minor bugs fixes and added line and label options to read.otu's parselist and shared...

[mothur.git] / fastamap.cpp

diff --git a/fastamap.cpp b/fastamap.cpp
index 0e6c22e21f48aec62b4a365db1e2454cd65ce7c9..14065231e96f4a7303921424ab53ce633e0984ec 100644 (file)
--- a/fastamap.cpp
+++ b/fastamap.cpp
@@ -107,3 +107,22 @@ void FastaMap::print(ostream& out){ //prints data
        }
 }
 /*******************************************************************************/
+void FastaMap::printCondensedFasta(ostream& out){ //prints data
+       try {
+               // two column file created with groupname and them list of identical sequence names
+               for (it = data.begin(); it != data.end(); it++) {
+                       out << ">" << it->second.groupname << endl;
+                       out << it->first << endl;
+               }
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the FastaMap class Function print. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+       catch(...) {
+               cout << "An unknown error has occurred in the FastaMap class function print. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+}
+/*******************************************************************************/
+