version 1.86, 2003/06/17 20:04:08
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version 1.89, 2003/06/24 12:30:52
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/* $Id$ |
/* $Id$ |
$State$ |
$State$ |
$Log$ |
$Log$ |
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Revision 1.89 2003/06/24 12:30:52 brouard |
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(Module): Some bugs corrected for windows. Also, when |
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mle=-1 a template is output in file "or"mypar.txt with the design |
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of the covariance matrix to be input. |
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Revision 1.88 2003/06/23 17:54:56 brouard |
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* imach.c (Repository): Create a sub-directory where all the secondary files are. Only imach, htm, gp and r(imach) are on the main directory. Correct time and other things. |
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Revision 1.87 2003/06/18 12:26:01 brouard |
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Version 0.96 |
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Revision 1.86 2003/06/17 20:04:08 brouard |
Revision 1.86 2003/06/17 20:04:08 brouard |
(Module): Change position of html and gnuplot routines and added |
(Module): Change position of html and gnuplot routines and added |
routine fileappend. |
routine fileappend. |
Line 161
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Line 172
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/* $Id$ */ |
/* $Id$ */ |
/* $State$ */ |
/* $State$ */ |
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char version[]="Imach version 0.95a2, June 2003, INED-EUROREVES "; |
char version[]="Imach version 0.96a, June 2003, INED-EUROREVES "; |
char fullversion[]="$Revision$ $Date$"; |
char fullversion[]="$Revision$ $Date$"; |
int erreur; /* Error number */ |
int erreur; /* Error number */ |
int nvar; |
int nvar; |
Line 175 int popbased=0;
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Line 186 int popbased=0;
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int *wav; /* Number of waves for this individuual 0 is possible */ |
int *wav; /* Number of waves for this individuual 0 is possible */ |
int maxwav; /* Maxim number of waves */ |
int maxwav; /* Maxim number of waves */ |
int jmin, jmax; /* min, max spacing between 2 waves */ |
int jmin, jmax; /* min, max spacing between 2 waves */ |
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int gipmx, gsw; /* Global variables on the number of contributions |
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to the likelihood and the sum of weights (done by funcone)*/ |
int mle, weightopt; |
int mle, weightopt; |
int **mw; /* mw[mi][i] is number of the mi wave for this individual */ |
int **mw; /* mw[mi][i] is number of the mi wave for this individual */ |
int **dh; /* dh[mi][i] is number of steps between mi,mi+1 for this individual */ |
int **dh; /* dh[mi][i] is number of steps between mi,mi+1 for this individual */ |
Line 203 char fileresvpl[FILENAMELENGTH];
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Line 216 char fileresvpl[FILENAMELENGTH];
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char title[MAXLINE]; |
char title[MAXLINE]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH]; |
char optionfilext[10], optionfilefiname[FILENAMELENGTH], plotcmd[FILENAMELENGTH]; |
char optionfilext[10], optionfilefiname[FILENAMELENGTH], plotcmd[FILENAMELENGTH]; |
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char tmpout[FILENAMELENGTH]; |
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char command[FILENAMELENGTH]; |
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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 lfileres[FILENAMELENGTH]; |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filerest[FILENAMELENGTH]; |
char filerest[FILENAMELENGTH]; |
char fileregp[FILENAMELENGTH]; |
char fileregp[FILENAMELENGTH]; |
Line 308 static int split( char *path, char *dirc
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Line 325 static int split( char *path, char *dirc
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/******************************************/ |
/******************************************/ |
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void replace(char *s, char*t) |
void replace_back_to_slash(char *s, char*t) |
{ |
{ |
int i; |
int i; |
int lg=20; |
int lg=0; |
i=0; |
i=0; |
lg=strlen(t); |
lg=strlen(t); |
for(i=0; i<= lg; i++) { |
for(i=0; i<= lg; i++) { |
Line 1290 double func( double *x)
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Line 1307 double func( double *x)
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/*************** log-likelihood *************/ |
/*************** log-likelihood *************/ |
double funcone( double *x) |
double funcone( double *x) |
{ |
{ |
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/* Same as likeli but slower because of a lot of printf and if */ |
int i, ii, j, k, mi, d, kk; |
int i, ii, j, k, mi, d, kk; |
double l, ll[NLSTATEMAX], cov[NCOVMAX]; |
double l, ll[NLSTATEMAX], cov[NCOVMAX]; |
double **out; |
double **out; |
double lli; /* Individual log likelihood */ |
double lli; /* Individual log likelihood */ |
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double llt; |
int s1, s2; |
int s1, s2; |
double bbh, survp; |
double bbh, survp; |
/*extern weight */ |
/*extern weight */ |
Line 1350 double funcone( double *x)
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Line 1369 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,"%ld %6d %1d %1d %1d %1d %3d %10.6f %6.4f\ |
fprintf(ficresilk,"%9d %6d %1d %1d %1d %1d %3d %10.6f %6.4f\ |
%10.6f %10.6f %10.6f ", \ |
%10.6f %10.6f %10.6f ", \ |
num[i],i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i], |
num[i],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,l=0.; k<=nlstate; k++) |
for(k=1,llt=0.,l=0.; k<=nlstate; k++){ |
fprintf(ficresilk," %10.6f",ll[k]); |
llt +=ll[k]*gipmx/gsw; |
fprintf(ficresilk,"\n"); |
fprintf(ficresilk," %10.6f",-ll[k]*gipmx/gsw); |
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} |
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fprintf(ficresilk," %10.6f\n", -llt); |
} |
} |
} /* end of wave */ |
} /* end of wave */ |
} /* end of individual */ |
} /* end of individual */ |
for(k=1,l=0.; k<=nlstate; k++) l += ll[k]; |
for(k=1,l=0.; k<=nlstate; k++) l += ll[k]; |
/* printf("l1=%f l2=%f ",ll[1],ll[2]); */ |
/* printf("l1=%f l2=%f ",ll[1],ll[2]); */ |
l= l*ipmx/sw; /* To get the same order of magnitude as if weight=1 for every body */ |
l= l*ipmx/sw; /* To get the same order of magnitude as if weight=1 for every body */ |
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if(globpr==0){ /* First time we count the contributions and weights */ |
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gipmx=ipmx; |
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gsw=sw; |
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} |
return -l; |
return -l; |
} |
} |
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char *subdirf(char fileres[]) |
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{ |
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strcpy(tmpout,optionfilefiname); |
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strcat(tmpout,"/"); /* Add to the right */ |
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strcat(tmpout,fileres); |
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return tmpout; |
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} |
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char *subdirf2(char fileres[], char *preop) |
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{ |
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strcpy(tmpout,optionfilefiname); |
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strcat(tmpout,"/"); |
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strcat(tmpout,preop); |
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strcat(tmpout,fileres); |
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return tmpout; |
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} |
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char *subdirf3(char fileres[], char *preop, char *preop2) |
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{ |
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strcpy(tmpout,optionfilefiname); |
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strcat(tmpout,"/"); |
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strcat(tmpout,preop); |
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strcat(tmpout,preop2); |
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strcat(tmpout,fileres); |
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return tmpout; |
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} |
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void likelione(FILE *ficres,double p[], int npar, int nlstate, int *globpr, long *ipmx, double *sw, double *fretone, double (*funcone)(double [])) |
void likelione(FILE *ficres,double p[], int npar, int nlstate, int *globpri, long *ipmx, double *sw, double *fretone, double (*funcone)(double [])) |
{ |
{ |
/* This routine should help understanding what is done with the selection of individuals/waves and |
/* This routine should help understanding what is done with |
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the selection of individuals/waves and |
to check the exact contribution to the likelihood. |
to check the exact contribution to the likelihood. |
Plotting could be done. |
Plotting could be done. |
*/ |
*/ |
int k; |
int k; |
if(globpr !=0){ /* Just counts and sums no printings */ |
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if(*globpri !=0){ /* Just counts and sums, no printings */ |
strcpy(fileresilk,"ilk"); |
strcpy(fileresilk,"ilk"); |
strcat(fileresilk,fileres); |
strcat(fileresilk,fileres); |
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_product_matrix pij weight 2ln(pij)*weight 0pij_x 0pij_(x-stepm) cumulating_loglikeli_by_health_state\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 out sav "); |
fprintf(ficresilk, "#num_i 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," ll[%d]",k); |
fprintf(ficresilk," -2*gipw/gsw*weight*ll[%d]++",k); |
fprintf(ficresilk,"\n"); |
fprintf(ficresilk," -2*gipw/gsw*weight*ll(total)\n"); |
} |
} |
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*fretone=(*funcone)(p); |
*fretone=(*funcone)(p); |
if(globpr !=0){ |
if(*globpri !=0){ |
fclose(ficresilk); |
fclose(ficresilk); |
if((fichtm=fopen(optionfilehtm,"a"))==NULL) { |
fprintf(fichtm,"\n<br>File of contributions to the likelihood: <a href=\"%s\">%s</a><br>\n",subdirf(fileresilk),subdirf(fileresilk)); |
printf("Problem with html file: %s\n", optionfilehtm); |
fflush(fichtm); |
fprintf(ficlog,"Problem with html file: %s\n", optionfilehtm); |
} |
exit(0); |
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} |
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else{ |
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fprintf(fichtm,"\n<br>File of contributions to the likelihood: <a href=\"%s\">%s</a><br>\n",fileresilk); |
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fclose(fichtm); |
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} |
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} |
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return; |
return; |
} |
} |
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/*********** Maximum Likelihood Estimation ***************/ |
/*********** Maximum Likelihood Estimation ***************/ |
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void mlikeli(FILE *ficres,double p[], int npar, int ncovmodel, int nlstate, double ftol, double (*func)(double [])) |
void mlikeli(FILE *ficres,double p[], int npar, int ncovmodel, int nlstate, double ftol, double (*func)(double [])) |
Line 2360 void varevsij(char optionfilefiname[], d
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Line 2409 void varevsij(char optionfilefiname[], d
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fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j); |
fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j); |
} |
} |
fprintf(ficresprobmorprev,"\n"); |
fprintf(ficresprobmorprev,"\n"); |
if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { |
fprintf(ficgp,"\n# Routine varevsij"); |
printf("Problem with gnuplot file: %s\n", optionfilegnuplot); |
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(ficlog,"Problem with gnuplot file: %s\n", optionfilegnuplot); |
fprintf(fichtm,"\n<br>%s <br>\n",digitp); |
exit(0); |
/* } */ |
} |
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else{ |
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fprintf(ficgp,"\n# Routine varevsij"); |
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} |
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if((fichtm=fopen(optionfilehtm,"a"))==NULL) { |
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printf("Problem with html file: %s\n", optionfilehtm); |
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fprintf(ficlog,"Problem with html file: %s\n", optionfilehtm); |
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exit(0); |
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} |
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else{ |
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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"); |
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fprintf(fichtm,"\n<br>%s <br>\n",digitp); |
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} |
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varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
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fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are the stable prevalence in health states i\n"); |
fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are the stable prevalence in health states i\n"); |
Line 2588 void varevsij(char optionfilefiname[], d
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Line 2624 void varevsij(char optionfilefiname[], d
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/* 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); */ |
fprintf(ficgp,"\n plot \"%s\" u 1:($3) not w l 1 ",fileresprobmorprev); |
fprintf(ficgp,"\n plot \"%s\" u 1:($3) not w l 1 ",subdirf(fileresprobmorprev)); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95\%% interval\" w l 2 ",fileresprobmorprev); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95\%% interval\" w l 2 ",subdirf(fileresprobmorprev)); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l 2 ",fileresprobmorprev); |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l 2 ",subdirf(fileresprobmorprev)); |
fprintf(fichtm,"\n<br> File (multiple files are possible if covariates are present): <A href=\"%s\">%s</a>\n",fileresprobmorprev,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=\"varmuptjgr%s%s%s.png\"> <br>\n", estepm,digitp,optionfilefiname,digit); |
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 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.png\"> <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.png\";replot;",digitp,optionfilefiname,digit); */ |
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fprintf(ficgp,"\nset out \"%s%s.png\";replot;\n",subdirf3(optionfilefiname,"varmuptjgr",digitp),digit); |
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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 2605 void varevsij(char optionfilefiname[], d
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Line 2642 void varevsij(char optionfilefiname[], d
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free_matrix(varppt,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
free_matrix(varppt,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
fclose(ficresprobmorprev); |
fclose(ficresprobmorprev); |
fclose(ficgp); |
fflush(ficgp); |
fclose(fichtm); |
fflush(fichtm); |
} /* end varevsij */ |
} /* end varevsij */ |
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/************ Variance of prevlim ******************/ |
/************ Variance of prevlim ******************/ |
Line 2763 void varprob(char optionfilefiname[], do
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Line 2800 void varprob(char optionfilefiname[], do
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mu=matrix(1,(nlstate)*(nlstate+ndeath), (int) bage, (int)fage); |
mu=matrix(1,(nlstate)*(nlstate+ndeath), (int) bage, (int)fage); |
varpij=ma3x(1,nlstate*(nlstate+ndeath),1,nlstate*(nlstate+ndeath),(int) bage, (int) fage); |
varpij=ma3x(1,nlstate*(nlstate+ndeath),1,nlstate*(nlstate+ndeath),(int) bage, (int) fage); |
first=1; |
first=1; |
if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { |
fprintf(ficgp,"\n# Routine varprob"); |
printf("Problem with gnuplot file: %s\n", optionfilegnuplot); |
fprintf(fichtm,"\n<li><h4> Computing and drawing one step probabilities with their confidence intervals</h4></li>\n"); |
fprintf(ficlog,"Problem with gnuplot file: %s\n", optionfilegnuplot); |
fprintf(fichtm,"\n"); |
exit(0); |
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} |
fprintf(fichtm,"\n<li><h4> Computing matrix of variance-covariance of step probabilities</h4></li>\n"); |
else{ |
fprintf(fichtm,"\nWe have drawn ellipsoids of confidence around the p<inf>ij</inf>, p<inf>kl</inf> to understand the covariance between two incidences. They are expressed in year<sup>-1</sup> in order to be less dependent of stepm.<br>\n"); |
fprintf(ficgp,"\n# Routine varprob"); |
fprintf(fichtm,"\n<br> We have drawn x'cov<sup>-1</sup>x = 4 where x is the column vector (pij,pkl). It means that if pij and pkl where uncorrelated the (2X2) matrix would have been (1/(var pij), 0 , 0, 1/(var pkl)), and the confidence interval would be 2 standard deviations wide on each axis. <br> When both incidences are correlated we diagonalised the inverse of the covariance matrix and made the appropriate rotation.<br> \n"); |
} |
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if((fichtm=fopen(optionfilehtm,"a"))==NULL) { |
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printf("Problem with html file: %s\n", optionfilehtm); |
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fprintf(ficlog,"Problem with html file: %s\n", optionfilehtm); |
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exit(0); |
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} |
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else{ |
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fprintf(fichtm,"\n<li><h4> Computing and drawing one step probabilities with their confidence intervals</h4></li>\n"); |
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fprintf(fichtm,"\n"); |
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fprintf(fichtm,"\n<li><h4> Computing matrix of variance-covariance of step probabilities</h4></li>\n"); |
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fprintf(fichtm,"\nWe have drawn ellipsoids of confidence around the p<inf>ij</inf>, p<inf>kl</inf> to understand the covariance between two incidences. They are expressed in year<sup>-1</sup> in order to be less dependent of stepm.<br>\n"); |
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fprintf(fichtm,"\n<br> We have drawn x'cov<sup>-1</sup>x = 4 where x is the column vector (pij,pkl). It means that if pij and pkl where uncorrelated the (2X2) matrix would have been (1/(var pij), 0 , 0, 1/(var pkl)), and the confidence interval would be 2 standard deviations wide on each axis. <br> When both incidences are correlated we diagonalised the inverse of the covariance matrix and made the appropriate rotation.<br> \n"); |
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} |
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cov[1]=1; |
cov[1]=1; |
tj=cptcoveff; |
tj=cptcoveff; |
Line 2966 void varprob(char optionfilefiname[], do
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Line 2988 void varprob(char optionfilefiname[], do
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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\nset size 0.65,0.65"); |
fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65"); |
fprintf(fichtm,"\n<br>Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year<sup>-1</sup> :<a href=\"varpijgr%s%d%1d%1d-%1d%1d.png\">varpijgr%s%d%1d%1d-%1d%1d.png</A>, ",k1,l1,k2,l2,optionfilefiname, j1,k1,l1,k2,l2,optionfilefiname, j1,k1,l1,k2,l2); |
fprintf(fichtm,"\n<br>Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year<sup>-1</sup>\ |
fprintf(fichtm,"\n<br><img src=\"varpijgr%s%d%1d%1d-%1d%1d.png\"> ",optionfilefiname, j1,k1,l1,k2,l2); |
:<a href=\"%s%d%1d%1d-%1d%1d.png\">\ |
|
%s%d%1d%1d-%1d%1d.png</A>, ",k1,l1,k2,l2,\ |
|
subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2,\ |
|
subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
|
fprintf(fichtm,"\n<br><img src=\"%s%d%1d%1d-%1d%1d.png\"> ",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
fprintf(fichtm,"\n<br> Correlation at age %d (%.3f),",(int) age, c12); |
fprintf(fichtm,"\n<br> Correlation at age %d (%.3f),",(int) age, c12); |
fprintf(ficgp,"\nset out \"varpijgr%s%d%1d%1d-%1d%1d.png\"",optionfilefiname, j1,k1,l1,k2,l2); |
fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\"",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 2986 void varprob(char optionfilefiname[], do
|
Line 3012 void varprob(char optionfilefiname[], do
|
}/* if first */ |
}/* if first */ |
} /* age mod 5 */ |
} /* age mod 5 */ |
} /* end loop age */ |
} /* end loop age */ |
fprintf(ficgp,"\nset out \"varpijgr%s%d%1d%1d-%1d%1d.png\";replot;",optionfilefiname, j1,k1,l1,k2,l2); |
fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\";replot;",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); |
first=1; |
first=1; |
} /*l12 */ |
} /*l12 */ |
} /* k12 */ |
} /* k12 */ |
Line 3000 void varprob(char optionfilefiname[], do
|
Line 3026 void varprob(char optionfilefiname[], do
|
fclose(ficresprob); |
fclose(ficresprob); |
fclose(ficresprobcov); |
fclose(ficresprobcov); |
fclose(ficresprobcor); |
fclose(ficresprobcor); |
fclose(ficgp); |
/* fclose(ficgp);*/ |
fclose(fichtm); |
|
} |
} |
|
|
|
|
Line 3014 void printinghtml(char fileres[], char t
|
Line 3039 void printinghtml(char fileres[], char t
|
double jprev2, double mprev2,double anprev2){ |
double jprev2, double mprev2,double anprev2){ |
int jj1, k1, i1, cpt; |
int jj1, k1, i1, cpt; |
/*char optionfilehtm[FILENAMELENGTH];*/ |
/*char optionfilehtm[FILENAMELENGTH];*/ |
if((fichtm=fopen(optionfilehtm,"a"))==NULL) { |
/* if((fichtm=fopen(optionfilehtm,"a"))==NULL) { */ |
printf("Problem with %s \n",optionfilehtm), exit(0); |
/* printf("Problem with %s \n",optionfilehtm), exit(0); */ |
fprintf(ficlog,"Problem with %s \n",optionfilehtm), exit(0); |
/* fprintf(ficlog,"Problem with %s \n",optionfilehtm), exit(0); */ |
} |
/* } */ |
|
|
fprintf(fichtm,"<ul><li><h4>Result files (first order: no variance)</h4>\n \ |
fprintf(fichtm,"<ul><li><h4>Result files (first order: no variance)</h4>\n \ |
- Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"p%s\">p%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 \ |
- Estimated transition probabilities over %d (stepm) months: <a href=\"pij%s\">pij%s</a><br>\n \ |
- Estimated transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n \ |
- Stable prevalence in each health state: <a href=\"pl%s\">pl%s</a> <br>\n \ |
- Stable prevalence in each health state: <a href=\"%s\">%s</a> <br>\n \ |
- Life expectancies by age and initial health status (estepm=%2d months): \ |
- Life expectancies by age and initial health status (estepm=%2d months): \ |
<a href=\"e%s\">e%s</a> <br>\n</li>", \ |
<a href=\"%s\">%s</a> <br>\n</li>", \ |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,fileres,fileres,stepm,fileres,fileres,fileres,fileres,estepm,fileres,fileres); |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileres,"p"),subdirf2(fileres,"p"),\ |
|
stepm,subdirf2(fileres,"pij"),subdirf2(fileres,"pij"),\ |
|
subdirf2(fileres,"pl"),subdirf2(fileres,"pl"),\ |
|
estepm,subdirf2(fileres,"e"),subdirf2(fileres,"e")); |
|
|
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
|
|
Line 3043 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
Line 3071 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
} |
} |
/* Pij */ |
/* Pij */ |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i, %d (stepm) months before: pe%s%d1.png<br> \ |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i, %d (stepm) months before: %s%d1.png<br> \ |
<img src=\"pe%s%d1.png\">",stepm,strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1); |
<img src=\"%s%d1.png\">",stepm,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>- Pij 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: pe%s%d2.png<br> \ |
before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too: %s%d2.png<br> \ |
<img src=\"pe%s%d2.png\">",stepm,strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1); |
<img src=\"%s%d2.png\">",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1); |
/* Stable prevalence in each health state */ |
/* Stable prevalence in each health state */ |
for(cpt=1; cpt<nlstate;cpt++){ |
for(cpt=1; cpt<nlstate;cpt++){ |
fprintf(fichtm,"<br>- Stable prevalence in each health state : p%s%d%d.png<br> \ |
fprintf(fichtm,"<br>- Stable prevalence in each health state : p%s%d%d.png<br> \ |
<img src=\"p%s%d%d.png\">",strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1); |
<img src=\"%s%d%d.png\">",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>- Health life expectancies by age and initial health state (%d): exp%s%d%d.png <br> \ |
fprintf(fichtm,"\n<br>- Health life expectancies by age and initial health state (%d): %s%d%d.png <br> \ |
<img src=\"exp%s%d%d.png\">",cpt,strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1); |
<img src=\"%s%d%d.png\">",cpt,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),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): e%s%d.png<br>\ |
health expectancies in states (1) and (2): %s%d.png<br>\ |
<img src=\"e%s%d.png\">",strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1); |
<img src=\"%s%d.png\">",subdirf2(optionfilefiname,"e"),jj1,subdirf2(optionfilefiname,"e"),jj1); |
} /* end i1 */ |
} /* end i1 */ |
}/* End k1 */ |
}/* End k1 */ |
fprintf(fichtm,"</ul>"); |
fprintf(fichtm,"</ul>"); |
Line 3068 health expectancies in states (1) and (2
|
Line 3096 health expectancies in states (1) and (2
|
|
|
fprintf(fichtm,"\n<br><li><h4> Result files (second order: variances)</h4>\n\ |
fprintf(fichtm,"\n<br><li><h4> Result files (second order: variances)</h4>\n\ |
- Parameter file with estimated parameters and covariance matrix: <a href=\"%s\">%s</a> <br>\n\ |
- Parameter file with estimated parameters and covariance matrix: <a href=\"%s\">%s</a> <br>\n\ |
- Variance of one-step probabilities: <a href=\"prob%s\">prob%s</a> <br>\n\ |
- Variance of one-step probabilities: <a href=\"%s\">%s</a> <br>\n\ |
- Variance-covariance of one-step probabilities: <a href=\"probcov%s\">probcov%s</a> <br>\n\ |
- Variance-covariance of one-step probabilities: <a href=\"%s\">%s</a> <br>\n\ |
- Correlation matrix of one-step probabilities: <a href=\"probcor%s\">probcor%s</a> <br>\n\ |
- Correlation matrix of one-step probabilities: <a href=\"%s\">%s</a> <br>\n\ |
- Variances and covariances of life expectancies by age and initial health status (estepm=%d months): <a href=\"v%s\">v%s</a><br>\n\ |
- Variances and covariances of life expectancies by age and initial health status (estepm=%d months): <a href=\"%s\">%s</a><br>\n\ |
- Health expectancies with their variances (no covariance): <a href=\"t%s\">t%s</a> <br>\n\ |
- Health expectancies with their variances (no covariance): <a href=\"%s\">%s</a> <br>\n\ |
- Standard deviation of stable prevalences: <a href=\"vpl%s\">vpl%s</a> <br>\n",rfileres,rfileres,fileres,fileres,fileres,fileres,fileres,fileres, estepm, fileres,fileres,fileres,fileres,fileres,fileres); |
- Standard deviation of stable prevalences: <a href=\"%s\">%s</a> <br>\n",\ |
|
rfileres,rfileres,\ |
|
subdirf2(fileres,"prob"),subdirf2(fileres,"prob"),\ |
|
subdirf2(fileres,"probcov"),subdirf2(fileres,"probcov"),\ |
|
subdirf2(fileres,"probcor"),subdirf2(fileres,"probcor"),\ |
|
estepm, subdirf2(fileres,"v"),subdirf2(fileres,"v"),\ |
|
subdirf2(fileres,"t"),subdirf2(fileres,"t"),\ |
|
subdirf2(fileres,"vpl"),subdirf2(fileres,"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 3098 fprintf(fichtm," <ul><li><b>Graphs</b></
|
Line 3133 fprintf(fichtm," <ul><li><b>Graphs</b></
|
} |
} |
for(cpt=1; cpt<=nlstate;cpt++) { |
for(cpt=1; cpt<=nlstate;cpt++) { |
fprintf(fichtm,"<br>- Observed and period prevalence (with confident\ |
fprintf(fichtm,"<br>- Observed and period prevalence (with confident\ |
interval) in state (%d): v%s%d%d.png <br>\ |
interval) in state (%d): %s%d%d.png <br>\ |
<img src=\"v%s%d%d.png\">",cpt,strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1); |
<img src=\"%s%d%d.png\">",cpt,subdirf2(optionfilefiname,"vr"),cpt,jj1,subdirf2(optionfilefiname,"vr"),cpt,jj1); |
} |
} |
} /* end i1 */ |
} /* end i1 */ |
}/* End k1 */ |
}/* End k1 */ |
fprintf(fichtm,"</ul>"); |
fprintf(fichtm,"</ul>"); |
fclose(fichtm); |
fflush(fichtm); |
} |
} |
|
|
/******************* Gnuplot file **************/ |
/******************* Gnuplot file **************/ |
void printinggnuplot(char fileres[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
void printinggnuplot(char fileres[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
|
|
|
char dirfileres[132],optfileres[132]; |
int m,cpt,k1,i,k,j,jk,k2,k3,ij,l; |
int m,cpt,k1,i,k,j,jk,k2,k3,ij,l; |
int ng; |
int ng; |
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); */ |
} |
/* } */ |
|
|
/*#ifdef windows */ |
/*#ifdef windows */ |
fprintf(ficgp,"cd \"%s\" \n",pathc); |
fprintf(ficgp,"cd \"%s\" \n",pathc); |
/*#endif */ |
/*#endif */ |
m=pow(2,cptcoveff); |
m=pow(2,cptcoveff); |
|
|
|
strcpy(dirfileres,optionfilefiname); |
|
strcpy(optfileres,"vpl"); |
/* 1eme*/ |
/* 1eme*/ |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
fprintf(ficgp,"\nset out \"v%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1); |
fprintf(ficgp,"\nset out \"%s%d%d.png\" \n",subdirf2(optionfilefiname,"v"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"vpl%s\" every :::%d::%d u 1:2 \"\%%lf",ageminpar,fage,fileres,k1-1,k1-1); |
fprintf(ficgp,"\n#set out \"v%s%d%d.png\" \n",optionfilefiname,cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \n\ |
|
set ylabel \"Probability\" \n\ |
|
set ter png small\n\ |
|
set size 0.65,0.65\n\ |
|
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:2 \"\%%lf",ageminpar,fage,subdirf2(fileres,"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\"Stable prevalence\" w l 0,\"vpl%s\" every :::%d::%d u 1:($2+1.96*$3) \"\%%lf",fileres,k1-1,k1-1); |
fprintf(ficgp,"\" t\"Stable prevalence\" w l 0,\"%s\" every :::%d::%d u 1:($2+1.96*$3) \"\%%lf",subdirf2(fileres,"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 1,\"vpl%s\" every :::%d::%d u 1:($2-1.96*$3) \"\%%lf",fileres,k1-1,k1-1); |
fprintf(ficgp,"\" t\"95\%% CI\" w l 1,\"%s\" every :::%d::%d u 1:($2-1.96*$3) \"\%%lf",subdirf2(fileres,"vpl"),k1-1,k1-1); |
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)"); |
if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"\" w l 1,\"p%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l 2",fileres,k1-1,k1-1,2+4*(cpt-1)); |
fprintf(ficgp,"\" t\"\" w l 1,\"%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l 2",subdirf2(fileres,"p"),k1-1,k1-1,2+4*(cpt-1)); |
} |
} |
} |
} |
/*2 eme*/ |
/*2 eme*/ |
|
|
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
fprintf(ficgp,"\nset out \"e%s%d.png\" \n",strtok(optionfile, "."),k1); |
fprintf(ficgp,"\nset out \"%s%d.png\" \n",subdirf2(optionfilefiname,"e"),k1); |
fprintf(ficgp,"set ylabel \"Years\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] ",ageminpar,fage); |
fprintf(ficgp,"set ylabel \"Years\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] ",ageminpar,fage); |
|
|
for (i=1; i<= nlstate+1 ; i ++) { |
for (i=1; i<= nlstate+1 ; i ++) { |
k=2*i; |
k=2*i; |
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:2 \"\%%lf",fileres,k1-1,k1-1); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:2 \"\%%lf",subdirf2(fileres,"t"),k1-1,k1-1); |
for (j=1; j<= nlstate+1 ; j ++) { |
for (j=1; j<= nlstate+1 ; j ++) { |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
} |
} |
if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l ,"); |
if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l ,"); |
else fprintf(ficgp,"\" t\"LE in state (%d)\" w l ,",i-1); |
else fprintf(ficgp,"\" t\"LE in state (%d)\" w l ,",i-1); |
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2-$3*2) \"\%%lf",fileres,k1-1,k1-1); |
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 ++) { |
for (j=1; j<= nlstate+1 ; j ++) { |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"\" w l 0,"); |
fprintf(ficgp,"\" t\"\" w l 0,"); |
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2+$3*2) \"\%%lf",fileres,k1-1,k1-1); |
fprintf(ficgp,"\"%s\" every :::%d::%d u 1:($2+$3*2) \"\%%lf",subdirf2(fileres,"t"),k1-1,k1-1); |
for (j=1; j<= nlstate+1 ; j ++) { |
for (j=1; j<= nlstate+1 ; j ++) { |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
else fprintf(ficgp," \%%*lf (\%%*lf)"); |
Line 3181 m=pow(2,cptcoveff);
|
Line 3224 m=pow(2,cptcoveff);
|
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
k=2+nlstate*(2*cpt-2); |
k=2+nlstate*(2*cpt-2); |
fprintf(ficgp,"\nset out \"exp%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1); |
fprintf(ficgp,"\nset out \"%s%d%d.png\" \n",subdirf2(optionfilefiname,"exp"),cpt,k1); |
fprintf(ficgp,"set ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"e%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",ageminpar,fage,fileres,k1-1,k1-1,k,cpt); |
fprintf(ficgp,"set ter png small\n\ |
|
set size 0.65,0.65\n\ |
|
plot [%.f:%.f] \"%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",ageminpar,fage,subdirf2(fileres,"e"),k1-1,k1-1,k,cpt); |
/*fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:($%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 3192 m=pow(2,cptcoveff);
|
Line 3237 m=pow(2,cptcoveff);
|
|
|
*/ |
*/ |
for (i=1; i< nlstate ; i ++) { |
for (i=1; i< nlstate ; i ++) { |
fprintf(ficgp," ,\"e%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",fileres,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); |
|
|
} |
} |
} |
} |
Line 3202 m=pow(2,cptcoveff);
|
Line 3247 m=pow(2,cptcoveff);
|
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=3; |
k=3; |
fprintf(ficgp,"\nset out \"p%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1); |
fprintf(ficgp,"\nset out \"%s%d%d.png\" \n",subdirf2(optionfilefiname,"p"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",ageminpar,agemaxpar,fileres,k1,k+cpt+1,k+1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
|
set ter png small\nset size 0.65,0.65\n\ |
|
unset log y\n\ |
|
plot [%.f:%.f] \"%s\" u ($1==%d ? ($3):1/0):($%d/($%d",ageminpar,agemaxpar,subdirf2(fileres,"pij"),k1,k+cpt+1,k+1); |
|
|
for (i=1; i< nlstate ; i ++) |
for (i=1; i< nlstate ; i ++) |
fprintf(ficgp,"+$%d",k+i+1); |
fprintf(ficgp,"+$%d",k+i+1); |
fprintf(ficgp,")) t\"prev(%d,%d)\" w l",cpt,cpt+1); |
fprintf(ficgp,")) t\"prev(%d,%d)\" w l",cpt,cpt+1); |
|
|
l=3+(nlstate+ndeath)*cpt; |
l=3+(nlstate+ndeath)*cpt; |
fprintf(ficgp,",\"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",fileres,k1,l+cpt+1,l+1); |
fprintf(ficgp,",\"%s\" u ($1==%d ? ($3):1/0):($%d/($%d",subdirf2(fileres,"pij"),k1,l+cpt+1,l+1); |
for (i=1; i< nlstate ; i ++) { |
for (i=1; i< nlstate ; i ++) { |
l=3+(nlstate+ndeath)*cpt; |
l=3+(nlstate+ndeath)*cpt; |
fprintf(ficgp,"+$%d",l+i+1); |
fprintf(ficgp,"+$%d",l+i+1); |
Line 3234 m=pow(2,cptcoveff);
|
Line 3282 m=pow(2,cptcoveff);
|
|
|
for(ng=1; ng<=2;ng++){ /* Number of graphics: first is probabilities second is incidence per year*/ |
for(ng=1; ng<=2;ng++){ /* Number of graphics: first is probabilities second is incidence per year*/ |
for(jk=1; jk <=m; jk++) { |
for(jk=1; jk <=m; jk++) { |
fprintf(ficgp,"\nset out \"pe%s%d%d.png\" \n",strtok(optionfile, "."),jk,ng); |
fprintf(ficgp,"\nset out \"%s%d%d.png\" \n",subdirf2(optionfilefiname,"pe"),jk,ng); |
if (ng==2) |
if (ng==2) |
fprintf(ficgp,"\nset ylabel \"Quasi-incidence per year\"\n"); |
fprintf(ficgp,"\nset ylabel \"Quasi-incidence per year\"\n"); |
else |
else |
Line 3281 m=pow(2,cptcoveff);
|
Line 3329 m=pow(2,cptcoveff);
|
} /* end k2 */ |
} /* end k2 */ |
} /* end jk */ |
} /* end jk */ |
} /* end ng */ |
} /* end ng */ |
fclose(ficgp); |
fflush(ficgp); |
} /* end gnuplot */ |
} /* end gnuplot */ |
|
|
|
|
Line 3611 populforecast(char fileres[], double anp
|
Line 3659 populforecast(char fileres[], double anp
|
fclose(ficrespop); |
fclose(ficrespop); |
} /* End of popforecast */ |
} /* End of popforecast */ |
|
|
int fileappend(FILE *fichier, char *optionfile) |
int fileappend(FILE *fichier, char *optionfich) |
{ |
{ |
if((fichier=fopen(optionfile,"a"))==NULL) { |
if((fichier=fopen(optionfich,"a"))==NULL) { |
printf("Problem with file: %s\n", optionfile); |
printf("Problem with file: %s\n", optionfich); |
fprintf(ficlog,"Problem with file: %s\n", optionfile); |
fprintf(ficlog,"Problem with file: %s\n", optionfich); |
return (1); |
return (0); |
} |
} |
|
fflush(fichier); |
|
return (1); |
} |
} |
|
void prwizard(int ncovmodel, int nlstate, int ndeath, char model[], FILE *ficparo) |
|
{ |
|
|
|
char ca[32], cb[32], cc[32]; |
|
int i,j, k, l, li, lj, lk, ll, jj, npar, itimes; |
|
int numlinepar; |
|
|
|
printf("# Parameters nlstate*nlstate*ncov a12*1 + b12 * age + ...\n"); |
|
fprintf(ficparo,"# Parameters nlstate*nlstate*ncov a12*1 + b12 * age + ...\n"); |
|
for(i=1; i <=nlstate; i++){ |
|
jj=0; |
|
for(j=1; j <=nlstate+ndeath; j++){ |
|
if(j==i) continue; |
|
jj++; |
|
/*ca[0]= k+'a'-1;ca[1]='\0';*/ |
|
printf("%1d%1d",i,j); |
|
fprintf(ficparo,"%1d%1d",i,j); |
|
for(k=1; k<=ncovmodel;k++){ |
|
/* printf(" %lf",param[i][j][k]); */ |
|
/* fprintf(ficparo," %lf",param[i][j][k]); */ |
|
printf(" 0."); |
|
fprintf(ficparo," 0."); |
|
} |
|
printf("\n"); |
|
fprintf(ficparo,"\n"); |
|
} |
|
} |
|
printf("# Scales (for hessian or gradient estimation)\n"); |
|
fprintf(ficparo,"# Scales (for hessian or gradient estimation)\n"); |
|
npar= (nlstate+ndeath-1)*nlstate*ncovmodel; /* Number of parameters*/ |
|
for(i=1; i <=nlstate; i++){ |
|
jj=0; |
|
for(j=1; j <=nlstate+ndeath; j++){ |
|
if(j==i) continue; |
|
jj++; |
|
fprintf(ficparo,"%1d%1d",i,j); |
|
printf("%1d%1d",i,j); |
|
fflush(stdout); |
|
for(k=1; k<=ncovmodel;k++){ |
|
/* printf(" %le",delti3[i][j][k]); */ |
|
/* fprintf(ficparo," %le",delti3[i][j][k]); */ |
|
printf(" 0."); |
|
fprintf(ficparo," 0."); |
|
} |
|
numlinepar++; |
|
printf("\n"); |
|
fprintf(ficparo,"\n"); |
|
} |
|
} |
|
printf("# Covariance matrix\n"); |
|
/* # 121 Var(a12)\n\ */ |
|
/* # 122 Cov(b12,a12) Var(b12)\n\ */ |
|
/* # 131 Cov(a13,a12) Cov(a13,b12, Var(a13)\n\ */ |
|
/* # 132 Cov(b13,a12) Cov(b13,b12, Cov(b13,a13) Var(b13)\n\ */ |
|
/* # 212 Cov(a21,a12) Cov(a21,b12, Cov(a21,a13) Cov(a21,b13) Var(a21)\n\ */ |
|
/* # 212 Cov(b21,a12) Cov(b21,b12, Cov(b21,a13) Cov(b21,b13) Cov(b21,a21) Var(b21)\n\ */ |
|
/* # 232 Cov(a23,a12) Cov(a23,b12, Cov(a23,a13) Cov(a23,b13) Cov(a23,a21) Cov(a23,b21) Var(a23)\n\ */ |
|
/* # 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n" */ |
|
fflush(stdout); |
|
fprintf(ficparo,"# Covariance matrix\n"); |
|
/* # 121 Var(a12)\n\ */ |
|
/* # 122 Cov(b12,a12) Var(b12)\n\ */ |
|
/* # ...\n\ */ |
|
/* # 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n" */ |
|
|
|
for(itimes=1;itimes<=2;itimes++){ |
|
jj=0; |
|
for(i=1; i <=nlstate; i++){ |
|
for(j=1; j <=nlstate+ndeath; j++){ |
|
if(j==i) continue; |
|
for(k=1; k<=ncovmodel;k++){ |
|
jj++; |
|
ca[0]= k+'a'-1;ca[1]='\0'; |
|
if(itimes==1){ |
|
printf("#%1d%1d%d",i,j,k); |
|
fprintf(ficparo,"#%1d%1d%d",i,j,k); |
|
}else{ |
|
printf("%1d%1d%d",i,j,k); |
|
fprintf(ficparo,"%1d%1d%d",i,j,k); |
|
/* printf(" %.5le",matcov[i][j]); */ |
|
} |
|
ll=0; |
|
for(li=1;li <=nlstate; li++){ |
|
for(lj=1;lj <=nlstate+ndeath; lj++){ |
|
if(lj==li) continue; |
|
for(lk=1;lk<=ncovmodel;lk++){ |
|
ll++; |
|
if(ll<=jj){ |
|
cb[0]= lk +'a'-1;cb[1]='\0'; |
|
if(ll<jj){ |
|
if(itimes==1){ |
|
printf(" Cov(%s%1d%1d,%s%1d%1d)",ca,i,j,cb, li,lj); |
|
fprintf(ficparo," Cov(%s%1d%1d,%s%1d%1d)",ca,i,j,cb, li,lj); |
|
}else{ |
|
printf(" 0."); |
|
fprintf(ficparo," 0."); |
|
} |
|
}else{ |
|
if(itimes==1){ |
|
printf(" Var(%s%1d%1d)",ca,i,j); |
|
fprintf(ficparo," Var(%s%1d%1d)",ca,i,j); |
|
}else{ |
|
printf(" 0."); |
|
fprintf(ficparo," 0."); |
|
} |
|
} |
|
} |
|
} /* end lk */ |
|
} /* end lj */ |
|
} /* end li */ |
|
printf("\n"); |
|
fprintf(ficparo,"\n"); |
|
numlinepar++; |
|
} /* end k*/ |
|
} /*end j */ |
|
} /* end i */ |
|
} |
|
|
|
} /* end of prwizard */ |
|
|
/***********************************************/ |
/***********************************************/ |
/**************** Main Program *****************/ |
/**************** Main Program *****************/ |
/***********************************************/ |
/***********************************************/ |
Line 3628 int main(int argc, char *argv[])
|
Line 3797 int main(int argc, char *argv[])
|
{ |
{ |
int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav); |
int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav); |
int i,j, k, n=MAXN,iter,m,size=100,cptcode, cptcod; |
int i,j, k, n=MAXN,iter,m,size=100,cptcode, cptcod; |
int jj; |
int jj, imk; |
int numlinepar=0; /* Current linenumber of parameter file */ |
int numlinepar=0; /* Current linenumber of parameter file */ |
|
/* FILE *fichtm; *//* Html File */ |
|
/* FILE *ficgp;*/ /*Gnuplot File */ |
double agedeb, agefin,hf; |
double agedeb, agefin,hf; |
double ageminpar=1.e20,agemin=1.e20, agemaxpar=-1.e20, agemax=-1.e20; |
double ageminpar=1.e20,agemin=1.e20, agemaxpar=-1.e20, agemax=-1.e20; |
|
|
Line 3641 int main(int argc, char *argv[])
|
Line 3812 int main(int argc, char *argv[])
|
double ***mobaverage; |
double ***mobaverage; |
int *indx; |
int *indx; |
char line[MAXLINE], linepar[MAXLINE]; |
char line[MAXLINE], linepar[MAXLINE]; |
char path[132],pathc[132],pathcd[132],pathtot[132],model[132]; |
char path[MAXLINE],pathc[MAXLINE],pathcd[MAXLINE],pathtot[MAXLINE],model[MAXLINE]; |
|
char pathr[MAXLINE]; |
int firstobs=1, lastobs=10; |
int firstobs=1, lastobs=10; |
int sdeb, sfin; /* Status at beginning and end */ |
int sdeb, sfin; /* Status at beginning and end */ |
int c, h , cpt,l; |
int c, h , cpt,l; |
Line 3675 int main(int argc, char *argv[])
|
Line 3847 int main(int argc, char *argv[])
|
char z[1]="c", occ; |
char z[1]="c", occ; |
|
|
char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80]; |
char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80]; |
char *strt, *strtend; |
char strstart[80], *strt, strtend[80]; |
char *stratrunc; |
char *stratrunc; |
int lstra; |
int lstra; |
|
|
Line 3691 int main(int argc, char *argv[])
|
Line 3863 int main(int argc, char *argv[])
|
(void) gettimeofday(&start_time,&tzp); |
(void) gettimeofday(&start_time,&tzp); |
tm = *localtime(&start_time.tv_sec); |
tm = *localtime(&start_time.tv_sec); |
tmg = *gmtime(&start_time.tv_sec); |
tmg = *gmtime(&start_time.tv_sec); |
strt=asctime(&tm); |
strcpy(strstart,asctime(&tm)); |
|
|
/* printf("Localtime (at start)=%s",strt); */ |
/* printf("Localtime (at start)=%s",strstart); */ |
/* tp.tv_sec = tp.tv_sec +86400; */ |
/* tp.tv_sec = tp.tv_sec +86400; */ |
/* tm = *localtime(&start_time.tv_sec); */ |
/* tm = *localtime(&start_time.tv_sec); */ |
/* tmg.tm_year=tmg.tm_year +dsign*dyear; */ |
/* tmg.tm_year=tmg.tm_year +dsign*dyear; */ |
Line 3701 int main(int argc, char *argv[])
|
Line 3873 int main(int argc, char *argv[])
|
/* tmg.tm_hour=tmg.tm_hour + 1; */ |
/* tmg.tm_hour=tmg.tm_hour + 1; */ |
/* tp.tv_sec = mktime(&tmg); */ |
/* tp.tv_sec = mktime(&tmg); */ |
/* strt=asctime(&tmg); */ |
/* strt=asctime(&tmg); */ |
/* printf("Time(after) =%s",strt); */ |
/* printf("Time(after) =%s",strstart); */ |
/* (void) time (&time_value); |
/* (void) time (&time_value); |
* printf("time=%d,t-=%d\n",time_value,time_value-86400); |
* printf("time=%d,t-=%d\n",time_value,time_value-86400); |
* tm = *localtime(&time_value); |
* tm = *localtime(&time_value); |
* strt=asctime(&tm); |
* strstart=asctime(&tm); |
* printf("tim_value=%d,asctime=%s\n",time_value,strt); |
* printf("tim_value=%d,asctime=%s\n",time_value,strstart); |
*/ |
*/ |
|
|
getcwd(pathcd, size); |
getcwd(pathcd, size); |
Line 3719 int main(int argc, char *argv[])
|
Line 3891 int main(int argc, char *argv[])
|
else{ |
else{ |
strcpy(pathtot,argv[1]); |
strcpy(pathtot,argv[1]); |
} |
} |
/*if(getcwd(pathcd, 132)!= NULL)printf ("Error pathcd\n");*/ |
/*if(getcwd(pathcd, MAXLINE)!= NULL)printf ("Error pathcd\n");*/ |
/*cygwin_split_path(pathtot,path,optionfile); |
/*cygwin_split_path(pathtot,path,optionfile); |
printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/ |
printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/ |
/* cutv(path,optionfile,pathtot,'\\');*/ |
/* cutv(path,optionfile,pathtot,'\\');*/ |
Line 3727 int main(int argc, char *argv[])
|
Line 3899 int main(int argc, char *argv[])
|
split(pathtot,path,optionfile,optionfilext,optionfilefiname); |
split(pathtot,path,optionfile,optionfilext,optionfilefiname); |
printf("pathtot=%s,\npath=%s,\noptionfile=%s \noptionfilext=%s \noptionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
printf("pathtot=%s,\npath=%s,\noptionfile=%s \noptionfilext=%s \noptionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
chdir(path); |
chdir(path); |
replace(pathc,path); |
strcpy(command,"mkdir "); |
|
strcat(command,optionfilefiname); |
|
if((outcmd=system(command)) != 0){ |
|
printf("Problem creating directory or it already exists %s%s, err=%d\n",path,optionfilefiname,outcmd); |
|
/* fprintf(ficlog,"Problem creating directory %s%s\n",path,optionfilefiname); */ |
|
/* fclose(ficlog); */ |
|
/* exit(1); */ |
|
} |
|
/* if((imk=mkdir(optionfilefiname))<0){ */ |
|
/* perror("mkdir"); */ |
|
/* } */ |
|
|
/*-------- arguments in the command line --------*/ |
/*-------- arguments in the command line --------*/ |
|
|
Line 3741 int main(int argc, char *argv[])
|
Line 3923 int main(int argc, char *argv[])
|
fprintf(ficlog,"Log filename:%s\n",filelog); |
fprintf(ficlog,"Log filename:%s\n",filelog); |
fprintf(ficlog,"\n%s\n%s",version,fullversion); |
fprintf(ficlog,"\n%s\n%s",version,fullversion); |
fprintf(ficlog,"\nEnter the parameter file name: "); |
fprintf(ficlog,"\nEnter the parameter file name: "); |
fprintf(ficlog,"pathtot=%s, path=%s, optionfile=%s optionfilext=%s optionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
fprintf(ficlog,"pathtot=%s\n\ |
|
path=%s \n\ |
|
optionfile=%s\n\ |
|
optionfilext=%s\n\ |
|
optionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
|
|
printf("Localtime (at start)=%s",strt); |
printf("Localtime (at start):%s",strstart); |
fprintf(ficlog,"Localtime (at start)=%s",strt); |
fprintf(ficlog,"Localtime (at start): %s",strstart); |
fflush(ficlog); |
fflush(ficlog); |
|
|
/* */ |
/* */ |
Line 3761 int main(int argc, char *argv[])
|
Line 3947 int main(int argc, char *argv[])
|
goto end; |
goto end; |
} |
} |
|
|
|
|
|
|
strcpy(filereso,"o"); |
strcpy(filereso,"o"); |
strcat(filereso,fileres); |
strcat(filereso,fileres); |
if((ficparo=fopen(filereso,"w"))==NULL) { |
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); |
fflush(ficlog); |
fflush(ficlog); |
Line 3805 int main(int argc, char *argv[])
|
Line 3993 int main(int argc, char *argv[])
|
|
|
ncovmodel=2+cptcovn; /*Number of variables = cptcovn + intercept + age */ |
ncovmodel=2+cptcovn; /*Number of variables = cptcovn + intercept + age */ |
nvar=ncovmodel-1; /* Suppressing age as a basic covariate */ |
nvar=ncovmodel-1; /* Suppressing age as a basic covariate */ |
|
|
|
if(mle==-1){ /* Print a wizard for help writing covariance matrix */ |
|
prwizard(ncovmodel, nlstate, ndeath, model, ficparo); |
|
printf(" You choose mle=-1, look at file %s for a template of covariance matrix \n",filereso); |
|
fprintf(ficlog," You choose mle=-1, look at file %s for a template of covariance matrix \n",filereso); |
|
fclose (ficparo); |
|
fclose (ficlog); |
|
exit(0); |
|
} |
/* Read guess parameters */ |
/* Read guess parameters */ |
/* Reads comments: lines beginning with '#' */ |
/* Reads comments: lines beginning with '#' */ |
while((c=getc(ficpar))=='#' && c!= EOF){ |
while((c=getc(ficpar))=='#' && c!= EOF){ |
Line 4265 int main(int argc, char *argv[])
|
Line 4461 int main(int argc, char *argv[])
|
fprintf(ficgp,"# %s\n", optionfilegnuplot); |
fprintf(ficgp,"# %s\n", optionfilegnuplot); |
fprintf(ficgp,"set missing 'NaNq'\n"); |
fprintf(ficgp,"set missing 'NaNq'\n"); |
} |
} |
fclose(ficgp); |
/* fclose(ficgp);*/ |
/*--------- index.htm --------*/ |
/*--------- index.htm --------*/ |
|
|
strcpy(optionfilehtm,optionfile); |
strcpy(optionfilehtm,optionfilefiname); |
strcat(optionfilehtm,".htm"); |
strcat(optionfilehtm,".htm"); |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) { |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) { |
printf("Problem with %s \n",optionfilehtm), exit(0); |
printf("Problem with %s \n",optionfilehtm), exit(0); |
} |
} |
|
|
fprintf(fichtm,"<body> <font size=\"2\">%s <br> %s</font> \ |
fprintf(fichtm,"<body>\n<title>IMaCh %s</title>\n <font size=\"2\">%s <br> %s</font> \ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s<br>\n\ |
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s<br>\n\ |
\n\ |
\n\ |
Line 4282 Title=%s <br>Datafile=%s Firstpass=%d La
|
Line 4478 Title=%s <br>Datafile=%s Firstpass=%d La
|
<ul><li><h4>Parameter files</h4>\n\ |
<ul><li><h4>Parameter files</h4>\n\ |
- Copy of the parameter file: <a href=\"o%s\">o%s</a><br>\n\ |
- Copy of the parameter file: <a href=\"o%s\">o%s</a><br>\n\ |
- Log file of the run: <a href=\"%s\">%s</a><br>\n\ |
- Log file of the run: <a href=\"%s\">%s</a><br>\n\ |
- Gnuplot file name: <a href=\"%s\">%s</a>\n\ |
- Gnuplot file name: <a href=\"%s\">%s</a><br>\n\ |
- Date and time at start: %s</ul>\n",\ |
- Date and time at start: %s</ul>\n",\ |
version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt,\ |
fileres,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt,\ |
model,fileres,fileres,\ |
model,fileres,fileres,\ |
filelog,filelog,optionfilegnuplot,optionfilegnuplot,strt); |
filelog,filelog,optionfilegnuplot,optionfilegnuplot,strstart); |
fclose(fichtm); |
/*fclose(fichtm);*/ |
|
fflush(fichtm); |
|
|
|
strcpy(pathr,path); |
|
strcat(pathr,optionfilefiname); |
|
chdir(optionfilefiname); /* Move to directory named optionfile */ |
|
strcpy(lfileres,fileres); |
|
strcat(lfileres,"/"); |
|
strcat(lfileres,optionfilefiname); |
|
|
/* Calculates basic frequencies. Computes observed prevalence at single age |
/* Calculates basic frequencies. Computes observed prevalence at single age |
and prints on file fileres'p'. */ |
and prints on file fileres'p'. */ |
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); |
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); |
|
|
if(fileappend(fichtm, optionfilehtm)){ |
fprintf(fichtm,"\n"); |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
Youngest age at first (selected) pass %.2f, oldest age %.2f<br>\n\ |
Youngest age at first (selected) pass %.2f, oldest age %.2f<br>\n\ |
Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf<br>\n",\ |
Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf<br>\n",\ |
imx,agemin,agemax,jmin,jmax,jmean); |
imx,agemin,agemax,jmin,jmax,jmean); |
fclose(fichtm); |
pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
} |
|
pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
|
oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ |
Line 4488 Interval (in months) between two waves:
|
Line 4690 Interval (in months) between two waves:
|
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint);*/ |
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint);*/ |
/*,dateprev1,dateprev2,jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);*/ |
/*,dateprev1,dateprev2,jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);*/ |
|
|
printinggnuplot(fileres, ageminpar,agemaxpar,fage, pathc,p); |
replace_back_to_slash(pathc,path); /* Even gnuplot wants a / */ |
|
printinggnuplot(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
|
|
printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
printinghtml(fileres,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); |
|
|
/*------------ free_vector -------------*/ |
/*------------ free_vector -------------*/ |
chdir(path); |
/* chdir(path); */ |
|
|
free_ivector(wav,1,imx); |
free_ivector(wav,1,imx); |
free_imatrix(dh,1,lastpass-firstpass+1,1,imx); |
free_imatrix(dh,1,lastpass-firstpass+1,1,imx); |
Line 4812 ageminpar, agemax, s[lastpass][imx], age
|
Line 5015 ageminpar, agemax, s[lastpass][imx], age
|
free_ivector(Tage,1,15); |
free_ivector(Tage,1,15); |
free_ivector(Tcode,1,100); |
free_ivector(Tcode,1,100); |
|
|
/* fclose(fichtm);*/ |
fflush(fichtm); |
/* fclose(ficgp);*/ /* ALready done */ |
fflush(ficgp); |
|
|
|
|
if(erreur >0){ |
if(erreur >0){ |
Line 4829 ageminpar, agemax, s[lastpass][imx], age
|
Line 5032 ageminpar, agemax, s[lastpass][imx], age
|
(void) gettimeofday(&end_time,&tzp); |
(void) gettimeofday(&end_time,&tzp); |
tm = *localtime(&end_time.tv_sec); |
tm = *localtime(&end_time.tv_sec); |
tmg = *gmtime(&end_time.tv_sec); |
tmg = *gmtime(&end_time.tv_sec); |
strtend=asctime(&tm); |
strcpy(strtend,asctime(&tm)); |
printf("Localtime at start %s and at end=%s",strt, strtend); |
printf("Localtime at start %s\nLocaltime at end %s",strstart, strtend); |
fprintf(ficlog,"Localtime at start %s and at end=%s",strt, strtend); |
fprintf(ficlog,"Localtime at start %s\nLocal time at end %s",strstart, strtend); |
/* printf("Total time used %d Sec\n", asc_time(end_time.tv_sec -start_time.tv_sec);*/ |
/* printf("Total time used %d Sec\n", asc_time(end_time.tv_sec -start_time.tv_sec);*/ |
|
|
printf("Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec); |
printf("Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec); |
fprintf(ficlog,"Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec); |
fprintf(ficlog,"Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec); |
/* printf("Total time was %d uSec.\n", total_usecs);*/ |
/* printf("Total time was %d uSec.\n", total_usecs);*/ |
if(fileappend(fichtm,optionfilehtm)){ |
/* if(fileappend(fichtm,optionfilehtm)){ */ |
fprintf(fichtm,"<br>Localtime at start %s and at end=%s<br>",strt, strtend); |
fprintf(fichtm,"<br>Local time at start %s<br>Local time at end %s<br>",strstart, strtend); |
fclose(fichtm); |
fclose(fichtm); |
} |
fclose(ficgp); |
/*------ End -----------*/ |
/*------ End -----------*/ |
|
|
end: |
end: |
#ifdef windows |
#ifdef windows |
/* chdir(pathcd);*/ |
/* chdir(pathcd);*/ |
#endif |
#endif |
|
chdir(path); |
/*system("wgnuplot graph.plt");*/ |
/*system("wgnuplot graph.plt");*/ |
/*system("../gp37mgw/wgnuplot graph.plt");*/ |
/*system("../gp37mgw/wgnuplot graph.plt");*/ |
/*system("cd ../gp37mgw");*/ |
/*system("cd ../gp37mgw");*/ |
Line 4872 ageminpar, agemax, s[lastpass][imx], age
|
Line 5076 ageminpar, agemax, s[lastpass][imx], age
|
} |
} |
|
|
|
|
|
|