moved utilities out of mothur.h and into mothurOut class.

[mothur.git] / bellerophon.cpp

diff --git a/bellerophon.cpp b/bellerophon.cpp
index 743c6d779c8042ea2d47690cdc77ec839bf21bab..4f48d9ce03b64ec2a5c1f52d4d3ef2feaab9d8a5 100644 (file)
--- a/bellerophon.cpp
+++ b/bellerophon.cpp
@@ -665,7 +665,7 @@ int Bellerophon::writePrefs(string file, linePair tempLine) {
        try {
        
                ofstream outTemp;
-               openOutputFile(file, outTemp);
+               m->openOutputFile(file, outTemp);
                
                //lets you know what part of the pref matrix you are writing
                outTemp << tempLine.start << '\t' << tempLine.num << endl;
@@ -695,12 +695,12 @@ int Bellerophon::readPrefs(string file) {
        try {
        
                ifstream inTemp;
-               openInputFile(file, inTemp);
+               m->openInputFile(file, inTemp);
                
                int start, num;
                
                //lets you know what part of the pref matrix you are writing
-               inTemp >> start >> num;  gobble(inTemp);
+               inTemp >> start >> num;  m->gobble(inTemp);
                
                for (int i = start; i < num; i++) {
                        
@@ -710,7 +710,7 @@ int Bellerophon::readPrefs(string file) {
                        
                                inTemp >> pref[i][j].name >> pref[i][j].leftParent >> pref[i][j].rightParent;
                                inTemp >> pref[i][j].score >> pref[i][j].closestLeft >> pref[i][j].closestRight >> pref[i][j].midpoint;
-                               gobble(inTemp);
+                               m->gobble(inTemp);
                        }
                }