1 #ifndef SCREENSEQSCOMMAND_H
2 #define SCREENSEQSCOMMAND_H
8 * Created by Pat Schloss on 6/3/09.
9 * Copyright 2009 Patrick D. Schloss. All rights reserved.
13 #include "command.hpp"
15 class ScreenSeqsCommand : public Command {
18 ScreenSeqsCommand(string);
24 int screenNameGroupFile(set<string>);
25 int screenGroupFile(set<string>);
26 int screenAlignReport(set<string>);
29 string fastafile, namefile, groupfile, alignreport, outputDir;
30 int startPos, endPos, maxAmbig, maxHomoP, minLength, maxLength;
31 vector<string> outputNames;