- errorOut(e, "ChimeraSeqsCommand", "findAverageMidPoint");
- exit(1);
- }
-}
-
-/***************************************************************************************************************/
-int ChimeraSeqsCommand::createSparseMatrix(int startSeq, int endSeq, SparseMatrix* sparse, vector<Sequence> s){
- try {
-
- for(int i=startSeq; i<endSeq; i++){
-
- for(int j=0;j<i;j++){
-
- //distCalculator->calcDist(s.get(i), s.get(j));
- float dist = distCalculator->getDist();
-
- PCell temp(i, j, dist);
- sparse->addCell(temp);
-
- }
- }
-
-
- return 1;
- }
- catch(exception& e) {
- errorOut(e, "ChimeraSeqsCommand", "createSparseMatrix");
- exit(1);
- }
-}
-/***************************************************************************************************************
-void ChimeraSeqsCommand::generatePreferences(vector<SeqMap> left, vector<SeqMap> right){
- try {
-
- for (int i = 0; i < left.size(); i++) {
-
- int iscore = 0;
- float closestLeft = 100000.0;
- float closestRight = 100000.0;
-
- for (int j = 0; j < left.size(); j++) {
-
- //iscore += abs(left
-
- }
-
- }
-
- }
- catch(exception& e) {
- errorOut(e, "ChimeraSeqsCommand", "generatePreferences");