HashTable/HashTablePacked.cpp File Reference

#include "HashTablePacked.h"
#include "SequenceReader.h"
#include "GlobalDefinitions.h"
#include <fstream>
#include <algorithm>
#include <map>
#include <cmath>

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Functions
void	generateSubstitutesDNA (Word w, vector< Word > &subs, int wordLength)
void	generateSubstitutesProtein (Word w, vector< Word > &subs, int wordLength)

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Function Documentation

void generateSubstitutesDNA	(	Word	w,
		vector< Word > &	subs,
		int	wordLength
	)

Definition at line 98 of file HashTablePacked.cpp.

References gBaseBits.

Referenced by main().

{
  Word mask(2);
  for (int i(0) ; i < wordLength ; i++, mask<<=gBaseBits)
  {
    subs.push_back(w^mask);
  } // ~for
} // ~generateSubstitutesDNA

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void generateSubstitutesProtein	(	Word	w,
		vector< Word > &	subs,
		int	wordLength
	)

Definition at line 110 of file HashTablePacked.cpp.

References gResidueBits, subStarts, and subVals.

Referenced by HashTableComponent::HashTableComponent(), HashTablePackedProtein::HashTablePackedProtein(), and main().

{
  Word mask((1<<gResidueBits)-1), thisCodon, thisWord;
  for (int i(0) ; i < wordLength ; i++, mask<<=gResidueBits)
  {
    thisCodon=((w&mask)>>(i*gResidueBits));
    thisWord= (w&(~mask));
    //    cout << ~mask << " " << printResidue( thisWord, wordLength )
    // << " " << printResidue( thisCodon, wordLength) << endl;
    for (int j(subStarts[thisCodon]); j != subStarts[thisCodon+1]; j++ )
    {
      subs.push_back( thisWord | (subVals[j]<<(i*gResidueBits)) );
      //  cout << "generating sub: " << printResidue(subs.back(),wordLength)
      //  << endl;
    } // ~for j
  } // ~for i
} // ~generateSubstitutesProtein

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