sequence/sequest_output_file.h

#ifndef _SEQUEST_OUTPUT_FILE_H_
#define _SEQUEST_OUTPUT_FILE_H_

typedef struct
{
        SequestScoringPeptide   pSequestScoringPeptides[20];
        int                                             nSize;
} SequestOutputFile;

SequestOutputFile*              SequestOutputFileArray_create(int nSize);
int   SequestOutputFile_getSequestVersion(FILE* fp, int* version);
void  SequestOutputFile_destroy(SequestOutputFile * sof);
void  SequestOutputFile_fprint(FILE* fp, SequestOutputFile sof);
int   SequestOutputFile_loadFromSingleFile(char* folder, char* filename, SequestOutputFile* sof);
char* SequestOutputFile_getFilenameFromDTAFile(DTAFile dta, char* expmnt);
char* SequestOutputFilename_create( char* expname, 
                                                                        int scan_start, 
                                                                        int scan_stop, 
                                                                        int charge);
char* SequestOutputFile_createFilename(char* expname, DTAFile* file);


int getSequestFilenameInfo(char* sequestfilename, 
                                                   int* scan_start, 
                                                   int* scan_stop, 
                                                   int* charge);

int  loadSequestIndexFile(char* name, SequestIndexFile* sif);
int  loadSequestPeptideFile(char* name, SequestPeptideFile* spf);

void getIndicesOfSequestOutputFiles(int** arrayofindices, int* nindices, 
                                                                        SequestIndexFile sif, int query); 

void getIndicesWithinIntervalOfRangesArray(int* low, int* upper, 
                                                                                   int start, int stop, int query, 
                                                                                   int** arrayofindices, int* nindices);

void querySequestOutputFiles(SequestIndexFile sif, int query, SequestQueryResult* sqr);

void SequestSummaryFile_fprintTabDelimitedWithFPeak2iArrayIII(FILE* fp, SequestSummaryFile* ssf, Peak2f* speaks, MS2ToFPeak2i* ms2toms1);



#endif

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