ReverseAccessibility.h

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#ifndef INTARNA_REVERSEACCESSIBILITY_H_
#define INTARNA_REVERSEACCESSIBILITY_H_
 
#include "IntaRNA/Accessibility.h"
 
namespace IntaRNA {
 
class ReverseAccessibility: public Accessibility {
public:
 
    ReverseAccessibility( Accessibility & origAcc );
 
    virtual ~ReverseAccessibility();
 
    virtual
    E_type
    getED( const size_t from, const size_t to ) const;
 
 
    virtual
    const RnaSequence &
    getSequence() const;
 
 
    virtual
    const AccessibilityConstraint&
    getAccConstraint() const;
 
    virtual
    const Accessibility &
    getAccessibilityOrigin() const;
 
 
    size_t
    getReversedIndex( const size_t i ) const;
 
    IndexRange
    getReversedIndexRange( const IndexRange & r ) const;
 
 
protected:
 
 
    Accessibility & origAcc;
 
    RnaSequence seqReversed;
 
    AccessibilityConstraint accConstrReversed;
 
 
    static
    std::string
    getReversedString( const RnaSequence& seq );
 
    static
    std::string
    getReversedString( const std::string& str );
 
 
};
 
 
 
inline
ReverseAccessibility::ReverseAccessibility( Accessibility & origAcc )
 :
    Accessibility( origAcc.getSequence(), origAcc.getMaxLength(), &origAcc.getAccConstraint() )
    , origAcc(origAcc)
    , seqReversed( seq.getId(), getReversedString(seq) )
    , accConstrReversed( origAcc.getAccConstraint(), true )
{
}
 
 
inline
ReverseAccessibility::~ReverseAccessibility() {
}
 
 
inline
const RnaSequence &
ReverseAccessibility::
getSequence() const
{
    // access reversed sequence
    return seqReversed;
}
 
 
 
inline
const AccessibilityConstraint&
ReverseAccessibility::
getAccConstraint() const
{
    // access reversed accessibility constraint
    return accConstrReversed;
}
 
 
 
 
inline
E_type
ReverseAccessibility::
getED( const size_t from, const size_t to ) const
{
    // check indices
    checkIndices(from,to);
    // reversed ED access
    return origAcc.getED( seq.size()-to-1, seq.size()-from-1 );
}
 
 
inline
const Accessibility &
ReverseAccessibility::
getAccessibilityOrigin() const
{
    return origAcc;
}
 
 
inline
size_t
ReverseAccessibility::
getReversedIndex( const size_t i ) const
{
    // compute reverse index
    return this->seq.getReversedIndex(i);
}
 
 
inline
IndexRange
ReverseAccessibility::
getReversedIndexRange( const IndexRange & r ) const
{
    // reverse indices and their order to keep them ascending/descending
    return IndexRange( getReversedIndex(r.to), getReversedIndex(r.from) );
}
 
 
} // namespace
 
#endif /* REVERSEACCESSIBILITY_H_ */