+void FullMatrix::getMinsForRowsVectors(){
+ try{
+ numGroups = globaldata->gGroupmap->namesOfGroups.size();
+ numUserGroups = globaldata->Groups.size();
+
+ //sort globaldata->gGroupmap.namesOfGroups so that it will match the matrix
+ sort(globaldata->gGroupmap->namesOfGroups.begin(), globaldata->gGroupmap->namesOfGroups.end());
+
+ /*************************************************/
+ //find where in matrix each group starts and stops
+ /*************************************************/
+ vector<int> bounds; //bounds[0] = 0, bounds[1] = starting row in matrix from group B, bounds[2] = starting row in matrix from group C, bounds[3] = no need to find C because its numSeqs.
+ bounds.resize(numGroups);
+
+ bounds[numGroups] = numSeqs;
+ //for each group find bounds of subgroup/comparison
+ for (int i = 0; i < numGroups; i++) {
+ getBounds(bounds[i], globaldata->gGroupmap->namesOfGroups[i]);
+ }
+
+ /************************************************************/
+ //fill the minsForRows vectors for each group the user wants
+ /************************************************************/
+ int countx = bounds[0]; //where second group starts
+ int county = bounds[0];
+
+ //go through the entire matrix
+ for (int x = 0; x < numSeqs; x++) {
+ for (int y = 0; y < numSeqs; y++) {
+ //if have not changed groups
+ if ((x < countx) && (y < county)) {
+ if (inUsersGroups(index[x].groupname, globaldata->Groups)) {
+ }
+ }
+ }
+ }
+
+
+
+
+ }
+ catch(exception& e) {
+ cout << "Standard Error: " << e.what() << " has occurred in the FullMatrix class Function getMinsForRowsVectors. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+ catch(...) {
+ cout << "An unknown error has occurred in the FullMatrix class function getMinsForRowsVectors. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+
+}
+
+/**************************************************************************/
+void FullMatrix::getBounds(int& higher, string group) {
+ try{
+ bool gotLower = false;
+
+ //for each group find bounds of subgroup/comparison
+ for (it = index.begin(); it != index.end(); it++) {
+ if (it->second.groupname == group) {
+ if (gotLower != true) { gotLower = true; }
+ }else if ((gotLower == true) && (it->second.groupname != group)) { higher = it->first; break; }
+ }
+
+ }
+ catch(exception& e) {
+ cout << "Standard Error: " << e.what() << " has occurred in the FullMatrix class Function getBounds. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+ catch(...) {
+ cout << "An unknown error has occurred in the FullMatrix class function getBounds. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+
+}