version 1.118, 2006/03/14 18:20:07
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version 1.119, 2006/03/15 17:42:26
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/* $Id$ |
/* $Id$ |
$State$ |
$State$ |
$Log$ |
$Log$ |
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Revision 1.119 2006/03/15 17:42:26 brouard |
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(Module): Bug if status = -2, the loglikelihood was |
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computed as likelihood omitting the logarithm. Version O.98e |
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Revision 1.118 2006/03/14 18:20:07 brouard |
Revision 1.118 2006/03/14 18:20:07 brouard |
(Module): varevsij Comments added explaining the second |
(Module): varevsij Comments added explaining the second |
table of variances if popbased=1 . |
table of variances if popbased=1 . |
Line 325 extern int errno;
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Line 329 extern int errno;
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/* $Id$ */ |
/* $Id$ */ |
/* $State$ */ |
/* $State$ */ |
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char version[]="Imach version 0.98d, March 2006, INED-EUROREVES-Institut de longevite "; |
char version[]="Imach version 0.98e, March 2006, INED-EUROREVES-Institut de longevite "; |
char fullversion[]="$Revision$ $Date$"; |
char fullversion[]="$Revision$ $Date$"; |
char strstart[80]; |
char strstart[80]; |
char optionfilext[10], optionfilefiname[FILENAMELENGTH]; |
char optionfilext[10], optionfilefiname[FILENAMELENGTH]; |
Line 1383 double func( double *x)
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Line 1387 double func( double *x)
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} else if (s2==-2) { |
} else if (s2==-2) { |
for (j=1,survp=0. ; j<=nlstate; j++) |
for (j=1,survp=0. ; j<=nlstate; j++) |
survp += out[s1][j]; |
survp += out[s1][j]; |
lli= survp; |
lli= log(survp); |
} |
} |
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else if (s2==-4) { |
/* else if (s2==-4) { */ |
for (j=3,survp=0. ; j<=nlstate; j++) |
/* for (j=3,survp=0. ; j<=nlstate; j++) */ |
survp += out[s1][j]; |
/* survp += out[s1][j]; */ |
lli= survp; |
/* lli= survp; */ |
} |
/* } */ |
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else if (s2==-5) { |
/* else if (s2==-5) { */ |
for (j=1,survp=0. ; j<=2; j++) |
/* for (j=1,survp=0. ; j<=2; j++) */ |
survp += out[s1][j]; |
/* survp += out[s1][j]; */ |
lli= survp; |
/* lli= survp; */ |
} |
/* } */ |
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else{ |
else{ |
Line 1593 double funcone( double *x)
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Line 1597 double funcone( double *x)
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*/ |
*/ |
if( s2 > nlstate && (mle <5) ){ /* Jackson */ |
if( s2 > nlstate && (mle <5) ){ /* Jackson */ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
} else if (mle==1){ |
} else if (s2==-2) { |
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for (j=1,survp=0. ; j<=nlstate; j++) |
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survp += out[s1][j]; |
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lli= log(survp); |
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}else if (mle==1){ |
lli= log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]); /* linear interpolation */ |
lli= log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]); /* linear interpolation */ |
} else if(mle==2){ |
} else if(mle==2){ |
lli= (savm[s1][s2]>(double)1.e-8 ?log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]):log((1.+bbh)*out[s1][s2])); /* linear interpolation */ |
lli= (savm[s1][s2]>(double)1.e-8 ?log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]):log((1.+bbh)*out[s1][s2])); /* linear interpolation */ |
Line 1609 double funcone( double *x)
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Line 1617 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,"%9d %6d %1d %1d %1d %1d %3d %10.6f %6.4f\ |
fprintf(ficresilk,"%9d %6d %2d %2d %1d %1d %3d %11.6f %8.4f\ |
%10.6f %10.6f %10.6f ", \ |
%11.6f %11.6f %11.6f ", \ |
num[i],i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i], |
num[i],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++){ |
Line 2475 void evsij(char fileres[], double ***eij
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Line 2483 void evsij(char fileres[], double ***eij
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for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ |
for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ |
/* Computed by stepm unit matrices, product of hstepm matrices, stored |
/* Computed by stepm unit matrices, product of hstepm matrices, stored |
in an array of nhstepm length: nhstepm=10, hstepm=4, stepm=6 months */ |
in an array of nhstepm length: nhstepm=10, hstepm=4, stepm=6 months */ |
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hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, cij); |
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, cij); |
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hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
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/* Computing Variances of health expectancies */ |
printf("%d|",(int)age);fflush(stdout); |
/* Gradient is computed with plus gp and minus gm. Code is duplicated in order to |
fprintf(ficlog,"%d|",(int)age);fflush(ficlog); |
decrease memory allocation */ |
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printf("%d|",(int)age);fflush(stdout); |
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fprintf(ficlog,"%d|",(int)age);fflush(ficlog); |
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/* Computing expectancies */ |
/* Computing expectancies */ |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
for(j=1; j<=nlstate;j++) |
for(j=1; j<=nlstate;j++) |
for (h=0, eij[i][j][(int)age]=0; h<=nhstepm-1; h++){ |
for (h=0, eij[i][j][(int)age]=0; h<=nhstepm-1; h++){ |
eij[i][j][(int)age] += (p3mat[i][j][h]+p3mat[i][j][h+1])/2.0*hf; |
eij[i][j][(int)age] += (p3mat[i][j][h]+p3mat[i][j][h+1])/2.0*hf; |
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/* if((int)age==70)printf("i=%2d,j=%2d,h=%2d,age=%3d,%9.4f,%9.4f,%9.4f\n",i,j,h,(int)age,p3mat[i][j][h],hf,eij[i][j][(int)age]);*/ |
/* if((int)age==70)printf("i=%2d,j=%2d,h=%2d,age=%3d,%9.4f,%9.4f,%9.4f\n",i,j,h,(int)age,p3mat[i][j][h],hf,eij[i][j][(int)age]);*/ |
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} |
} |
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Line 2505 void evsij(char fileres[], double ***eij
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Line 2511 void evsij(char fileres[], double ***eij
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fprintf(ficreseij,"%9.4f", eip ); |
fprintf(ficreseij,"%9.4f", eip ); |
} |
} |
fprintf(ficreseij,"\n"); |
fprintf(ficreseij,"\n"); |
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} |
} |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
printf("\n"); |
printf("\n"); |
fprintf(ficlog,"\n"); |
fprintf(ficlog,"\n"); |
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} |
} |
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void cvevsij(char fileres[], double ***eij, double x[], int nlstate, int stepm, int bage, int fage, double **oldm, double **savm, int cij, int estepm,double delti[],double **matcov,char strstart[] ) |
void cvevsij(char fileres[], double ***eij, double x[], int nlstate, int stepm, int bage, int fage, double **oldm, double **savm, int cij, int estepm,double delti[],double **matcov,char strstart[] ) |
Line 4411 int main(int argc, char *argv[])
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Line 4417 int main(int argc, char *argv[])
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while ((val = strsep(&tok, "\"" )) != NULL && *val == '\0'); |
while ((val = strsep(&tok, "\"" )) != NULL && *val == '\0'); |
printf("val= |%s| pathr=%s\n",val,pathr); |
printf("val= |%s| pathr=%s\n",val,pathr); |
strcpy (pathtot, val); |
strcpy (pathtot, val); |
if(pathr[0] == '\0') break; /* Un peu sale */ |
if(pathr[0] == '\0') break; /* Dirty */ |
} |
} |
} |
} |
else{ |
else{ |
Line 4430 int main(int argc, char *argv[])
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Line 4436 int main(int argc, char *argv[])
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/* Split argv[1]=pathtot, parameter file name to get path, optionfile, extension and name */ |
/* Split argv[1]=pathtot, parameter file name to get path, optionfile, extension and name */ |
split(pathtot,path,optionfile,optionfilext,optionfilefiname); |
split(pathtot,path,optionfile,optionfilext,optionfilefiname); |
printf("\npathtot=%s,\npath=%s,\noptionfile=%s \noptionfilext=%s \noptionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
printf("\npathtot=%s,\npath=%s,\noptionfile=%s \noptionfilext=%s \noptionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname); |
chdir(path); |
chdir(path); /* Can be a relative path */ |
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if(getcwd(pathcd,MAXLINE) > 0) /* So pathcd is the full path */ |
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printf("Current directory %s!\n",pathcd); |
strcpy(command,"mkdir "); |
strcpy(command,"mkdir "); |
strcat(command,optionfilefiname); |
strcat(command,optionfilefiname); |
if((outcmd=system(command)) != 0){ |
if((outcmd=system(command)) != 0){ |
Line 5263 Interval (in months) between two waves:
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Line 5271 Interval (in months) between two waves:
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printf("%d %.0lf %lf %.0lf %.0lf %.0lf %lf\n",k,lsurv[k],p[1]*exp(p[2]*(k-agegomp)),(p[1]*exp(p[2]*(k-agegomp)))*lsurv[k],lpop[k],tpop[k],tpop[k]/lsurv[k]); |
printf("%d %.0lf %lf %.0lf %.0lf %.0lf %lf\n",k,lsurv[k],p[1]*exp(p[2]*(k-agegomp)),(p[1]*exp(p[2]*(k-agegomp)))*lsurv[k],lpop[k],tpop[k],tpop[k]/lsurv[k]); |
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replace_back_to_slash(pathc,path); /* Even gnuplot wants a / */ |
replace_back_to_slash(pathc,pathcd); /* Even gnuplot wants a / */ |
printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
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printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \ |
printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \ |
Line 5500 Interval (in months) between two waves:
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Line 5508 Interval (in months) between two waves:
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/* 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);*/ |
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replace_back_to_slash(pathc,path); /* Even gnuplot wants a / */ |
replace_back_to_slash(pathc,pathcd); /* Even gnuplot wants a / */ |
printinggnuplot(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
printinggnuplot(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); |
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printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
Line 5895 Interval (in months) between two waves:
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Line 5903 Interval (in months) between two waves:
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fclose(ficlog); |
fclose(ficlog); |
/*------ End -----------*/ |
/*------ End -----------*/ |
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chdir(path); |
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printf("Before Current directory %s!\n",pathcd); |
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if(chdir(pathcd) != 0) |
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printf("Can't move to directory %s!\n",path); |
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if(getcwd(pathcd,MAXLINE) > 0) |
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printf("Current directory %s!\n",pathcd); |
/*strcat(plotcmd,CHARSEPARATOR);*/ |
/*strcat(plotcmd,CHARSEPARATOR);*/ |
sprintf(plotcmd,"gnuplot"); |
sprintf(plotcmd,"gnuplot"); |
#ifndef UNIX |
#ifndef UNIX |