45 lines
1.3 KiB
C++
45 lines
1.3 KiB
C++
#ifndef LOAD_TIME_INITIALIZER_H
|
|
#define LOAD_TIME_INITIALIZER_H
|
|
#include "headers.h"
|
|
#include <jni.h>
|
|
class LoadTimeInitializer
|
|
{
|
|
public:
|
|
LoadTimeInitializer(); //will be called when library is loaded
|
|
void print_profiling();
|
|
void debug_dump(std::string filename, std::string s, bool to_append, bool add_newline=true);
|
|
void debug_close();
|
|
|
|
jfieldID m_readBasesFID;
|
|
jfieldID m_readQualsFID;
|
|
jfieldID m_insertionGOPFID;
|
|
jfieldID m_deletionGOPFID;
|
|
jfieldID m_overallGCPFID;
|
|
jfieldID m_haplotypeBasesFID;
|
|
//used to compute avg, variance of #testcases
|
|
double m_sumNumReads;
|
|
double m_sumSquareNumReads;
|
|
double m_sumNumHaplotypes;
|
|
double m_sumSquareNumHaplotypes;
|
|
double m_sumNumTestcases;
|
|
double m_sumSquareNumTestcases;
|
|
uint64_t m_sumNumDoubleTestcases;
|
|
double m_sumReadLengths;
|
|
double m_sumHaplotypeLengths;
|
|
double m_sumProductReadLengthHaplotypeLength;
|
|
double m_sumSquareProductReadLengthHaplotypeLength;
|
|
unsigned m_maxNumTestcases;
|
|
unsigned m_num_invocations;
|
|
//timing in nanoseconds
|
|
uint64_t m_compute_time;
|
|
uint64_t m_data_transfer_time;
|
|
//bytes copied
|
|
uint64_t m_bytes_copied;
|
|
private:
|
|
std::map<std::string, std::ofstream*> m_filename_to_fptr;
|
|
};
|
|
extern LoadTimeInitializer g_load_time_initializer;
|
|
|
|
|
|
#endif
|