X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitabundcommand.h;h=fb8838063e408223df815f80844e51c04569c16a;hb=bc4c4d63e983a3e91e74b5038bfec6705e1a3a2e;hp=8d2ab2e0503416a9e9e48fb49162a63e794c0191;hpb=cfe70bbc94980a0177af465d3464db754673bd56;p=mothur.git

diff --git a/splitabundcommand.h b/splitabundcommand.h
index 8d2ab2e..fb88380 100644
--- a/splitabundcommand.h
+++ b/splitabundcommand.h
@@ -34,18 +34,28 @@ public:
 
 	
 private:
-	int split(ListVector*);
-	int split(); //namefile
+	int splitList(ListVector*);
+	int splitNames(); //namefile
+	int writeNames(); 
+	int writeList(ListVector*); 
+	int writeAccnos(string); 
+	int parseGroup(string); 
+	int parseFasta(string); 
+	int readNamesFile(); //namefile
+	int createNameMap(ListVector*);
 	
 	vector<string> outputNames;
 	ListVector* list;
 	GroupMap* groupMap;
 	InputData* input;
 	
-	string outputDir, listfile, namefile, groupfile, label;
-	set<string> labels;
-	bool abort, allLines, accnos, wroteRareList, wroteAbundList;
+	string outputDir, listfile, namefile, groupfile, label, groups, fastafile, inputFile;
+	set<string> labels, rareNames, abundNames;
+	vector<string> Groups;
+	bool abort, allLines, accnos;
 	int cutoff;
+	map<string, bool> wroteListFile;
+	map<string, string> nameMap;