1 #ifndef DECONVOLUTECOMMAND_H
2 #define DECONVOLUTECOMMAND_H
7 * Created by Sarah Westcott on 1/21/09.
8 * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
14 #include "command.hpp"
15 #include "utilities.hpp"
17 #include "globaldata.hpp"
19 /* The deconvolute command reads a fasta file, finds the duplicate sequences and outputs a names file
20 containing 2 columns. The first being the groupname and the second the list of identical sequence names. */
24 class DeconvoluteCommand : public Command {
27 DeconvoluteCommand() {};
28 ~DeconvoluteCommand() { delete fastamap; };
32 GlobalData* globaldata;
36 string filename, outputFileName;