sequencedb.h

   1 #ifndef SEQUENCEDB_H
   2 #define SEQUENCEDB_H
   3
   4 /*
   5  *  sequencedb.h
   6  *  Mothur
   7  *
   8  *  Created by Thomas Ryabin on 4/13/09.
   9  *  Copyright 2009 __MyCompanyName__. All rights reserved.
  10  *
  11  */
  12
  13
  14 using namespace std;
  15
  16 #include "sequence.hpp"
  17 #include "calculator.h"
  18
  19
  20
  21
  22 class SequenceDB {
  23
  24 public:
  25         SequenceDB();
  26         SequenceDB(int);           //makes data that size
  27         SequenceDB(ifstream&);     //reads file to fill data
  28 //      ~SequenceDB();             //loops through data and delete each sequence
  29
  30         int getNumSeqs();
  31
  32         void set(int, string);     //unaligned - should also set length
  33         void set(int, Sequence);   //unaligned - should also set length
  34         Sequence get(int);         //returns sequence name at that location
  35         void add(Sequence);        //adds unaligned sequence
  36         void changeSize(int);      //resizes data
  37         void clear();              //clears data - remeber to loop through and delete the sequences inside or you will have a memory leak
  38         int size();                //returns datas size
  39         void print(ofstream&);      //loops through data using sequence class print
  40
  41 private:
  42         vector<Sequence> data;
  43
  44 };
  45
  46 #endif