[i][j];
+ }
+ }
+
+ }else if (axes.size() > 1) { //two dimension calc = sqrt ((x1 - y1)^2 + (x2 - y2)^2)...
+
+ for (int i = 0; i < dists[0].size(); i++) {
+
+ if (m->control_pressed) { return dists; }
+
+ for (int j = 0; j < i; j++) {
+ double sum = 0.0;
+ for (int k = 0; k < axes.size(); k++) {
+ sum += ((axes[k][i] - axes[k][j]) * (axes[k][i] - axes[k][j]));
+ }
- dists[i][j] = sqrt((firstDim + secondDim + thirdDim));
+ dists[i][j] = sqrt(sum);
dists[j][i] = dists[i][j];
}
}
- }else { m->mothurOut("[ERROR]: too many dimensions, aborting."); m->mothurOutEndLine(); m->control_pressed = true; }
+ }
return dists;
}