-private:
- GlobalData* globaldata;
- FastaMap* fastamap;
- ifstream in;
- ofstream out, outFasta;
- string filename, outputFileName, outFastafile;
- OptionParser* parser;
- map<string, string> parameters;
- map<string, string>::iterator it;
- bool abort;
+ vector<string> setParameters();
+ string getCommandName() { return "unique.seqs"; }
+ string getCommandCategory() { return "Sequence Processing"; }
+
+ string getHelpString();
+ string getOutputPattern(string);
+ string getCitation() { return "http://www.mothur.org/wiki/Unique.seqs"; }
+ string getDescription() { return "creates a fasta containing the unique sequences as well as a namesfile with the names each sequence represents"; }