<commit_before>#include "CS.h"

#include <memory.h>
#include <stdlib.h>
#include <cmath>

#include "NGM.h"
#include "Timing.h"
#include "Debug.h"
#include "AlignmentBuffer.h"

#undef module_name
#define module_name "CS"

static const int cInvalidLocation = -99999999;
static const SequenceLocation sInvalidLocation(cInvalidLocation, 0);
static const LocationScore sInvalidLocationScore(sInvalidLocation, 0, 0); // { sInvalidLocation, {0} };

#ifdef _DEBUGCS
FILE* ofp2;
#endif

volatile int CS::s_ThreadCount = 0;

//long CS::maxHitSum = 0;
//long CS::readCount = 0;

bool up = false;
int kCount = 0;

//int const cThreshhold = 2;

//Default values
int x_SrchTableBitLen = 24;
//Number of bases per batch
//int const cBatchSize = 1800000;
int const cBatchSize = 1000000;
uint const cPrefixBaseSkip = 0;

float const cOverflowThresh = 0.1f;
float const cOverflowLimit = 10;

uint CS::prefixBasecount = 13;
uint CS::prefixBits = prefixBasecount * 2;<commit_msg>Increased CS batch size<commit_after>#include "CS.h"

#include <memory.h>
#include <stdlib.h>
#include <cmath>

#include "NGM.h"
#include "Timing.h"
#include "Debug.h"
#include "AlignmentBuffer.h"

#undef module_name
#define module_name "CS"

static const int cInvalidLocation = -99999999;
static const SequenceLocation sInvalidLocation(cInvalidLocation, 0);
static const LocationScore sInvalidLocationScore(sInvalidLocation, 0, 0); // { sInvalidLocation, {0} };

#ifdef _DEBUGCS
FILE* ofp2;
#endif

volatile int CS::s_ThreadCount = 0;

//long CS::maxHitSum = 0;
//long CS::readCount = 0;

bool up = false;
int kCount = 0;

//int const cThreshhold = 2;

//Default values
int x_SrchTableBitLen = 24;
//Number of bases per batch
int const cBatchSize = 1800000;
//int const cBatchSize =   10000;
uint const cPrefixBaseSkip = 0;

float const cOverflowThresh = 0.1f;
float const cOverflowLimit = 10;

uint CS::prefixBasecount = 13;
uint CS::prefixBits = prefixBasecount * 2;
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{'dir': 'git-commits-cleaned', 'id': '4954068', 'n_tokens_mistral': 736, 'n_tokens_neox': 654, 'n_words': 204}