1 #ifndef SECONDARYSTRUCTURECHECKERCOMMAND_H
2 #define SECONDARYSTRUCTURECHECKERCOMMAND_H
5 * secondarystructurecommand.h
8 * Created by westcott on 9/18/09.
9 * Copyright 2009 Schloss Lab. All rights reserved.
13 #include "command.hpp"
15 /**************************************************************************************************/
25 statData() : pound(0), loop(0), tilde(0), dash(0), plus(0), equal(0), total(0) {};
28 /**************************************************************************************************/
31 class AlignCheckCommand : public Command {
35 AlignCheckCommand(string);
36 ~AlignCheckCommand(){};
41 vector<int> structMap;
42 string mapfile, fastafile;
47 statData getStats(string sequence);
50 /**************************************************************************************************/