IFinder¶

IFinder.h¶

namespace ft¶

FILE ikmergenerator.h

DESCRIPTION This file contains the declaration of kmergenerator interface

class IFinder¶

#include <ifinder.h>

This file contains the declaration of finder class. It contains functions used to search for kmers inside the FmIndex.

Copyright: Copyright (c) 2019, Wasserman lab
Author: Godfrain Jacques Kounkou

Subclassed by ft::Finder

Public Functions

virtual ft::IFinder::~IFinder()¶

virtual void ft::IFinder::searchMonoIndex(ResultsMap & indexPosResults, const KmerMap & kmerMap, const fs::path & indexPath, const std::string & indexFileLocation, uint maxOccurences, bool parallel, uint threadNumber, bool printSearchTime)= 0

searchMonoIndex

Parameters

indexPosResults:
kmerMap:
indexPath:
indexFileLocation:
maxOccurences:
parallel:
threadNumber:

virtual void ft::IFinder::searchMultipleIndexes(ResultsMap & indexPosResults, const KmerMap & kmerMap, const std::set< fs::path > & indexPaths, const std::string & indexFileLocation, uint maxOccurences, bool parallel, uint threadNumber, bool printSearchTime, long long offset)= 0

searchMultipleIndexes

Parameters

indexPosResults:
kmerMap:
indexPaths:
indexFileLocation:
maxOccurences:
parallel:
threadNumber: