X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=mothurout.h;h=db931b5a5e380169c3147ee8b0c9acb4d72f1a00;hb=2ff2d03fbe46ce8cf2738bff4403a52be4f31e2f;hp=77b1b6d4ec1efb758973d332aa8e4df00619f58b;hpb=b25ede2ad307ae76f8a610443e0ec3ec69621ce7;p=mothur.git

diff --git a/mothurout.h b/mothurout.h
index 77b1b6d..db931b5 100644
--- a/mothurout.h
+++ b/mothurout.h
@@ -93,9 +93,13 @@ 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 
+		int openInputFile(string, ifstream&, string); //no error given
+    
+        bool checkLocations(string&, string);  //filename, inputDir. checks for file in ./, inputdir, default and mothur's exe location.  Returns false if cant be found. If found completes name with location
 		string getline(ifstream&);
 		string getline(istringstream&);
 		void gobble(istream&);
@@ -136,6 +140,9 @@ class MothurOut {
 		bool isTrue(string);
 		bool isContainingOnlyDigits(string);
 		bool isNumeric1(string);
+        bool isLabelEquivalent(string, string);
+        string getSimpleLabel(string);
+        string findEdianness();
 	
 		
 		//string manipulation
@@ -156,11 +163,14 @@ class MothurOut {
         map<string, vector<string> > parseClasses(string);
 		
 		//math operation
+        double max(vector<double>&); //returns largest value in vector
+        double min(vector<double>&); //returns smallest value in vector
 		int factorial(int num);
 		vector<vector<double> > binomial(int);
 		float ceilDist(float, int);
 		float roundDist(float, int);
 		unsigned int fromBase36(string);
+        double median(vector<double>);
 		int getRandomIndex(int); //highest
         double getStandardDeviation(vector<int>&);
         vector<double> getStandardDeviation(vector< vector<double> >&);