X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=mothurout.h;h=3cf6fa4963672b5d69acb7de389eb266b957ba24;hb=3914b0d6480f67df53b1e838f51c4e6155710434;hp=f99eac1917cbe2ce5a1ce278c66d27d1df71737e;hpb=de3d202264ab8a55fc91e0c2776aa5bed92bbf55;p=mothur.git

diff --git a/mothurout.h b/mothurout.h
index f99eac1..3cf6fa4 100644
--- a/mothurout.h
+++ b/mothurout.h
@@ -93,7 +93,9 @@ class MothurOut {
 		string getRootName(string);
 		bool isBlank(string);
 		int openOutputFile(string, ofstream&);
+        int openOutputFileBinary(string, ofstream&);
 		int openOutputFileAppend(string, ofstream&);
+        int openOutputFileBinaryAppend(string, ofstream&);
 		int openInputFile(string, ifstream&);
 		int openInputFile(string, ifstream&, string); //no error given 
 		string getline(ifstream&);
@@ -107,6 +109,8 @@ class MothurOut {
         map<string, int> readNames(string);
         map<string, int> readNames(string, unsigned long int&);
         int readTax(string, map<string, string>&);
+        vector<consTax> readConsTax(string);
+        int readConsTax(string, map<string, consTax2>&);
         int readNames(string, map<string, string>&, map<string, int>&);
 		int readNames(string, map<string, string>&);
         int readNames(string, map<string, string>&, bool);
@@ -151,6 +155,7 @@ class MothurOut {
         string makeList(vector<string>&);
         bool isSubset(vector<string>, vector<string>); //bigSet, subset
         int checkName(string&);
+        map<string, vector<string> > parseClasses(string);
 		
 		//math operation
 		int factorial(int num);