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#ifndef CODE_ParametersClip
#define CODE_ParametersClip
#include "IncludeDefine.h"
#include "ClipMate.h"
#include "ClipCR4.h"
#include <array>
#include <vector>
class Parameters;
class ReadClipInput
{
public:
vector <uint32> N;
vector <uint32> NafterAd;
vector <string> adSeq;
vector <double> adMMp;
};
class ParametersClip
{//
public:
//bool yes; //trimming is performed
vector<string> adapterType;
array<ReadClipInput,2> in;
void initialize(Parameters *pPin);
void initializeClipMates(vector<vector<ClipMate>> &clipMates);
private:
Parameters *pP;
};
#endif
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