moved mothur's source into a folder to make grabbing just the source easier on github

[mothur.git] / sequencedb.h

diff --git a/sequencedb.h b/sequencedb.h
deleted file mode 100644 (file)
index 8f7640e..0000000
--- a/sequencedb.h
+++ /dev/null
@@ -1,52 +0,0 @@
-#ifndef SEQUENCEDB_H
-#define SEQUENCEDB_H
-
-/*
- *  sequencedb.h
- *  Mothur
- *
- *  Created by Thomas Ryabin on 4/13/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-
-/* This class is a container to store the sequences. */
-
-
-#include "sequence.hpp"
-#include "calculator.h"
-
-
-class SequenceDB {
-       
-public:
-       SequenceDB();
-       SequenceDB(int);           //makes data that size
-       SequenceDB(ifstream&);     //reads file to fill data
-       SequenceDB(const SequenceDB& sdb) : data(sdb.data) {};
-       ~SequenceDB();             //loops through data and delete each sequence
-
-       int getNumSeqs();
-       
-       void set(int, string);     //unaligned - should also set length
-       void set(int, Sequence);   //unaligned - should also set length
-       Sequence get(int);         //returns sequence name at that location
-       void push_back(Sequence);        //adds unaligned sequence
-       void resize(int);      //resizes data
-       void clear();              //clears data - remeber to loop through and delete the sequences inside or you will have a memory leak
-       int size();                //returns datas size
-       void print(ostream&);      //loops through data using sequence class print
-       bool sameLength() { return samelength; }
-               
-private:
-       vector<Sequence> data;
-       string readName(ifstream&);
-       string readSequence(ifstream&);
-       MothurOut* m;
-       bool samelength;
-       int length;
-
-};
-
-#endif