#include "needlemanoverlap.hpp"
//**********************************************************************************************************************
+
vector<string> TrimSeqsCommand::getValidParameters(){
try {
string Array[] = {"fasta", "flip", "oligos", "maxambig", "maxhomop", "group","minlength", "maxlength", "qfile",
exit(1);
}
}
+
//**********************************************************************************************************************
+
TrimSeqsCommand::TrimSeqsCommand(){
try {
abort = true;
exit(1);
}
}
+
//**********************************************************************************************************************
+
vector<string> TrimSeqsCommand::getRequiredParameters(){
try {
string Array[] = {"fasta"};
exit(1);
}
}
+
//**********************************************************************************************************************
+
vector<string> TrimSeqsCommand::getRequiredFiles(){
try {
vector<string> myArray;
exit(1);
}
}
+
//***************************************************************************************************************
TrimSeqsCommand::TrimSeqsCommand(string option) {
exit(1);
}
}
+
//**********************************************************************************************************************
void TrimSeqsCommand::help(){
}
}
+
//***************************************************************************************************************
int TrimSeqsCommand::countDiffs(string oligo, string seq){