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Copy pathfit_subdiv_model_to_LC_AO_QR.c
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fit_subdiv_model_to_LC_AO_QR.c
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#include<stdio.h>
#include<stdlib.h>
#include"utils.h"
#include"matrix_ops.h"
#include"structs.h"
#include"globals.h"
double *INI_AO_TOTAL_BRIGHT;
void fit_subdiv_model_to_LC_AO(LCstruct *LC,AOstruct *AO,OCstruct *OC,RDstruct *RD,CNTRstruct *CR)
{
//First initialize the initial shape
int *tlist,*tlistn,nfac,nvert,nfacn,nvertn;
double *vlist,*vlist2,*vlistn,*D;
int nLCtotal=0;
void (*SubdivFunc)(int*,double*,int,int,int **,double **,int *,int*,double **,int);
if(INI_SUBDIV_TYPE_BUTTERFLY==1)
SubdivFunc=&butterfly_subdiv;
else
SubdivFunc=&Sqrt3_Subdiv;
if(INI_SHAPE_FILE!=NULL)
read_shape(INI_SHAPE_FILE,&tlist,&vlist,&nfac,&nvert,0);
else if(INI_RESTORE_STATE && INI_SD_LEVEL==-1)
{
int LMAX;
int res=read_state_fileI(INI_RESTORE_STATE,"#LMAX",&LMAX,1); //We restore from octantoid parameterization
if(res>0 && INI_NROWS>0)
{
int alength;
nfac=8*pow(INI_NROWS,2);
nvert=4*pow(INI_NROWS,2)+2;
vlist=calloc(3*nvert,sizeof(double));
tlist=calloc(3*nfac,sizeof(int));
read_state_fileI(INI_RESTORE_STATE,"#ParamLength",&alength,1);
double *a=calloc(alength,sizeof(double));
read_state_file(INI_RESTORE_STATE,"#aParams",a,alength);
double *D1=calloc((3*nvert+3)*(alength+3),sizeof(double));
octantoid_to_trimesh(a,LMAX,INI_NROWS,tlist,vlist,D1,3);
free(D1);
free(a);
}
else
{
read_state_fileI(INI_RESTORE_STATE,"#NFacets",&nfac,1);
read_state_fileI(INI_RESTORE_STATE,"#NVertices",&nvert,1);
vlist=calloc(3*nvert,sizeof(double));
tlist=calloc(3*nfac,sizeof(int));
read_state_fileI(INI_RESTORE_STATE,"#PolyhedronFacets",tlist,3*nfac);
read_state_file(INI_RESTORE_STATE,"#PolyhedronVertices",vlist,3*nvert);
}
}
else
{
nfac=8*pow(INI_NROWS,2);
nvert=4*pow(INI_NROWS,2)+2;
vlist=calloc(3*nvert,sizeof(double));
tlist=calloc(3*nfac,sizeof(int));
generate_ellipsoid(INI_NROWS,ELLIPSOID_SEMI_A,ELLIPSOID_SEMI_B,ELLIPSOID_SEMI_C,tlist,vlist);
}
vlist2=calloc(3*nvert,sizeof(double));
//Setup angles
double angles[]={(90-INI_ANGLE_B)*PI/180,INI_ANGLE_L*PI/180,24*2*PI*1.0/INI_ANGLE_P,INI_ANGLE_PHI0*PI/180};
double angles2[4]={0,0,0,0};
angles2[3]=angles[3];
(*SubdivFunc)(tlist,vlist,nfac,nvert,&tlistn,&vlistn,&nfacn,&nvertn,&D,INI_SD_LEVEL);
//This is for calibrated lightcurves
double *params=NULL,*params2=NULL;
int ncalib=0;
int USE_CALIB=0;
int nAlbedo=0;
double *eAlbedo=NULL,*eAlbedo2=NULL;
double *dLCdalb=NULL;
double *Alblimits=NULL;
double *Albreg=NULL,*dAlbreg=NULL;
int nAlbreg=0;
if(INI_HAVE_LC)
{
nLCtotal=LC->ntotal;
if(INI_PHASE_PARAMS!=NULL)
{
params=calloc(3,sizeof(double));
params2=calloc(3,sizeof(double));
params[0]=INI_PHASE_PARAMS[0];
params[1]=INI_PHASE_PARAMS[1];
params[2]=INI_PHASE_PARAMS[2];
// params[3]=INI_PHASE_PARAMS[3];
memcpy(params2,params,sizeof(double)*3);
ncalib=3;
}
USE_CALIB=LC->calib;
//This is for calibrated lightcurves end
//LC albedo variegation
if(INI_FIT_ALBEDO==1)
{
nAlbedo=nvertn;
eAlbedo=calloc(nAlbedo,sizeof(double));
eAlbedo2=calloc(nAlbedo,sizeof(double));
dLCdalb=calloc(nLCtotal*nAlbedo,sizeof(double));
Alblimits=calloc(2,sizeof(double));
Alblimits[0]=INI_ALBEDO_MIN;
Alblimits[1]=INI_ALBEDO_MAX;
Albreg=calloc(nAlbedo,sizeof(double));
dAlbreg=calloc(nAlbedo*nAlbedo,sizeof(double));
nAlbreg=nAlbedo;
}
}
int nAOtotal=0;
int nAOcols=0;
int nAO=0;
int nAOoffsets=0;
int nAOscale=0;
double *AOoffset,*AOoffset2,*AOout,*AOdv,AOfit=0,*AOscale,*AOscale2,*AOds,*dAOdAlb,*ao_total_bright;
if(INI_HAVE_AO)
{
nAOtotal=2*(AO->ntotal);
nAOcols=3*nvert+3+2*(AO->nao);
nAOoffsets=2*(AO->nao);
nAO=AO->nao;
AOoffset=calloc(2*(AO->nao),sizeof(double));
if(INI_INPUT_AO_OFFSET!=NULL)
{
read_vector_file(INI_INPUT_AO_OFFSET,AOoffset,2*(AO->nao));
}
AOoffset2=calloc(2*(AO->nao),sizeof(double));
AOout=calloc(nAOtotal,sizeof(double));
AOdv=calloc(nAOtotal*nAOcols,sizeof(double));
AOfit=0;
AOscale=NULL;
AOscale2=NULL;
INI_AO_TOTAL_BRIGHT=calloc(nAO,sizeof(double));
ao_total_bright=calloc(nAO,sizeof(double));
if(INI_AO_SCALING)
{
AOscale=calloc(1*nAO,sizeof(double));
AOscale2=calloc(1*nAO,sizeof(double));
AOds=calloc(nAOtotal*nAO,sizeof(double));
nAOscale=nAO;
}
if(INI_FIT_AO_ALBEDO)
{
dAOdAlb=calloc(nAOtotal*nAlbedo,sizeof(double));
}
}
int nCRtotal=0;
int nCRcols=0;
int nCRoffsets=0;
int nCR=0;
double* CRoffset,*CRoffset2;
double *CRdv;
double *CRout;
double *CRdoff;
double CRfit;
if(INI_HAVE_CNTR)
{
if(INI_CNTR_IS_SPARSE)
nCRtotal=(CR->ntotal);
else
nCRtotal=(CR->ntotal)+nvertn*CR->ncont;
nCRcols=3*nvert+3; //Columns in derivative matrix 3*vertices+angles
nCRoffsets=2*(CR->ncont);
nCR=CR->ncont;
CRout=calloc(nCRtotal,sizeof(double));
CRoffset=calloc(2*nCR,sizeof(double));
CRoffset2=calloc(2*nCR,sizeof(double));
CRdv=calloc(nCRtotal*(3*nvert+3),sizeof(double)); //derivative matrix, vertices+angles
CRdoff=calloc(nCRtotal*2*nCR,sizeof(double)); //derivative matrix, offsets
}
// print_matrix(AO->up,AO->nao,3);
//Occultation data
int nOCtotal=0;
int nOCcols=0;
int nOC=0;
int nOCoffsets=0;
int nChordoffsets=0;
int nvectorreg=0;
double *OCoffset,*OCoffset2,*OCout,*OCdv,OCfit=0,*OCdoff;
double *Chordoffset,*Chordoffset2;
double *dChordoffset; //Derivative matrix for chord offsets
double vectorreg; //regularization for free chord offsets
double *dvectorreg; //derivative matrix for free chord offsets, 1xnChordoffsets
if(INI_HAVE_OC)
{
nOCtotal=4*(OC->ntotal);
nOCcols=3*nvert+3;
nOCoffsets=2*(OC->noc);
nOC=OC->noc;
OCoffset=calloc(nOCoffsets,sizeof(double));
if(INI_OC_OFFSET!=NULL)
memcpy(OCoffset,INI_OC_OFFSET,sizeof(double)*nOCoffsets);
OCoffset2=calloc(nOCoffsets,sizeof(double));
OCdv=calloc(nOCtotal*nOCcols,sizeof(double));
OCout=calloc(nOCtotal,sizeof(double));
OCdoff=calloc(nOCtotal*nOCoffsets,sizeof(double));
Chordoffset=calloc(OC->ntotal,sizeof(double));
Chordoffset2=calloc(OC->ntotal,sizeof(double));
if(INI_CHORD_OFFSET!=NULL)
{
memcpy(Chordoffset,INI_CHORD_OFFSET,sizeof(double)*OC->ntotal);
memcpy(Chordoffset2,INI_CHORD_OFFSET,sizeof(double)*OC->ntotal);
}
if(INI_FREE_CHORD_NMR>0)
{
nChordoffsets=OC->ntotal;
nvectorreg=1;
dChordoffset=calloc(nOCtotal*nChordoffsets,sizeof(double));
dvectorreg=calloc(nChordoffsets,sizeof(double));
}
}
int nRDtotal=0;
int nRDcols=0;
int nRD=0;
int nRDoffsets=0;
int nRDscale=0;
int nRDexp=0;
double RDexp=INI_RDEXP;
double RDexp2=RDexp;
double *RDoffset,*RDoffset2,*RDscale,*RDscale2,*RDout,*RDdv,*RDdoff,*RDdscale,*RDdexp;
if(INI_HAVE_RD)
{
nRDtotal=2*(RD->ntotal);
nRDcols=3*nvert+3;
nRDoffsets=2*(RD->nRD);
nRD=RD->nRD;
nRDscale=nRD;
nRDexp=0;
RDoffset=calloc(nRDoffsets,sizeof(double));
RDoffset2=calloc(nRDoffsets,sizeof(double));
RDscale=calloc(nRDscale,sizeof(double));
RDscale2=calloc(nRDscale,sizeof(double));
RDout=calloc(nRDtotal,sizeof(double));
RDdv=calloc(nRDtotal*nRDcols,sizeof(double));
RDdoff=calloc(nRDtotal*nRDoffsets,sizeof(double));
RDdscale=calloc(nRDtotal*nRD,sizeof(double));
RDdexp=calloc(nRDtotal,sizeof(double));
}
//Variables for regularization terms
double CRres; //Convex reg
double *dCRdv;
double *y,*y2;
// printf("AO nobs: %d %d total: %d\n",AO->nobs[0],AO->nobs[1],AO->ntotal);
// write_matrix_file("/tmp/data0r.txt",AO->datar[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/data0i.txt",AO->datai[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/data1r.txt",AO->datar[1],1,AO->nobs[1]);
// write_matrix_file("/tmp/data1i.txt",AO->datai[1],1,AO->nobs[1]);
// write_matrix_file("/tmp/freqx.txt",AO->freqx[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/freqy.txt",AO->freqy[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/psf0r.txt",AO->psfr[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/psf0i.txt",AO->psfi[0],1,AO->nobs[0]);
// write_matrix_file("/tmp/psf1r.txt",AO->psfr[1],1,AO->nobs[1]);
// write_matrix_file("/tmp/psf1i.txt",AO->psfi[1],1,AO->nobs[1]);
// write_matrix_file("/tmp/data1r.txt",RD->datar[0],1,RD->nobs[0]);
// write_matrix_file("/tmp/data1i.txt",RD->datai[0],1,RD->nobs[0]);
// write_matrix_file("/tmp/freqx.txt",RD->freqx[0],1,RD->nobs[0]);
// write_matrix_file("/tmp/freqy.txt",RD->freqy[0],1,RD->nobs[0]);
// exit(1);
dCRdv=calloc(3*nvert+3,sizeof(double));
double ANGres; //Dihedral angle regularization
double *dANGdv;
dANGdv=calloc(3*nvert+3,sizeof(double));
double *Ares; //Area regularization
double *dAdv;
Ares=calloc(nfacn,sizeof(double));
dAdv=calloc(nfacn*(3*nvert+3),sizeof(double));
double *S,*Sp;
double *J,*JTJ,*JTJpd;
int Slength;
double zm=0;
double *dzmdz;
int softmaxz=0;
if(INI_ZMAX_WEIGHT>0)
{
softmaxz=1;
dzmdz=calloc(nvert,sizeof(double));
}
int inerreglength=0;
double inerres,inerangle;
double *inerdvi=NULL,*inerdv=NULL;
if(INI_INER_WEIGHT>0)
{
inerreglength=1;
inerdv=calloc(3*nvert+3,sizeof(double));
inerdvi=calloc(3*nvertn+3,sizeof(double));
}
int areareglength=0;
if(INI_AW>0) //Option to disable Area regularization
{
areareglength=nfacn;
}
int nCOM=0;
double CoM=0.0;
double *CoMdv;
int info=0;
if(INI_COM_WEIGHT>0)
{
nCOM=1;
CoMdv=calloc(3*nvert+3,sizeof(double));
}
Slength=nLCtotal+nAOtotal+nOCtotal+nRDtotal+1+1+areareglength+nvectorreg+nAlbreg+softmaxz+nCRtotal+nCOM+inerreglength; //LC points+AO points+OC points+RD points+convex reg+dihedral reg+area reg+[vector reg for free chords]+albedo reg+restricted z reg+contour_points
int nJcols=3*nvert+3+ncalib+nAlbedo+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets+nRDoffsets+nRDscale+nRDexp+nCRoffsets; //shape params+offset params and scale
int OCoffsetcolpos=3*nvert+3+nAOoffsets+nAOscale;
int Chordoffsetcolpos=3*nvert+3+nAOoffsets+nAOscale+nOCoffsets;
int OCrowpos=nLCtotal+nAOtotal;
int AOscalepos=3*nvert+3+nAOoffsets;
int RDoffsetcolpos=3*nvert+3+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets;
int RDscalecolpos=3*nvert+3+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets+nRDoffsets;
int RDrowpos=nLCtotal+nAOtotal+nOCtotal;
int Albcolpos=3*nvert+3+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets+nRDoffsets+nRDscale+nRDexp;
int regpos=nLCtotal+nAOtotal+nOCtotal+nRDtotal;
int phasecolpos=3*nvert+3+nAlbedo+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets+nRDoffsets+nRDscale+nRDexp;
int Convregpos=regpos;
int Angregpos=regpos+1;
int Arearegpos=regpos+2;
int Zmaxregpos=Arearegpos+areareglength;
int Vectorregpos=Zmaxregpos+softmaxz;
int Albregpos=Vectorregpos+nvectorreg;
int CRoffsetcolpos=3*nvert+3+ncalib+nAlbedo+nAOoffsets+nAOscale+nOCoffsets+nChordoffsets+nRDoffsets+nRDscale+nRDexp;
int CRrowpos=nLCtotal+nAOtotal+nOCtotal+nRDtotal+1+1+areareglength+nvectorreg+nAlbreg+softmaxz;
int CoMregpos=CRrowpos+nCRtotal;
int inerregpos=CoMregpos+nCOM;
S=calloc(Slength+nJcols,sizeof(double));
Sp=calloc(Slength,sizeof(double));
J=calloc(Slength*(nJcols),sizeof(double));
JTJ=calloc((nJcols)*(nJcols),sizeof(double));
JTJpd=calloc((nJcols)*(nJcols),sizeof(double));
//Check if some parameters are fixed:
double *Mask_Matrix;
int *Mask;
int nMask=0;
double *MJTJ;
double *MJTJpd;
double *MX;
double *JM;
double *lhs;
double *d_old=calloc(nJcols,sizeof(double));
double *d=calloc(nJcols,sizeof(double));
int first_time=1;
if(INI_MASK_SET==1)
{
Mask=calloc(nJcols,sizeof(int));
if(INI_FIX_SHAPE==1)
for(int k=0;k<3*nvert;k++)
Mask[k]=1;
if(INI_FIX_ANGLES==1)
for(int k=3*nvert;k<3*nvert+3;k++)
Mask[k]=1;
if(INI_FREE_CHORD_NMR>0)
{
for(int k=0;k<nChordoffsets;k++)
Mask[Chordoffsetcolpos+k]=1;
for(int k=0;k<INI_FREE_CHORD_NMR;k++)
Mask[Chordoffsetcolpos+INI_FREE_CHORD_LIST[k]-1]=0;
}
if(INI_PHASE_MASK!=NULL)
{
Mask[phasecolpos]=INI_PHASE_MASK[0];
Mask[phasecolpos+1]=INI_PHASE_MASK[1];
Mask[phasecolpos+2]=INI_PHASE_MASK[2];
}
if(INI_FIX_VERTEX_NBR>0)
{
for(int k=0;k<INI_FIX_VERTEX_NBR;k++)
if(INI_FIX_VERTEX_LIST[k]<=nvert)
{
Mask[INI_FIX_VERTEX_LIST[k]-1]=1;
Mask[INI_FIX_VERTEX_LIST[k]-1+nvert]=1;
Mask[INI_FIX_VERTEX_LIST[k]-1+2*nvert]=1;
}
}
mask_matrix(nJcols,Mask,&Mask_Matrix,&nMask);
MJTJ=calloc(nMask*nMask,sizeof(double));
MJTJpd=calloc(nMask*nMask,sizeof(double));
MX=calloc(nMask+Slength,sizeof(double));
JM=calloc(Slength*nMask,sizeof(double));
}
double *LCout,*dLCdv,*rhs,*X;
double LCfit;
double RDfit=0;
LCout=calloc(nLCtotal,sizeof(double));
dLCdv=calloc((nLCtotal)*(3*nvert+3),sizeof(double));
rhs=calloc(nJcols,sizeof(double));
X=calloc(nJcols,sizeof(double));
//phase parameters
double *dLCdp=NULL;
if(INI_PHASE_PARAMS!=NULL)
dLCdp=calloc(nLCtotal*3,sizeof(double));
//Weights
double AOW=INI_AOW;
double lcW=INI_LCW;
double RDW=INI_RW;
double cW=INI_CW;
double aW=INI_AW;
double ocW=INI_OCW;
double angW=INI_DW;
double lambda=INI_LAMBDA;
int decreased=1;
double chisq=1e9;
double chisq2;
double Aresfit;
double prevdec=10;
double dec=10;
double threshold=INI_MINDEC;
int count=0;
int DONE=0;
int alength=0,LMAX=0;
if(INI_RESTORE_STATE)
{
printf("Restoring previous state from %s\n",INI_RESTORE_STATE);
int res=read_state_fileI(INI_RESTORE_STATE,"#LMAX",&LMAX,1); //We restore from octantoid parameterization
if(res>0)
{
read_state_fileI(INI_RESTORE_STATE,"#ParamLength",&alength,1);
double *a=calloc(alength,sizeof(double));
read_state_file(INI_RESTORE_STATE,"#aParams",a,alength);
double *D1=calloc((3*nvert+3)*(alength+3),sizeof(double));
octantoid_to_trimesh(a,LMAX,INI_NROWS,tlist,vlist,D1,3);
free(D1);
free(a);
}
else if(INI_SD_LEVEL==-1)
{
read_state_fileI(INI_RESTORE_STATE,"#NFacets",&nfac,1);
read_state_fileI(INI_RESTORE_STATE,"#NVertices",&nvert,1);
read_state_fileI(INI_RESTORE_STATE,"#PolyhedronFacets",tlist,3*nfac);
read_state_file(INI_RESTORE_STATE,"#PolyhedronVertices",vlist,3*nvert);
}
else
{
read_state_fileI(INI_RESTORE_STATE,"#NFacets",&nfac,1);
read_state_fileI(INI_RESTORE_STATE,"#NVertices",&nvert,1);
read_state_file(INI_RESTORE_STATE,"#Vertices",vlist,3*nvert);
read_state_fileI(INI_RESTORE_STATE,"#Facets",tlist,3*nfac);
}
read_state_file(INI_RESTORE_STATE,"#Angles",angles,4);
angles[0]=(90-angles[0])*PI/180;
angles[1]=angles[1]*PI/180;
angles[2]=24*2*PI*1.0/angles[2];
angles[3]=angles[3]*PI/180;
//Restore shape
//Restore AO
read_state_file(INI_RESTORE_STATE,"#AOoffset",AOoffset,nAOoffsets);
read_state_file(INI_RESTORE_STATE,"#AOscale",AOscale,nAOscale);
//Restore OC
read_state_file(INI_RESTORE_STATE,"#OCCoffset",OCoffset,nOCoffsets);
read_state_file(INI_RESTORE_STATE,"#Chordoffset",Chordoffset,nChordoffsets);
//Restore albedo
int albcount=0;
if(INI_HAVE_LC && INI_FIT_ALBEDO && INI_RESTORE_ALBEDO)
{
albcount=read_state_file(INI_RESTORE_STATE,"#Albedolog",eAlbedo,nAlbedo);
if(albcount!=nAlbedo)
{
printf("There are %d albedo values, but %d vertices. Discarding loaded albedos\n",albcount,nAlbedo);
zero_array(eAlbedo,nAlbedo);
}
}
if(INI_HAVE_RD)
{
read_state_file(INI_RESTORE_STATE,"#RDoffset",RDoffset,nRDoffsets);
read_state_file(INI_RESTORE_STATE,"#RDscale",RDscale,nRDscale);
}
}
for(int k=0;k<NUM_OF_ROUNDS;k++)
{
start:
if(decreased==1)
{
if(INI_DW_DEC!=1.0)
angW=INI_DW*pow(INI_DW_DEC,count);
(*SubdivFunc)(tlist,vlist,nfac,nvert,&tlistn,&vlistn,&nfacn,&nvertn,&D,INI_SD_LEVEL); //Do subdivision. Remember to free allocated mem
//Calculate LCs
if(INI_HAVE_LC)
{
calculate_lcs(tlistn,vlistn,nfacn,nvertn,angles,LC,D,nvertn,nvert,LCout,dLCdv,eAlbedo,Alblimits,dLCdalb,params,dLCdp,1);
/////////////DEBUG////////////////////////////////
// write_shape_file("/tmp/Inishape.txt",tlistn,vlistn,nfacn,nvertn);
// write_matrix_file("/tmp/D.txt",D,nvertn,nvert);
// write_matrix_file("/tmp/LCout.txt",LCout,1,nLCtotal);
// write_matrix_file("/tmp/dLCdv.txt",dLCdv,nLCtotal,3*nvert+3);
// write_matrix_file("/tmp/dLCdp.txt",dLCdp,nLCtotal,4);
///////////DEBUG/////////////////////////////////////
if(INI_FIT_ALBEDO==1)
{
mult_with_cons(dLCdalb,nLCtotal,nAlbedo,lcW);
//localsmooth(tlistn,vlistn,nfacn,nvertn,eAlbedo,Alblimits,Albreg,dAlbreg);
alb_smooth(eAlbedo,nAlbedo,Albreg,dAlbreg);
mult_with_cons(dAlbreg,nAlbedo,nAlbedo,-INI_ALBREGW);
mult_with_cons(Albreg,1,nAlbedo,INI_ALBREGW);
set_submatrix(S,1,Slength,Albreg,1,nAlbedo,0,Albregpos);
set_submatrix(J,Slength,nJcols,dLCdalb,nLCtotal,nAlbedo,0,Albcolpos);
set_submatrix(J,Slength,nJcols,dAlbreg,nAlbedo,nAlbedo,Albregpos,Albcolpos);
}
mult_with_cons(LCout,1,nLCtotal,lcW);
mult_with_cons(dLCdv,nLCtotal,3*nvert+3,lcW);
set_submatrix(S,1,Slength,LCout,1,nLCtotal,0,0);
matrix_transprod(LCout,nLCtotal,1,&LCfit);
set_submatrix(J,Slength,nJcols,dLCdv,nLCtotal,3*nvert+3,0,0);
}
//AO data
if(INI_HAVE_AO)
{
////////////DEBUG/////////////REMOVE THIS!!!!!!!!!!!!!!!
// AO->psfr[0]=NULL;
// AO->psfi[0]=NULL;
// AO->psfr[1]=NULL;
// AO->psfi[1]=NULL;
// zero_array(AO->datar[0],AO->nobs[0]);
// zero_array(AO->datai[0],AO->nobs[0]);
// zero_array(AO->datar[1],AO->nobs[1]);
// zero_array(AO->datai[1],AO->nobs[1]);
///////////DEBUG////////////////////////////////////////
Calculate_AOs(tlistn,vlistn,nfacn,nvertn,angles,AO,AOoffset,D,nvertn,nvert,INI_AO_WEIGHT,AOscale,AOout,AOdv,AOds,eAlbedo,Alblimits,dAOdAlb,1);
/////////////DEBUG//////////////////
// write_matrix_file("/tmp/AOout.txt",AOout,1,nAOtotal);
// write_matrix_file("/tmp/AOdv.txt",AOdv,nAOtotal,nAOcols);
/////////////DEBUG////////////////
mult_with_cons(AOout,1,nAOtotal,AOW);
mult_with_cons(AOdv,nAOtotal,nAOcols,AOW);
set_submatrix(S,1,Slength,AOout,1,nAOtotal,0,nLCtotal); //Construct Jacobian matrix
set_submatrix(J,Slength,nJcols,AOdv,nAOtotal,nAOcols,nLCtotal,0);
matrix_transprod(AOout,nAOtotal,1,&AOfit);
if(INI_AO_SCALING)
{
mult_with_cons(AOds,nAOtotal,nAO,AOW);
set_submatrix(J,Slength,nJcols,AOds,nAOtotal,nAO,nLCtotal,nAOcols);
}
if(INI_FIT_AO_ALBEDO)
{
mult_with_cons(dAOdAlb,nAOtotal,nAlbedo,AOW);
set_submatrix(J,Slength,nJcols,dAOdAlb,nAOtotal,nAlbedo,nLCtotal,Albcolpos);
}
}
if(INI_HAVE_CNTR)
{
Calculate_Contours(tlistn,vlistn,nfacn,nvertn,angles,CR,CRoffset,D,nvertn,nvert,CRout,CRdv,CRdoff);
mult_with_cons(CRout,1,nCRtotal,INI_CNTR_WEIGHT);
mult_with_cons(CRdv,nCRtotal,3*nvert+3,-INI_CNTR_WEIGHT);
mult_with_cons(CRdoff,nCRtotal,nCRoffsets,-INI_CNTR_WEIGHT);
set_submatrix(S,1,Slength,CRout,1,nCRtotal,0,CRrowpos);
set_submatrix(J,Slength,nJcols,CRdv,nCRtotal,3*nvert+3,CRrowpos,0);
set_submatrix(J,Slength,nJcols,CRdoff,nCRtotal,nCRoffsets,CRrowpos,CRoffsetcolpos);
matrix_transprod(CRout,nCRtotal,1,&CRfit);
}
if(INI_HAVE_OC)
{
if(INI_FREE_CHORD_NMR>0)
{
calculate_OCs(tlistn,vlistn,nfacn,nvertn,angles,OC,OCoffset,INI_OC_WEIGHT,D,nvertn,nvert,Chordoffset,OCout,OCdv,OCdoff,dChordoffset);
vector_regularization(Chordoffset,nChordoffsets,&vectorreg,dvectorreg);
mult_with_cons(dChordoffset,nOCtotal,nChordoffsets,-ocW);
mult_with_cons(dvectorreg,1,nChordoffsets,-INI_CHRDW);
vectorreg*=INI_CHRDW;
S[Vectorregpos]=vectorreg; //NOTE ABSOLUTE ADDRESS HERE. FIX!
set_submatrix(J,Slength,nJcols,dChordoffset,nOCtotal,nChordoffsets,OCrowpos,Chordoffsetcolpos); //Chord offsets
set_submatrix(J,Slength,nJcols,dvectorreg,1,nChordoffsets,Vectorregpos,Chordoffsetcolpos);
}
else
calculate_OCs(tlistn,vlistn,nfacn,nvertn,angles,OC,OCoffset,INI_OC_WEIGHT,D,nvertn,nvert,Chordoffset,OCout,OCdv,OCdoff,NULL);
/////////////DEBUG////////////////////////////////
// write_matrix_file("/tmp/OCout.txt",OCout,1,nOCtotal);
// write_matrix_file("/tmp/OCdv.txt",OCdv,nOCtotal,nOCcols);
// write_matrix_file("/tmp/OCdoff.txt",OCdoff,nOCtotal,nOCoffsets);
// write_matrix_file("/tmp/dChordoffset.txt",dChordoffset,nOCtotal,nChordoffsets);
// exit(1);
/////////////DEBUG////////////////////////////////
mult_with_cons(OCout,1,nOCtotal,ocW);
mult_with_cons(OCdv,nOCtotal,nOCcols,-ocW); //Note the minus here.
mult_with_cons(OCdoff,nOCtotal,nOCoffsets,-ocW);
set_submatrix(S,1,Slength,OCout,1,nOCtotal,0,OCrowpos);
set_submatrix(J,Slength,nJcols,OCdv,nOCtotal,nOCcols,OCrowpos,0);
set_submatrix(J,Slength,nJcols,OCdoff,nOCtotal,nOCoffsets,OCrowpos,OCoffsetcolpos);
matrix_transprod(OCout,nOCtotal,1,&OCfit);
}
if(INI_HAVE_RD)
{
Calculate_RDs(tlistn,vlistn,nfacn,nvertn,angles,RD,RDoffset,D,nvertn,nvert,INI_RD_WEIGHT,RDscale,RDexp,RDout,RDdv,RDdoff,RDdscale,RDdexp,1);
//printf("RDW: %f RDexp: %f\n",RDW,RDexp);
///DEBUG
// write_matrix_file("/tmp/RDout.txt",RDout,1,nRDtotal);
// write_matrix_file("/tmp/RDdv.txt",RDdv,nRDtotal,nRDcols);
// write_matrix_file("/tmp/RDdoff.txt",RDdoff,nRDtotal,nRDoffsets);
// write_matrix_file("/tmp/RDdscale.txt",RDdscale,nRDtotal,nRDscale);
// write_matrix_file("/tmp/RDdexp.txt",RDdexp,1,nRDtotal);
/////DEBUG///////////////////////////////
mult_with_cons(RDout,1,nRDtotal,RDW);
mult_with_cons(RDdv,nRDtotal,nRDcols,RDW); //NO minus here
mult_with_cons(RDdoff,nRDtotal,nRDoffsets,RDW);
mult_with_cons(RDdscale,nRDtotal,nRDscale,RDW);
set_submatrix(S,1,Slength,RDout,1,nRDtotal,0,RDrowpos);
set_submatrix(J,Slength,nJcols,RDdv,nRDtotal,nRDcols,RDrowpos,0);
set_submatrix(J,Slength,nJcols,RDdoff,nRDtotal,nRDoffsets,RDrowpos,RDoffsetcolpos); //[RDdv 0 RDdoff RDdscale RDdexp]
set_submatrix(J,Slength,nJcols,RDdscale,nRDtotal,nRDscale,RDrowpos,RDscalecolpos);
if(nRDexp>0)
{
mult_with_cons(RDdexp,nRDtotal,1,RDW);
set_submatrix(J,Slength,nJcols,RDdexp,nRDtotal,1,RDrowpos,RDscalecolpos+nRDscale);
}
matrix_transprod(RDout,nRDtotal,1,&RDfit);
// printf("RDdoff pos: %d %d\n",RDrowpos,RDoffsetcolpos);
// printf("RDscale pos: %d %d\n",RDrowpos,RDscalecolpos);
// printf("RDdexp pos: %d %d\n",RDrowpos,RDscalecolpos+nRDscale);
// printf("RDfit: %f\n",RDfit);
}
convex_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,&CRres,dCRdv);
///////////DEBUG///////////////////////////
// write_matrix_file("/tmp/dCRdv.txt",dCRdv,1,3*nvert+3);
///////////DEBUG///////////////////////////
dihedral_angle_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,&ANGres,dANGdv);
///////////DEBUG///////////////////////////
// write_matrix_file("/tmp/dANGdv.txt",dANGdv,1,3*nvert+3);
///////////DEBUG///////////////////////////
if(INI_AW>0)
{
area_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,Ares,dAdv);
mult_with_cons(Ares,1,nfacn,aW);
mult_with_cons(dAdv,nfacn,3*nvert+3,-aW);
set_submatrix(S,1,Slength,Ares,1,nfacn,0,Arearegpos); //Area regularization
set_submatrix(J,Slength,nJcols,dAdv,nfacn,3*nvert+3,Arearegpos,0);
matrix_transprod(Ares,nfacn,1,&Aresfit);
}
///////////DEBUG///////////////////////////
// write_matrix_file("/tmp/dAdv.txt",dAdv,nfacn,3*nvert+3);
///////////DEBUG///////////////////////////
if(INI_ZMAX_WEIGHT>0)
{
soft_maxdimz(tlistn,vlistn,nfacn,nvertn,D,nvert,INI_ZMAX,1.0,&zm,dzmdz);
zm*=INI_ZMAX_WEIGHT;
mult_with_cons(dzmdz,1,nvert,-INI_ZMAX_WEIGHT);
S[Zmaxregpos]=zm;
set_submatrix(J,Slength,nJcols,dzmdz,1,nvert,Zmaxregpos,2*nvert);
}
if(INI_COM_WEIGHT>0)
{
CoM=center_of_mass(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,CoMdv,1);
CoM=INI_COM_WEIGHT*CoM;
mult_with_cons(CoMdv,1,3*nvert+3,-INI_COM_WEIGHT);
S[CoMregpos]=CoM;
set_submatrix(J,Slength,nJcols,CoMdv,1,3*nvert+3,CoMregpos,0);
}
if(INI_INER_WEIGHT>0)
{
inertia(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,&inerres,&inerangle,inerdv);
printf("Inerres: %f Inerangle: %f\n",inerres,inerangle);
inerres*=INI_INER_WEIGHT;
mult_with_cons(inerdv,1,3*nvert,-INI_INER_WEIGHT);
S[inerregpos]=inerres;
set_submatrix(J,Slength,nJcols,inerdv,1,3*nvert,inerregpos,0);
}
CRres*=cW;
mult_with_cons(dCRdv,1,3*nvert+3,-cW);
ANGres*=angW;
mult_with_cons(dANGdv,1,3*nvert+3,-angW);
//Build the res vector and matrix
S[Convregpos]=CRres; //Convex reg terms
S[Angregpos]=ANGres;
matrix_transprod(S,Slength,1,&chisq);
printf("chisq: %4.2f LCfit: %4.2f AOfit: %4.2f OCfit: %4.2f RDfit: %4.2f Convex reg: %4.2f Dihedral Angle reg: %4.2f",chisq,LCfit,AOfit,OCfit,RDfit,pow(CRres,2),pow(ANGres,2));
if(INI_AW>0)
printf(" Area reg: %4.2f",Aresfit);
if(INI_COM_WEIGHT>0)
printf(" CoM reg: %4.2f",pow(CoM,2));
if(INI_INER_WEIGHT>0)
printf(" Iner reg: %4.2f",pow(inerres,2));
if(INI_HAVE_CNTR>0)
printf(" CNTRfit: %4.2f",CRfit);
if(INI_ZMAX_WEIGHT>0)
printf(" Zmax reg: %f\n",pow(zm,2));
else
printf("\n");
//Construct Jacobian matrix
set_submatrix(J,Slength,nJcols,dCRdv,1,3*nvert+3,Convregpos,0);
set_submatrix(J,Slength,nJcols,dANGdv,1,3*nvert+3,Angregpos,0);
// write_matrix_file("/tmp/dCRdv.txt",dCRdv,1,3*nvert+3);
// write_matrix_file("/tmp/dANGdv.txt",dANGdv,1,3*nvert+3);
// write_matrix_file("/tmp/dAdv.txt",dAdv,nfacn,3*nvert+3);
//include lc parameter derivatives
if(INI_HAVE_LC && INI_PHASE_PARAMS!=NULL)
{
mult_with_cons(dLCdp,nLCtotal,3,lcW);
set_submatrix(J,Slength,nJcols,dLCdp,nLCtotal,3,0,phasecolpos);
}
/////////////////DEBUG////////////////////////////////////////7
// write_matrix_file("/tmp/LCout.txt",LCout,1,nLCtotal);
// write_matrix_file("/tmp/dLCdv.txt",dLCdv,nLCtotal,3*nvert+3);
// // write_matrix_file("/tmp/dLCdp.txt",dLCdp,nLCtotal,4);
// write_matrix_file("/tmp/dLCdalb.txt",dLCdalb,nLCtotal,nfacn);
// write_matrix_file("/tmp/dAlbreg.txt",dAlbreg,nfacn,nfacn);
///////////////DEBUG////////////////////////////////////////////
//Calculate J^TJ+lambda*J
// matrix_transprod(J,Slength,nJcols,JTJ);
free(tlistn);
free(vlistn);
free(D);
/////////////DEBUG////////////////////////////////
// write_matrix_file("/tmp/S.txt",S,Slength,1);
// write_matrix_file("/tmp/J.txt",J,Slength,nJcols);
// printf("Convex pos: %d Angpos: %d CRpos: %d CRoffsetcolpos: %d\n",Convregpos,Angregpos,CRrowpos,CRoffsetcolpos);
// exit(1);
/////////////DEBUG////////////////////////////////
matrix_transprod(J,Slength,nJcols,JTJ);
// matrix_vectorprod(J,Slength,nJcols,S,rhs,1); //rhs=J^T*S;
memcpy(Sp,S,sizeof(double)*Slength);
if(INI_MASK_SET==1)
{
matrix_prod_ATBA(Mask_Matrix,nJcols,nMask,JTJ,MJTJ);
matrix_prod(J,Slength,nJcols,Mask_Matrix,nMask,JM); //JM is SLength x nMask matrix
// matrix_prod_ATB(JM,Slength,nMask,S,1,Mrhs); //Mrhs is nMask x 1 matrix
}
}
if(INI_MASK_SET==1)
{
// matrix_adddiag(MJTJ,MJTJpd,nMask,lambda);
matrix_max_diag(d_old,nMask,MJTJ,d);
memcpy(d_old,d,sizeof(double)*nMask);
zero_array(MX,nMask+Slength);
memcpy(MX,Sp,sizeof(double)*Slength);
matrix_concat_special2(JM,Slength,nMask,d,lambda,&lhs);
info=solve_matrix_eq_QR(lhs,Slength+nMask,nMask,MX);
free(lhs);
matrix_prod(Mask_Matrix,nJcols,nMask,MX,1,X);
//solve_matrix_eqS(MJTJpd,nMask,Mrhs,MX);
//matrix_prod(Mask_Matrix,nJcols,nMask,MX,1,X);
}
else
{
// matrix_adddiag(JTJ,JTJpd,nJcols,lambda); //JTJpd=JTJ+lambda*diag(JTJ)
matrix_max_diag(d_old,nJcols,JTJ,d);
memcpy(d_old,d,sizeof(double)*nJcols);
matrix_concat_special2(J,Slength,nJcols,d,lambda,&lhs);
// matrix_concat_special(J,Slength,nJcols,JTJ,lambda,&lhs); //S has been allocated to Slength+nJcols
zero_array(S,nJcols+Slength);
memcpy(S,Sp,sizeof(double)*Slength);
info=solve_matrix_eq_QR(lhs,Slength+nJcols,nJcols,S); //Solve the LM
free(lhs);
memcpy(X,S,nJcols*sizeof(double));
}
info=0;
if(info>0 && INI_FIT_ALBEDO && first_time==1)
{
printf("Solving the matrix failed, fixing the albedo\n");
first_time=0;
int INI_FIX_ALBEDO=1;
if(INI_MASK_SET==1)
{
if(INI_FIX_ALBEDO==1)
for(int k=0;k<nAlbedo;k++)
Mask[Albcolpos+k]=1;
free(Mask_Matrix);
mask_matrix(nJcols,Mask,&Mask_Matrix,&nMask);
// MJTJ=calloc(nMask*nMask,sizeof(double));
// MJTJpd=calloc(nMask*nMask,sizeof(double));
//
// MX=calloc(nMask+Slength,sizeof(double));
//
// JM=calloc(Slength*nMask,sizeof(double));
}
else
{
INI_MASK_SET=1;
Mask=calloc(nJcols,sizeof(int));
if(INI_FIX_SHAPE==1)
for(int k=0;k<3*nvert;k++)
Mask[k]=1;
if(INI_FIX_ANGLES==1)
for(int k=3*nvert;k<3*nvert+3;k++)
Mask[k]=1;
if(INI_FREE_CHORD_NMR>0)
{
for(int k=0;k<nChordoffsets;k++)
Mask[Chordoffsetcolpos+k]=1;
for(int k=0;k<INI_FREE_CHORD_NMR;k++)
Mask[Chordoffsetcolpos+INI_FREE_CHORD_LIST[k]-1]=0;
}
if(INI_FIX_ALBEDO==1)
for(int k=0;k<nfacn;k++)
Mask[Albcolpos+k]=1;
if(INI_PHASE_MASK!=NULL)
{
Mask[phasecolpos]=INI_PHASE_MASK[0];
Mask[phasecolpos+1]=INI_PHASE_MASK[1];
Mask[phasecolpos+2]=INI_PHASE_MASK[2];
}
if(INI_FIX_VERTEX_NBR>0)
{
for(int k=0;k<INI_FIX_VERTEX_NBR;k++)
if(INI_FIX_VERTEX_LIST[k]<=3*nvert)
{
Mask[INI_FIX_VERTEX_LIST[k]-1]=1;
Mask[INI_FIX_VERTEX_LIST[k]-1+nvert]=1;
Mask[INI_FIX_VERTEX_LIST[k]-1+2*nvert]=1;
}
}
mask_matrix(nJcols,Mask,&Mask_Matrix,&nMask);
MJTJ=calloc(nMask*nMask,sizeof(double));
MJTJpd=calloc(nMask*nMask,sizeof(double));
MX=calloc(nMask+Slength,sizeof(double));
JM=calloc(Slength*nMask,sizeof(double));
}
decreased=1;
goto start;
}
//END HACK
add_vector_to_vlist(vlist,X,vlist2,nvert);
if(INI_HAVE_AO)
{
matrix_plus2(AOoffset,1,nAOoffsets,&X[3*nvert+3],AOoffset2);
if(INI_AO_SCALING)
matrix_plus2(AOscale,1,nAO,&X[3*nvert+3+nAOoffsets],AOscale2);
}
if(INI_HAVE_CNTR)
matrix_plus2(CRoffset,1,nCRoffsets,&X[CRoffsetcolpos],CRoffset2);
if(INI_HAVE_OC)
{
matrix_plus2(OCoffset,1,nOCoffsets,&X[OCoffsetcolpos],OCoffset2);
if(INI_FREE_CHORD_NMR>0)
matrix_plus2(Chordoffset,1,nChordoffsets,&X[Chordoffsetcolpos],Chordoffset2);
}
if(INI_HAVE_LC && INI_FIT_ALBEDO==1)
{
for(int j=0;j<nAlbedo;j++)
eAlbedo2[j]=eAlbedo[j]+X[Albcolpos+j];
}
angles2[0]=angles[0]+X[3*nvert];
angles2[1]=angles[1]+X[3*nvert+1];
angles2[2]=angles[2]+X[3*nvert+2];
angles2[3]=angles[3];
if(INI_HAVE_LC && INI_PHASE_PARAMS!=NULL)
{
params2[0]=params[0]+X[phasecolpos];
params2[1]=params[1]+X[phasecolpos+1];
params2[2]=params[2]+X[phasecolpos+2];
// params2[3]=params[3]+X[phasecolpos+3];
}
if(INI_HAVE_RD)
{
matrix_plus2(RDoffset,1,nRDoffsets,&X[RDoffsetcolpos],RDoffset2);
matrix_plus2(RDscale,1,nRDscale,&X[RDscalecolpos],RDscale2);
if(nRDexp>0)
RDexp2=X[RDscalecolpos+nRDscale]+RDexp;
}
//New shape is vlist2. Check for fit
(*SubdivFunc)(tlist,vlist2,nfac,nvert,&tlistn,&vlistn,&nfacn,&nvertn,&D,INI_SD_LEVEL);
if(INI_HAVE_LC)
{
calculate_lcs(tlistn,vlistn,nfacn,nvertn,angles2,LC,D,nvertn,nvert,LCout,dLCdv,eAlbedo2,Alblimits,dLCdalb,params2,dLCdp,0);
if(INI_FIT_ALBEDO==1)
{
alb_smooth(eAlbedo2,nAlbedo,Albreg,dAlbreg);
//localsmooth(tlistn,vlistn,nfacn,nvertn,eAlbedo2,Alblimits,Albreg,dAlbreg);
mult_with_cons(Albreg,1,nAlbedo,INI_ALBREGW);
set_submatrix(S,1,Slength,Albreg,1,nAlbedo,0,Albregpos);
}
mult_with_cons(LCout,1,nLCtotal,lcW);
set_submatrix(S,1,Slength,LCout,1,nLCtotal,0,0);
}
if(INI_HAVE_AO)
{
Calculate_AOs(tlistn,vlistn,nfacn,nvertn,angles2,AO,AOoffset2,D,nvertn,nvert,INI_AO_WEIGHT,AOscale2,AOout,AOdv,NULL,eAlbedo2,Alblimits,dAOdAlb,0);
mult_with_cons(AOout,1,nAOtotal,AOW);
set_submatrix(S,1,Slength,AOout,1,nAOtotal,0,nLCtotal);
}
if(INI_HAVE_OC)
{
calculate_OCs(tlistn,vlistn,nfacn,nvertn,angles2,OC,OCoffset2,INI_OC_WEIGHT,D,nvertn,nvert,Chordoffset2,OCout,OCdv,OCdoff,NULL);
mult_with_cons(OCout,1,nOCtotal,ocW);
set_submatrix(S,1,Slength,OCout,1,nOCtotal,0,OCrowpos);
if(INI_FREE_CHORD_NMR>0)
{
vector_regularization(Chordoffset2,nChordoffsets,&vectorreg,dvectorreg);
S[Vectorregpos]=INI_CHRDW*vectorreg;
}
}
if(INI_HAVE_CNTR)
{
Calculate_Contours(tlistn,vlistn,nfacn,nvertn,angles2,CR,CRoffset2,D,nvertn,nvert,CRout,CRdv,CRdoff);
mult_with_cons(CRout,1,nCRtotal,INI_CNTR_WEIGHT);
set_submatrix(S,1,Slength,CRout,1,nCRtotal,0,CRrowpos);
}
if(INI_HAVE_RD)
{
Calculate_RDs(tlistn,vlistn,nfacn,nvertn,angles2,RD,RDoffset2,D,nvertn,nvert,INI_RD_WEIGHT,RDscale2,RDexp2,RDout,RDdv,RDdoff,RDdscale,RDdexp,0);
mult_with_cons(RDout,1,nRDtotal,RDW);
set_submatrix(S,1,Slength,RDout,1,nRDtotal,0,RDrowpos);
}
convex_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,&CRres,dCRdv);
dihedral_angle_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,&ANGres,dANGdv);
if(INI_AW>0)
{
area_reg(tlistn,vlistn,nfacn,nvertn,D,nvertn,nvert,Ares,dAdv);
mult_with_cons(Ares,1,nfacn,aW);
set_submatrix(S,1,Slength,Ares,1,nfacn,0,Arearegpos); //Area regularization
}
CRres*=cW;