private:
- string sharedfile, contaxonomyfile, metadatafile, groups, outputDir, format, label;
+ string sharedfile, contaxonomyfile, metadatafile, groups, outputDir, format, label, referenceTax;
vector<string> outputNames, Groups, sampleMetadata;
set<string> labels;
- bool abort, allLines;
+ bool abort, allLines, picrust;
int getBiom(vector<SharedRAbundVector*>&);
- vector<string> getMetaData(vector<SharedRAbundVector*>&);
+ vector<string> getMetaData(vector<SharedRAbundVector*>&, vector<string>&);
vector<string> parseTax(string tax, vector<string>& scores);
int getSampleMetaData(vector<SharedRAbundVector*>&);
};