modified the engine to extract the path of mothur executable if argv does not contain...

[mothur.git] / mothur.h

diff --git a/mothur.h b/mothur.h
index 1434482e9a9785485e0f898f88e352e6f7757659..f1b13920d0a4c8941214dbf3e42c96ed4ce39486 100644 (file)
--- a/mothur.h
+++ b/mothur.h
@@ -662,6 +662,29 @@ inline bool inVector(string member, vector<string> group){
 }
 /***********************************************************************/
 
+//This function parses the estimator options and puts them in a vector
+inline void splitAtChar(string& estim, vector<string>& container, char symbol) {
+       try {
+               string individual;
+               
+               while (estim.find_first_of(symbol) != -1) {
+                       individual = estim.substr(0,estim.find_first_of(symbol));
+                       if ((estim.find_first_of(symbol)+1) <= estim.length()) { //checks to make sure you don't have dash at end of string
+                               estim = estim.substr(estim.find_first_of(symbol)+1, estim.length());
+                               container.push_back(individual);
+                       }
+               }
+               //get last one
+               container.push_back(estim);
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the mothur.h function splitAtDash. Please contact Pat Schloss at mothur.bugs@gmail.com." << "\n";
+               exit(1);
+       }       
+}
+
+/***********************************************************************/
+
 //This function parses the estimator options and puts them in a vector
 inline void splitAtDash(string& estim, vector<string>& container) {
        try {
@@ -788,6 +811,7 @@ inline void splitAtEquals(string& key, string& value){
                exit(1);
        }       
 }
+
 /**************************************************************************************************/
 
 inline bool inUsersGroups(string groupname, vector<string> Groups) {