try {
- pDataArray->outputFName = pDataArray->m->getFullPathName(outputFName);
- pDataArray->filename = pDataArray->m->getFullPathName(filename);
- pDataArray->alns = pDataArray->m->getFullPathName(alns);
+ pDataArray->outputFName = pDataArray->m->getFullPathName(pDataArray->outputFName);
+ pDataArray->filename = pDataArray->m->getFullPathName(pDataArray->filename);
+ pDataArray->alns = pDataArray->m->getFullPathName(pDataArray->alns);
//clears files
ofstream out, out1, out2;
cPara.push_back(tempIdsmoothwindow);
}
- /*if (useMinsmoothid) {
- char* tempminsmoothid = new char[14];
- //strcpy(tempminsmoothid, "--minsmoothid");
- *tempminsmoothid = '\0'; strncat(tempminsmoothid, "--minsmoothid", 13);
- cPara.push_back(tempminsmoothid);
- char* tempMinsmoothid = new char[minsmoothid.length()+1];
- *tempMinsmoothid = '\0'; strncat(tempMinsmoothid, minsmoothid.c_str(), minsmoothid.length());
- //strcpy(tempMinsmoothid, minsmoothid.c_str());
- cPara.push_back(tempMinsmoothid);
- }*/
-
if (pDataArray->useMaxp) {
char* tempmaxp = new char[7];
//strcpy(tempmaxp, "--maxp");
try {
- pDataArray->outputFName = pDataArray->m->getFullPathName(outputFName);
- pDataArray->filename = pDataArray->m->getFullPathName(filename);
- pDataArray->alns = pDataArray->m->getFullPathName(alns);
+ pDataArray->outputFName = pDataArray->m->getFullPathName(pDataArray->outputFName);
+ pDataArray->filename = pDataArray->m->getFullPathName(pDataArray->filename);
+ pDataArray->alns = pDataArray->m->getFullPathName(pDataArray->alns);
int totalSeqs = 0;
int numChimeras = 0;