binaries/src/clustalw/src/tree/UPGMA/RootedTreeOutput.h

   1 /**
   2  * Author: Mark Larkin
   3  *
   4  * Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
   5  */
   6 /**
   7  * Changes:
   8  * mark 8-5-2007: I removed the isLeafNode function. Changed both the traversal functions
   9  * to access Node's data members via functions.
  10  */
  11 #ifndef ROOTEDTREEOUTPUT_H
  12 #define ROOTEDTREEOUTPUT_H
  13
  14 #include <fstream>
  15 #include "RootedGuideTree.h"
  16 #include "../../general/clustalw.h"
  17
  18
  19 /** this is only used for upgma?!
  20  *
  21  */
  22
  23
  24 namespace clustalw
  25 {
  26
  27 class RootedTreeOutput
  28 {
  29     public:
  30         RootedTreeOutput(SeqInfo* seqInfo);
  31         void printPhylipTree(RootedGuideTree* tree, ofstream* ptrToFile, Alignment *alignPtr,
  32                              DistMatrix* distMat);
  33         void printNexusTree(RootedGuideTree* tree, ofstream* ptrToFile, Alignment *alignPtr,
  34                             DistMatrix* distMat);
  35
  36     private:
  37         void phylipTraverse(ofstream* ptrToFile, Alignment *alignPtr, Node* tree);
  38         void nexusTraverse(ofstream* ptrToFile, Alignment *alignPtr, Node* tree);
  39         int firstSeq;
  40         int lastSeq;
  41         int numSeqs;
  42 };
  43
  44 }
  45
  46 #endif