void help() { m->mothurOut(getHelpString()); }
private:
- ReadTree* read;
- SharedUtil* util;
FileOutput* output;
vector<Tree*> T; //user trees
Tree* randT; //random tree
Tree* copyUserTree;
TreeMap* tmap;
TreeMap* savetmap;
- Parsimony* pars;
vector<string> groupComb; // AB. AC, BC...
string sumFile, randomtree, allGroups, outputDir, treefile, groupfile, namefile;
int iters, numGroups, numComp, counter, processors, numUniquesInName;