readtree.h

   1 #ifndef READTREE_H
   2 #define READTREE_H
   3 /*
   4  *  readtree.h
   5  *  Mothur
   6  *
   7  *  Created by Sarah Westcott on 1/22/09.
   8  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
   9  *
  10  */
  11
  12 using namespace std;
  13
  14 #include <string>
  15 #include <iostream>
  16 #include "globaldata.hpp"
  17 #include "tree.h"
  18
  19 #define MAX_LINE                513
  20 #define SKIPLINE(f,c)   {while((c=f.get())!=EOF && ((c) != '\n')){}}
  21
  22 class Tree;
  23
  24 /****************************************************************************/
  25
  26 class ReadTree {
  27         public:
  28                 ReadTree();
  29                 ~ReadTree() {};
  30
  31                 virtual void read() {};
  32                 int readSpecialChar(istream&, char, string);
  33                 int readNodeChar(istream& f);
  34                 float readBranchLength(istream& f);
  35
  36
  37                 Tree* getTree()  { return T; }
  38
  39                 int numNodes, numLeaves;
  40                 GlobalData* globaldata;
  41
  42         protected:
  43                 Tree* T;
  44 };
  45
  46 /****************************************************************************/
  47
  48 class ReadNewickTree : public ReadTree {
  49
  50 public:
  51         ReadNewickTree(string file) : treeFile(file) { openInputFile(file, filehandle); }
  52         ~ReadNewickTree() {};
  53         void read();
  54
  55 private:
  56         int readNewickInt(istream&, int&, Tree*);
  57         ifstream filehandle;
  58         string treeFile;
  59 };
  60
  61 /****************************************************************************/
  62
  63 #endif