massspec/fpeakfile.h

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#ifndef _FPEAKFILE_H_
#define _FPEAKFILE_H_

/* Copyright (c) Kyriacos Leptos and the President and Fellows of Harvard University
   Release Date: 2004-11-01
   Part of the MapQuant suite library "massspec.lib" 
*/

struct FPeakFile
{
        unsigned int state: 2;
        unsigned int isMultiple: 1; // added 2004-06-14

        FILE*    pFPeakFile;
        fpos_t   datastart;
        fpos_t   curr_pos;

        // *****************************************************
        // ******** Universal Processing Identifiers ***********
        // *****************************************************

        // Experiment pointer
        // Experiment's name
        // Rectangle  within experiment
        // Processing script
        // Processing script's name

        char*           szPathname;
        char*           szName;
        char*           szSession;
        char*           szNameInSession;

        Experiment*     expmnt;
        // char* szExpName  *** NOT IMPLEMENTED ***

        Rectangle4i borders;
        
        // Processing Script
        char*                   ps;
        ProcScript              procscript;
        
        // ******************************************************
        // ********* END OF UNIVERSAL PROCESSING IDENTIFIERS ****
        // ******************************************************

        int                     curve;

        Map2DPosition*          pFPeakPositions;

        FPeak2i*                        pFPeaks;
        int                                     nFPeaks;
        int                                     nCurrFPeak;

        struct Segment* pSegments;

        int                     nSegments;
        int                     nCurrSegment;

        int                     nSkippedSegment;
        
};

typedef struct FPeakFile FPeakFile;

int                     FPeakFile_load(char* szFilename, FPeakFile *file);
int                     FPeakFile_sntLoad(FPeakFile* file,      Experiment* expmnt, 
                                                                                                char* session, 
                                                                                                char* name, char* tile);


int                     FPeakFile_populateNextSegment(FPeakFile* file);
void            FPeakFile_initIterator(FPeakFile* file);
Segment*        FPeakFile_getNextSegment(FPeakFile* file);

int                     FPeakFile_querySegment(char* szFilename, int scan, int bin);



void            FPeakFile_destroy(FPeakFile* file);
int                     FPeakFile_countSegments(FPeakFile* file);
void            FPeakFile_init(FPeakFile* file);

void            FPeakFile_fprintHeader(FILE* fp, char *experiment,
                                                                          Rectangle4i *rect, 
                                                                          ProcScript  *PS, 
                                                                          int nSegments,
                                                                          char* curve,
                                                                          int npeaks_cutoff);

FPeak2i*        FPeakFile_getFPeak2iArray(FPeakFile fpkfile, int* nFPeaks);
Peak2f*         FPeakFile_getPeak2fArray(FPeakFile* fpkfile, int* nFPeaks);

int* getSkippedLabels(char* szPath, char* szFilename, int* nsize);

struct Segment Experiment_getSegment(Experiment expmnt, char* szSession, int nSegment);
struct Segment FPeakFile_getSegment(FPeakFile fpkfile, char* szSession, int nSegment);

void FPeakFile_tile(FPeakFile* fpk, char* fullname);

/* Querying FPeak2iFile */

FPeak2iToSegmentIndex*  FPeakFile_getFPeak2iToSegmentMap(FPeakFile* file);

#endif

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