vector<string> setParameters();
string getCommandName() { return "parse.list"; }
string getCommandCategory() { return "OTU-Based Approaches"; }
+
string getHelpString();
+ string getOutputPattern(string);
string getCitation() { return "http://www.mothur.org/wiki/Parse.list"; }
string getDescription() { return "parses a list file by group"; }
ListVector* list;
GroupMap* groupMap;
- InputData* input;
+ CountTable ct;
ofstream out;
- string outputDir, listfile, groupfile, label;
+ string outputDir, listfile, groupfile, label, countfile;
set<string> labels;
bool abort, allLines;
vector<string> outputNames;