Mercurial > repos > vipints > rdiff
view rDiff/src/locfit/Source/mlfut.c @ 2:233c30f91d66
updated python based GFF parsing module which will handle GTF/GFF/GFF3 file types
author | vipints <vipin@cbio.mskcc.org> |
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date | Tue, 08 Oct 2013 07:15:44 -0400 |
parents | 0f80a5141704 |
children |
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#include "mex.h" #include "lfev.h" void lfmxdata(lfdata *lfd, const mxArray *data) { const mxArray *tmp; double *x, *sc, *xl; int n, d, i, k; char c, ststr[16]; n = lfd->n = mxGetM(mxGetField(data,0,"x")); d = lfd->d = mxGetN(mxGetField(data,0,"x")); x = mxGetPr(mxGetField(data,0,"x")); for (i=0; i<d; i++) lfd->x[i] = &x[i*n]; lfd->y = mxGetPr(mxGetField(data,0,"y")); tmp = mxGetField(data,0,"weights"); k = mxGetM(tmp); lfd->w = (k>1) ? mxGetPr(tmp) : NULL; tmp = mxGetField(data,0,"censor"); k = mxGetM(tmp); lfd->c = (k>1) ? mxGetPr(tmp) : NULL; tmp = mxGetField(data,0,"baseline"); k = mxGetM(tmp); lfd->b = (k>1) ? mxGetPr(tmp) : NULL; mxGetString(mxGetField(data,0,"style"),ststr,16); k = strlen(ststr); for (i=0; i<d; i++) { c = (k==1) ? ststr[0] : ststr[i]; switch(c) { case 'a': lfd->sty[i] = STANGL; break; case 'l': lfd->sty[i] = STLEFT; break; case 'r': lfd->sty[i] = STRIGH; break; case 'c': lfd->sty[i] = STCPAR; break; default: lfd->sty[i] = 1; break; } } sc = mxGetPr(mxGetField(data,0,"scales")); k = mxGetN(mxGetField(data,0,"scales")); for (i=0; i<d; i++) lfd->sca[i] = (k==1) ? sc[0] : sc[i]; xl = mxGetPr(mxGetField(data,0,"xlim")); for (i=0; i<d; i++) { lfd->xl[i] = xl[2*i]; lfd->xl[i+d] = xl[2*i+1]; } } void lfmxsp(smpar *sp, mxArray *mcell, int d) { double *alpha; char str[16]; alpha = mxGetPr(mxGetField(mcell,0,"alpha")); nn(sp) = alpha[0]; fixh(sp)= alpha[1]; pen(sp) = alpha[2]; mxGetString(mxGetField(mcell,0,"adaptive_criterion"),str,16); acri(sp) = lfacri(str); deg(sp) = mxGetPr(mxGetField(mcell,0,"degree"))[0]; deg0(sp) = -1; mxGetString(mxGetField(mcell,0,"family"),str,16); fam(sp) = lffamily(str); mxGetString(mxGetField(mcell,0,"link"),str,16); link(sp) = lflink(str); setfamily(sp); mxGetString(mxGetField(mcell,0,"kernel"),str,16); ker(sp) = lfkernel(str); mxGetString(mxGetField(mcell,0,"kernel_type"),str,16); kt(sp) = lfketype(str); npar(sp) = calcp(sp,d); de_renorm = (int)(mxGetPr(mxGetField(mcell,0,"deren"))[0]); mxGetString(mxGetField(mcell,0,"deit"),str,16); de_itype = deitype(str); de_mint = (int)(mxGetPr(mxGetField(mcell,0,"demint"))[0]); lf_debug = (int)(mxGetPr(mxGetField(mcell,0,"debug"))[0]); } void lfmxevs(lfit *lf, mxArray *mcell) { int d, i, j; double *ll, *ur, *mg, *drv; char evstr[16], mod[16], mdir[256]; evstruc *evs; fitpt *fp; deriv *dv; evs = &lf->evs; fp = &lf->fp; dv = &lf->dv; d = lf->lfd.d; if (mxIsChar(mxGetField(mcell,0,"type"))) { mxGetString(mxGetField(mcell,0,"type"),evstr,16); ev(evs) = lfevstr(evstr); } else { ev(evs) = EPRES; evs->mg[0] = mxGetN(mxGetField(mcell,0,"type")); fp->xev = mxGetPr(mxGetField(mcell,0,"type")); } mxGetString(mxGetField(mxGetField(mcell,0,"module"),0,"name"),mod,16); mxGetString(mxGetField(mxGetField(mcell,0,"module"),0,"directory"),mdir,256); MODPARAMS(lf) = mxGetPr(mxGetField(mxGetField(mcell,0,"module"),0,"parameters")); MODNPARAMS(lf) = mxGetN(mxGetField(mxGetField(mcell,0,"module"),0,"parameters")); initmodule(&lf->mdl,mod,mdir,lf); ll = mxGetPr(mxGetField(mcell,0,"lower_left")); ur = mxGetPr(mxGetField(mcell,0,"upper_right")); mg = mxGetPr(mxGetField(mcell,0,"grid")); j = mxGetN(mxGetField(mcell,0,"grid")); cut(evs) = mxGetPr(mxGetField(mcell,0,"cut"))[0]; for (i=0; i<d; i++) { evs->fl[i] = ll[i]; evs->fl[i+d] = ur[i]; if (ev(evs) != EPRES) evs->mg[i] = (j==1) ? mg[0] : mg[i]; } mk(evs) = mxGetPr(mxGetField(mcell,0,"maxk"))[0]; drv = mxGetPr(mxGetField(mcell,0,"derivative")); j = mxGetN(mxGetField(mcell,0,"derivative")); for (i=0; i<j; i++) dv->deriv[i] = drv[i]-1; dv->nd = (drv[0]>0) ? j : 0; }