X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=pcoacommand.h;h=02e562ec23f97d1fdbd0e6e18c949ae3ffc44c54;hb=c3396974063d6efc5e5850ddf4ed8ab65cc94bb9;hp=c62b3d668c9a38287769476a598033544d9790a3;hpb=37eac2026d91179acda0494c4dcca22f176551b9;p=mothur.git

diff --git a/pcoacommand.h b/pcoacommand.h
index c62b3d6..02e562e 100644
--- a/pcoacommand.h
+++ b/pcoacommand.h
@@ -31,15 +31,12 @@ public:
 private:
 
 	bool abort, metric;
-	string phylipfile, columnfile, namefile, format, filename, fbase, outputDir;
-	float cutoff, precision;
+	string phylipfile, filename, fbase, outputDir;
 	vector<string> outputNames;
 	map<string, vector<string> > outputTypes;
 	LinearAlgebra linearCalc;
 	
 	void get_comment(istream&, char, char);
-	int read_phylip(istream&, int, vector<string>&, vector<vector<double> >&);
-	void read(string, vector<string>&, vector<vector<double> >&);
 	void recenter(double, vector<vector<double> >, vector<vector<double> >&);
 	void output(string, vector<string>, vector<vector<double> >&, vector<double>);