virtual string getTaxonomy(Sequence*) = 0;
virtual string getSimpleTax() { return simpleTax; }
virtual void generateDatabaseAndNames(string, string, string, int, float, float, float, float);
+ virtual void setDistName(string s) {} //for knn, so if distance method is selected with knn you can create the smallest distance file in the right place.
protected:
string taxFile, templateFile, simpleTax;
vector<string> names;
+ int threadID;
int readTaxonomy(string);
vector<string> parseTax(string);