thrdsgoi.c

Go to the documentation of this file.

Go to the SVN repository for this file.

/* $Id: thrdsgoi.c 32839 2007-03-05 20:41:55Z kazimird $
*===========================================================================
*
*                            PUBLIC DOMAIN NOTICE
*               National Center for Biotechnology Information
*
*  This software/database is a "United States Government Work" under the
*  terms of the United States Copyright Act.  It was written as part of
*  the author's official duties as a United States Government employee and
*  thus cannot be copyrighted.  This software/database is freely available
*  to the public for use. The National Library of Medicine and the U.S.
*  Government have not placed any restriction on its use or reproduction.
*
*  Although all reasonable efforts have been taken to ensure the accuracy
*  and reliability of the software and data, the NLM and the U.S.
*  Government do not and cannot warrant the performance or results that
*  may be obtained by using this software or data. The NLM and the U.S.
*  Government disclaim all warranties, express or implied, including
*  warranties of performance, merchantability or fitness for any particular
*  purpose.
*
*  Please cite the author in any work or product based on this material.
*
* ===========================================================================
*
* File Name:  thrdsgoi.c
*
* Author:  Stephen Bryant
*
* Initial Version Creation Date: 08/16/2000
*
* $Revision: 32839 $
*
* File Description: threader
*/
 
 
 
/* Set core segment sampling order */
 
#include <algo/structure/threader/thrdatd.h>
#include <algo/structure/threader/thrddecl.h>
 
/*int*/ void sgoi(int is, int it, Rnd_Smp* pvl, Seg_Ord* sgo) {
/*----------------------------------------------------*/
/* is:   Code to determine order of segment sampling  */
/* it:   Code to determine order of terminus sampling */
/* pvl:  Storage for segment location probabilities   */
/* sgo:  Segment samping order                        */
/*----------------------------------------------------*/
 
int nsc;        /* Number of threaded core segments */
int i,j,k;      /* Counters */
int *si;        /* Segment index by order of sampling */
int *so;        /* Flags segments already assigned an order */
int *to;        /* Order of terminus sampling, 0=Nterm, 1=Cterm. */
float   pv;     /* P value */
 
 
/* Number of core segments */
nsc=sgo->nsc;
 
/* Initialize alignment order arrays */
si=sgo->si;
so=sgo->so;
for(i=0; i<nsc; i++) so[i]=1;
to=sgo->to;
 
/* Determine the order of core segment alignment */
/* printf("is:%d\n",is); */
switch(is) {
 
    default: {  /* Order randomly */
        /* printf("segment order by default random method\n"); */
        pvl->n=nsc;
        for(i=0; i<nsc; i++) {
            pv= 1.0f /(nsc-i);
            for(j=0; j<nsc; j++) {
                if(so[j]==1) pvl->p[j]=pv;
                else pvl->p[j]=0.; }
            k=rsmp(pvl); so[k]=0; si[i]=k; }
            break; }
 
    case 1: {   /* Order by occurrence in the core definition */
 
        /* printf("segment order by occurrence, case 1\n"); */
        for(i=0; i<nsc; i++)  si[i]=i;  break; }
 
        }
 
 
/* Select the terminus to sample first, using the specified method */
/* printf("it:%d\n",it); */
switch(it) {
 
    default: {  /* Choose n- or c-terminus at random */
        /* printf("terminus order by default random method\n");*/
        for(i=0; i<nsc; i++) {
            pvl->n=2; pvl->p[0]=.5; pvl->p[1]=.5;
            to[i]=rsmp(pvl); } break; }
 
    case 1: {   /* N-terminus first */
        /* printf("segment order n-terminus first, case 1\n"); */
        for(i=0; i<nsc; i++) to[i]=0; break; }
 
    case 2: {   /* C-terminus first */
        /* printf("segment order c-terminus first, case 2\n"); */
        for(i=0; i<nsc; i++) to[i]=1; break; }
 
        }
 
}