class TreeMap {
public:
- TreeMap() {};
+ TreeMap() { m = MothurOut::getInstance(); }
TreeMap(string);
~TreeMap();
void readMap();
bool isValidGroup(string); //return true if string is a valid group
void removeSeq(string); //removes a sequence, this is to accomadate trees that do not contain all the seqs in your groupfile
string getGroup(string);
+ void addSeq(string, string);
vector<string> namesOfGroups;
vector<string> namesOfSeqs;
map<string,int> seqsPerGroup; //groupname, number of seqs in that group.
map<string, GroupIndex> treemap; //sequence name and <groupname, vector index>
void print(ostream&);
- void makeSim(GroupMap*); //takes groupmap info and fills treemap for use by tree.shared command.
+ void makeSim(vector<string>); //takes groupmap info and fills treemap for use by tree.shared command.
void makeSim(ListVector*); //takes listvector info and fills treemap for use by tree.shared command.
private:
map<string, GroupIndex>::iterator it;
map<string, int>::iterator it2;
void setNamesOfGroups(string);
+ MothurOut* m;
};