version 1.197, 2015/09/01 18:24:39
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version 1.202, 2015/09/22 19:45:16
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/* $Id$ |
/* $Id$ |
$State$ |
$State$ |
$Log$ |
$Log$ |
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Revision 1.202 2015/09/22 19:45:16 brouard |
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Summary: Adding some overall graph on contribution to likelihood. Might change |
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Revision 1.201 2015/09/15 17:34:58 brouard |
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Summary: 0.98r0 |
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- Some new graphs like suvival functions |
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- Some bugs fixed like model=1+age+V2. |
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Revision 1.200 2015/09/09 16:53:55 brouard |
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Summary: Big bug thanks to Flavia |
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Even model=1+age+V2. did not work anymore |
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Revision 1.199 2015/09/07 14:09:23 brouard |
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Summary: 0.98q6 changing default small png format for graph to vectorized svg. |
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Revision 1.198 2015/09/03 07:14:39 brouard |
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Summary: 0.98q5 Flavia |
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Revision 1.197 2015/09/01 18:24:39 brouard |
Revision 1.197 2015/09/01 18:24:39 brouard |
*** empty log message *** |
*** empty log message *** |
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Line 627
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Line 647
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/* #define DEBUG */ |
/* #define DEBUG */ |
/* #define DEBUGBRENT */ |
/* #define DEBUGBRENT */ |
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#define DEBUGLINMIN |
#define POWELL /* Instead of NLOPT */ |
#define POWELL /* Instead of NLOPT */ |
#define POWELLF1F3 /* Skip test */ |
#define POWELLF1F3 /* Skip test */ |
/* #define POWELLORIGINAL /\* Don't use Directest to decide new direction but original Powell test *\/ */ |
/* #define POWELLORIGINAL /\* Don't use Directest to decide new direction but original Powell test *\/ */ |
Line 785 char command[FILENAMELENGTH];
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Line 806 char command[FILENAMELENGTH];
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int outcmd=0; |
int outcmd=0; |
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char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
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char fileresu[FILENAMELENGTH]; /* fileres without r in front */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filerest[FILENAMELENGTH]; |
char filerest[FILENAMELENGTH]; |
char fileregp[FILENAMELENGTH]; |
char fileregp[FILENAMELENGTH]; |
Line 875 double idx;
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Line 896 double idx;
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int **nbcode, *Tvar; /**< model=V2 => Tvar[1]= 2 */ |
int **nbcode, *Tvar; /**< model=V2 => Tvar[1]= 2 */ |
int *Tage; |
int *Tage; |
int *Ndum; /** Freq of modality (tricode */ |
int *Ndum; /** Freq of modality (tricode */ |
int **codtab; /**< codtab=imatrix(1,100,1,10); */ |
/* int **codtab;*/ /**< codtab=imatrix(1,100,1,10); */ |
int **Tvard, *Tprod, cptcovprod, *Tvaraff; |
int **Tvard, *Tprod, cptcovprod, *Tvaraff; |
double *lsurv, *lpop, *tpop; |
double *lsurv, *lpop, *tpop; |
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Line 1589 void linmin(double p[], double xi[], int
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Line 1610 void linmin(double p[], double xi[], int
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nrfunc=func; |
nrfunc=func; |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
pcom[j]=p[j]; |
pcom[j]=p[j]; |
xicom[j]=xi[j]; |
xicom[j]=xi[j]; /* Former scale xi[j] of currrent direction i */ |
} |
} |
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/* axs=0.0; */ |
/* axs=0.0; */ |
Line 1613 void linmin(double p[], double xi[], int
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Line 1634 void linmin(double p[], double xi[], int
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#ifdef DEBUGLINMIN |
#ifdef DEBUGLINMIN |
printf("\nLinmin after mnbrak: ax=%12.7f xx=%12.7f bx=%12.7f fa=%12.2f fx=%12.2f fb=%12.2f\n", ax,xx,bx,fa,fx,fb); |
printf("\nLinmin after mnbrak: ax=%12.7f xx=%12.7f bx=%12.7f fa=%12.2f fx=%12.2f fb=%12.2f\n", ax,xx,bx,fa,fx,fb); |
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fprintf(ficlog,"\nLinmin after mnbrak: ax=%12.7f xx=%12.7f bx=%12.7f fa=%12.2f fx=%12.2f fb=%12.2f\n", ax,xx,bx,fa,fx,fb); |
#endif |
#endif |
*fret=brent(ax,xx,bx,f1dim,TOL,&xmin); /* Giving a bracketting triplet (ax, xx, bx), find a minimum, xmin, according to f1dim, *fret(xmin),*/ |
*fret=brent(ax,xx,bx,f1dim,TOL,&xmin); /* Giving a bracketting triplet (ax, xx, bx), find a minimum, xmin, according to f1dim, *fret(xmin),*/ |
/* fa = f(p[j] + ax * xi[j]), fx = f(p[j] + xx * xi[j]), fb = f(p[j] + bx * xi[j]) */ |
/* fa = f(p[j] + ax * xi[j]), fx = f(p[j] + xx * xi[j]), fb = f(p[j] + bx * xi[j]) */ |
Line 1625 void linmin(double p[], double xi[], int
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Line 1647 void linmin(double p[], double xi[], int
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#endif |
#endif |
#ifdef DEBUGLINMIN |
#ifdef DEBUGLINMIN |
printf("linmin end "); |
printf("linmin end "); |
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fprintf(ficlog,"linmin end "); |
#endif |
#endif |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
/* printf(" before xi[%d]=%12.8f", j,xi[j]); */ |
/* printf(" before xi[%d]=%12.8f", j,xi[j]); */ |
Line 1636 void linmin(double p[], double xi[], int
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Line 1659 void linmin(double p[], double xi[], int
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/* printf("\n"); */ |
/* printf("\n"); */ |
#ifdef DEBUGLINMIN |
#ifdef DEBUGLINMIN |
printf("Comparing last *frec(xmin=%12.8f)=%12.8f from Brent and frec(0.)=%12.8f \n", xmin, *fret, (*func)(p)); |
printf("Comparing last *frec(xmin=%12.8f)=%12.8f from Brent and frec(0.)=%12.8f \n", xmin, *fret, (*func)(p)); |
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fprintf(ficlog,"Comparing last *frec(xmin=%12.8f)=%12.8f from Brent and frec(0.)=%12.8f \n", xmin, *fret, (*func)(p)); |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
printf(" xi[%d]= %12.7f p[%d]= %12.7f",j,xi[j],j,p[j]); |
printf(" xi[%d]= %14.10f p[%d]= %12.7f",j,xi[j],j,p[j]); |
if(j % ncovmodel == 0) |
fprintf(ficlog," xi[%d]= %14.10f p[%d]= %12.7f",j,xi[j],j,p[j]); |
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if(j % ncovmodel == 0){ |
printf("\n"); |
printf("\n"); |
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fprintf(ficlog,"\n"); |
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} |
} |
} |
#endif |
#endif |
free_vector(xicom,1,n); |
free_vector(xicom,1,n); |
Line 1674 void powell(double p[], double **xi, int
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Line 1701 void powell(double p[], double **xi, int
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xits=vector(1,n); |
xits=vector(1,n); |
*fret=(*func)(p); |
*fret=(*func)(p); |
for (j=1;j<=n;j++) pt[j]=p[j]; |
for (j=1;j<=n;j++) pt[j]=p[j]; |
rcurr_time = time(NULL); |
rcurr_time = time(NULL); |
for (*iter=1;;++(*iter)) { |
for (*iter=1;;++(*iter)) { |
fp=(*fret); /* From former iteration or initial value */ |
fp=(*fret); /* From former iteration or initial value */ |
ibig=0; |
ibig=0; |
Line 1819 void powell(double p[], double **xi, int
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Line 1846 void powell(double p[], double **xi, int
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t=2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del); /* Intel compiler doesn't work on one line; bug reported */ |
t=2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del); /* Intel compiler doesn't work on one line; bug reported */ |
t= t- del*SQR(fp-fptt); |
t= t- del*SQR(fp-fptt); |
#endif |
#endif |
directest = fp-2.0*(*fret)+fptt - 2.0 * del; /* If del was big enough we change it for a new direction */ |
directest = fp-2.0*(*fret)+fptt - 2.0 * del; /* If delta was big enough we change it for a new direction */ |
#ifdef DEBUG |
#ifdef DEBUG |
printf("t1= %.12lf, t2= %.12lf, t=%.12lf directest=%.12lf\n", 2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del),del*SQR(fp-fptt),t,directest); |
printf("t1= %.12lf, t2= %.12lf, t=%.12lf directest=%.12lf\n", 2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del),del*SQR(fp-fptt),t,directest); |
fprintf(ficlog,"t1= %.12lf, t2= %.12lf, t=%.12lf directest=%.12lf\n", 2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del),del*SQR(fp-fptt),t,directest); |
fprintf(ficlog,"t1= %.12lf, t2= %.12lf, t=%.12lf directest=%.12lf\n", 2.0*(fp-2.0*(*fret)+fptt)*SQR(fp-(*fret)-del),del*SQR(fp-fptt),t,directest); |
Line 1834 void powell(double p[], double **xi, int
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Line 1861 void powell(double p[], double **xi, int
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if (t < 0.0) { /* Then we use it for new direction */ |
if (t < 0.0) { /* Then we use it for new direction */ |
#else |
#else |
if (directest*t < 0.0) { /* Contradiction between both tests */ |
if (directest*t < 0.0) { /* Contradiction between both tests */ |
printf("directest= %.12lf, t= %.12lf, f1= %.12lf,f2= %.12lf,f3= %.12lf, del= %.12lf\n",directest, t, fp,(*fret),fptt,del); |
printf("directest= %.12lf (if <0 we include P0 Pn as new direction), t= %.12lf, f1= %.12lf,f2= %.12lf,f3= %.12lf, del= %.12lf\n",directest, t, fp,(*fret),fptt,del); |
printf("f1-2f2+f3= %.12lf, f1-f2-del= %.12lf, f1-f3= %.12lf\n",fp-2.0*(*fret)+fptt, fp -(*fret) -del, fp-fptt); |
printf("f1-2f2+f3= %.12lf, f1-f2-del= %.12lf, f1-f3= %.12lf\n",fp-2.0*(*fret)+fptt, fp -(*fret) -del, fp-fptt); |
fprintf(ficlog,"directest= %.12lf, t= %.12lf, f1= %.12lf,f2= %.12lf,f3= %.12lf, del= %.12lf\n",directest, t, fp,(*fret),fptt, del); |
fprintf(ficlog,"directest= %.12lf (if <0 we include P0 Pn as new direction), t= %.12lf, f1= %.12lf,f2= %.12lf,f3= %.12lf, del= %.12lf\n",directest, t, fp,(*fret),fptt, del); |
fprintf(ficlog,"f1-2f2+f3= %.12lf, f1-f2-del= %.12lf, f1-f3= %.12lf\n",fp-2.0*(*fret)+fptt, fp -(*fret) -del, fp-fptt); |
fprintf(ficlog,"f1-2f2+f3= %.12lf, f1-f2-del= %.12lf, f1-f3= %.12lf\n",fp-2.0*(*fret)+fptt, fp -(*fret) -del, fp-fptt); |
} |
} |
if (directest < 0.0) { /* Then we use it for new direction */ |
if (directest < 0.0) { /* Then we use it for new direction */ |
Line 1844 void powell(double p[], double **xi, int
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Line 1871 void powell(double p[], double **xi, int
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#ifdef DEBUGLINMIN |
#ifdef DEBUGLINMIN |
printf("Before linmin in direction P%d-P0\n",n); |
printf("Before linmin in direction P%d-P0\n",n); |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
printf("Before xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
printf(" Before xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
if(j % ncovmodel == 0) |
fprintf(ficlog," Before xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
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if(j % ncovmodel == 0){ |
printf("\n"); |
printf("\n"); |
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fprintf(ficlog,"\n"); |
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} |
} |
} |
#endif |
#endif |
linmin(p,xit,n,fret,func); /* computes minimum on the extrapolated direction: changes p and rescales xit.*/ |
linmin(p,xit,n,fret,func); /* computes minimum on the extrapolated direction: changes p and rescales xit.*/ |
#ifdef DEBUGLINMIN |
#ifdef DEBUGLINMIN |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
printf("After xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
printf("After xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
if(j % ncovmodel == 0) |
fprintf(ficlog,"After xit[%d]= %12.7f p[%d]= %12.7f",j,xit[j],j,p[j]); |
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if(j % ncovmodel == 0){ |
printf("\n"); |
printf("\n"); |
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fprintf(ficlog,"\n"); |
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} |
} |
} |
#endif |
#endif |
for (j=1;j<=n;j++) { |
for (j=1;j<=n;j++) { |
Line 1894 double **prevalim(double **prlim, int nl
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Line 1927 double **prevalim(double **prlim, int nl
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/* double **matprod2(); */ /* test */ |
/* double **matprod2(); */ /* test */ |
double **out, cov[NCOVMAX+1], **pmij(); |
double **out, cov[NCOVMAX+1], **pmij(); |
double **newm; |
double **newm; |
double agefin, delaymax=50 ; /* Max number of years to converge */ |
double agefin, delaymax=100 ; /* Max number of years to converge */ |
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long int ncvyear=0, ncvloop=0; |
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for (ii=1;ii<=nlstate+ndeath;ii++) |
for (ii=1;ii<=nlstate+ndeath;ii++) |
for (j=1;j<=nlstate+ndeath;j++){ |
for (j=1;j<=nlstate+ndeath;j++){ |
Line 1904 double **prevalim(double **prlim, int nl
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Line 1938 double **prevalim(double **prlim, int nl
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cov[1]=1.; |
cov[1]=1.; |
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/* Even if hstepm = 1, at least one multiplication by the unit matrix */ |
/* Even if hstepm = 1, at least one multiplication by the unit matrix */ |
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/* Start at agefin= age, computes the matrix of passage and loops decreasing agefin until convergence is reached */ |
for(agefin=age-stepm/YEARM; agefin>=age-delaymax; agefin=agefin-stepm/YEARM){ |
for(agefin=age-stepm/YEARM; agefin>=age-delaymax; agefin=agefin-stepm/YEARM){ |
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ncvloop++; |
newm=savm; |
newm=savm; |
/* Covariates have to be included here again */ |
/* Covariates have to be included here again */ |
cov[2]=agefin; |
cov[2]=agefin; |
if(nagesqr==1) |
if(nagesqr==1) |
cov[3]= agefin*agefin;; |
cov[3]= agefin*agefin;; |
for (k=1; k<=cptcovn;k++) { |
for (k=1; k<=cptcovn;k++) { |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]]; |
/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
/* printf("prevalim ij=%d k=%d Tvar[%d]=%d nbcode=%d cov=%lf codtab[%d][Tvar[%d]]=%d \n",ij,k, k, Tvar[k],nbcode[Tvar[k]][codtab[ij][Tvar[k]]],cov[2+k], ij, k, codtab[ij][Tvar[k]]);*/ |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
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/* printf("prevalim ij=%d k=%d Tvar[%d]=%d nbcode=%d cov=%lf codtabm(%d,Tvar[%d])=%d \n",ij,k, k, Tvar[k],nbcode[Tvar[k]][codtabm(ij,Tvar[k])],cov[2+k], ij, k, codtabm(ij,Tvar[k])]); */ |
} |
} |
/*wrong? for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
/*wrong? for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
for (k=1; k<=cptcovage;k++) cov[2+nagesqr+Tage[k]]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]]*cov[2]; |
/* for (k=1; k<=cptcovage;k++) cov[2+nagesqr+Tage[k]]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]*cov[2]; */ |
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for (k=1; k<=cptcovage;k++) cov[2+nagesqr+Tage[k]]=nbcode[Tvar[k]][codtabm(ij,k)]*cov[2]; |
for (k=1; k<=cptcovprod;k++) /* Useless */ |
for (k=1; k<=cptcovprod;k++) /* Useless */ |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]] * nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]]; |
/* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,Tvard[k][1])] * nbcode[Tvard[k][2]][codtabm(ij,Tvard[k][2])]; */ |
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cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)] * nbcode[Tvard[k][2]][codtabm(ij,k)]; |
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/*printf("ij=%d cptcovprod=%d tvar=%d ", ij, cptcovprod, Tvar[1]);*/ |
/*printf("ij=%d cptcovprod=%d tvar=%d ", ij, cptcovprod, Tvar[1]);*/ |
/*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/ |
/*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/ |
Line 1936 double **prevalim(double **prlim, int nl
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Line 1975 double **prevalim(double **prlim, int nl
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sumnew=0; |
sumnew=0; |
for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; |
for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; |
prlim[i][j]= newm[i][j]/(1-sumnew); |
prlim[i][j]= newm[i][j]/(1-sumnew); |
/*printf(" prevalim i=%d, j=%d, prmlim[%d][%d]=%f, agefin=%d \n", i, j, i, j, prlim[i][j],(int)agefin);*/ |
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max=FMAX(max,prlim[i][j]); |
max=FMAX(max,prlim[i][j]); |
min=FMIN(min,prlim[i][j]); |
min=FMIN(min,prlim[i][j]); |
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/* printf(" age= %d prevalim i=%d, j=%d, prmlim[%d][%d]=%f, agefin=%d max=%f min=%f\n", (int)age, i, j, i, j, prlim[i][j],(int)agefin, max, min); */ |
} |
} |
maxmin=max-min; |
maxmin=max-min; |
maxmax=FMAX(maxmax,maxmin); |
maxmax=FMAX(maxmax,maxmin); |
} /* j loop */ |
} /* j loop */ |
if(maxmax < ftolpl){ |
if(maxmax < ftolpl){ |
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/* printf("maxmax=%lf maxmin=%lf ncvloop=%ld, ncvyear=%d \n", maxmax, maxmin, ncvloop, (int)age-(int)agefin); */ |
return prlim; |
return prlim; |
} |
} |
} /* age loop */ |
} /* age loop */ |
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printf("Warning: the stable prevalence did not converge with the required precision ftolpl=6*10^5*ftol=%g. \n\ |
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Earliest age to start was %d-%d=%d, ncvloop=%ld, ncvyear=%d\n\ |
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Try to lower 'ftol', for example from 1.e-8 to 6.e-9.\n", ftolpl, (int)age, (int)delaymax, (int)agefin, ncvloop, (int)age-(int)agefin); |
return prlim; /* should not reach here */ |
return prlim; /* should not reach here */ |
} |
} |
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Line 2090 double ***hpxij(double ***po, int nhstep
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Line 2133 double ***hpxij(double ***po, int nhstep
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if(nagesqr==1) |
if(nagesqr==1) |
cov[3]= agexact*agexact; |
cov[3]= agexact*agexact; |
for (k=1; k<=cptcovn;k++) |
for (k=1; k<=cptcovn;k++) |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]]; |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
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/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
for (k=1; k<=cptcovage;k++) /* Should start at cptcovn+1 */ |
for (k=1; k<=cptcovage;k++) /* Should start at cptcovn+1 */ |
/* cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
/* cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtab[ij][Tvar[Tage[k]]]]*cov[2]; |
cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; |
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/* cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,Tvar[Tage[k]])]*cov[2]; */ |
for (k=1; k<=cptcovprod;k++) /* Useless because included in cptcovn */ |
for (k=1; k<=cptcovprod;k++) /* Useless because included in cptcovn */ |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]]; |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; |
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/* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,Tvard[k][1])]*nbcode[Tvard[k][2]][codtabm(ij,Tvard[k][2])]; */ |
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/*printf("hxi cptcov=%d cptcode=%d\n",cptcov,cptcode);*/ |
/*printf("hxi cptcov=%d cptcode=%d\n",cptcov,cptcode);*/ |
Line 2519 double funcone( double *x)
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Line 2565 double funcone( double *x)
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ll[s[mw[mi][i]][i]] += 2*weight[i]*lli; |
ll[s[mw[mi][i]][i]] += 2*weight[i]*lli; |
/*printf("i=%6d s1=%1d s2=%1d mi=%1d mw=%1d dh=%3d prob=%10.6f w=%6.4f out=%10.6f sav=%10.6f\n",i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],out[s1][s2],savm[s1][s2]); */ |
/*printf("i=%6d s1=%1d s2=%1d mi=%1d mw=%1d dh=%3d prob=%10.6f w=%6.4f out=%10.6f sav=%10.6f\n",i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],out[s1][s2],savm[s1][s2]); */ |
if(globpr){ |
if(globpr){ |
fprintf(ficresilk,"%9ld %6d %2d %2d %1d %1d %3d %11.6f %8.4f\ |
fprintf(ficresilk,"%9ld %6.1f %6d %2d %2d %2d %2d %3d %11.6f %8.4f\ |
%11.6f %11.6f %11.6f ", \ |
%11.6f %11.6f %11.6f ", \ |
num[i],i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i], |
num[i], agexact, i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i], |
2*weight[i]*lli,out[s1][s2],savm[s1][s2]); |
2*weight[i]*lli,out[s1][s2],savm[s1][s2]); |
for(k=1,llt=0.,l=0.; k<=nlstate; k++){ |
for(k=1,llt=0.,l=0.; k<=nlstate; k++){ |
llt +=ll[k]*gipmx/gsw; |
llt +=ll[k]*gipmx/gsw; |
Line 2553 void likelione(FILE *ficres,double p[],
|
Line 2599 void likelione(FILE *ficres,double p[],
|
int k; |
int k; |
|
|
if(*globpri !=0){ /* Just counts and sums, no printings */ |
if(*globpri !=0){ /* Just counts and sums, no printings */ |
strcpy(fileresilk,"ilk"); |
strcpy(fileresilk,"ILK_"); |
strcat(fileresilk,fileres); |
strcat(fileresilk,fileresu); |
if((ficresilk=fopen(fileresilk,"w"))==NULL) { |
if((ficresilk=fopen(fileresilk,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", fileresilk); |
printf("Problem with resultfile: %s\n", fileresilk); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresilk); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresilk); |
} |
} |
fprintf(ficresilk, "#individual(line's_record) s1 s2 wave# effective_wave# number_of_matrices_product pij weight -2ln(pij)*weight 0pij_x 0pij_(x-stepm) cumulating_loglikeli_by_health_state(reweighted=-2ll*weightXnumber_of_contribs/sum_of_weights) and_total\n"); |
fprintf(ficresilk, "#individual(line's_record) s1 s2 wave# effective_wave# number_of_matrices_product pij weight -2ln(pij)*weight 0pij_x 0pij_(x-stepm) cumulating_loglikeli_by_health_state(reweighted=-2ll*weightXnumber_of_contribs/sum_of_weights) and_total\n"); |
fprintf(ficresilk, "#num_i i s1 s2 mi mw dh likeli weight 2wlli out sav "); |
fprintf(ficresilk, "#num_i age i s1 s2 mi mw dh likeli weight 2wlli out sav "); |
/* i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],2*weight[i]*lli,out[s1][s2],savm[s1][s2]); */ |
/* i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],2*weight[i]*lli,out[s1][s2],savm[s1][s2]); */ |
for(k=1; k<=nlstate; k++) |
for(k=1; k<=nlstate; k++) |
fprintf(ficresilk," -2*gipw/gsw*weight*ll[%d]++",k); |
fprintf(ficresilk," -2*gipw/gsw*weight*ll[%d]++",k); |
Line 2570 void likelione(FILE *ficres,double p[],
|
Line 2616 void likelione(FILE *ficres,double p[],
|
*fretone=(*funcone)(p); |
*fretone=(*funcone)(p); |
if(*globpri !=0){ |
if(*globpri !=0){ |
fclose(ficresilk); |
fclose(ficresilk); |
fprintf(fichtm,"\n<br>File of contributions to the likelihood: <a href=\"%s\">%s</a><br>\n",subdirf(fileresilk),subdirf(fileresilk)); |
fprintf(fichtm,"\n<br>File of contributions to the likelihood computed with initial parameters and mle >= 1. You should at least run with mle >= 1 and starting values corresponding to the optimized parameters in order to visualize the real contribution of each individual/wave: <a href=\"%s\">%s</a><br>\n",subdirf(fileresilk),subdirf(fileresilk)); |
fflush(fichtm); |
fprintf(fichtm,"<br>- The first 3 individuals are drawn with lines. The function drawn is -2Log(L) in log scale: <a href=\"%s.png\">%s.png</a><br> \ |
|
<img src=\"%s.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_")); |
|
fflush(fichtm); |
} |
} |
return; |
return; |
} |
} |
Line 2603 void mlikeli(FILE *ficres,double p[], in
|
Line 2651 void mlikeli(FILE *ficres,double p[], in
|
for (j=1;j<=npar;j++) |
for (j=1;j<=npar;j++) |
xi[i][j]=(i==j ? 1.0 : 0.0); |
xi[i][j]=(i==j ? 1.0 : 0.0); |
printf("Powell\n"); fprintf(ficlog,"Powell\n"); |
printf("Powell\n"); fprintf(ficlog,"Powell\n"); |
strcpy(filerespow,"pow"); |
strcpy(filerespow,"POW_"); |
strcat(filerespow,fileres); |
strcat(filerespow,fileres); |
if((ficrespow=fopen(filerespow,"w"))==NULL) { |
if((ficrespow=fopen(filerespow,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", filerespow); |
printf("Problem with resultfile: %s\n", filerespow); |
Line 2930 void freqsummary(char fileres[], int ia
|
Line 2978 void freqsummary(char fileres[], int ia
|
|
|
pp=vector(1,nlstate); |
pp=vector(1,nlstate); |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
strcpy(fileresp,"p"); |
strcpy(fileresp,"P_"); |
strcat(fileresp,fileres); |
strcat(fileresp,fileresu); |
if((ficresp=fopen(fileresp,"w"))==NULL) { |
if((ficresp=fopen(fileresp,"w"))==NULL) { |
printf("Problem with prevalence resultfile: %s\n", fileresp); |
printf("Problem with prevalence resultfile: %s\n", fileresp); |
fprintf(ficlog,"Problem with prevalence resultfile: %s\n", fileresp); |
fprintf(ficlog,"Problem with prevalence resultfile: %s\n", fileresp); |
Line 2966 void freqsummary(char fileres[], int ia
|
Line 3014 void freqsummary(char fileres[], int ia
|
bool=1; |
bool=1; |
if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
for (z1=1; z1<=cptcoveff; z1++) |
for (z1=1; z1<=cptcoveff; z1++) |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]]){ |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]){ |
/* Tests if the value of each of the covariates of i is equal to filter j1 */ |
/* Tests if the value of each of the covariates of i is equal to filter j1 */ |
bool=0; |
bool=0; |
/* printf("bool=%d i=%d, z1=%d, Tvaraff[%d]=%d, covar[Tvarff][%d]=%2f, codtab[%d][%d]=%d, nbcode[Tvaraff][codtab[%d][%d]=%d, j1=%d\n", |
/* printf("bool=%d i=%d, z1=%d, Tvaraff[%d]=%d, covar[Tvarff][%d]=%2f, codtabm(%d,%d)=%d, nbcode[Tvaraff][codtabm(%d,%d)=%d, j1=%d\n", |
bool,i,z1, z1, Tvaraff[z1],i,covar[Tvaraff[z1]][i],j1,z1,codtab[j1][z1], |
bool,i,z1, z1, Tvaraff[z1],i,covar[Tvaraff[z1]][i],j1,z1,codtabm(j1,z1), |
j1,z1,nbcode[Tvaraff[z1]][codtab[j1][z1]],j1);*/ |
j1,z1,nbcode[Tvaraff[z1]][codtabm(j1,z1)],j1);*/ |
/* For j1=7 in V1+V2+V3+V4 = 0 1 1 0 and codtab[7][3]=1 and nbcde[3][?]=1*/ |
/* For j1=7 in V1+V2+V3+V4 = 0 1 1 0 and codtabm(7,3)=1 and nbcde[3][?]=1*/ |
} |
} |
} |
} |
|
|
Line 3001 void freqsummary(char fileres[], int ia
|
Line 3049 void freqsummary(char fileres[], int ia
|
pstamp(ficresp); |
pstamp(ficresp); |
if (cptcovn>0) { |
if (cptcovn>0) { |
fprintf(ficresp, "\n#********** Variable "); |
fprintf(ficresp, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficresp, "**********\n#"); |
fprintf(ficresp, "**********\n#"); |
fprintf(ficlog, "\n#********** Variable "); |
fprintf(ficlog, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficlog, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficlog, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficlog, "**********\n#"); |
fprintf(ficlog, "**********\n#"); |
} |
} |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
Line 3132 void prevalence(double ***probs, double
|
Line 3180 void prevalence(double ***probs, double
|
bool=1; |
bool=1; |
if (cptcovn>0) { |
if (cptcovn>0) { |
for (z1=1; z1<=cptcoveff; z1++) |
for (z1=1; z1<=cptcoveff; z1++) |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]]) |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]) |
bool=0; |
bool=0; |
} |
} |
if (bool==1) { |
if (bool==1) { |
Line 3799 void varevsij(char optionfilefiname[], d
|
Line 3847 void varevsij(char optionfilefiname[], d
|
|
|
if(popbased==1){ |
if(popbased==1){ |
if(mobilav!=0) |
if(mobilav!=0) |
strcpy(digitp,"-populbased-mobilav-"); |
strcpy(digitp,"-POPULBASED-MOBILAV_"); |
else strcpy(digitp,"-populbased-nomobil-"); |
else strcpy(digitp,"-POPULBASED-NOMOBIL_"); |
} |
} |
else |
else |
strcpy(digitp,"-stablbased-"); |
strcpy(digitp,"-STABLBASED_"); |
|
|
if (mobilav!=0) { |
if (mobilav!=0) { |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
Line 3813 void varevsij(char optionfilefiname[], d
|
Line 3861 void varevsij(char optionfilefiname[], d
|
} |
} |
} |
} |
|
|
strcpy(fileresprobmorprev,"prmorprev"); |
strcpy(fileresprobmorprev,"PRMORPREV-"); |
sprintf(digit,"%-d",ij); |
sprintf(digit,"%-d",ij); |
/*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/ |
/*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/ |
strcat(fileresprobmorprev,digit); /* Tvar to be done */ |
strcat(fileresprobmorprev,digit); /* Tvar to be done */ |
strcat(fileresprobmorprev,digitp); /* Popbased or not, mobilav or not */ |
strcat(fileresprobmorprev,digitp); /* Popbased or not, mobilav or not */ |
strcat(fileresprobmorprev,fileres); |
strcat(fileresprobmorprev,fileresu); |
if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) { |
if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", fileresprobmorprev); |
printf("Problem with resultfile: %s\n", fileresprobmorprev); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev); |
Line 3836 void varevsij(char optionfilefiname[], d
|
Line 3884 void varevsij(char optionfilefiname[], d
|
} |
} |
fprintf(ficresprobmorprev,"\n"); |
fprintf(ficresprobmorprev,"\n"); |
fprintf(ficgp,"\n# Routine varevsij"); |
fprintf(ficgp,"\n# Routine varevsij"); |
/* fprintf(fichtm, "#Local time at start: %s", strstart);*/ |
fprintf(ficgp,"\nunset title \n"); |
|
/* fprintf(fichtm, "#Local time at start: %s", strstart);*/ |
fprintf(fichtm,"\n<li><h4> Computing probabilities of dying over estepm months as a weighted average (i.e global mortality independent of initial healh state)</h4></li>\n"); |
fprintf(fichtm,"\n<li><h4> Computing probabilities of dying over estepm months as a weighted average (i.e global mortality independent of initial healh state)</h4></li>\n"); |
fprintf(fichtm,"\n<br>%s <br>\n",digitp); |
fprintf(fichtm,"\n<br>%s <br>\n",digitp); |
/* } */ |
/* } */ |
Line 4048 void varevsij(char optionfilefiname[], d
|
Line 4097 void varevsij(char optionfilefiname[], d
|
free_vector(gmp,nlstate+1,nlstate+ndeath); |
free_vector(gmp,nlstate+1,nlstate+ndeath); |
free_matrix(gradgp,1,npar,nlstate+1,nlstate+ndeath); |
free_matrix(gradgp,1,npar,nlstate+1,nlstate+ndeath); |
free_matrix(trgradgp,nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ |
free_matrix(trgradgp,nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ |
fprintf(ficgp,"\nunset parametric;unset label; set ter png small size 320, 240"); |
/* fprintf(ficgp,"\nunset parametric;unset label; set ter png small size 320, 240"); */ |
|
fprintf(ficgp,"\nunset parametric;unset label; set ter svg size 640, 480"); |
/* for(j=nlstate+1; j<= nlstate+ndeath; j++){ *//* Only the first actually */ |
/* for(j=nlstate+1; j<= nlstate+ndeath; j++){ *//* Only the first actually */ |
fprintf(ficgp,"\n set log y; unset log x;set xlabel \"Age\"; set ylabel \"Force of mortality (year-1)\";"); |
fprintf(ficgp,"\n set log y; unset log x;set xlabel \"Age\"; set ylabel \"Force of mortality (year-1)\";"); |
|
fprintf(ficgp,"\nset out \"%s%s.svg\";",subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); |
/* fprintf(ficgp,"\n plot \"%s\" u 1:($3*%6.3f) not w l 1 ",fileresprobmorprev,YEARM/estepm); */ |
/* fprintf(ficgp,"\n plot \"%s\" u 1:($3*%6.3f) not w l 1 ",fileresprobmorprev,YEARM/estepm); */ |
/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)*%6.3f) t \"95\%% interval\" w l 2 ",fileresprobmorprev,YEARM/estepm); */ |
/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)*%6.3f) t \"95\%% interval\" w l 2 ",fileresprobmorprev,YEARM/estepm); */ |
/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)*%6.3f) not w l 2 ",fileresprobmorprev,YEARM/estepm); */ |
/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)*%6.3f) not w l 2 ",fileresprobmorprev,YEARM/estepm); */ |
Line 4058 void varevsij(char optionfilefiname[], d
|
Line 4109 void varevsij(char optionfilefiname[], d
|
fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95%% interval\" w l lt 2 ",subdirf(fileresprobmorprev)); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95%% interval\" w l lt 2 ",subdirf(fileresprobmorprev)); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l lt 2 ",subdirf(fileresprobmorprev)); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l lt 2 ",subdirf(fileresprobmorprev)); |
fprintf(fichtm,"\n<br> File (multiple files are possible if covariates are present): <A href=\"%s\">%s</a>\n",subdirf(fileresprobmorprev),subdirf(fileresprobmorprev)); |
fprintf(fichtm,"\n<br> File (multiple files are possible if covariates are present): <A href=\"%s\">%s</a>\n",subdirf(fileresprobmorprev),subdirf(fileresprobmorprev)); |
fprintf(fichtm,"\n<br> Probability is computed over estepm=%d months. <br> <img src=\"%s%s.png\"> <br>\n", estepm,subdirf3(optionfilefiname,"varmuptjgr",digitp),digit); |
fprintf(fichtm,"\n<br> Probability is computed over estepm=%d months. <br> <img src=\"%s%s.svg\"> <br>\n", estepm,subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); |
/* fprintf(fichtm,"\n<br> Probability is computed over estepm=%d months and then divided by estepm and multiplied by %.0f in order to have the probability to die over a year <br> <img src=\"varmuptjgr%s%s.png\"> <br>\n", stepm,YEARM,digitp,digit); |
/* fprintf(fichtm,"\n<br> Probability is computed over estepm=%d months and then divided by estepm and multiplied by %.0f in order to have the probability to die over a year <br> <img src=\"varmuptjgr%s%s.svg\"> <br>\n", stepm,YEARM,digitp,digit); |
*/ |
*/ |
/* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.png\";replot;",digitp,optionfilefiname,digit); */ |
/* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.svg\";replot;",digitp,optionfilefiname,digit); */ |
fprintf(ficgp,"\nset out \"%s%s.png\";replot;\n",subdirf3(optionfilefiname,"varmuptjgr",digitp),digit); |
fprintf(ficgp,"\nset out;\nset out \"%s%s.svg\";replot;set out;\n",subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); |
|
|
free_vector(xp,1,npar); |
free_vector(xp,1,npar); |
free_matrix(doldm,1,nlstate,1,nlstate); |
free_matrix(doldm,1,nlstate,1,nlstate); |
Line 4180 void varprob(char optionfilefiname[], do
|
Line 4231 void varprob(char optionfilefiname[], do
|
char fileresprobcor[FILENAMELENGTH]; |
char fileresprobcor[FILENAMELENGTH]; |
double ***varpij; |
double ***varpij; |
|
|
strcpy(fileresprob,"prob"); |
strcpy(fileresprob,"PROB_"); |
strcat(fileresprob,fileres); |
strcat(fileresprob,fileres); |
if((ficresprob=fopen(fileresprob,"w"))==NULL) { |
if((ficresprob=fopen(fileresprob,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", fileresprob); |
printf("Problem with resultfile: %s\n", fileresprob); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprob); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprob); |
} |
} |
strcpy(fileresprobcov,"probcov"); |
strcpy(fileresprobcov,"PROBCOV_"); |
strcat(fileresprobcov,fileres); |
strcat(fileresprobcov,fileresu); |
if((ficresprobcov=fopen(fileresprobcov,"w"))==NULL) { |
if((ficresprobcov=fopen(fileresprobcov,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", fileresprobcov); |
printf("Problem with resultfile: %s\n", fileresprobcov); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcov); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcov); |
} |
} |
strcpy(fileresprobcor,"probcor"); |
strcpy(fileresprobcor,"PROBCOR_"); |
strcat(fileresprobcor,fileres); |
strcat(fileresprobcor,fileresu); |
if((ficresprobcor=fopen(fileresprobcor,"w"))==NULL) { |
if((ficresprobcor=fopen(fileresprobcor,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", fileresprobcor); |
printf("Problem with resultfile: %s\n", fileresprobcor); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcor); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcor); |
Line 4235 void varprob(char optionfilefiname[], do
|
Line 4286 void varprob(char optionfilefiname[], do
|
fprintf(fichtm,"\n<li><h4> Computing and drawing one step probabilities with their confidence intervals</h4></li>\n"); |
fprintf(fichtm,"\n<li><h4> Computing and drawing one step probabilities with their confidence intervals</h4></li>\n"); |
fprintf(fichtm,"\n"); |
fprintf(fichtm,"\n"); |
|
|
fprintf(fichtm,"\n<li><h4> <a href=\"%s\">Matrix of variance-covariance of one-step probabilities (drawings)</a></h4></br>this page is important in order to visualize confidence intervals and especially correlation between disability and recovery</li>\n",optionfilehtmcov); |
fprintf(fichtm,"\n<li><h4> <a href=\"%s\">Matrix of variance-covariance of one-step probabilities (drawings)</a></h4> this page is important in order to visualize confidence intervals and especially correlation between disability and recovery, or more generally, way in and way back.</li>\n",optionfilehtmcov); |
fprintf(fichtmcov,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Matrix of variance-covariance of pairs of step probabilities</h4>\n",optionfilehtmcov, optionfilehtmcov); |
fprintf(fichtmcov,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Matrix of variance-covariance of pairs of step probabilities</h4>\n",optionfilehtmcov, optionfilehtmcov); |
fprintf(fichtmcov,"\nEllipsoids of confidence centered on point (p<inf>ij</inf>, p<inf>kl</inf>) are estimated \ |
fprintf(fichtmcov,"\nEllipsoids of confidence centered on point (p<inf>ij</inf>, p<inf>kl</inf>) are estimated \ |
and drawn. It helps understanding how is the covariance between two incidences.\ |
and drawn. It helps understanding how is the covariance between two incidences.\ |
Line 4258 To be simple, these graphs help to under
|
Line 4309 To be simple, these graphs help to under
|
/*j1++;*/ |
/*j1++;*/ |
if (cptcovn>0) { |
if (cptcovn>0) { |
fprintf(ficresprob, "\n#********** Variable "); |
fprintf(ficresprob, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprob, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprob, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficresprob, "**********\n#\n"); |
fprintf(ficresprob, "**********\n#\n"); |
fprintf(ficresprobcov, "\n#********** Variable "); |
fprintf(ficresprobcov, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcov, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcov, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficresprobcov, "**********\n#\n"); |
fprintf(ficresprobcov, "**********\n#\n"); |
|
|
fprintf(ficgp, "\n#********** Variable "); |
fprintf(ficgp, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficgp, " V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficgp, " V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficgp, "**********\n#\n"); |
fprintf(ficgp, "**********\n#\n"); |
|
|
|
|
fprintf(fichtmcov, "\n<hr size=\"2\" color=\"#EC5E5E\">********** Variable "); |
fprintf(fichtmcov, "\n<hr size=\"2\" color=\"#EC5E5E\">********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(fichtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(fichtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(fichtmcov, "**********\n<hr size=\"2\" color=\"#EC5E5E\">"); |
fprintf(fichtmcov, "**********\n<hr size=\"2\" color=\"#EC5E5E\">"); |
|
|
fprintf(ficresprobcor, "\n#********** Variable "); |
fprintf(ficresprobcor, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcor, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcor, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficresprobcor, "**********\n#"); |
fprintf(ficresprobcor, "**********\n#"); |
} |
} |
|
|
Line 4287 To be simple, these graphs help to under
|
Line 4338 To be simple, these graphs help to under
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if(nagesqr==1) |
if(nagesqr==1) |
cov[3]= age*age; |
cov[3]= age*age; |
for (k=1; k<=cptcovn;k++) { |
for (k=1; k<=cptcovn;k++) { |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtab[j1][Tvar[k]]];/* j1 1 2 3 4 |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(j1,k)]; |
|
/*cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(j1,Tvar[k])];*//* j1 1 2 3 4 |
* 1 1 1 1 1 |
* 1 1 1 1 1 |
* 2 2 1 1 1 |
* 2 2 1 1 1 |
* 3 1 2 1 1 |
* 3 1 2 1 1 |
Line 4295 To be simple, these graphs help to under
|
Line 4347 To be simple, these graphs help to under
|
/* nbcode[1][1]=0 nbcode[1][2]=1;*/ |
/* nbcode[1][1]=0 nbcode[1][2]=1;*/ |
} |
} |
/* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
/* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=nbcode[Tvar[Tage[k]]][codtab[ij][Tvar[Tage[k]]]]*cov[2]; |
for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; |
for (k=1; k<=cptcovprod;k++) |
for (k=1; k<=cptcovprod;k++) |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]]; |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; |
|
|
|
|
for(theta=1; theta <=npar; theta++){ |
for(theta=1; theta <=npar; theta++){ |
Line 4445 To be simple, these graphs help to under
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Line 4497 To be simple, these graphs help to under
|
/* mu2+ v21*lc1*cost + v22*lc2*sin(t) */ |
/* mu2+ v21*lc1*cost + v22*lc2*sin(t) */ |
if(first==1){ |
if(first==1){ |
first=0; |
first=0; |
|
fprintf(ficgp,"\n# Ellipsoids of confidence\n#\n"); |
fprintf(ficgp,"\nset parametric;unset label"); |
fprintf(ficgp,"\nset parametric;unset label"); |
fprintf(ficgp,"\nset log y;set log x; set xlabel \"p%1d%1d (year-1)\";set ylabel \"p%1d%1d (year-1)\"",k1,l1,k2,l2); |
fprintf(ficgp,"\nset log y;set log x; set xlabel \"p%1d%1d (year-1)\";set ylabel \"p%1d%1d (year-1)\"",k1,l1,k2,l2); |
fprintf(ficgp,"\nset ter png small size 320, 240"); |
fprintf(ficgp,"\nset ter svg size 640, 480"); |
fprintf(fichtmcov,"\n<br>Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year<sup>-1</sup>\ |
fprintf(fichtmcov,"\n<br>Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year<sup>-1</sup>\ |
:<a href=\"%s%d%1d%1d-%1d%1d.png\">\ |
:<a href=\"%s_%d%1d%1d-%1d%1d.svg\">\ |
%s%d%1d%1d-%1d%1d.png</A>, ",k1,l1,k2,l2,\ |
%s_%d%1d%1d-%1d%1d.svg</A>, ",k1,l1,k2,l2,\ |
subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2,\ |
subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2,\ |
subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2); |
fprintf(fichtmcov,"\n<br><img src=\"%s%d%1d%1d-%1d%1d.png\"> ",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
fprintf(fichtmcov,"\n<br><img src=\"%s_%d%1d%1d-%1d%1d.svg\"> ",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2); |
fprintf(fichtmcov,"\n<br> Correlation at age %d (%.3f),",(int) age, c12); |
fprintf(fichtmcov,"\n<br> Correlation at age %d (%.3f),",(int) age, c12); |
fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\"",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
fprintf(ficgp,"\nset out \"%s_%d%1d%1d-%1d%1d.svg\"",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2); |
fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2); |
fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2); |
fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2); |
fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2); |
fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\ |
fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\ |
Line 4472 To be simple, these graphs help to under
|
Line 4525 To be simple, these graphs help to under
|
}/* if first */ |
}/* if first */ |
} /* age mod 5 */ |
} /* age mod 5 */ |
} /* end loop age */ |
} /* end loop age */ |
fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\";replot;",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
fprintf(ficgp,"\nset out;\nset out \"%s_%d%1d%1d-%1d%1d.svg\";replot;set out;",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2); |
first=1; |
first=1; |
} /*l12 */ |
} /*l12 */ |
} /* k12 */ |
} /* k12 */ |
Line 4494 To be simple, these graphs help to under
|
Line 4547 To be simple, these graphs help to under
|
|
|
|
|
/******************* Printing html file ***********/ |
/******************* Printing html file ***********/ |
void printinghtml(char fileres[], char title[], char datafile[], int firstpass, \ |
void printinghtml(char fileresu[], char title[], char datafile[], int firstpass, \ |
int lastpass, int stepm, int weightopt, char model[],\ |
int lastpass, int stepm, int weightopt, char model[],\ |
int imx,int jmin, int jmax, double jmeanint,char rfileres[],\ |
int imx,int jmin, int jmax, double jmeanint,char rfileres[],\ |
int popforecast, int estepm ,\ |
int popforecast, int estepm ,\ |
Line 4507 void printinghtml(char fileres[], char t
|
Line 4560 void printinghtml(char fileres[], char t
|
</ul>"); |
</ul>"); |
fprintf(fichtm,"<ul><li><h4><a name='firstorder'>Result files (first order: no variance)</a></h4>\n \ |
fprintf(fichtm,"<ul><li><h4><a name='firstorder'>Result files (first order: no variance)</a></h4>\n \ |
- Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> <br>\n ", |
- Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> <br>\n ", |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileres,"p"),subdirf2(fileres,"p")); |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileresu,"P_"),subdirf2(fileresu,"P_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Estimated transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
- Estimated transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
stepm,subdirf2(fileres,"pij"),subdirf2(fileres,"pij")); |
stepm,subdirf2(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Period (stable) prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
- Period (stable) prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
subdirf2(fileres,"pl"),subdirf2(fileres,"pl")); |
subdirf2(fileresu,"PL_"),subdirf2(fileresu,"PL_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- (a) Life expectancies by health status at initial age, ei. (b) health expectancies by health status at initial age, eij . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ |
- (a) Life expectancies by health status at initial age, ei. (b) health expectancies by health status at initial age, eij . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ |
<a href=\"%s\">%s</a> <br>\n", |
<a href=\"%s\">%s</a> <br>\n", |
estepm,subdirf2(fileres,"e"),subdirf2(fileres,"e")); |
estepm,subdirf2(fileresu,"E_"),subdirf2(fileresu,"E_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Population projections by age and states: \ |
- Population projections by age and states: \ |
<a href=\"%s\">%s</a> <br>\n</li>", subdirf2(fileres,"f"),subdirf2(fileres,"f")); |
<a href=\"%s\">%s</a> <br>\n</li>", subdirf2(fileresu,"F_"),subdirf2(fileresu,"F_")); |
|
|
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
|
|
Line 4534 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
Line 4587 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
if (cptcovn > 0) { |
if (cptcovn > 0) { |
fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates"); |
fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates"); |
for (cpt=1; cpt<=cptcoveff;cpt++){ |
for (cpt=1; cpt<=cptcoveff;cpt++){ |
fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]); |
fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]); |
printf(" V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]);fflush(stdout); |
printf(" V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]);fflush(stdout); |
} |
} |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
} |
} |
|
/* aij, bij */ |
|
fprintf(fichtm,"<br>- Logit model, for example: logit(pij)=log(pij/pii)= aij+ bij age + V1 age + etc. as a function of age: <a href=\"%s_%d-1.svg\">%s_%d-1.svg</a><br> \ |
|
<img src=\"%s_%d-1.svg\">",subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
/* Pij */ |
/* Pij */ |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i, %d (stepm) months before: <a href=\"%s%d_1.png\">%s%d_1.png</a><br> \ |
fprintf(fichtm,"<br>\n- Pij or conditional probabilities to be observed in state j being in state i, %d (stepm) months before: <a href=\"%s_%d-2.svg\">%s_%d-2.svg</a><br> \ |
<img src=\"%s%d_1.png\">",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1); |
<img src=\"%s_%d-2.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
/* Quasi-incidences */ |
/* Quasi-incidences */ |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i %d (stepm) months\ |
fprintf(fichtm,"<br>\n- Iij or Conditional probabilities to be observed in state j being in state i %d (stepm) months\ |
before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too: <a href=\"%s%d_2.png\">%s%d_2.png</a><br> \ |
before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too,\ |
<img src=\"%s%d_2.png\">",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1); |
incidence (rates) are the limit when h tends to zero of the ratio of the probability hPij \ |
/* Period (stable) prevalence in each health state */ |
divided by h: hPij/h : <a href=\"%s_%d-3.svg\">%s_%d-3.svg</a><br> \ |
for(cpt=1; cpt<=nlstate;cpt++){ |
<img src=\"%s_%d-3.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
fprintf(fichtm,"<br>- Convergence to period (stable) prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s%d_%d.png\">%s%d_%d.png</a><br> \ |
/* Survival functions (period) in state j */ |
<img src=\"%s%d_%d.png\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1); |
for(cpt=1; cpt<=nlstate;cpt++){ |
} |
fprintf(fichtm,"<br>\n- Survival functions in state %d. Or probability to survive in state %d being in state (1 to %d) at different ages. <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> \ |
|
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"LIJ_"),cpt,jj1,subdirf2(optionfilefiname,"LIJ_"),cpt,jj1,subdirf2(optionfilefiname,"LIJ_"),cpt,jj1); |
|
} |
|
/* State specific survival functions (period) */ |
|
for(cpt=1; cpt<=nlstate;cpt++){ |
|
fprintf(fichtm,"<br>\n- Survival functions from state %d in any different live states and total.\ |
|
Or probability to survive in various states (1 to %d) being in state %d at different ages.\ |
|
<a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> <img src=\"%s_%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1); |
|
} |
|
/* Period (stable) prevalence in each health state */ |
|
for(cpt=1; cpt<=nlstate;cpt++){ |
|
fprintf(fichtm,"<br>\n- Convergence to period (stable) prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> \ |
|
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1); |
|
} |
for(cpt=1; cpt<=nlstate;cpt++) { |
for(cpt=1; cpt<=nlstate;cpt++) { |
fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) : <a href=\"%s%d%d.png\">%s%d%d.png</a> <br> \ |
fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) (or area under each survival functions): <a href=\"%s%d%d.svg\">%s%d%d.svg</a> <br> \ |
<img src=\"%s%d%d.png\">",cpt,nlstate,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1); |
<img src=\"%s_%d%d.svg\">",cpt,nlstate,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1); |
} |
} |
/* } /\* end i1 *\/ */ |
/* } /\* end i1 *\/ */ |
}/* End k1 */ |
}/* End k1 */ |
Line 4572 covariance matrix of the one-step probab
|
Line 4641 covariance matrix of the one-step probab
|
See page 'Matrix of variance-covariance of one-step probabilities' below. \n", rfileres,rfileres); |
See page 'Matrix of variance-covariance of one-step probabilities' below. \n", rfileres,rfileres); |
|
|
fprintf(fichtm," - Standard deviation of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
fprintf(fichtm," - Standard deviation of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
subdirf2(fileres,"prob"),subdirf2(fileres,"prob")); |
subdirf2(fileresu,"PROB_"),subdirf2(fileresu,"PROB_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Variance-covariance of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
- Variance-covariance of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
subdirf2(fileres,"probcov"),subdirf2(fileres,"probcov")); |
subdirf2(fileresu,"PROBCOV_"),subdirf2(fileresu,"PROBCOV_")); |
|
|
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Correlation matrix of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
- Correlation matrix of one-step probabilities: <a href=\"%s\">%s</a> <br>\n", |
subdirf2(fileres,"probcor"),subdirf2(fileres,"probcor")); |
subdirf2(fileresu,"PROBCOR_"),subdirf2(fileresu,"PROBCOR_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Variances and covariances of health expectancies by age and <b>initial health status</b> (cov(e<sup>ij</sup>,e<sup>kl</sup>)(estepm=%2d months): \ |
- Variances and covariances of health expectancies by age and <b>initial health status</b> (cov(e<sup>ij</sup>,e<sup>kl</sup>)(estepm=%2d months): \ |
<a href=\"%s\">%s</a> <br>\n</li>", |
<a href=\"%s\">%s</a> <br>\n</li>", |
estepm,subdirf2(fileres,"cve"),subdirf2(fileres,"cve")); |
estepm,subdirf2(fileresu,"CVE_"),subdirf2(fileresu,"CVE_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- (a) Health expectancies by health status at initial age (e<sup>ij</sup>) and standard errors (in parentheses) (b) life expectancies and standard errors (e<sup>i.</sup>=e<sup>i1</sup>+e<sup>i2</sup>+...)(estepm=%2d months): \ |
- (a) Health expectancies by health status at initial age (e<sup>ij</sup>) and standard errors (in parentheses) (b) life expectancies and standard errors (e<sup>i.</sup>=e<sup>i1</sup>+e<sup>i2</sup>+...)(estepm=%2d months): \ |
<a href=\"%s\">%s</a> <br>\n</li>", |
<a href=\"%s\">%s</a> <br>\n</li>", |
estepm,subdirf2(fileres,"stde"),subdirf2(fileres,"stde")); |
estepm,subdirf2(fileresu,"STDE_"),subdirf2(fileresu,"STDE_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Variances and covariances of health expectancies by age. Status (i) based health expectancies (in state j), e<sup>ij</sup> are weighted by the period prevalences in each state i (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): <a href=\"%s\">%s</a><br>\n", |
- Variances and covariances of health expectancies by age. Status (i) based health expectancies (in state j), e<sup>ij</sup> are weighted by the period prevalences in each state i (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): <a href=\"%s\">%s</a><br>\n", |
estepm, subdirf2(fileres,"v"),subdirf2(fileres,"v")); |
estepm, subdirf2(fileresu,"V_"),subdirf2(fileresu,"V_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Total life expectancy and total health expectancies to be spent in each health state e<sup>.j</sup> with their standard errors (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): <a href=\"%s\">%s</a> <br>\n", |
- Total life expectancy and total health expectancies to be spent in each health state e<sup>.j</sup> with their standard errors (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): <a href=\"%s\">%s</a> <br>\n", |
estepm, subdirf2(fileres,"t"),subdirf2(fileres,"t")); |
estepm, subdirf2(fileresu,"T_"),subdirf2(fileresu,"T_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Standard deviation of period (stable) prevalences: <a href=\"%s\">%s</a> <br>\n",\ |
- Standard deviation of period (stable) prevalences: <a href=\"%s\">%s</a> <br>\n",\ |
subdirf2(fileres,"vpl"),subdirf2(fileres,"vpl")); |
subdirf2(fileresu,"VPL_"),subdirf2(fileresu,"VPL_")); |
|
|
/* if(popforecast==1) fprintf(fichtm,"\n */ |
/* if(popforecast==1) fprintf(fichtm,"\n */ |
/* - Prevalences forecasting: <a href=\"f%s\">f%s</a> <br>\n */ |
/* - Prevalences forecasting: <a href=\"f%s\">f%s</a> <br>\n */ |
Line 4617 See page 'Matrix of variance-covariance
|
Line 4686 See page 'Matrix of variance-covariance
|
if (cptcovn > 0) { |
if (cptcovn > 0) { |
fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates"); |
fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates"); |
for (cpt=1; cpt<=cptcoveff;cpt++) |
for (cpt=1; cpt<=cptcoveff;cpt++) |
fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]); |
fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]); |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
} |
} |
for(cpt=1; cpt<=nlstate;cpt++) { |
for(cpt=1; cpt<=nlstate;cpt++) { |
fprintf(fichtm,"<br>- Observed (cross-sectional) and period (incidence based) \ |
fprintf(fichtm,"<br>- Observed (cross-sectional) and period (incidence based) \ |
prevalence (with 95%% confidence interval) in state (%d): %s%d_%d.png <br>\ |
prevalence (with 95%% confidence interval) in state (%d): %s%d_%d.svg <br>\ |
<img src=\"%s%d_%d.png\">",cpt,subdirf2(optionfilefiname,"v"),cpt,jj1,subdirf2(optionfilefiname,"v"),cpt,jj1); |
<img src=\"%s_%d-%d.svg\">",cpt,subdirf2(optionfilefiname,"V_"),cpt,jj1,subdirf2(optionfilefiname,"V_"),cpt,jj1); |
} |
} |
fprintf(fichtm,"\n<br>- Total life expectancy by age and \ |
fprintf(fichtm,"\n<br>- Total life expectancy by age and \ |
health expectancies in states (1) and (2). If popbased=1 the smooth (due to the model) \ |
health expectancies in states (1) and (2). If popbased=1 the smooth (due to the model) \ |
true period expectancies (those weighted with period prevalences are also\ |
true period expectancies (those weighted with period prevalences are also\ |
drawn in addition to the population based expectancies computed using\ |
drawn in addition to the population based expectancies computed using\ |
observed and cahotic prevalences: %s%d.png<br>\ |
observed and cahotic prevalences: %s_%d.svg<br>\ |
<img src=\"%s%d.png\">",subdirf2(optionfilefiname,"e"),jj1,subdirf2(optionfilefiname,"e"),jj1); |
<img src=\"%s_%d.svg\">",subdirf2(optionfilefiname,"E_"),jj1,subdirf2(optionfilefiname,"E_"),jj1); |
/* } /\* end i1 *\/ */ |
/* } /\* end i1 *\/ */ |
}/* End k1 */ |
}/* End k1 */ |
fprintf(fichtm,"</ul>"); |
fprintf(fichtm,"</ul>"); |
Line 4638 true period expectancies (those weighted
|
Line 4707 true period expectancies (those weighted
|
} |
} |
|
|
/******************* Gnuplot file **************/ |
/******************* Gnuplot file **************/ |
void printinggnuplot(char fileres[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
|
|
char dirfileres[132],optfileres[132]; |
char dirfileres[132],optfileres[132]; |
int cpt=0,k1=0,i=0,k=0,j=0,jk=0,k2=0,k3=0,ij=0,l=0; |
int cpt=0,k1=0,i=0,k=0,j=0,jk=0,k2=0,k3=0,ij=0,l=0; |
int ng=0; |
int ng=0; |
|
int vpopbased; |
/* if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { */ |
/* if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { */ |
/* printf("Problem with file %s",optionfilegnuplot); */ |
/* printf("Problem with file %s",optionfilegnuplot); */ |
/* fprintf(ficlog,"Problem with file %s",optionfilegnuplot); */ |
/* fprintf(ficlog,"Problem with file %s",optionfilegnuplot); */ |
Line 4653 void printinggnuplot(char fileres[], cha
|
Line 4723 void printinggnuplot(char fileres[], cha
|
/*#endif */ |
/*#endif */ |
m=pow(2,cptcoveff); |
m=pow(2,cptcoveff); |
|
|
|
/* Contribution to likelihood */ |
|
/* Plot the probability implied in the likelihood */ |
|
fprintf(ficgp,"\n# Contributions to the Likelihood, mle >=1. For mle=4 no interpolation, pure matrix products.\n#\n"); |
|
fprintf(ficgp,"\n set log y; unset log x;set xlabel \"Age\"; set ylabel \"Likelihood (-2Log(L))\";"); |
|
/* fprintf(ficgp,"\nset ter svg size 640, 480"); */ /* Too big for svg */ |
|
fprintf(ficgp,"\nset ter png size 640, 480"); |
|
/* good for mle=4 plot by number of matrix products. |
|
replot "rrtest1/toto.txt" u 2:($4 == 1 && $5==2 ? $9 : 1/0):5 t "p12" with point lc 1 */ |
|
/* replot exp(p1+p2*x)/(1+exp(p1+p2*x)+exp(p3+p4*x)+exp(p5+p6*x)) t "p12(x)" */ |
|
/* fprintf(ficgp,"\nset out \"%s.svg\";",subdirf2(optionfilefiname,"ILK_")); */ |
|
fprintf(ficgp,"\nset out \"%s.png\";",subdirf2(optionfilefiname,"ILK_")); |
|
fprintf(ficgp,"\nplot \"%s\" u 2:(-$11):3 t \"All sample, all transitions\" with dots lc variable",subdirf(fileresilk)); |
|
fprintf(ficgp,"\nreplot \"%s\" u 2:($3 <= 3 ? -$11 : 1/0):3 t \"First 3 individuals\" with line lc variable", subdirf(fileresilk)); |
|
fprintf(ficgp,"\nset out\n"); |
|
/* fprintf(ficgp,"\nset out \"%s.svg\"; replot; set out; # bug gnuplot",subdirf2(optionfilefiname,"ILK_")); */ |
|
|
strcpy(dirfileres,optionfilefiname); |
strcpy(dirfileres,optionfilefiname); |
strcpy(optfileres,"vpl"); |
strcpy(optfileres,"vpl"); |
/* 1eme*/ |
/* 1eme*/ |
fprintf(ficgp,"\n# 1st: Period (stable) prevalence with CI: 'vpl' files\n"); |
fprintf(ficgp,"\n# 1st: Period (stable) prevalence with CI: 'VPL_' files\n"); |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (k1=1; k1<= m ; k1 ++) { /* plot [100000000000000000000:-100000000000000000000] "mysbiaspar/vplrmysbiaspar.txt to check */ |
for (k1=1; k1<= m ; k1 ++) { /* plot [100000000000000000000:-100000000000000000000] "mysbiaspar/vplrmysbiaspar.txt to check */ |
fprintf(ficgp,"\nset out \"%s%d_%d.png\" \n",subdirf2(optionfilefiname,"v"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"V_"),cpt,k1); |
fprintf(ficgp,"\n#set out \"v%s%d_%d.png\" \n",optionfilefiname,cpt,k1); |
fprintf(ficgp,"\n#set out \"V_%s_%d-%d.svg\" \n",optionfilefiname,cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \n\ |
set ylabel \"Probability\" \n\ |
set ylabel \"Probability\" \n\ |
set ter png small size 320, 240\n\ |
set ter svg size 640, 480\n\ |
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:2 \"%%lf",ageminpar,fage,subdirf2(fileres,"vpl"),k1-1,k1-1); |
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:2 \"%%lf",ageminpar,fage,subdirf2(fileresu,"VPL_"),k1-1,k1-1); |
|
|
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"Period (stable) prevalence\" w l lt 0,\"%s\" every :::%d::%d u 1:($2+1.96*$3) \"%%lf",subdirf2(fileres,"vpl"),k1-1,k1-1); |
fprintf(ficgp,"\" t\"Period (stable) prevalence\" w l lt 0,\"%s\" every :::%d::%d u 1:($2+1.96*$3) \"%%lf",subdirf2(fileresu,"VPL_"),k1-1,k1-1); |
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"95%% CI\" w l lt 1,\"%s\" every :::%d::%d u 1:($2-1.96*$3) \"%%lf",subdirf2(fileres,"vpl"),k1-1,k1-1); |
fprintf(ficgp,"\" t\"95%% CI\" w l lt 1,\"%s\" every :::%d::%d u 1:($2-1.96*$3) \"%%lf",subdirf2(fileresu,"VPL_"),k1-1,k1-1); |
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l lt 2",subdirf2(fileres,"p"),k1-1,k1-1,2+4*(cpt-1)); |
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l lt 2",subdirf2(fileresu,"P_"),k1-1,k1-1,2+4*(cpt-1)); |
} |
fprintf(ficgp,"\nset out \n"); |
} |
} /* k1 */ |
|
} /* cpt */ |
/*2 eme*/ |
/*2 eme*/ |
fprintf(ficgp,"\n# 2nd: Total life expectancy with CI: 't' files\n"); |
fprintf(ficgp,"\n# 2nd: Total life expectancy with CI: 't' files\n"); |
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
fprintf(ficgp,"\nset out \"%s%d.png\" \n",subdirf2(optionfilefiname,"e"),k1); |
fprintf(ficgp,"\nset out \"%s_%d.svg\" \n",subdirf2(optionfilefiname,"E_"),k1); |
fprintf(ficgp,"set ylabel \"Years\" \nset ter png small size 320, 240\nplot [%.f:%.f] ",ageminpar,fage); |
for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ |
|
if(vpopbased==0) |
for (i=1; i<= nlstate+1 ; i ++) { |
fprintf(ficgp,"set ylabel \"Years\" \nset ter svg size 640, 480\nplot [%.f:%.f] ",ageminpar,fage); |
k=2*i; |
else |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:2 \"%%lf",subdirf2(fileres,"t"),k1-1,k1-1); |
fprintf(ficgp,"\nreplot "); |
for (j=1; j<= nlstate+1 ; j ++) { |
for (i=1; i<= nlstate+1 ; i ++) { |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
k=2*i; |
else fprintf(ficgp," %%*lf (%%*lf)"); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2==%d && $4!=0 ?$4 : 1/0) \"%%lf %%lf %%lf",subdirf2(fileresu,"T_"),k1-1,k1-1, vpopbased); |
} |
for (j=1; j<= nlstate+1 ; j ++) { |
if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l ,"); |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp,"\" t\"LE in state (%d)\" w l ,",i-1); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2-$3*2) \"%%lf",subdirf2(fileres,"t"),k1-1,k1-1); |
} |
for (j=1; j<= nlstate+1 ; j ++) { |
if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l lt %d, \\\n",i); |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp,"\" t\"LE in state (%d)\" w l lt %d, \\\n",i-1,i+1); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2==%d && $4!=0 ? $4-$5*2 : 1/0) \"%%lf %%lf %%lf",subdirf2(fileresu,"T_"),k1-1,k1-1,vpopbased); |
} |
for (j=1; j<= nlstate+1 ; j ++) { |
fprintf(ficgp,"\" t\"\" w l lt 0,"); |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2+$3*2) \"%%lf",subdirf2(fileres,"t"),k1-1,k1-1); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
for (j=1; j<= nlstate+1 ; j ++) { |
} |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
fprintf(ficgp,"\" t\"\" w l lt 0,"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2==%d && $4!=0 ? $4+$5*2 : 1/0) \"%%lf %%lf %%lf",subdirf2(fileresu,"T_"),k1-1,k1-1,vpopbased); |
} |
for (j=1; j<= nlstate+1 ; j ++) { |
if (i== (nlstate+1)) fprintf(ficgp,"\" t\"\" w l lt 0"); |
if (j==i) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp,"\" t\"\" w l lt 0,"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
} |
} |
} |
if (i== (nlstate+1)) fprintf(ficgp,"\" t\"\" w l lt 0"); |
|
else fprintf(ficgp,"\" t\"\" w l lt 0,\\\n"); |
|
} /* state */ |
|
} /* vpopbased */ |
|
fprintf(ficgp,"\nset out;set out \"%s_%d.svg\"; replot; set out; \n",subdirf2(optionfilefiname,"E_"),k1); /* Buggy gnuplot */ |
|
} /* k1 */ |
/*3eme*/ |
/*3eme*/ |
|
|
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
/* k=2+nlstate*(2*cpt-2); */ |
/* k=2+nlstate*(2*cpt-2); */ |
k=2+(nlstate+1)*(cpt-1); |
k=2+(nlstate+1)*(cpt-1); |
fprintf(ficgp,"\nset out \"%s%d%d.png\" \n",subdirf2(optionfilefiname,"exp"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d%d.svg\" \n",subdirf2(optionfilefiname,"EXP_"),cpt,k1); |
fprintf(ficgp,"set ter png small size 320, 240\n\ |
fprintf(ficgp,"set ter svg size 640, 480\n\ |
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",ageminpar,fage,subdirf2(fileres,"e"),k1-1,k1-1,k,cpt); |
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",ageminpar,fage,subdirf2(fileresu,"E_"),k1-1,k1-1,k,cpt); |
/*fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:($%d-2*$%d) \"\%%lf ",fileres,k1-1,k1-1,k,k+1); |
/*fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:($%d-2*$%d) \"\%%lf ",fileres,k1-1,k1-1,k,k+1); |
for (i=1; i<= nlstate*2 ; i ++) fprintf(ficgp,"\%%lf (\%%lf) "); |
for (i=1; i<= nlstate*2 ; i ++) fprintf(ficgp,"\%%lf (\%%lf) "); |
fprintf(ficgp,"\" t \"e%d1\" w l",cpt); |
fprintf(ficgp,"\" t \"e%d1\" w l",cpt); |
Line 4732 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
Line 4823 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
|
|
*/ |
*/ |
for (i=1; i< nlstate ; i ++) { |
for (i=1; i< nlstate ; i ++) { |
fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",subdirf2(fileres,"e"),k1-1,k1-1,k+i,cpt,i+1); |
fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",subdirf2(fileresu,"E_"),k1-1,k1-1,k+i,cpt,i+1); |
/* fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",subdirf2(fileres,"e"),k1-1,k1-1,k+2*i,cpt,i+1);*/ |
/* fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",subdirf2(fileres,"e"),k1-1,k1-1,k+2*i,cpt,i+1);*/ |
|
|
} |
} |
fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d.\" w l",subdirf2(fileres,"e"),k1-1,k1-1,k+nlstate,cpt); |
fprintf(ficgp," ,\"%s\" every :::%d::%d u 1:%d t \"e%d.\" w l",subdirf2(fileresu,"E_"),k1-1,k1-1,k+nlstate,cpt); |
} |
} |
} |
} |
|
|
/* CV preval stable (period) */ |
/* Survival functions (period) from state i in state j by initial state i */ |
for (k1=1; k1<= m ; k1 ++) { /* For each multivariate if any */ |
for (k1=1; k1<= m ; k1 ++) { /* For each multivariate if any */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
k=3; |
k=3; |
|
fprintf(ficgp,"\n#\n#\n# Survival functions in state j : 'lij' files, cov=%d state=%d",k1, cpt); |
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJ_"),cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
|
set ter svg size 640, 480\n\ |
|
unset log y\n\ |
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
for (i=1; i<= nlstate ; i ++){ |
|
if(i==1) |
|
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
|
else |
|
fprintf(ficgp,", '' "); |
|
l=(nlstate+ndeath)*(i-1)+1; |
|
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); |
|
for (j=2; j<= nlstate+ndeath ; j ++) |
|
fprintf(ficgp,"+$%d",k+l+j-1); |
|
fprintf(ficgp,")) t \"l(%d,%d)\" w l",i,cpt); |
|
} /* nlstate */ |
|
fprintf(ficgp,"\nset out\n"); |
|
} /* end cpt state*/ |
|
} /* end covariate */ |
|
|
|
/* Survival functions (period) from state i in state j by final state j */ |
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate if any */ |
|
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each inital state */ |
|
k=3; |
|
fprintf(ficgp,"\n#\n#\n# Survival functions in state j and all livestates from state i by final state j: 'lij' files, cov=%d state=%d",k1, cpt); |
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJT_"),cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
|
set ter svg size 640, 480\n\ |
|
unset log y\n\ |
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
for (j=1; j<= nlstate ; j ++){ /* Lived in state j */ |
|
if(j==1) |
|
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
|
else |
|
fprintf(ficgp,", '' "); |
|
l=(nlstate+ndeath)*(cpt-1) +j; |
|
fprintf(ficgp," u (($1==%d && (floor($2)%%5 == 0)) ? ($3):1/0):($%d",k1,k+l); |
|
/* for (i=2; i<= nlstate+ndeath ; i ++) */ |
|
/* fprintf(ficgp,"+$%d",k+l+i-1); */ |
|
fprintf(ficgp,") t \"l(%d,%d)\" w l",cpt,j); |
|
} /* nlstate */ |
|
fprintf(ficgp,", '' "); |
|
fprintf(ficgp," u (($1==%d && (floor($2)%%5 == 0)) ? ($3):1/0):(",k1); |
|
for (j=1; j<= nlstate ; j ++){ /* Lived in state j */ |
|
l=(nlstate+ndeath)*(cpt-1) +j; |
|
if(j < nlstate) |
|
fprintf(ficgp,"$%d +",k+l); |
|
else |
|
fprintf(ficgp,"$%d) t\"l(%d,.)\" w l",k+l,cpt); |
|
} |
|
fprintf(ficgp,"\nset out\n"); |
|
} /* end cpt state*/ |
|
} /* end covariate */ |
|
|
|
/* CV preval stable (period) for each covariate */ |
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate if any */ |
|
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
|
k=3; |
fprintf(ficgp,"\n#\n#\n#CV preval stable (period): 'pij' files, cov=%d state=%d",k1, cpt); |
fprintf(ficgp,"\n#\n#\n#CV preval stable (period): 'pij' files, cov=%d state=%d",k1, cpt); |
fprintf(ficgp,"\nset out \"%s%d_%d.png\" \n",subdirf2(optionfilefiname,"p"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"P_"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
set ter png small size 320, 240\n\ |
set ter svg size 640, 480\n\ |
unset log y\n\ |
unset log y\n\ |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
for (i=1; i<= nlstate ; i ++){ |
for (i=1; i<= nlstate ; i ++){ |
if(i==1) |
if(i==1) |
fprintf(ficgp,"\"%s\"",subdirf2(fileres,"pij")); |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
else |
else |
fprintf(ficgp,", '' "); |
fprintf(ficgp,", '' "); |
l=(nlstate+ndeath)*(i-1)+1; |
l=(nlstate+ndeath)*(i-1)+1; |
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); |
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); |
for (j=1; j<= (nlstate-1) ; j ++) |
for (j=2; j<= nlstate ; j ++) |
fprintf(ficgp,"+$%d",k+l+j); |
fprintf(ficgp,"+$%d",k+l+j-1); |
fprintf(ficgp,")) t \"prev(%d,%d)\" w l",i,cpt); |
fprintf(ficgp,")) t \"prev(%d,%d)\" w l",i,cpt); |
} /* nlstate */ |
} /* nlstate */ |
fprintf(ficgp,"\n"); |
fprintf(ficgp,"\nset out\n"); |
} /* end cpt state*/ |
} /* end cpt state*/ |
} /* end covariate */ |
} /* end covariate */ |
|
|
/* proba elementaires */ |
/* proba elementaires */ |
fprintf(ficgp,"\n##############\n#MLE estimated parameters\n#############\n"); |
fprintf(ficgp,"\n##############\n#MLE estimated parameters\n#############\n"); |
for(i=1,jk=1; i <=nlstate; i++){ |
for(i=1,jk=1; i <=nlstate; i++){ |
Line 4783 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 4933 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
fprintf(ficgp,"##############\n#\n"); |
fprintf(ficgp,"##############\n#\n"); |
|
|
/*goto avoid;*/ |
/*goto avoid;*/ |
fprintf(ficgp,"\n##############\n#Graphics of of probabilities or incidences\n#############\n"); |
fprintf(ficgp,"\n##############\n#Graphics of probabilities or incidences\n#############\n"); |
fprintf(ficgp,"# logi(p12/p11)=a12+b12*age+c12age*age+d12*V1+e12*V1*age\n"); |
fprintf(ficgp,"# logi(p12/p11)=a12+b12*age+c12age*age+d12*V1+e12*V1*age\n"); |
fprintf(ficgp,"# logi(p12/p11)=p1 +p2*age +p3*age*age+ p4*V1+ p5*V1*age\n"); |
fprintf(ficgp,"# logi(p12/p11)=p1 +p2*age +p3*age*age+ p4*V1+ p5*V1*age\n"); |
fprintf(ficgp,"# logi(p13/p11)=a13+b13*age+c13age*age+d13*V1+e13*V1*age\n"); |
fprintf(ficgp,"# logi(p13/p11)=a13+b13*age+c13age*age+d13*V1+e13*V1*age\n"); |
Line 4797 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 4947 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
fprintf(ficgp,"# +exp(a13+b13*age+c13age*age+d13*V1+e13*V1*age))\n"); |
fprintf(ficgp,"# +exp(a13+b13*age+c13age*age+d13*V1+e13*V1*age))\n"); |
fprintf(ficgp,"# +exp(a14+b14*age+c14age*age+d14*V1+e14*V1*age)+...)\n"); |
fprintf(ficgp,"# +exp(a14+b14*age+c14age*age+d14*V1+e14*V1*age)+...)\n"); |
fprintf(ficgp,"#\n"); |
fprintf(ficgp,"#\n"); |
for(ng=1; ng<=2;ng++){ /* Number of graphics: first is probabilities second is incidence per year*/ |
for(ng=1; ng<=3;ng++){ /* Number of graphics: first is logit, 2nd is probabilities, third is incidences per year*/ |
fprintf(ficgp,"# ng=%d\n",ng); |
fprintf(ficgp,"# ng=%d\n",ng); |
fprintf(ficgp,"# jk=1 to 2^%d=%d\n",cptcoveff,m); |
fprintf(ficgp,"# jk=1 to 2^%d=%d\n",cptcoveff,m); |
for(jk=1; jk <=m; jk++) { |
for(jk=1; jk <=m; jk++) { |
fprintf(ficgp,"# jk=%d\n",jk); |
fprintf(ficgp,"# jk=%d\n",jk); |
fprintf(ficgp,"\nset out \"%s%d_%d.png\" \n",subdirf2(optionfilefiname,"pe"),jk,ng); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" ",subdirf2(optionfilefiname,"PE_"),jk,ng); |
if (ng==2) |
fprintf(ficgp,"\nset ter svg size 640, 480 "); |
|
if (ng==1){ |
|
fprintf(ficgp,"\nset ylabel \"Value of the logit of the model\"\n"); /* exp(a12+b12*x) could be nice */ |
|
fprintf(ficgp,"\nunset log y"); |
|
}else if (ng==2){ |
|
fprintf(ficgp,"\nset ylabel \"Probability\"\n"); |
|
fprintf(ficgp,"\nset log y"); |
|
}else if (ng==3){ |
fprintf(ficgp,"\nset ylabel \"Quasi-incidence per year\"\n"); |
fprintf(ficgp,"\nset ylabel \"Quasi-incidence per year\"\n"); |
else |
fprintf(ficgp,"\nset log y"); |
fprintf(ficgp,"\nset title \"Probability\"\n"); |
}else |
fprintf(ficgp,"\nset ter png small size 320, 240\nset log y\nplot [%.f:%.f] ",ageminpar,agemaxpar); |
fprintf(ficgp,"\nunset title "); |
|
fprintf(ficgp,"\nplot [%.f:%.f] ",ageminpar,agemaxpar); |
i=1; |
i=1; |
for(k2=1; k2<=nlstate; k2++) { |
for(k2=1; k2<=nlstate; k2++) { |
k3=i; |
k3=i; |
for(k=1; k<=(nlstate+ndeath); k++) { |
for(k=1; k<=(nlstate+ndeath); k++) { |
if (k != k2){ |
if (k != k2){ |
if(ng==2) |
switch( ng) { |
|
case 1: |
if(nagesqr==0) |
if(nagesqr==0) |
fprintf(ficgp," %f*exp(p%d+p%d*x",YEARM/stepm,i,i+1); |
fprintf(ficgp," p%d+p%d*x",i,i+1); |
else /* nagesqr =1 */ |
else /* nagesqr =1 */ |
fprintf(ficgp," %f*exp(p%d+p%d*x+p%d*x*x",YEARM/stepm,i,i+1,i+1+nagesqr); |
fprintf(ficgp," p%d+p%d*x+p%d*x*x",i,i+1,i+1+nagesqr); |
else |
break; |
|
case 2: /* ng=2 */ |
if(nagesqr==0) |
if(nagesqr==0) |
fprintf(ficgp," exp(p%d+p%d*x",i,i+1); |
fprintf(ficgp," exp(p%d+p%d*x",i,i+1); |
else /* nagesqr =1 */ |
else /* nagesqr =1 */ |
fprintf(ficgp," exp(p%d+p%d*x+p%d*x*x",i,i+1,i+1+nagesqr); |
fprintf(ficgp," exp(p%d+p%d*x+p%d*x*x",i,i+1,i+1+nagesqr); |
|
break; |
|
case 3: |
|
if(nagesqr==0) |
|
fprintf(ficgp," %f*exp(p%d+p%d*x",YEARM/stepm,i,i+1); |
|
else /* nagesqr =1 */ |
|
fprintf(ficgp," %f*exp(p%d+p%d*x+p%d*x*x",YEARM/stepm,i,i+1,i+1+nagesqr); |
|
break; |
|
} |
ij=1;/* To be checked else nbcode[0][0] wrong */ |
ij=1;/* To be checked else nbcode[0][0] wrong */ |
for(j=3; j <=ncovmodel-nagesqr; j++) { |
for(j=3; j <=ncovmodel-nagesqr; j++) { |
/* printf("Tage[%d]=%d, j=%d\n", ij, Tage[ij], j); */ |
/* printf("Tage[%d]=%d, j=%d\n", ij, Tage[ij], j); */ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
fprintf(ficgp,"+p%d*%d*x",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]); |
fprintf(ficgp,"+p%d*%d*x",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
|
/* fprintf(ficgp,"+p%d*%d*x",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
ij++; |
ij++; |
} |
} |
} |
} |
else |
else |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtab[jk][j-2]]); |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
} |
} |
fprintf(ficgp,")/(1"); |
if(ng != 1){ |
|
fprintf(ficgp,")/(1"); |
|
|
for(k1=1; k1 <=nlstate; k1++){ |
for(k1=1; k1 <=nlstate; k1++){ |
if(nagesqr==0) |
if(nagesqr==0) |
fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1); |
fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1); |
else /* nagesqr =1 */ |
else /* nagesqr =1 */ |
fprintf(ficgp,"+exp(p%d+p%d*x+p%d*x*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1,k3+(k1-1)*ncovmodel+1+nagesqr); |
fprintf(ficgp,"+exp(p%d+p%d*x+p%d*x*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1,k3+(k1-1)*ncovmodel+1+nagesqr); |
|
|
ij=1; |
ij=1; |
for(j=3; j <=ncovmodel-nagesqr; j++){ |
for(j=3; j <=ncovmodel-nagesqr; j++){ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]); |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
ij++; |
/* fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
|
ij++; |
|
} |
} |
} |
|
else |
|
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
} |
} |
else |
fprintf(ficgp,")"); |
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtab[jk][j-2]]); |
|
} |
} |
fprintf(ficgp,")"); |
fprintf(ficgp,")"); |
|
if(ng ==2) |
|
fprintf(ficgp," t \"p%d%d\" ", k2,k); |
|
else /* ng= 3 */ |
|
fprintf(ficgp," t \"i%d%d\" ", k2,k); |
|
}else{ /* end ng <> 1 */ |
|
fprintf(ficgp," t \"logit(p%d%d)\" ", k2,k); |
} |
} |
fprintf(ficgp,") t \"p%d%d\" ", k2,k); |
|
if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,","); |
if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,","); |
i=i+ncovmodel; |
i=i+ncovmodel; |
} |
} |
} /* end k */ |
} /* end k */ |
} /* end k2 */ |
} /* end k2 */ |
|
fprintf(ficgp,"\n set out\n"); |
} /* end jk */ |
} /* end jk */ |
} /* end ng */ |
} /* end ng */ |
/* avoid: */ |
/* avoid: */ |
Line 4929 void prevforecast(char fileres[], double
|
Line 5108 void prevforecast(char fileres[], double
|
agelim=AGESUP; |
agelim=AGESUP; |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
|
|
strcpy(fileresf,"f"); |
strcpy(fileresf,"F_"); |
strcat(fileresf,fileres); |
strcat(fileresf,fileresu); |
if((ficresf=fopen(fileresf,"w"))==NULL) { |
if((ficresf=fopen(fileresf,"w"))==NULL) { |
printf("Problem with forecast resultfile: %s\n", fileresf); |
printf("Problem with forecast resultfile: %s\n", fileresf); |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", fileresf); |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", fileresf); |
Line 4979 void prevforecast(char fileres[], double
|
Line 5158 void prevforecast(char fileres[], double
|
k=k+1; |
k=k+1; |
fprintf(ficresf,"\n#******"); |
fprintf(ficresf,"\n#******"); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficresf," V%d=%d, hpijx=probability over h years, hp.jx is weighted by observed prev ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficresf," V%d=%d, hpijx=probability over h years, hp.jx is weighted by observed prev ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficresf,"******\n"); |
fprintf(ficresf,"******\n"); |
fprintf(ficresf,"# Covariate valuofcovar yearproj age"); |
fprintf(ficresf,"# Covariate valuofcovar yearproj age"); |
Line 5003 void prevforecast(char fileres[], double
|
Line 5182 void prevforecast(char fileres[], double
|
if (h*hstepm/YEARM*stepm ==yearp) { |
if (h*hstepm/YEARM*stepm ==yearp) { |
fprintf(ficresf,"\n"); |
fprintf(ficresf,"\n"); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficresf,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficresf,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresf,"%.f %.f ",anproj1+yearp,agec+h*hstepm/YEARM*stepm); |
fprintf(ficresf,"%.f %.f ",anproj1+yearp,agec+h*hstepm/YEARM*stepm); |
} |
} |
for(j=1; j<=nlstate+ndeath;j++) { |
for(j=1; j<=nlstate+ndeath;j++) { |
Line 5053 void populforecast(char fileres[], doubl
|
Line 5232 void populforecast(char fileres[], doubl
|
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
|
|
|
|
strcpy(filerespop,"pop"); |
strcpy(filerespop,"POP_"); |
strcat(filerespop,fileres); |
strcat(filerespop,fileresu); |
if((ficrespop=fopen(filerespop,"w"))==NULL) { |
if((ficrespop=fopen(filerespop,"w"))==NULL) { |
printf("Problem with forecast resultfile: %s\n", filerespop); |
printf("Problem with forecast resultfile: %s\n", filerespop); |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", filerespop); |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", filerespop); |
Line 5101 void populforecast(char fileres[], doubl
|
Line 5280 void populforecast(char fileres[], doubl
|
k=k+1; |
k=k+1; |
fprintf(ficrespop,"\n#******"); |
fprintf(ficrespop,"\n#******"); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficrespop," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrespop," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficrespop,"******\n"); |
fprintf(ficrespop,"******\n"); |
fprintf(ficrespop,"# Age"); |
fprintf(ficrespop,"# Age"); |
Line 5407 double gompertz_f(const gsl_vector *v, v
|
Line 5586 double gompertz_f(const gsl_vector *v, v
|
#endif |
#endif |
|
|
/******************* Printing html file ***********/ |
/******************* Printing html file ***********/ |
void printinghtmlmort(char fileres[], char title[], char datafile[], int firstpass, \ |
void printinghtmlmort(char fileresu[], char title[], char datafile[], int firstpass, \ |
int lastpass, int stepm, int weightopt, char model[],\ |
int lastpass, int stepm, int weightopt, char model[],\ |
int imx, double p[],double **matcov,double agemortsup){ |
int imx, double p[],double **matcov,double agemortsup){ |
int i,k; |
int i,k; |
Line 5416 void printinghtmlmort(char fileres[], ch
|
Line 5595 void printinghtmlmort(char fileres[], ch
|
fprintf(fichtm," mu(age) =%lf*exp(%lf*(age-%d)) per year<br><br>",p[1],p[2],agegomp); |
fprintf(fichtm," mu(age) =%lf*exp(%lf*(age-%d)) per year<br><br>",p[1],p[2],agegomp); |
for (i=1;i<=2;i++) |
for (i=1;i<=2;i++) |
fprintf(fichtm," p[%d] = %lf [%f ; %f]<br>\n",i,p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i])); |
fprintf(fichtm," p[%d] = %lf [%f ; %f]<br>\n",i,p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i])); |
fprintf(fichtm,"<br><br><img src=\"graphmort.png\">"); |
fprintf(fichtm,"<br><br><img src=\"graphmort.svg\">"); |
fprintf(fichtm,"</ul>"); |
fprintf(fichtm,"</ul>"); |
|
|
fprintf(fichtm,"<ul><li><h4>Life table</h4>\n <br>"); |
fprintf(fichtm,"<ul><li><h4>Life table</h4>\n <br>"); |
Line 5431 fprintf(fichtm,"<ul><li><h4>Life table</
|
Line 5610 fprintf(fichtm,"<ul><li><h4>Life table</
|
} |
} |
|
|
/******************* Gnuplot file **************/ |
/******************* Gnuplot file **************/ |
void printinggnuplotmort(char fileres[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
void printinggnuplotmort(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
|
|
char dirfileres[132],optfileres[132]; |
char dirfileres[132],optfileres[132]; |
|
|
Line 5445 void printinggnuplotmort(char fileres[],
|
Line 5624 void printinggnuplotmort(char fileres[],
|
|
|
strcpy(dirfileres,optionfilefiname); |
strcpy(dirfileres,optionfilefiname); |
strcpy(optfileres,"vpl"); |
strcpy(optfileres,"vpl"); |
fprintf(ficgp,"set out \"graphmort.png\"\n "); |
fprintf(ficgp,"set out \"graphmort.svg\"\n "); |
fprintf(ficgp,"set xlabel \"Age\"\n set ylabel \"Force of mortality (per year)\" \n "); |
fprintf(ficgp,"set xlabel \"Age\"\n set ylabel \"Force of mortality (per year)\" \n "); |
fprintf(ficgp, "set ter png small size 320, 240\n set log y\n"); |
fprintf(ficgp, "set ter svg size 640, 480\n set log y\n"); |
/* fprintf(ficgp, "set size 0.65,0.65\n"); */ |
/* fprintf(ficgp, "set size 0.65,0.65\n"); */ |
fprintf(ficgp,"plot [%d:100] %lf*exp(%lf*(x-%d))",agegomp,p[1],p[2],agegomp); |
fprintf(ficgp,"plot [%d:100] %lf*exp(%lf*(x-%d))",agegomp,p[1],p[2],agegomp); |
|
|
Line 5758 int decodemodel ( char model[], int last
|
Line 5937 int decodemodel ( char model[], int last
|
/* k=1 Tvar[1]=2 (from V2) */ |
/* k=1 Tvar[1]=2 (from V2) */ |
/* k=5 Tvar[5] */ |
/* k=5 Tvar[5] */ |
/* for (k=1; k<=cptcovn;k++) { */ |
/* for (k=1; k<=cptcovn;k++) { */ |
/* cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]]; */ |
/* cov[2+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
/* } */ |
/* } */ |
/* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=nbcode[Tvar[Tage[k]]][codtab[ij][Tvar[Tage[k]]]]*cov[2]; */ |
/* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,Tvar[Tage[k])]]*cov[2]; */ |
/* |
/* |
* Treating invertedly V2+V1+V3*age+V2*V4 is as if written V2*V4 +V3*age + V1 + V2 */ |
* Treating invertedly V2+V1+V3*age+V2*V4 is as if written V2*V4 +V3*age + V1 + V2 */ |
for(k=cptcovt; k>=1;k--) /**< Number of covariates */ |
for(k=cptcovt; k>=1;k--) /**< Number of covariates */ |
Line 6138 void syscompilerinfo(int logged)
|
Line 6317 void syscompilerinfo(int logged)
|
|
|
} |
} |
|
|
int prevalence_limit(double *p, double **prlim, double ageminpar, double agemaxpar){ |
int prevalence_limit(double *p, double **prlim, double ageminpar, double agemaxpar, double ftolpl){ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
int i, j, k, i1 ; |
int i, j, k, i1 ; |
double ftolpl = 1.e-10; |
/* double ftolpl = 1.e-10; */ |
double age, agebase, agelim; |
double age, agebase, agelim; |
|
|
strcpy(filerespl,"pl"); |
strcpy(filerespl,"PL_"); |
strcat(filerespl,fileres); |
strcat(filerespl,fileresu); |
if((ficrespl=fopen(filerespl,"w"))==NULL) { |
if((ficrespl=fopen(filerespl,"w"))==NULL) { |
printf("Problem with period (stable) prevalence resultfile: %s\n", filerespl);return 1; |
printf("Problem with period (stable) prevalence resultfile: %s\n", filerespl);return 1; |
fprintf(ficlog,"Problem with period (stable) prevalence resultfile: %s\n", filerespl);return 1; |
fprintf(ficlog,"Problem with period (stable) prevalence resultfile: %s\n", filerespl);return 1; |
} |
} |
printf("Computing period (stable) prevalence: result on file '%s' \n", filerespl); |
printf("Computing period (stable) prevalence: result on file '%s' \n", filerespl); |
fprintf(ficlog,"Computing period (stable) prevalence: result on file '%s' \n", filerespl); |
fprintf(ficlog,"Computing period (stable) prevalence: result on file '%s' \n", filerespl); |
pstamp(ficrespl); |
pstamp(ficrespl); |
fprintf(ficrespl,"# Period (stable) prevalence \n"); |
fprintf(ficrespl,"# Period (stable) prevalence \n"); |
fprintf(ficrespl,"#Age "); |
fprintf(ficrespl,"#Age "); |
for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i); |
for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i); |
fprintf(ficrespl,"\n"); |
fprintf(ficrespl,"\n"); |
|
|
/* prlim=matrix(1,nlstate,1,nlstate);*/ /* back in main */ |
/* prlim=matrix(1,nlstate,1,nlstate);*/ /* back in main */ |
|
|
Line 6171 int prevalence_limit(double *p, double *
|
Line 6350 int prevalence_limit(double *p, double *
|
//for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ |
//for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ |
k=k+1; |
k=k+1; |
/* to clean */ |
/* to clean */ |
//printf("cptcov=%d cptcod=%d codtab=%d\n",cptcov, cptcod,codtab[cptcod][cptcov]); |
//printf("cptcov=%d cptcod=%d codtab=%d\n",cptcov, cptcod,codtabm(cptcod,cptcov)); |
fprintf(ficrespl,"\n#******"); |
fprintf(ficrespl,"#******"); |
printf("\n#******"); |
printf("#******"); |
fprintf(ficlog,"\n#******"); |
fprintf(ficlog,"#******"); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficrespl," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrespl," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficrespl,"******\n"); |
fprintf(ficrespl,"******\n"); |
printf("******\n"); |
printf("******\n"); |
Line 6186 int prevalence_limit(double *p, double *
|
Line 6365 int prevalence_limit(double *p, double *
|
|
|
fprintf(ficrespl,"#Age "); |
fprintf(ficrespl,"#Age "); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficrespl,"V%d %d",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrespl,"V%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i); |
for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i); |
fprintf(ficrespl,"\n"); |
fprintf(ficrespl,"\n"); |
Line 6196 int prevalence_limit(double *p, double *
|
Line 6375 int prevalence_limit(double *p, double *
|
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k); |
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k); |
fprintf(ficrespl,"%.0f ",age ); |
fprintf(ficrespl,"%.0f ",age ); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficrespl,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrespl,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
fprintf(ficrespl," %.5f", prlim[i][i]); |
fprintf(ficrespl," %.5f", prlim[i][i]); |
fprintf(ficrespl,"\n"); |
fprintf(ficrespl,"\n"); |
Line 6218 int hPijx(double *p, int bage, int fage)
|
Line 6397 int hPijx(double *p, int bage, int fage)
|
double agedeb; |
double agedeb; |
double ***p3mat; |
double ***p3mat; |
|
|
strcpy(filerespij,"pij"); strcat(filerespij,fileres); |
strcpy(filerespij,"PIJ_"); strcat(filerespij,fileresu); |
if((ficrespij=fopen(filerespij,"w"))==NULL) { |
if((ficrespij=fopen(filerespij,"w"))==NULL) { |
printf("Problem with Pij resultfile: %s\n", filerespij); return 1; |
printf("Problem with Pij resultfile: %s\n", filerespij); return 1; |
fprintf(ficlog,"Problem with Pij resultfile: %s\n", filerespij); return 1; |
fprintf(ficlog,"Problem with Pij resultfile: %s\n", filerespij); return 1; |
Line 6243 int hPijx(double *p, int bage, int fage)
|
Line 6422 int hPijx(double *p, int bage, int fage)
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
fprintf(ficrespij,"\n#****** "); |
fprintf(ficrespij,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficrespij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrespij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficrespij,"******\n"); |
fprintf(ficrespij,"******\n"); |
|
|
for (agedeb=fage; agedeb>=bage; agedeb--){ /* If stepm=6 months */ |
for (agedeb=fage; agedeb>=bage; agedeb--){ /* If stepm=6 months */ |
Line 6479 int main(int argc, char *argv[])
|
Line 6658 int main(int argc, char *argv[])
|
/* */ |
/* */ |
strcpy(fileres,"r"); |
strcpy(fileres,"r"); |
strcat(fileres, optionfilefiname); |
strcat(fileres, optionfilefiname); |
|
strcat(fileresu, optionfilefiname); /* Without r in front */ |
strcat(fileres,".txt"); /* Other files have txt extension */ |
strcat(fileres,".txt"); /* Other files have txt extension */ |
|
strcat(fileresu,".txt"); /* Other files have txt extension */ |
|
|
/* Main ---------arguments file --------*/ |
/* Main ---------arguments file --------*/ |
|
|
Line 6494 int main(int argc, char *argv[])
|
Line 6675 int main(int argc, char *argv[])
|
|
|
|
|
strcpy(filereso,"o"); |
strcpy(filereso,"o"); |
strcat(filereso,fileres); |
strcat(filereso,fileresu); |
if((ficparo=fopen(filereso,"w"))==NULL) { /* opened on subdirectory */ |
if((ficparo=fopen(filereso,"w"))==NULL) { /* opened on subdirectory */ |
printf("Problem with Output resultfile: %s\n", filereso); |
printf("Problem with Output resultfile: %s\n", filereso); |
fprintf(ficlog,"Problem with Output resultfile: %s\n", filereso); |
fprintf(ficlog,"Problem with Output resultfile: %s\n", filereso); |
Line 6544 int main(int argc, char *argv[])
|
Line 6725 int main(int argc, char *argv[])
|
} |
} |
printf("ftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt); |
printf("ftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt); |
} |
} |
|
ftolpl=6*ftol*1.e5; /* 6.e-3 make convergences in less than 80 loops for the prevalence limit */ |
/* Third parameter line */ |
/* Third parameter line */ |
while(fgets(line, MAXLINE, ficpar)) { |
while(fgets(line, MAXLINE, ficpar)) { |
/* If line starts with a # it is a comment */ |
/* If line starts with a # it is a comment */ |
Line 6557 int main(int argc, char *argv[])
|
Line 6738 int main(int argc, char *argv[])
|
}else |
}else |
break; |
break; |
} |
} |
if((num_filled=sscanf(line,"model=1+age%[^.\n]\n", model)) !=EOF){ |
if((num_filled=sscanf(line,"model=1+age%[^.\n]", model)) !=EOF){ |
if (num_filled != 1) { |
if (num_filled == 0) |
|
model[0]='\0'; |
|
else if (num_filled != 1){ |
printf("ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line); |
printf("ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line); |
fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line); |
fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line); |
model[0]='\0'; |
model[0]='\0'; |
Line 6568 int main(int argc, char *argv[])
|
Line 6751 int main(int argc, char *argv[])
|
if (model[0]=='+'){ |
if (model[0]=='+'){ |
for(i=1; i<=strlen(model);i++) |
for(i=1; i<=strlen(model);i++) |
modeltemp[i-1]=model[i]; |
modeltemp[i-1]=model[i]; |
|
strcpy(model,modeltemp); |
} |
} |
strcpy(model,modeltemp); |
|
} |
} |
printf(" model=1+age%s modeltemp= %s, model=%s\n",model, modeltemp, model);fflush(stdout); |
/* printf(" model=1+age%s modeltemp= %s, model=%s\n",model, modeltemp, model);fflush(stdout); */ |
} |
} |
/* fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d model=1+age+%s\n",title, datafile, &lastobs, &firstpass,&lastpass,&ftol, &stepm, &ncovcol, &nlstate,&ndeath, &maxwav, &mle, &weightopt,model); */ |
/* fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d model=1+age+%s\n",title, datafile, &lastobs, &firstpass,&lastpass,&ftol, &stepm, &ncovcol, &nlstate,&ndeath, &maxwav, &mle, &weightopt,model); */ |
/* numlinepar=numlinepar+3; /\* In general *\/ */ |
/* numlinepar=numlinepar+3; /\* In general *\/ */ |
Line 6803 Please run with mle=-1 to get a correct
|
Line 6986 Please run with mle=-1 to get a correct
|
strcat(rfileres,"."); /* */ |
strcat(rfileres,"."); /* */ |
strcat(rfileres,optionfilext); /* Other files have txt extension */ |
strcat(rfileres,optionfilext); /* Other files have txt extension */ |
if((ficres =fopen(rfileres,"w"))==NULL) { |
if((ficres =fopen(rfileres,"w"))==NULL) { |
printf("Problem writing new parameter file: %s\n", fileres);goto end; |
printf("Problem writing new parameter file: %s\n", rfileres);goto end; |
fprintf(ficlog,"Problem writing new parameter file: %s\n", fileres);goto end; |
fprintf(ficlog,"Problem writing new parameter file: %s\n", rfileres);goto end; |
} |
} |
fprintf(ficres,"#%s\n",version); |
fprintf(ficres,"#%s\n",version); |
} /* End of mle != -3 */ |
} /* End of mle != -3 */ |
Line 6914 Please run with mle=-1 to get a correct
|
Line 7097 Please run with mle=-1 to get a correct
|
V2+V1*age, there are 3 covariates Tvar[2]=1 (V1).*/ |
V2+V1*age, there are 3 covariates Tvar[2]=1 (V1).*/ |
/* 1 to ncodemax[j] is the maximum value of this jth covariate */ |
/* 1 to ncodemax[j] is the maximum value of this jth covariate */ |
|
|
codtab=imatrix(1,100,1,10); /* codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) */ |
/* codtab=imatrix(1,100,1,10);*/ /* codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) */ |
/*printf(" codtab[1,1],codtab[100,10]=%d,%d\n", codtab[1][1],codtab[100][10]);*/ |
/*printf(" codtab[1,1],codtab[100,10]=%d,%d\n", codtab[1][1],codtabm(100,10));*/ |
/* codtab gives the value 1 or 2 of the hth combination of k covariates (1 or 2).*/ |
/* codtab gives the value 1 or 2 of the hth combination of k covariates (1 or 2).*/ |
h=0; |
h=0; |
|
|
Line 6947 Please run with mle=-1 to get a correct
|
Line 7130 Please run with mle=-1 to get a correct
|
* 15 i=8 1 2 2 2 |
* 15 i=8 1 2 2 2 |
* 16 2 2 2 2 |
* 16 2 2 2 2 |
*/ |
*/ |
for(h=1; h <=100 ;h++){ |
/* /\* for(h=1; h <=100 ;h++){ *\/ */ |
/* printf("h=%2d ", h); */ |
/* /\* printf("h=%2d ", h); *\/ */ |
for(k=1; k <=10; k++){ |
/* /\* for(k=1; k <=10; k++){ *\/ */ |
/* printf("k=%d %d ",k,codtabm(h,k)); */ |
/* /\* printf("k=%d %d ",k,codtabm(h,k)); *\/ */ |
codtab[h][k]=codtabm(h,k); |
/* /\* codtab[h][k]=codtabm(h,k); *\/ */ |
} |
/* /\* } *\/ */ |
/* printf("\n"); */ |
/* /\* printf("\n"); *\/ */ |
} |
/* } */ |
/* for(k=1;k<=cptcoveff; k++){ /\* scans any effective covariate *\/ */ |
/* for(k=1;k<=cptcoveff; k++){ /\* scans any effective covariate *\/ */ |
/* for(i=1; i <=pow(2,cptcoveff-k);i++){ /\* i=1 to 8/1=8; i=1 to 8/2=4; i=1 to 8/8=1 *\/ */ |
/* for(i=1; i <=pow(2,cptcoveff-k);i++){ /\* i=1 to 8/1=8; i=1 to 8/2=4; i=1 to 8/8=1 *\/ */ |
/* for(j=1; j <= ncodemax[k]; j++){ /\* For each modality of this covariate ncodemax=2*\/ */ |
/* for(j=1; j <= ncodemax[k]; j++){ /\* For each modality of this covariate ncodemax=2*\/ */ |
Line 6987 Please run with mle=-1 to get a correct
|
Line 7170 Please run with mle=-1 to get a correct
|
/* Initialisation of ----------- gnuplot -------------*/ |
/* Initialisation of ----------- gnuplot -------------*/ |
strcpy(optionfilegnuplot,optionfilefiname); |
strcpy(optionfilegnuplot,optionfilefiname); |
if(mle==-3) |
if(mle==-3) |
strcat(optionfilegnuplot,"-mort"); |
strcat(optionfilegnuplot,"-MORT_"); |
strcat(optionfilegnuplot,".gp"); |
strcat(optionfilegnuplot,".gp"); |
|
|
if((ficgp=fopen(optionfilegnuplot,"w"))==NULL) { |
if((ficgp=fopen(optionfilegnuplot,"w"))==NULL) { |
Line 7006 Please run with mle=-1 to get a correct
|
Line 7189 Please run with mle=-1 to get a correct
|
|
|
strcpy(optionfilehtm,optionfilefiname); /* Main html file */ |
strcpy(optionfilehtm,optionfilefiname); /* Main html file */ |
if(mle==-3) |
if(mle==-3) |
strcat(optionfilehtm,"-mort"); |
strcat(optionfilehtm,"-MORT_"); |
strcat(optionfilehtm,".htm"); |
strcat(optionfilehtm,".htm"); |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) { |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) { |
printf("Problem with %s \n",optionfilehtm); |
printf("Problem with %s \n",optionfilehtm); |
Line 7122 Interval (in months) between two waves:
|
Line 7305 Interval (in months) between two waves:
|
#else |
#else |
printf("Powell\n"); fprintf(ficlog,"Powell\n"); |
printf("Powell\n"); fprintf(ficlog,"Powell\n"); |
#endif |
#endif |
strcpy(filerespow,"pow-mort"); |
strcpy(filerespow,"POW-MORT_"); |
strcat(filerespow,fileres); |
strcat(filerespow,fileresu); |
if((ficrespow=fopen(filerespow,"w"))==NULL) { |
if((ficrespow=fopen(filerespow,"w"))==NULL) { |
printf("Problem with resultfile: %s\n", filerespow); |
printf("Problem with resultfile: %s\n", filerespow); |
fprintf(ficlog,"Problem with resultfile: %s\n", filerespow); |
fprintf(ficlog,"Problem with resultfile: %s\n", filerespow); |
Line 7277 Please run with mle=-1 to get a correct
|
Line 7460 Please run with mle=-1 to get a correct
|
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); |
Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); |
}else |
}else |
printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
printinggnuplotmort(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \ |
printinghtmlmort(fileresu,title,datafile, firstpass, lastpass, \ |
stepm, weightopt,\ |
stepm, weightopt,\ |
model,imx,p,matcov,agemortsup); |
model,imx,p,matcov,agemortsup); |
|
|
Line 7548 Please run with mle=-1 to get a correct
|
Line 7731 Please run with mle=-1 to get a correct
|
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); |
Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); |
}else |
}else |
printinggnuplot(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
|
|
printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,estepm,\ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,estepm,\ |
jprev1,mprev1,anprev1,jprev2,mprev2,anprev2); |
jprev1,mprev1,anprev1,jprev2,mprev2,anprev2); |
|
|
Line 7575 Please run with mle=-1 to get a correct
|
Line 7758 Please run with mle=-1 to get a correct
|
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*#include "prevlim.h"*/ /* Use ficrespl, ficlog */ |
/*#include "prevlim.h"*/ /* Use ficrespl, ficlog */ |
prlim=matrix(1,nlstate,1,nlstate); |
prlim=matrix(1,nlstate,1,nlstate); |
prevalence_limit(p, prlim, ageminpar, agemaxpar); |
prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl); |
fclose(ficrespl); |
fclose(ficrespl); |
|
|
#ifdef FREEEXIT2 |
#ifdef FREEEXIT2 |
Line 7602 Please run with mle=-1 to get a correct
|
Line 7785 Please run with mle=-1 to get a correct
|
/*if((stepm == 1) && (strcmp(model,".")==0)){*/ |
/*if((stepm == 1) && (strcmp(model,".")==0)){*/ |
if(prevfcast==1){ |
if(prevfcast==1){ |
/* if(stepm ==1){*/ |
/* if(stepm ==1){*/ |
prevforecast(fileres, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); |
prevforecast(fileresu, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); |
/* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ |
/* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ |
/* } */ |
/* } */ |
/* else{ */ |
/* else{ */ |
Line 7632 Please run with mle=-1 to get a correct
|
Line 7815 Please run with mle=-1 to get a correct
|
|
|
/*---------- Health expectancies, no variances ------------*/ |
/*---------- Health expectancies, no variances ------------*/ |
|
|
strcpy(filerese,"e"); |
strcpy(filerese,"E_"); |
strcat(filerese,fileres); |
strcat(filerese,fileresu); |
if((ficreseij=fopen(filerese,"w"))==NULL) { |
if((ficreseij=fopen(filerese,"w"))==NULL) { |
printf("Problem with Health Exp. resultfile: %s\n", filerese); exit(0); |
printf("Problem with Health Exp. resultfile: %s\n", filerese); exit(0); |
fprintf(ficlog,"Problem with Health Exp. resultfile: %s\n", filerese); exit(0); |
fprintf(ficlog,"Problem with Health Exp. resultfile: %s\n", filerese); exit(0); |
Line 7646 Please run with mle=-1 to get a correct
|
Line 7829 Please run with mle=-1 to get a correct
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
fprintf(ficreseij,"\n#****** "); |
fprintf(ficreseij,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficreseij,"******\n"); |
fprintf(ficreseij,"******\n"); |
|
|
Line 7663 Please run with mle=-1 to get a correct
|
Line 7846 Please run with mle=-1 to get a correct
|
/*---------- Health expectancies and variances ------------*/ |
/*---------- Health expectancies and variances ------------*/ |
|
|
|
|
strcpy(filerest,"t"); |
strcpy(filerest,"T_"); |
strcat(filerest,fileres); |
strcat(filerest,fileresu); |
if((ficrest=fopen(filerest,"w"))==NULL) { |
if((ficrest=fopen(filerest,"w"))==NULL) { |
printf("Problem with total LE resultfile: %s\n", filerest);goto end; |
printf("Problem with total LE resultfile: %s\n", filerest);goto end; |
fprintf(ficlog,"Problem with total LE resultfile: %s\n", filerest);goto end; |
fprintf(ficlog,"Problem with total LE resultfile: %s\n", filerest);goto end; |
Line 7673 Please run with mle=-1 to get a correct
|
Line 7856 Please run with mle=-1 to get a correct
|
fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' \n", filerest); |
fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' \n", filerest); |
|
|
|
|
strcpy(fileresstde,"stde"); |
strcpy(fileresstde,"STDE_"); |
strcat(fileresstde,fileres); |
strcat(fileresstde,fileresu); |
if((ficresstdeij=fopen(fileresstde,"w"))==NULL) { |
if((ficresstdeij=fopen(fileresstde,"w"))==NULL) { |
printf("Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); |
printf("Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); |
fprintf(ficlog,"Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); |
fprintf(ficlog,"Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); |
Line 7682 Please run with mle=-1 to get a correct
|
Line 7865 Please run with mle=-1 to get a correct
|
printf("Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); |
printf("Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); |
fprintf(ficlog,"Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); |
fprintf(ficlog,"Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); |
|
|
strcpy(filerescve,"cve"); |
strcpy(filerescve,"CVE_"); |
strcat(filerescve,fileres); |
strcat(filerescve,fileresu); |
if((ficrescveij=fopen(filerescve,"w"))==NULL) { |
if((ficrescveij=fopen(filerescve,"w"))==NULL) { |
printf("Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); |
printf("Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); |
fprintf(ficlog,"Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); |
fprintf(ficlog,"Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); |
Line 7691 Please run with mle=-1 to get a correct
|
Line 7874 Please run with mle=-1 to get a correct
|
printf("Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); |
printf("Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); |
fprintf(ficlog,"Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); |
fprintf(ficlog,"Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); |
|
|
strcpy(fileresv,"v"); |
strcpy(fileresv,"V_"); |
strcat(fileresv,fileres); |
strcat(fileresv,fileresu); |
if((ficresvij=fopen(fileresv,"w"))==NULL) { |
if((ficresvij=fopen(fileresv,"w"))==NULL) { |
printf("Problem with variance resultfile: %s\n", fileresv);exit(0); |
printf("Problem with variance resultfile: %s\n", fileresv);exit(0); |
fprintf(ficlog,"Problem with variance resultfile: %s\n", fileresv);exit(0); |
fprintf(ficlog,"Problem with variance resultfile: %s\n", fileresv);exit(0); |
Line 7706 Please run with mle=-1 to get a correct
|
Line 7889 Please run with mle=-1 to get a correct
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
fprintf(ficrest,"\n#****** "); |
fprintf(ficrest,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficrest,"******\n"); |
fprintf(ficrest,"******\n"); |
|
|
fprintf(ficresstdeij,"\n#****** "); |
fprintf(ficresstdeij,"\n#****** "); |
fprintf(ficrescveij,"\n#****** "); |
fprintf(ficrescveij,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficresstdeij,"******\n"); |
fprintf(ficresstdeij,"******\n"); |
fprintf(ficrescveij,"******\n"); |
fprintf(ficrescveij,"******\n"); |
|
|
fprintf(ficresvij,"\n#****** "); |
fprintf(ficresvij,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresvij,"******\n"); |
fprintf(ficresvij,"******\n"); |
|
|
eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
Line 7735 Please run with mle=-1 to get a correct
|
Line 7918 Please run with mle=-1 to get a correct
|
|
|
|
|
for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ |
for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ |
oldm=oldms;savm=savms; /* Segmentation fault */ |
oldm=oldms;savm=savms; /* ZZ Segmentation fault */ |
cptcod= 0; /* To be deleted */ |
cptcod= 0; /* To be deleted */ |
varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart); /* cptcod not initialized Intel */ |
varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart); /* cptcod not initialized Intel */ |
fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each health state\n# (weighted average of eij where weights are "); |
fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each health state\n# (weighted average of eij where weights are "); |
Line 7743 Please run with mle=-1 to get a correct
|
Line 7926 Please run with mle=-1 to get a correct
|
fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d)\n",mobilav); |
fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d)\n",mobilav); |
else |
else |
fprintf(ficrest,"the age specific period (stable) prevalences in each health state \n"); |
fprintf(ficrest,"the age specific period (stable) prevalences in each health state \n"); |
fprintf(ficrest,"# Age e.. (std) "); |
fprintf(ficrest,"# Age popbased mobilav e.. (std) "); |
for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i); |
for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i); |
fprintf(ficrest,"\n"); |
fprintf(ficrest,"\n"); |
|
/* printf("Which p?\n"); for(i=1;i<=npar;i++)printf("p[i=%d]=%lf,",i,p[i]);printf("\n"); */ |
epj=vector(1,nlstate+1); |
epj=vector(1,nlstate+1); |
for(age=bage; age <=fage ;age++){ |
for(age=bage; age <=fage ;age++){ |
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k); |
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k); /*ZZ Is it the correct prevalim */ |
if (vpopbased==1) { |
if (vpopbased==1) { |
if(mobilav ==0){ |
if(mobilav ==0){ |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
Line 7760 Please run with mle=-1 to get a correct
|
Line 7943 Please run with mle=-1 to get a correct
|
} |
} |
} |
} |
|
|
fprintf(ficrest," %4.0f",age); |
fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav); |
|
/* printf(" age %4.0f ",age); */ |
for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){ |
for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){ |
for(i=1, epj[j]=0.;i <=nlstate;i++) { |
for(i=1, epj[j]=0.;i <=nlstate;i++) { |
epj[j] += prlim[i][i]*eij[i][j][(int)age]; |
epj[j] += prlim[i][i]*eij[i][j][(int)age]; |
/* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/ |
/*ZZZ printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/ |
|
/* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]); */ |
} |
} |
epj[nlstate+1] +=epj[j]; |
epj[nlstate+1] +=epj[j]; |
} |
} |
|
/* printf(" age %4.0f \n",age); */ |
|
|
for(i=1, vepp=0.;i <=nlstate;i++) |
for(i=1, vepp=0.;i <=nlstate;i++) |
for(j=1;j <=nlstate;j++) |
for(j=1;j <=nlstate;j++) |
Line 7799 Please run with mle=-1 to get a correct
|
Line 7985 Please run with mle=-1 to get a correct
|
|
|
/*------- Variance of period (stable) prevalence------*/ |
/*------- Variance of period (stable) prevalence------*/ |
|
|
strcpy(fileresvpl,"vpl"); |
strcpy(fileresvpl,"VPL_"); |
strcat(fileresvpl,fileres); |
strcat(fileresvpl,fileresu); |
if((ficresvpl=fopen(fileresvpl,"w"))==NULL) { |
if((ficresvpl=fopen(fileresvpl,"w"))==NULL) { |
printf("Problem with variance of period (stable) prevalence resultfile: %s\n", fileresvpl); |
printf("Problem with variance of period (stable) prevalence resultfile: %s\n", fileresvpl); |
exit(0); |
exit(0); |
Line 7813 Please run with mle=-1 to get a correct
|
Line 7999 Please run with mle=-1 to get a correct
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
fprintf(ficresvpl,"\n#****** "); |
fprintf(ficresvpl,"\n#****** "); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); |
fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresvpl,"******\n"); |
fprintf(ficresvpl,"******\n"); |
|
|
varpl=matrix(1,nlstate,(int) bage, (int) fage); |
varpl=matrix(1,nlstate,(int) bage, (int) fage); |
Line 7850 Please run with mle=-1 to get a correct
|
Line 8036 Please run with mle=-1 to get a correct
|
free_ivector(Tage,1,NCOVMAX); |
free_ivector(Tage,1,NCOVMAX); |
|
|
free_imatrix(nbcode,0,NCOVMAX,0,NCOVMAX); |
free_imatrix(nbcode,0,NCOVMAX,0,NCOVMAX); |
free_imatrix(codtab,1,100,1,10); |
/* free_imatrix(codtab,1,100,1,10); */ |
fflush(fichtm); |
fflush(fichtm); |
fflush(ficgp); |
fflush(ficgp); |
|
|