fixed classify.seqs output file name - had issue if reference taxonomy file did not...

[mothur.git] / cluster.cpp

diff --git a/cluster.cpp b/cluster.cpp
index d0a83cfd0f4a7ccd5c73c8ea8966a8e3d49fc03c..ac9f4482da12110796c54f15c4137681a3d29038 100644 (file)
--- a/cluster.cpp
+++ b/cluster.cpp
@@ -53,7 +53,7 @@ rabund(rav), list(lv), dMatrix(dm), method(f)
        // sequence in the distance matrix.
 //ofstream outtemp;
 //string temp = "temp";
-//openOutputFile(temp, outtemp);       
+//m->openOutputFile(temp, outtemp);    
 //cout << lv->size() << endl;
        seqVec = vector<MatVec>(lv->size());
        for (MatData currentCell = dMatrix->begin(); currentCell != dMatrix->end(); currentCell++) {
@@ -205,7 +205,6 @@ void Cluster::clusterNames(){
 void Cluster::update(double& cutOFF){
        try {
                getRowColCells();       
-//cout << "got rowcells" << endl;
 
                vector<int> foundCol(nColCells, 0);
 
@@ -215,6 +214,7 @@ void Cluster::update(double& cutOFF){
                // The vector has to be traversed in reverse order to preserve the index
                // for faster removal in removeCell()
                for (int i=nRowCells-1;i>=0;i--) {
+                       //if you are not the smallCell
                        if (!((rowCells[i]->row == smallRow) && (rowCells[i]->column == smallCol))) {
                                if (rowCells[i]->row == smallRow) {
                                        search = rowCells[i]->column;