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29 lines
900 B
C++
29 lines
900 B
C++
// $Id: indel.h 1901 2007-03-15 13:21:06Z nimrodru $
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#ifndef ____INDEL
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#define ____INDEL
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#include "definitions.h"
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#include "errorMsg.h"
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#include "alphabet.h"
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class indel : public alphabet {
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public:
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explicit indel();
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virtual ~indel() {}
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virtual alphabet* clone() const { return new indel(*this); }
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int unknown() const {return -2;}
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int gap() const {errorMsg::reportError("The method indel::gap() is used"); return -1;} // What is it for ? I don't need this !!!
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int size() const {return 2;}
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int stringSize() const {return 1;} // one letter code.
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int relations(const int charInSeq, const int charToCheck) const;
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int fromChar(const string& str, const int pos) const;
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int fromChar(const char s) const;
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string fromInt(const int in_id) const;
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vector<int> fromString(const string& str) const;
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bool isSpecific(const int id) const {return (id>=0 && id < size());}
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};//end of class
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#endif
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