X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=makebiomcommand.h;h=8f07c40d439529355af3fb3ee78e11b6b23aab7a;hp=7ea381f145af343213a25bd32109d20fa1fb1dee;hb=b206f634aae1b4ce13978d203247fb64757d5482;hpb=deba0af0ccdcb6005ed5b2b82649b137c63fbdf7

diff --git a/makebiomcommand.h b/makebiomcommand.h
index 7ea381f..8f07c40 100644
--- a/makebiomcommand.h
+++ b/makebiomcommand.h
@@ -36,16 +36,19 @@ public:
 	
 private:
     
-	string sharedfile, contaxonomyfile, metadatafile, groups, outputDir, format, label;
+	string sharedfile, contaxonomyfile, metadatafile, groups, outputDir, format, label, referenceTax, picrustOtuFile;
 	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> parseTax(string tax, vector<string>& scores);
     int getSampleMetaData(vector<SharedRAbundVector*>&);
+    //for picrust
+    int getGreenGenesOTUIDs(vector<SharedRAbundVector*>&, map<string, string>&);
+    map<string, string> readGGOtuMap();
 };