version 1.211, 2015/11/21 12:41:11
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version 1.218, 2016/02/12 11:29:23
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/* $Id$ |
/* $Id$ |
$State$ |
$State$ |
$Log$ |
$Log$ |
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Revision 1.218 2016/02/12 11:29:23 brouard |
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Summary: 0.99 Back projections |
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Revision 1.217 2015/12/23 17:18:31 brouard |
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Summary: Experimental backcast |
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Revision 1.216 2015/12/18 17:32:11 brouard |
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Summary: 0.98r4 Warning and status=-2 |
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Version 0.98r4 is now: |
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- displaying an error when status is -1, date of interview unknown and date of death known; |
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- permitting a status -2 when the vital status is unknown at a known date of right truncation. |
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Older changes concerning s=-2, dating from 2005 have been supersed. |
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Revision 1.215 2015/12/16 08:52:24 brouard |
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Summary: 0.98r4 working |
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Revision 1.214 2015/12/16 06:57:54 brouard |
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Summary: temporary not working |
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Revision 1.213 2015/12/11 18:22:17 brouard |
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Summary: 0.98r4 |
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Revision 1.212 2015/11/21 12:47:24 brouard |
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Summary: minor typo |
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Revision 1.211 2015/11/21 12:41:11 brouard |
Revision 1.211 2015/11/21 12:41:11 brouard |
Summary: 0.98r3 with some graph of projected cross-sectional |
Summary: 0.98r3 with some graph of projected cross-sectional |
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Line 628
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Line 654
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hPijx. |
hPijx. |
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Also this programme outputs the covariance matrix of the parameters but also |
Also this programme outputs the covariance matrix of the parameters but also |
of the life expectancies. It also computes the period (stable) prevalence. |
of the life expectancies. It also computes the period (stable) prevalence. |
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Back prevalence and projections: |
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- back_prevalence_limit(double *p, double **bprlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyearp, double dateprev1,double dateprev2, int firstpass, int lastpass, int mobilavproj) |
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Computes the back prevalence limit for any combination of covariate values k |
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at any age between ageminpar and agemaxpar and returns it in **bprlim. In the loops, |
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- **bprevalim(**bprlim, ***mobaverage, nlstate, *p, age, **oldm, **savm, **dnewm, **doldm, **dsavm, ftolpl, ncvyearp, k); |
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- hBijx Back Probability to be in state i at age x-h being in j at x |
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Computes for any combination of covariates k and any age between bage and fage |
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p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
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oldm=oldms;savm=savms; |
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- hbxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k); |
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Computes the transition matrix starting at age 'age' over |
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'nhstepm*hstepm*stepm' months (i.e. until |
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age (in years) age+nhstepm*hstepm*stepm/12) by multiplying |
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nhstepm*hstepm matrices. Returns p3mat[i][j][h] after calling |
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p3mat[i][j][h]=matprod2(newm, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent, dnewm, doldm, dsavm,ij),\ |
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1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); |
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Authors: Nicolas Brouard (brouard@ined.fr) and Agnès Lièvre (lievre@ined.fr). |
Authors: Nicolas Brouard (brouard@ined.fr) and Agnès Lièvre (lievre@ined.fr). |
Institut national d'études démographiques, Paris. |
Institut national d'études démographiques, Paris. |
This software have been partly granted by Euro-REVES, a concerted action |
This software have been partly granted by Euro-REVES, a concerted action |
Line 766 typedef struct {
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Line 809 typedef struct {
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#define decodtabm(h,k,cptcoveff) (((h-1) >> (k-1)) & 1) +1 |
#define decodtabm(h,k,cptcoveff) (((h-1) >> (k-1)) & 1) +1 |
#define MAXN 20000 |
#define MAXN 20000 |
#define YEARM 12. /**< Number of months per year */ |
#define YEARM 12. /**< Number of months per year */ |
#define AGESUP 130 |
/* #define AGESUP 130 */ |
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#define AGESUP 150 |
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#define AGEMARGE 25 /* Marge for agemin and agemax for(iage=agemin-AGEMARGE; iage <= agemax+3+AGEMARGE; iage++) */ |
#define AGEBASE 40 |
#define AGEBASE 40 |
#define AGEOVERFLOW 1.e20 |
#define AGEOVERFLOW 1.e20 |
#define AGEGOMP 10 /**< Minimal age for Gompertz adjustment */ |
#define AGEGOMP 10 /**< Minimal age for Gompertz adjustment */ |
Line 798 int cptcovage=0; /**< Number of covariat
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Line 843 int cptcovage=0; /**< Number of covariat
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int cptcovprodnoage=0; /**< Number of covariate products without age */ |
int cptcovprodnoage=0; /**< Number of covariate products without age */ |
int cptcoveff=0; /* Total number of covariates to vary for printing results */ |
int cptcoveff=0; /* Total number of covariates to vary for printing results */ |
int cptcov=0; /* Working variable */ |
int cptcov=0; /* Working variable */ |
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int ncovcombmax=NCOVMAX; /* Maximum calculated number of covariate combination = pow(2, cptcoveff) */ |
int npar=NPARMAX; |
int npar=NPARMAX; |
int nlstate=2; /* Number of live states */ |
int nlstate=2; /* Number of live states */ |
int ndeath=1; /* Number of dead states */ |
int ndeath=1; /* Number of dead states */ |
Line 820 double jmean=1; /* Mean space between 2
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Line 866 double jmean=1; /* Mean space between 2
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double **matprod2(); /* test */ |
double **matprod2(); /* test */ |
double **oldm, **newm, **savm; /* Working pointers to matrices */ |
double **oldm, **newm, **savm; /* Working pointers to matrices */ |
double **oldms, **newms, **savms; /* Fixed working pointers to matrices */ |
double **oldms, **newms, **savms; /* Fixed working pointers to matrices */ |
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double **ddnewms, **ddoldms, **ddsavms; /* for freeing later */ |
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/*FILE *fic ; */ /* Used in readdata only */ |
/*FILE *fic ; */ /* Used in readdata only */ |
FILE *ficpar, *ficparo,*ficres, *ficresp, *ficrespl, *ficrespij, *ficrest,*ficresf,*ficrespop; |
FILE *ficpar, *ficparo,*ficres, *ficresp, *ficresphtm, *ficresphtmfr, *ficrespl, *ficresplb,*ficrespij, *ficrespijb, *ficrest,*ficresf, *ficresfb,*ficrespop; |
FILE *ficlog, *ficrespow; |
FILE *ficlog, *ficrespow; |
int globpr=0; /* Global variable for printing or not */ |
int globpr=0; /* Global variable for printing or not */ |
double fretone; /* Only one call to likelihood */ |
double fretone; /* Only one call to likelihood */ |
Line 844 char fileresv[FILENAMELENGTH];
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Line 892 char fileresv[FILENAMELENGTH];
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FILE *ficresvpl; |
FILE *ficresvpl; |
char fileresvpl[FILENAMELENGTH]; |
char fileresvpl[FILENAMELENGTH]; |
char title[MAXLINE]; |
char title[MAXLINE]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH], fileresplb[FILENAMELENGTH]; |
char plotcmd[FILENAMELENGTH], pplotcmd[FILENAMELENGTH]; |
char plotcmd[FILENAMELENGTH], pplotcmd[FILENAMELENGTH]; |
char tmpout[FILENAMELENGTH], tmpout2[FILENAMELENGTH]; |
char tmpout[FILENAMELENGTH], tmpout2[FILENAMELENGTH]; |
char command[FILENAMELENGTH]; |
char command[FILENAMELENGTH]; |
int outcmd=0; |
int outcmd=0; |
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char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filerespijb[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
char fileresu[FILENAMELENGTH]; /* fileres without r in front */ |
char fileresu[FILENAMELENGTH]; /* fileres without r in front */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filerest[FILENAMELENGTH]; |
char filerest[FILENAMELENGTH]; |
Line 927 int *ncodemaxwundef; /* ncodemax[j]= Nu
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Line 975 int *ncodemaxwundef; /* ncodemax[j]= Nu
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covariate for which somebody answered including |
covariate for which somebody answered including |
undefined. Usually 3: -1, 0 and 1. */ |
undefined. Usually 3: -1, 0 and 1. */ |
double **agev,*moisnais, *annais, *moisdc, *andc,**mint, **anint; |
double **agev,*moisnais, *annais, *moisdc, *andc,**mint, **anint; |
double **pmmij, ***probs; |
double **pmmij, ***probs; /* Global pointer */ |
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double ***mobaverage; /* New global variable */ |
double *ageexmed,*agecens; |
double *ageexmed,*agecens; |
double dateintmean=0; |
double dateintmean=0; |
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Line 1383 char *subdirf3(char fileres[], char *pre
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Line 1432 char *subdirf3(char fileres[], char *pre
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strcat(tmpout,fileres); |
strcat(tmpout,fileres); |
return tmpout; |
return tmpout; |
} |
} |
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/*************** function subdirfext ***********/ |
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char *subdirfext(char fileres[], char *preop, char *postop) |
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{ |
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strcpy(tmpout,preop); |
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strcat(tmpout,fileres); |
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strcat(tmpout,postop); |
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return tmpout; |
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} |
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/*************** function subdirfext3 ***********/ |
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char *subdirfext3(char fileres[], char *preop, char *postop) |
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{ |
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/* Caution optionfilefiname is hidden */ |
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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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strcat(tmpout,postop); |
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return tmpout; |
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} |
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char *asc_diff_time(long time_sec, char ascdiff[]) |
char *asc_diff_time(long time_sec, char ascdiff[]) |
{ |
{ |
long sec_left, days, hours, minutes; |
long sec_left, days, hours, minutes; |
Line 1987 void powell(double p[], double **xi, int
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Line 2059 void powell(double p[], double **xi, int
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double **prevalim(double **prlim, int nlstate, double x[], double age, double **oldm, double **savm, double ftolpl, int *ncvyear, int ij) |
double **prevalim(double **prlim, int nlstate, double x[], double age, double **oldm, double **savm, double ftolpl, int *ncvyear, int ij) |
{ |
{ |
/* Computes the prevalence limit in each live state at age x by left multiplying the unit |
/* Computes the prevalence limit in each live state at age x and for covariate ij by left multiplying the unit |
matrix by transitions matrix until convergence is reached with precision ftolpl */ |
matrix by transitions matrix until convergence is reached with precision ftolpl */ |
/* Wx= Wx-1 Px-1= Wx-2 Px-2 Px-1 = Wx-n Px-n ... Px-2 Px-1 I */ |
/* Wx= Wx-1 Px-1= Wx-2 Px-2 Px-1 = Wx-n Px-n ... Px-2 Px-1 I */ |
/* Wx is row vector: population in state 1, population in state 2, population dead */ |
/* Wx is row vector: population in state 1, population in state 2, population dead */ |
Line 2010 double **prevalim(double **prlim, int nl
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Line 2082 double **prevalim(double **prlim, int nl
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int i, ii,j,k; |
int i, ii,j,k; |
double *min, *max, *meandiff, maxmax,sumnew=0.; |
double *min, *max, *meandiff, maxmax,sumnew=0.; |
/* double **matprod2(); */ /* test */ |
/* double **matprod2(); */ /* test */ |
double **out, cov[NCOVMAX+1], **pmij(); |
double **out, cov[NCOVMAX+1], **pmij(); /* **pmmij is a global variable feeded with oldms etc */ |
double **newm; |
double **newm; |
double agefin, delaymax=200. ; /* 100 Max number of years to converge */ |
double agefin, delaymax=200. ; /* 100 Max number of years to converge */ |
int ncvloop=0; |
int ncvloop=0; |
Line 2019 double **prevalim(double **prlim, int nl
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Line 2091 double **prevalim(double **prlim, int nl
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max=vector(1,nlstate); |
max=vector(1,nlstate); |
meandiff=vector(1,nlstate); |
meandiff=vector(1,nlstate); |
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/* Starting with matrix unity */ |
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++){ |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
Line 2037 double **prevalim(double **prlim, int nl
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Line 2110 double **prevalim(double **prlim, int nl
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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]][codtabm(ij,Tvar[k])]; */ |
/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
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/* Here comes the value of the covariate 'ij' */ |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
/* 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])]); */ |
/* 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])]); */ |
} |
} |
Line 2052 double **prevalim(double **prlim, int nl
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Line 2126 double **prevalim(double **prlim, int nl
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/*printf("ij=%d cov[3]=%lf \n",ij, cov[3]);*/ |
/*printf("ij=%d cov[3]=%lf \n",ij, cov[3]);*/ |
/* savm=pmij(pmmij,cov,ncovmodel,x,nlstate); */ |
/* savm=pmij(pmmij,cov,ncovmodel,x,nlstate); */ |
/* out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /\* Bug Valgrind *\/ */ |
/* out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /\* Bug Valgrind *\/ */ |
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/* age and covariate values of ij are in 'cov' */ |
out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /* Bug Valgrind */ |
out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /* Bug Valgrind */ |
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savm=oldm; |
savm=oldm; |
Line 2098 Earliest age to start was %d-%d=%d, ncvl
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Line 2173 Earliest age to start was %d-%d=%d, ncvl
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return prlim; /* should not reach here */ |
return prlim; /* should not reach here */ |
} |
} |
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/**** Back Prevalence limit (stable or period prevalence) ****************/ |
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/* double **bprevalim(double **bprlim, double ***prevacurrent, int nlstate, double x[], double age, double ageminpar, double agemaxpar, double **oldm, double **savm, double **dnewm, double **doldm, double **dsavm, double ftolpl, int *ncvyear, int ij) */ |
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/* double **bprevalim(double **bprlim, double ***prevacurrent, int nlstate, double x[], double age, double **oldm, double **savm, double **dnewm, double **doldm, double **dsavm, double ftolpl, int *ncvyear, int ij) */ |
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double **bprevalim(double **bprlim, double ***prevacurrent, int nlstate, double x[], double age, double ftolpl, int *ncvyear, int ij) |
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{ |
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/* Computes the prevalence limit in each live state at age x and covariate ij by left multiplying the unit |
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matrix by transitions matrix until convergence is reached with precision ftolpl */ |
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/* Wx= Wx-1 Px-1= Wx-2 Px-2 Px-1 = Wx-n Px-n ... Px-2 Px-1 I */ |
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/* Wx is row vector: population in state 1, population in state 2, population dead */ |
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/* or prevalence in state 1, prevalence in state 2, 0 */ |
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/* newm is the matrix after multiplications, its rows are identical at a factor */ |
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/* Initial matrix pimij */ |
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/* {0.85204250825084937, 0.13044499163996345, 0.017512500109187184, */ |
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/* 0.090851990222114765, 0.88271245433047185, 0.026435555447413338, */ |
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/* 0, 0 , 1} */ |
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/* |
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* and after some iteration: */ |
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/* {0.45504275246439968, 0.42731458730878791, 0.11764266022681241, */ |
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/* 0.45201005341706885, 0.42865420071559901, 0.11933574586733192, */ |
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/* 0, 0 , 1} */ |
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/* And prevalence by suppressing the deaths are close to identical rows in prlim: */ |
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/* {0.51571254859325999, 0.4842874514067399, */ |
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/* 0.51326036147820708, 0.48673963852179264} */ |
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/* If we start from prlim again, prlim tends to a constant matrix */ |
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int i, ii,j,k; |
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double *min, *max, *meandiff, maxmax,sumnew=0.; |
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/* double **matprod2(); */ /* test */ |
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double **out, cov[NCOVMAX+1], **bmij(); |
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double **newm; |
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double **dnewm, **doldm, **dsavm; /* for use */ |
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double **oldm, **savm; /* for use */ |
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double agefin, delaymax=200. ; /* 100 Max number of years to converge */ |
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int ncvloop=0; |
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min=vector(1,nlstate); |
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max=vector(1,nlstate); |
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meandiff=vector(1,nlstate); |
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dnewm=ddnewms; doldm=ddoldms; dsavm=ddsavms; |
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oldm=oldms; savm=savms; |
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/* Starting with matrix unity */ |
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for (ii=1;ii<=nlstate+ndeath;ii++) |
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for (j=1;j<=nlstate+ndeath;j++){ |
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oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
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} |
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cov[1]=1.; |
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/* 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 */ |
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/* for(agefin=age+stepm/YEARM; agefin<=age+delaymax; agefin=agefin+stepm/YEARM){ /\* A changer en age *\/ */ |
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for(agefin=age; agefin<AGESUP; agefin=agefin+stepm/YEARM){ /* A changer en age */ |
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ncvloop++; |
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newm=savm; /* oldm should be kept from previous iteration or unity at start */ |
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/* newm points to the allocated table savm passed by the function it can be written, savm could be reallocated */ |
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/* Covariates have to be included here again */ |
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cov[2]=agefin; |
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if(nagesqr==1) |
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cov[3]= agefin*agefin;; |
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for (k=1; k<=cptcovn;k++) { |
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/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
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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])]); */ |
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} |
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/*wrong? for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
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/* 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]; |
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for (k=1; k<=cptcovprod;k++) /* Useless */ |
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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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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]);*/ |
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/*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/ |
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/*printf("ij=%d cov[3]=%lf \n",ij, cov[3]);*/ |
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/* savm=pmij(pmmij,cov,ncovmodel,x,nlstate); */ |
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/* out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /\* Bug Valgrind *\/ */ |
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/* ij should be linked to the correct index of cov */ |
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/* age and covariate values ij are in 'cov', but we need to pass |
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* ij for the observed prevalence at age and status and covariate |
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* number: prevacurrent[(int)agefin][ii][ij] |
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*/ |
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/* out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent, ageminpar, agemaxpar, dnewm, doldm, dsavm,ij)); /\* Bug Valgrind *\/ */ |
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/* out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent, dnewm, doldm, dsavm,ij)); /\* Bug Valgrind *\/ */ |
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out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent,ij)); /* Bug Valgrind */ |
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savm=oldm; |
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oldm=newm; |
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for(j=1; j<=nlstate; j++){ |
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max[j]=0.; |
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min[j]=1.; |
|
} |
|
for(j=1; j<=nlstate; j++){ |
|
for(i=1;i<=nlstate;i++){ |
|
/* bprlim[i][j]= newm[i][j]/(1-sumnew); */ |
|
bprlim[i][j]= newm[i][j]; |
|
max[i]=FMAX(max[i],bprlim[i][j]); /* Max in line */ |
|
min[i]=FMIN(min[i],bprlim[i][j]); |
|
} |
|
} |
|
|
|
maxmax=0.; |
|
for(i=1; i<=nlstate; i++){ |
|
meandiff[i]=(max[i]-min[i])/(max[i]+min[i])*2.; /* mean difference for each column */ |
|
maxmax=FMAX(maxmax,meandiff[i]); |
|
/* printf("Back age= %d meandiff[%d]=%f, agefin=%d max[%d]=%f min[%d]=%f maxmax=%f\n", (int)age, i, meandiff[i],(int)agefin, i, max[i], i, min[i],maxmax); */ |
|
} /* j loop */ |
|
*ncvyear= -( (int)age- (int)agefin); |
|
/* printf("Back maxmax=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, ncvloop, (int)age, (int)agefin, *ncvyear);*/ |
|
if(maxmax < ftolpl){ |
|
printf("OK Back maxmax=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, ncvloop, (int)age, (int)agefin, *ncvyear); |
|
free_vector(min,1,nlstate); |
|
free_vector(max,1,nlstate); |
|
free_vector(meandiff,1,nlstate); |
|
return bprlim; |
|
} |
|
} /* age loop */ |
|
/* After some age loop it doesn't converge */ |
|
printf("Warning: the back stable prevalence at age %d did not converge with the required precision (%g > ftolpl=%g) within %.0f years. Try to lower 'ftolpl'. \n\ |
|
Oldest age to start was %d-%d=%d, ncvloop=%d, ncvyear=%d\n", (int)age, maxmax, ftolpl, delaymax, (int)age, (int)delaymax, (int)agefin, ncvloop, *ncvyear); |
|
/* 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); */ |
|
free_vector(min,1,nlstate); |
|
free_vector(max,1,nlstate); |
|
free_vector(meandiff,1,nlstate); |
|
|
|
return bprlim; /* should not reach here */ |
|
} |
|
|
/*************** transition probabilities ***************/ |
/*************** transition probabilities ***************/ |
|
|
double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
Line 2119 double **pmij(double **ps, double *cov,
|
Line 2325 double **pmij(double **ps, double *cov,
|
/*double t34;*/ |
/*double t34;*/ |
int i,j, nc, ii, jj; |
int i,j, nc, ii, jj; |
|
|
for(i=1; i<= nlstate; i++){ |
for(i=1; i<= nlstate; i++){ |
for(j=1; j<i;j++){ |
for(j=1; j<i;j++){ |
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
/*lnpijopii += param[i][j][nc]*cov[nc];*/ |
/*lnpijopii += param[i][j][nc]*cov[nc];*/ |
lnpijopii += x[nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel]*cov[nc]; |
lnpijopii += x[nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel]*cov[nc]; |
/* printf("Int j<i s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
/* printf("Int j<i s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
} |
} |
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
/* printf("s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
/* printf("s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
} |
} |
for(j=i+1; j<=nlstate+ndeath;j++){ |
for(j=i+1; j<=nlstate+ndeath;j++){ |
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
/*lnpijopii += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];*/ |
/*lnpijopii += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];*/ |
lnpijopii += x[nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel]*cov[nc]; |
lnpijopii += x[nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel]*cov[nc]; |
/* printf("Int j>i s1=%.17e, lnpijopii=%.17e %lx %lx\n",s1,lnpijopii,s1,lnpijopii); */ |
/* printf("Int j>i s1=%.17e, lnpijopii=%.17e %lx %lx\n",s1,lnpijopii,s1,lnpijopii); */ |
} |
} |
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
} |
} |
} |
} |
|
|
for(i=1; i<= nlstate; i++){ |
for(i=1; i<= nlstate; i++){ |
s1=0; |
s1=0; |
for(j=1; j<i; j++){ |
for(j=1; j<i; j++){ |
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
/*printf("debug1 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
/*printf("debug1 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
} |
} |
for(j=i+1; j<=nlstate+ndeath; j++){ |
for(j=i+1; j<=nlstate+ndeath; j++){ |
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
/*printf("debug2 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
/*printf("debug2 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
} |
} |
/* s1= sum_{j<>i} pij/pii=(1-pii)/pii and thus pii is known from s1 */ |
/* s1= sum_{j<>i} pij/pii=(1-pii)/pii and thus pii is known from s1 */ |
ps[i][i]=1./(s1+1.); |
ps[i][i]=1./(s1+1.); |
/* Computing other pijs */ |
/* Computing other pijs */ |
for(j=1; j<i; j++) |
for(j=1; j<i; j++) |
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
for(j=i+1; j<=nlstate+ndeath; j++) |
for(j=i+1; j<=nlstate+ndeath; j++) |
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
/* ps[i][nlstate+1]=1.-s1- ps[i][i];*/ /* Sum should be 1 */ |
/* ps[i][nlstate+1]=1.-s1- ps[i][i];*/ /* Sum should be 1 */ |
} /* end i */ |
} /* end i */ |
|
|
for(ii=nlstate+1; ii<= nlstate+ndeath; ii++){ |
for(ii=nlstate+1; ii<= nlstate+ndeath; ii++){ |
for(jj=1; jj<= nlstate+ndeath; jj++){ |
for(jj=1; jj<= nlstate+ndeath; jj++){ |
ps[ii][jj]=0; |
ps[ii][jj]=0; |
ps[ii][ii]=1; |
ps[ii][ii]=1; |
} |
} |
} |
} |
|
|
|
|
/* for(ii=1; ii<= nlstate+ndeath; ii++){ */ |
/* for(ii=1; ii<= nlstate+ndeath; ii++){ */ |
/* for(jj=1; jj<= nlstate+ndeath; jj++){ */ |
/* for(jj=1; jj<= nlstate+ndeath; jj++){ */ |
/* printf(" pmij ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */ |
/* printf(" pmij ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */ |
/* } */ |
/* } */ |
/* printf("\n "); */ |
/* printf("\n "); */ |
/* } */ |
/* } */ |
/* printf("\n ");printf("%lf ",cov[2]);*/ |
/* printf("\n ");printf("%lf ",cov[2]);*/ |
/* |
/* |
for(i=1; i<= npar; i++) printf("%f ",x[i]); |
for(i=1; i<= npar; i++) printf("%f ",x[i]); |
goto end;*/ |
goto end;*/ |
return ps; |
return ps; |
|
} |
|
|
|
/*************** backward transition probabilities ***************/ |
|
|
|
/* double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate, double ***prevacurrent, double ageminpar, double agemaxpar, double ***dnewm, double **doldm, double **dsavm, int ij ) */ |
|
/* double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate, double ***prevacurrent, double ***dnewm, double **doldm, double **dsavm, int ij ) */ |
|
double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate, double ***prevacurrent, int ij ) |
|
{ |
|
/* Computes the backward probability at age agefin and covariate ij |
|
* and returns in **ps as well as **bmij. |
|
*/ |
|
int i, ii, j,k; |
|
|
|
double **out, **pmij(); |
|
double sumnew=0.; |
|
double agefin; |
|
|
|
double **dnewm, **dsavm, **doldm; |
|
double **bbmij; |
|
|
|
doldm=ddoldms; /* global pointers */ |
|
dnewm=ddnewms; |
|
dsavm=ddsavms; |
|
|
|
agefin=cov[2]; |
|
/* bmij *//* age is cov[2], ij is included in cov, but we need for |
|
the observed prevalence (with this covariate ij) */ |
|
dsavm=pmij(pmmij,cov,ncovmodel,x,nlstate); |
|
/* We do have the matrix Px in savm and we need pij */ |
|
for (j=1;j<=nlstate+ndeath;j++){ |
|
sumnew=0.; /* w1 p11 + w2 p21 only on live states */ |
|
for (ii=1;ii<=nlstate;ii++){ |
|
sumnew+=dsavm[ii][j]*prevacurrent[(int)agefin][ii][ij]; |
|
} /* sumnew is (N11+N21)/N..= N.1/N.. = sum on i of w_i pij */ |
|
for (ii=1;ii<=nlstate+ndeath;ii++){ |
|
if(sumnew >= 1.e-10){ |
|
/* if(agefin >= agemaxpar && agefin <= agemaxpar+stepm/YEARM){ */ |
|
/* doldm[ii][j]=(ii==j ? 1./sumnew : 0.0); */ |
|
/* }else if(agefin >= agemaxpar+stepm/YEARM){ */ |
|
/* doldm[ii][j]=(ii==j ? 1./sumnew : 0.0); */ |
|
/* }else */ |
|
doldm[ii][j]=(ii==j ? 1./sumnew : 0.0); |
|
}else{ |
|
printf("ii=%d, i=%d, doldm=%lf dsavm=%lf, probs=%lf, sumnew=%lf,agefin=%d\n",ii,j,doldm[ii][j],dsavm[ii][j],prevacurrent[(int)agefin][ii][ij],sumnew, (int)agefin); |
|
} |
|
} /*End ii */ |
|
} /* End j, At the end doldm is diag[1/(w_1p1i+w_2 p2i)] */ |
|
/* left Product of this diag matrix by dsavm=Px (newm=dsavm*doldm) */ |
|
bbmij=matprod2(dnewm, dsavm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, doldm); /* Bug Valgrind */ |
|
/* dsavm=doldm; /\* dsavm is now diag [1/(w_1p1i+w_2 p2i)] but can be overwritten*\/ */ |
|
/* doldm=dnewm; /\* doldm is now Px * diag [1/(w_1p1i+w_2 p2i)] *\/ */ |
|
/* dnewm=dsavm; /\* doldm is now Px * diag [1/(w_1p1i+w_2 p2i)] *\/ */ |
|
/* left Product of this matrix by diag matrix of prevalences (savm) */ |
|
for (j=1;j<=nlstate+ndeath;j++){ |
|
for (ii=1;ii<=nlstate+ndeath;ii++){ |
|
dsavm[ii][j]=(ii==j ? prevacurrent[(int)agefin][ii][ij] : 0.0); |
|
} |
|
} /* End j, At the end oldm is diag[1/(w_1p1i+w_2 p2i)] */ |
|
ps=matprod2(doldm, dsavm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, dnewm); /* Bug Valgrind */ |
|
/* newm or out is now diag[w_i] * Px * diag [1/(w_1p1i+w_2 p2i)] */ |
|
/* end bmij */ |
|
return ps; |
} |
} |
|
/*************** transition probabilities ***************/ |
|
|
|
double **bpmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
|
{ |
|
/* According to parameters values stored in x and the covariate's values stored in cov, |
|
computes the probability to be observed in state j being in state i by appying the |
|
model to the ncovmodel covariates (including constant and age). |
|
lnpijopii=ln(pij/pii)= aij+bij*age+cij*v1+dij*v2+... = sum_nc=1^ncovmodel xij(nc)*cov[nc] |
|
and, according on how parameters are entered, the position of the coefficient xij(nc) of the |
|
ncth covariate in the global vector x is given by the formula: |
|
j<i nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel |
|
j>=i nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel |
|
Computes ln(pij/pii) (lnpijopii), deduces pij/pii by exponentiation, |
|
sums on j different of i to get 1-pii/pii, deduces pii, and then all pij. |
|
Outputs ps[i][j] the probability to be observed in j being in j according to |
|
the values of the covariates cov[nc] and corresponding parameter values x[nc+shiftij] |
|
*/ |
|
double s1, lnpijopii; |
|
/*double t34;*/ |
|
int i,j, nc, ii, jj; |
|
|
|
for(i=1; i<= nlstate; i++){ |
|
for(j=1; j<i;j++){ |
|
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
|
/*lnpijopii += param[i][j][nc]*cov[nc];*/ |
|
lnpijopii += x[nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel]*cov[nc]; |
|
/* printf("Int j<i s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
|
} |
|
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
|
/* printf("s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
|
} |
|
for(j=i+1; j<=nlstate+ndeath;j++){ |
|
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
|
/*lnpijopii += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];*/ |
|
lnpijopii += x[nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel]*cov[nc]; |
|
/* printf("Int j>i s1=%.17e, lnpijopii=%.17e %lx %lx\n",s1,lnpijopii,s1,lnpijopii); */ |
|
} |
|
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
|
} |
|
} |
|
|
|
for(i=1; i<= nlstate; i++){ |
|
s1=0; |
|
for(j=1; j<i; j++){ |
|
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
|
/*printf("debug1 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
|
} |
|
for(j=i+1; j<=nlstate+ndeath; j++){ |
|
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
|
/*printf("debug2 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
|
} |
|
/* s1= sum_{j<>i} pij/pii=(1-pii)/pii and thus pii is known from s1 */ |
|
ps[i][i]=1./(s1+1.); |
|
/* Computing other pijs */ |
|
for(j=1; j<i; j++) |
|
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
|
for(j=i+1; j<=nlstate+ndeath; j++) |
|
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
|
/* ps[i][nlstate+1]=1.-s1- ps[i][i];*/ /* Sum should be 1 */ |
|
} /* end i */ |
|
|
|
for(ii=nlstate+1; ii<= nlstate+ndeath; ii++){ |
|
for(jj=1; jj<= nlstate+ndeath; jj++){ |
|
ps[ii][jj]=0; |
|
ps[ii][ii]=1; |
|
} |
|
} |
|
/* Added for backcast */ /* Transposed matrix too */ |
|
for(jj=1; jj<= nlstate+ndeath; jj++){ |
|
s1=0.; |
|
for(ii=1; ii<= nlstate+ndeath; ii++){ |
|
s1+=ps[ii][jj]; |
|
} |
|
for(ii=1; ii<= nlstate; ii++){ |
|
ps[ii][jj]=ps[ii][jj]/s1; |
|
} |
|
} |
|
/* Transposition */ |
|
for(jj=1; jj<= nlstate+ndeath; jj++){ |
|
for(ii=jj; ii<= nlstate+ndeath; ii++){ |
|
s1=ps[ii][jj]; |
|
ps[ii][jj]=ps[jj][ii]; |
|
ps[jj][ii]=s1; |
|
} |
|
} |
|
/* for(ii=1; ii<= nlstate+ndeath; ii++){ */ |
|
/* for(jj=1; jj<= nlstate+ndeath; jj++){ */ |
|
/* printf(" pmij ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */ |
|
/* } */ |
|
/* printf("\n "); */ |
|
/* } */ |
|
/* printf("\n ");printf("%lf ",cov[2]);*/ |
|
/* |
|
for(i=1; i<= npar; i++) printf("%f ",x[i]); |
|
goto end;*/ |
|
return ps; |
|
} |
|
|
|
|
/**************** Product of 2 matrices ******************/ |
/**************** Product of 2 matrices ******************/ |
|
|
Line 2204 double **matprod2(double **out, double *
|
Line 2570 double **matprod2(double **out, double *
|
|
|
double ***hpxij(double ***po, int nhstepm, double age, int hstepm, double *x, int nlstate, int stepm, double **oldm, double **savm, int ij ) |
double ***hpxij(double ***po, int nhstepm, double age, int hstepm, double *x, int nlstate, int stepm, double **oldm, double **savm, int ij ) |
{ |
{ |
/* Computes the transition matrix starting at age 'age' over |
/* Computes the transition matrix starting at age 'age' and combination of covariate values corresponding to ij over |
'nhstepm*hstepm*stepm' months (i.e. until |
'nhstepm*hstepm*stepm' months (i.e. until |
age (in years) age+nhstepm*hstepm*stepm/12) by multiplying |
age (in years) age+nhstepm*hstepm*stepm/12) by multiplying |
nhstepm*hstepm matrices. |
nhstepm*hstepm matrices. |
Line 2220 double ***hpxij(double ***po, int nhstep
|
Line 2586 double ***hpxij(double ***po, int nhstep
|
double **out, cov[NCOVMAX+1]; |
double **out, cov[NCOVMAX+1]; |
double **newm; |
double **newm; |
double agexact; |
double agexact; |
|
double agebegin, ageend; |
|
|
/* Hstepm could be zero and should return the unit matrix */ |
/* Hstepm could be zero and should return the unit matrix */ |
for (i=1;i<=nlstate+ndeath;i++) |
for (i=1;i<=nlstate+ndeath;i++) |
Line 2233 double ***hpxij(double ***po, int nhstep
|
Line 2600 double ***hpxij(double ***po, int nhstep
|
newm=savm; |
newm=savm; |
/* Covariates have to be included here again */ |
/* Covariates have to be included here again */ |
cov[1]=1.; |
cov[1]=1.; |
agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; |
agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; /* age just before transition */ |
cov[2]=agexact; |
cov[2]=agexact; |
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]][codtabm(ij,k)]; |
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
/* 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]]][codtabm(ij,k)]*cov[2]; |
cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; |
/* cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,Tvar[Tage[k]])]*cov[2]; */ |
/* 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]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; |
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; |
/* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,Tvard[k][1])]*nbcode[Tvard[k][2]][codtabm(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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/*printf("hxi cptcov=%d cptcode=%d\n",cptcov,cptcode);*/ |
/*printf("hxi cptcov=%d cptcode=%d\n",cptcov,cptcode);*/ |
/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
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/* right multiplication of oldm by the current matrix */ |
out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, |
out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, |
pmij(pmmij,cov,ncovmodel,x,nlstate)); |
pmij(pmmij,cov,ncovmodel,x,nlstate)); |
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/* if((int)age == 70){ */ |
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/* printf(" Forward hpxij age=%d agexact=%f d=%d nhstepm=%d hstepm=%d\n", (int) age, agexact, d, nhstepm, hstepm); */ |
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/* for(i=1; i<=nlstate+ndeath; i++) { */ |
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/* printf("%d pmmij ",i); */ |
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/* for(j=1;j<=nlstate+ndeath;j++) { */ |
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/* printf("%f ",pmmij[i][j]); */ |
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/* } */ |
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/* printf(" oldm "); */ |
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/* for(j=1;j<=nlstate+ndeath;j++) { */ |
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/* printf("%f ",oldm[i][j]); */ |
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/* } */ |
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/* printf("\n"); */ |
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/* } */ |
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/* } */ |
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savm=oldm; |
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oldm=newm; |
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} |
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for(i=1; i<=nlstate+ndeath; i++) |
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for(j=1;j<=nlstate+ndeath;j++) { |
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po[i][j][h]=newm[i][j]; |
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/*if(h==nhstepm) printf("po[%d][%d][%d]=%f ",i,j,h,po[i][j][h]);*/ |
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} |
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/*printf("h=%d ",h);*/ |
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} /* end h */ |
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/* printf("\n H=%d \n",h); */ |
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return po; |
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} |
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/************* Higher Back Matrix Product ***************/ |
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/* double ***hbxij(double ***po, int nhstepm, double age, int hstepm, double *x, double ***prevacurrent, int nlstate, int stepm, double **oldm, double **savm, double **dnewm, double **doldm, double **dsavm, int ij ) */ |
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double ***hbxij(double ***po, int nhstepm, double age, int hstepm, double *x, double ***prevacurrent, int nlstate, int stepm, int ij ) |
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{ |
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/* Computes the transition matrix starting at age 'age' over |
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'nhstepm*hstepm*stepm' months (i.e. until |
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age (in years) age+nhstepm*hstepm*stepm/12) by multiplying |
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nhstepm*hstepm matrices. |
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Output is stored in matrix po[i][j][h] for h every 'hstepm' step |
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(typically every 2 years instead of every month which is too big |
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for the memory). |
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Model is determined by parameters x and covariates have to be |
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included manually here. |
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*/ |
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int i, j, d, h, k; |
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double **out, cov[NCOVMAX+1]; |
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double **newm; |
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double agexact; |
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double agebegin, ageend; |
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double **oldm, **savm; |
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oldm=oldms;savm=savms; |
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/* Hstepm could be zero and should return the unit matrix */ |
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for (i=1;i<=nlstate+ndeath;i++) |
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for (j=1;j<=nlstate+ndeath;j++){ |
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oldm[i][j]=(i==j ? 1.0 : 0.0); |
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po[i][j][0]=(i==j ? 1.0 : 0.0); |
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} |
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/* Even if hstepm = 1, at least one multiplication by the unit matrix */ |
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for(h=1; h <=nhstepm; h++){ |
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for(d=1; d <=hstepm; d++){ |
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newm=savm; |
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/* Covariates have to be included here again */ |
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cov[1]=1.; |
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agexact=age-((h-1)*hstepm + (d-1))*stepm/YEARM; /* age just before transition */ |
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/* agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; /\* age just before transition *\/ */ |
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cov[2]=agexact; |
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if(nagesqr==1) |
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cov[3]= agexact*agexact; |
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for (k=1; k<=cptcovn;k++) |
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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])]; */ |
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for (k=1; k<=cptcovage;k++) /* Should start at cptcovn+1 */ |
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/* cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
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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]; */ |
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for (k=1; k<=cptcovprod;k++) /* Useless because included in cptcovn */ |
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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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/* 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);*/ |
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/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
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/* Careful transposed matrix */ |
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/* age is in cov[2] */ |
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/* out=matprod2(newm, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent, dnewm, doldm, dsavm,ij),\ */ |
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/* 1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); */ |
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out=matprod2(newm, bmij(pmmij,cov,ncovmodel,x,nlstate,prevacurrent,ij),\ |
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1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); |
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/* if((int)age == 70){ */ |
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/* printf(" Backward hbxij age=%d agexact=%f d=%d nhstepm=%d hstepm=%d\n", (int) age, agexact, d, nhstepm, hstepm); */ |
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/* for(i=1; i<=nlstate+ndeath; i++) { */ |
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/* printf("%d pmmij ",i); */ |
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/* for(j=1;j<=nlstate+ndeath;j++) { */ |
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/* printf("%f ",pmmij[i][j]); */ |
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/* } */ |
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/* printf(" oldm "); */ |
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/* for(j=1;j<=nlstate+ndeath;j++) { */ |
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/* printf("%f ",oldm[i][j]); */ |
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/* } */ |
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/* printf("\n"); */ |
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/* } */ |
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/* } */ |
savm=oldm; |
savm=oldm; |
oldm=newm; |
oldm=newm; |
} |
} |
for(i=1; i<=nlstate+ndeath; i++) |
for(i=1; i<=nlstate+ndeath; i++) |
for(j=1;j<=nlstate+ndeath;j++) { |
for(j=1;j<=nlstate+ndeath;j++) { |
po[i][j][h]=newm[i][j]; |
po[i][j][h]=newm[i][j]; |
/*if(h==nhstepm) printf("po[%d][%d][%d]=%f ",i,j,h,po[i][j][h]);*/ |
/*if(h==nhstepm) printf("po[%d][%d][%d]=%f ",i,j,h,po[i][j][h]);*/ |
} |
} |
/*printf("h=%d ",h);*/ |
/*printf("h=%d ",h);*/ |
} /* end h */ |
} /* end h */ |
/* printf("\n H=%d \n",h); */ |
/* printf("\n H=%d \n",h); */ |
return po; |
return po; |
} |
} |
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#ifdef NLOPT |
#ifdef NLOPT |
double myfunc(unsigned n, const double *p1, double *grad, void *pd){ |
double myfunc(unsigned n, const double *p1, double *grad, void *pd){ |
double fret; |
double fret; |
Line 2410 double func( double *x)
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Line 2882 double func( double *x)
|
/* else */ |
/* else */ |
/* lli=log(out[s1][s2] - savm[s1][s2]); */ |
/* lli=log(out[s1][s2] - savm[s1][s2]); */ |
/* #endif */ |
/* #endif */ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
|
|
} else if (s2==-2) { |
} else if ( s2==-1 ) { /* alive */ |
for (j=1,survp=0. ; j<=nlstate; j++) |
for (j=1,survp=0. ; j<=nlstate; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
/*survp += out[s1][j]; */ |
/*survp += out[s1][j]; */ |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
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 += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
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 += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
else{ |
else{ |
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 */ |
/* 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 2542 double func( double *x)
|
Line 3011 double func( double *x)
|
s2=s[mw[mi+1][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
if( s2 > nlstate){ |
if( s2 > nlstate){ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
|
} else if ( s2==-1 ) { /* alive */ |
|
for (j=1,survp=0. ; j<=nlstate; j++) |
|
survp += out[s1][j]; |
|
lli= log(survp); |
}else{ |
}else{ |
lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]); /* Original formula */ |
lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]); /* Original formula */ |
} |
} |
Line 2604 double funcone( double *x)
|
Line 3077 double funcone( double *x)
|
int s1, s2; |
int s1, s2; |
double bbh, survp; |
double bbh, survp; |
double agexact; |
double agexact; |
|
double agebegin, ageend; |
/*extern weight */ |
/*extern weight */ |
/* We are differentiating ll according to initial status */ |
/* We are differentiating ll according to initial status */ |
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
Line 2622 double funcone( double *x)
|
Line 3096 double funcone( double *x)
|
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
savm[ii][j]=(ii==j ? 1.0 : 0.0); |
savm[ii][j]=(ii==j ? 1.0 : 0.0); |
} |
} |
for(d=0; d<dh[mi][i]; d++){ |
|
|
agebegin=agev[mw[mi][i]][i]; /* Age at beginning of effective wave */ |
|
ageend=agev[mw[mi][i]][i] + (dh[mi][i])*stepm/YEARM; /* Age at end of effective wave and at the end of transition */ |
|
for(d=0; d<dh[mi][i]; d++){ /* Delay between two effective waves */ |
|
/*dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective waves m=mw[mi][i] |
|
and mw[mi+1][i]. dh depends on stepm.*/ |
newm=savm; |
newm=savm; |
agexact=agev[mw[mi][i]][i]+d*stepm/YEARM; |
agexact=agev[mw[mi][i]][i]+d*stepm/YEARM; |
cov[2]=agexact; |
cov[2]=agexact; |
Line 2643 double funcone( double *x)
|
Line 3122 double funcone( double *x)
|
|
|
s1=s[mw[mi][i]][i]; |
s1=s[mw[mi][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
|
/* if(s2==-1){ */ |
|
/* printf(" s1=%d, s2=%d i=%d \n", s1, s2, i); */ |
|
/* /\* exit(1); *\/ */ |
|
/* } */ |
bbh=(double)bh[mi][i]/(double)stepm; |
bbh=(double)bh[mi][i]/(double)stepm; |
/* bias is positive if real duration |
/* bias is positive if real duration |
* is higher than the multiple of stepm and negative otherwise. |
* is higher than the multiple of stepm and negative otherwise. |
*/ |
*/ |
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 (s2==-2) { |
} else if ( s2==-1 ) { /* alive */ |
for (j=1,survp=0. ; j<=nlstate; j++) |
for (j=1,survp=0. ; j<=nlstate; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
Line 2670 double funcone( double *x)
|
Line 3153 double funcone( double *x)
|
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 %6.1f %6d %2d %2d %2d %2d %3d %11.6f %8.4f %8.3f\ |
fprintf(ficresilk,"%9ld %6.1f %6.1f %6d %2d %2d %2d %2d %3d %11.6f %8.4f %8.3f\ |
%11.6f %11.6f %11.6f ", \ |
%11.6f %11.6f %11.6f ", \ |
num[i], agexact, i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],weight[i]*gipmx/gsw, |
num[i], agebegin, ageend, i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],weight[i]*gipmx/gsw, |
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 2710 void likelione(FILE *ficres,double p[],
|
Line 3193 void likelione(FILE *ficres,double p[],
|
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) count age s1 s2 wave# effective_wave# number_of_matrices_product pij weight weight/gpw -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) count ageb ageend s1 s2 wave# effective_wave# number_of_matrices_product pij weight weight/gpw -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 age i s1 s2 mi mw dh likeli weight %%weight 2wlli out sav "); |
fprintf(ficresilk, "#num_i ageb agend i s1 s2 mi mw dh likeli weight %%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 3028 double hessij( double x[], double **hess
|
Line 3511 double hessij( double x[], double **hess
|
kmax=kmax+10; |
kmax=kmax+10; |
} |
} |
if(kmax >=10 || firstime ==1){ |
if(kmax >=10 || firstime ==1){ |
printf("Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol); |
printf("Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; you may increase ftol=%.2e\n",thetai,thetaj, ftol); |
fprintf(ficlog,"Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol); |
fprintf(ficlog,"Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; you may increase ftol=%.2e\n",thetai,thetaj, ftol); |
printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4); |
printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4); |
fprintf(ficlog,"%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4); |
fprintf(ficlog,"%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4); |
} |
} |
Line 3185 void pstamp(FILE *fichier)
|
Line 3668 void pstamp(FILE *fichier)
|
} |
} |
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/************ Frequencies ********************/ |
/************ Frequencies ********************/ |
void freqsummary(char fileres[], int iagemin, int iagemax, int **s, double **agev, int nlstate, int imx, int *Tvaraff, int **nbcode, int *ncodemax,double **mint,double **anint, char strstart[]) |
void freqsummary(char fileres[], int iagemin, int iagemax, int **s, double **agev, int nlstate, int imx, \ |
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int *Tvaraff, int **nbcode, int *ncodemax,double **mint,double **anint, char strstart[],\ |
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int firstpass, int lastpass, int stepm, int weightopt, char model[]) |
{ /* Some frequencies */ |
{ /* Some frequencies */ |
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int i, m, jk, j1, bool, z1,j; |
int i, m, jk, j1, bool, z1,j; |
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int mi; /* Effective wave */ |
int first; |
int first; |
double ***freq; /* Frequencies */ |
double ***freq; /* Frequencies */ |
double *pp, **prop; |
double *pp, **prop; |
double pos,posprop, k2, dateintsum=0,k2cpt=0; |
double pos,posprop, k2, dateintsum=0,k2cpt=0; |
char fileresp[FILENAMELENGTH]; |
char fileresp[FILENAMELENGTH], fileresphtm[FILENAMELENGTH], fileresphtmfr[FILENAMELENGTH]; |
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double agebegin, ageend; |
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pp=vector(1,nlstate); |
pp=vector(1,nlstate); |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
prop=matrix(1,nlstate,iagemin-AGEMARGE,iagemax+3+AGEMARGE); |
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/* prop=matrix(1,nlstate,iagemin,iagemax+3); */ |
strcpy(fileresp,"P_"); |
strcpy(fileresp,"P_"); |
strcat(fileresp,fileresu); |
strcat(fileresp,fileresu); |
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/*strcat(fileresphtm,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); |
exit(0); |
exit(0); |
} |
} |
freq= ma3x(-5,nlstate+ndeath,-5,nlstate+ndeath,iagemin,iagemax+3); |
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strcpy(fileresphtm,subdirfext(optionfilefiname,"PHTM_",".htm")); |
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if((ficresphtm=fopen(fileresphtm,"w"))==NULL) { |
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printf("Problem with prevalence HTM resultfile '%s' with errno='%s'\n",fileresphtm,strerror(errno)); |
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fprintf(ficlog,"Problem with prevalence HTM resultfile '%s' with errno='%s'\n",fileresphtm,strerror(errno)); |
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fflush(ficlog); |
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exit(70); |
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} |
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else{ |
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fprintf(ficresphtm,"<html><head>\n<title>IMaCh PHTM_ %s</title></head>\n <body><font size=\"2\">%s <br> %s</font> \ |
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<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
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Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s<br>\n",\ |
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fileresphtm,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
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} |
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fprintf(ficresphtm,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Frequencies and prevalence by age at begin of transition</h4>\n",fileresphtm, fileresphtm); |
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strcpy(fileresphtmfr,subdirfext(optionfilefiname,"PHTMFR_",".htm")); |
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if((ficresphtmfr=fopen(fileresphtmfr,"w"))==NULL) { |
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printf("Problem with frequency table HTM resultfile '%s' with errno='%s'\n",fileresphtmfr,strerror(errno)); |
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fprintf(ficlog,"Problem with frequency table HTM resultfile '%s' with errno='%s'\n",fileresphtmfr,strerror(errno)); |
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fflush(ficlog); |
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exit(70); |
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} |
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else{ |
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fprintf(ficresphtmfr,"<html><head>\n<title>IMaCh PHTM_Frequency table %s</title></head>\n <body><font size=\"2\">%s <br> %s</font> \ |
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<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
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Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s<br>\n",\ |
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fileresphtmfr,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
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} |
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fprintf(ficresphtmfr,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Frequencies of all effective transitions by age at begin of transition </h4>Unknown status is -1<br/>\n",fileresphtmfr, fileresphtmfr); |
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freq= ma3x(-5,nlstate+ndeath,-5,nlstate+ndeath,iagemin-AGEMARGE,iagemax+3+AGEMARGE); |
j1=0; |
j1=0; |
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j=cptcoveff; |
j=cptcoveff; |
Line 3212 void freqsummary(char fileres[], int ia
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Line 3732 void freqsummary(char fileres[], int ia
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first=1; |
first=1; |
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/* for(k1=1; k1<=j ; k1++){ */ /* Loop on covariates */ |
for (j1 = 1; j1 <= (int) pow(2,cptcoveff); j1++){ /* Loop on covariates combination */ |
/* for(i1=1; i1<=ncodemax[k1];i1++){ */ /* Now it is 2 */ |
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/* j1++; */ |
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for (j1 = 1; j1 <= (int) pow(2,cptcoveff); j1++){ |
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/*printf("cptcoveff=%d Tvaraff=%d", cptcoveff,Tvaraff[1]); |
/*printf("cptcoveff=%d Tvaraff=%d", cptcoveff,Tvaraff[1]); |
scanf("%d", i);*/ |
scanf("%d", i);*/ |
for (i=-5; i<=nlstate+ndeath; i++) |
for (i=-5; i<=nlstate+ndeath; i++) |
Line 3229 void freqsummary(char fileres[], int ia
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Line 3746 void freqsummary(char fileres[], int ia
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dateintsum=0; |
dateintsum=0; |
k2cpt=0; |
k2cpt=0; |
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { /* For each individual i */ |
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++) |
Line 3242 void freqsummary(char fileres[], int ia
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Line 3759 void freqsummary(char fileres[], int ia
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/* For j1=7 in V1+V2+V3+V4 = 0 1 1 0 and codtabm(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*/ |
} |
} |
} /* cptcovn > 0 */ |
} /* cptcovn > 0 */ |
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if (bool==1){ |
if (bool==1){ |
for(m=firstpass; m<=lastpass; m++){ |
/* for(m=firstpass; m<=lastpass; m++){ */ |
k2=anint[m][i]+(mint[m][i]/12.); |
for(mi=1; mi<wav[i];mi++){ |
/*if ((k2>=dateprev1) && (k2<=dateprev2)) {*/ |
m=mw[mi][i]; |
if(agev[m][i]==0) agev[m][i]=iagemax+1; |
/* dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective (mi) waves m=mw[mi][i] |
if(agev[m][i]==1) agev[m][i]=iagemax+2; |
and mw[mi+1][i]. dh depends on stepm. */ |
if (s[m][i]>0 && s[m][i]<=nlstate) prop[s[m][i]][(int)agev[m][i]] += weight[i]; |
agebegin=agev[m][i]; /* Age at beginning of wave before transition*/ |
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ageend=agev[m][i]+(dh[m][i])*stepm/YEARM; /* Age at end of wave and transition */ |
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if(m >=firstpass && m <=lastpass){ |
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k2=anint[m][i]+(mint[m][i]/12.); |
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/*if ((k2>=dateprev1) && (k2<=dateprev2)) {*/ |
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if(agev[m][i]==0) agev[m][i]=iagemax+1; /* All ages equal to 0 are in iagemax+1 */ |
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if(agev[m][i]==1) agev[m][i]=iagemax+2; /* All ages equal to 1 are in iagemax+2 */ |
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if (s[m][i]>0 && s[m][i]<=nlstate) /* If status at wave m is known and a live state */ |
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prop[s[m][i]][(int)agev[m][i]] += weight[i]; /* At age of beginning of transition, where status is known */ |
if (m<lastpass) { |
if (m<lastpass) { |
freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i]; |
/* if(s[m][i]==4 && s[m+1][i]==4) */ |
freq[s[m][i]][s[m+1][i]][iagemax+3] += weight[i]; |
/* printf(" num=%ld m=%d, i=%d s1=%d s2=%d agev at m=%d\n", num[i], m, i,s[m][i],s[m+1][i], (int)agev[m][i]); */ |
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if(s[m][i]==-1) |
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printf(" num=%ld m=%d, i=%d s1=%d s2=%d agev at m=%d agebegin=%.2f ageend=%.2f, agemed=%d\n", num[i], m, i,s[m][i],s[m+1][i], (int)agev[m][i],agebegin, ageend, (int)((agebegin+ageend)/2.)); |
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freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i]; /* At age of beginning of transition, where status is known */ |
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/* freq[s[m][i]][s[m+1][i]][(int)((agebegin+ageend)/2.)] += weight[i]; */ |
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freq[s[m][i]][s[m+1][i]][iagemax+3] += weight[i]; /* Total is in iagemax+3 *//* At age of beginning of transition, where status is known */ |
} |
} |
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} |
if ((agev[m][i]>1) && (agev[m][i]< (iagemax+3)) && (anint[m][i]!=9999) && (mint[m][i]!=99)) { |
if ((agev[m][i]>1) && (agev[m][i]< (iagemax+3)) && (anint[m][i]!=9999) && (mint[m][i]!=99)) { |
dateintsum=dateintsum+k2; |
dateintsum=dateintsum+k2; |
k2cpt++; |
k2cpt++; |
/* printf("i=%ld dateintmean = %lf dateintsum=%lf k2cpt=%lf k2=%lf\n",i, dateintsum/k2cpt, dateintsum,k2cpt, k2); */ |
/* printf("i=%ld dateintmean = %lf dateintsum=%lf k2cpt=%lf k2=%lf\n",i, dateintsum/k2cpt, dateintsum,k2cpt, k2); */ |
} |
} |
/*}*/ |
/*}*/ |
} /* end m */ |
} /* end m */ |
} /* end bool */ |
} /* end bool */ |
} /* end i = 1 to imx */ |
} /* end i = 1 to imx */ |
Line 3269 void freqsummary(char fileres[], int ia
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Line 3799 void freqsummary(char fileres[], int ia
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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]][codtabm(j1,z1)]); |
fprintf(ficresphtm, "\n<br/><br/><h3>********** Variable "); |
fprintf(ficresp, "**********\n#"); |
fprintf(ficresphtmfr, "\n<br/><br/><h3>********** Variable "); |
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for (z1=1; z1<=cptcoveff; z1++){ |
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fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
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fprintf(ficresphtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
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fprintf(ficresphtmfr, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
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} |
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fprintf(ficresp, "**********\n#"); |
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fprintf(ficresphtm, "**********</h3>\n"); |
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fprintf(ficresphtmfr, "**********</h3>\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]][codtabm(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++) |
fprintf(ficresphtm,"<table style=\"text-align:center; border: 1px solid\">"); |
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for(i=1; i<=nlstate;i++) { |
fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i); |
fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i); |
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fprintf(ficresphtm, "<th>Age</th><th>Prev(%d)</th><th>N(%d)</th><th>N</th>",i,i); |
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} |
fprintf(ficresp, "\n"); |
fprintf(ficresp, "\n"); |
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fprintf(ficresphtm, "\n"); |
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/* Header of frequency table by age */ |
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fprintf(ficresphtmfr,"<table style=\"text-align:center; border: 1px solid\">"); |
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fprintf(ficresphtmfr,"<th>Age</th> "); |
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for(jk=-1; jk <=nlstate+ndeath; jk++){ |
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for(m=-1; m <=nlstate+ndeath; m++){ |
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if(jk!=0 && m!=0) |
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fprintf(ficresphtmfr,"<th>%d%d</th> ",jk,m); |
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} |
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} |
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fprintf(ficresphtmfr, "\n"); |
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/* For each age */ |
for(i=iagemin; i <= iagemax+3; i++){ |
for(i=iagemin; i <= iagemax+3; i++){ |
if(i==iagemax+3){ |
fprintf(ficresphtm,"<tr>"); |
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if(i==iagemax+1){ |
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fprintf(ficlog,"1"); |
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fprintf(ficresphtmfr,"<tr><th>0</th> "); |
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}else if(i==iagemax+2){ |
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fprintf(ficlog,"0"); |
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fprintf(ficresphtmfr,"<tr><th>Unknown</th> "); |
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}else if(i==iagemax+3){ |
fprintf(ficlog,"Total"); |
fprintf(ficlog,"Total"); |
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fprintf(ficresphtmfr,"<tr><th>Total</th> "); |
}else{ |
}else{ |
if(first==1){ |
if(first==1){ |
first=0; |
first=0; |
printf("See log file for details...\n"); |
printf("See log file for details...\n"); |
} |
} |
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fprintf(ficresphtmfr,"<tr><th>%d</th> ",i); |
fprintf(ficlog,"Age %d", i); |
fprintf(ficlog,"Age %d", i); |
} |
} |
for(jk=1; jk <=nlstate ; jk++){ |
for(jk=1; jk <=nlstate ; jk++){ |
Line 3329 void freqsummary(char fileres[], int ia
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Line 3892 void freqsummary(char fileres[], int ia
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if( i <= iagemax){ |
if( i <= iagemax){ |
if(pos>=1.e-5){ |
if(pos>=1.e-5){ |
fprintf(ficresp," %d %.5f %.0f %.0f",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
fprintf(ficresp," %d %.5f %.0f %.0f",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
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fprintf(ficresphtm,"<th>%d</th><td>%.5f</td><td>%.0f</td><td>%.0f</td>",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
/*probs[i][jk][j1]= pp[jk]/pos;*/ |
/*probs[i][jk][j1]= pp[jk]/pos;*/ |
/*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/ |
/*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/ |
} |
} |
else |
else{ |
fprintf(ficresp," %d NaNq %.0f %.0f",i,prop[jk][i],posprop); |
fprintf(ficresp," %d NaNq %.0f %.0f",i,prop[jk][i],posprop); |
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fprintf(ficresphtm,"<th>%d</th><td>NaNq</td><td>%.0f</td><td>%.0f</td>",i, prop[jk][i],posprop); |
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} |
} |
} |
} |
} |
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for(jk=-1; jk <=nlstate+ndeath; jk++) |
for(jk=-1; jk <=nlstate+ndeath; jk++){ |
for(m=-1; m <=nlstate+ndeath; m++) |
for(m=-1; m <=nlstate+ndeath; m++){ |
if(freq[jk][m][i] !=0 ) { |
if(freq[jk][m][i] !=0 ) { /* minimizing output */ |
if(first==1) |
if(first==1){ |
printf(" %d%d=%.0f",jk,m,freq[jk][m][i]); |
printf(" %d%d=%.0f",jk,m,freq[jk][m][i]); |
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} |
fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]); |
fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]); |
} |
} |
if(i <= iagemax) |
if(jk!=0 && m!=0) |
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fprintf(ficresphtmfr,"<td>%.0f</td> ",freq[jk][m][i]); |
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} |
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} |
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fprintf(ficresphtmfr,"</tr>\n "); |
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if(i <= iagemax){ |
fprintf(ficresp,"\n"); |
fprintf(ficresp,"\n"); |
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fprintf(ficresphtm,"</tr>\n"); |
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} |
if(first==1) |
if(first==1) |
printf("Others in log...\n"); |
printf("Others in log...\n"); |
fprintf(ficlog,"\n"); |
fprintf(ficlog,"\n"); |
} /* end loop i */ |
} /* end loop i */ |
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fprintf(ficresphtm,"</table>\n"); |
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fprintf(ficresphtmfr,"</table>\n"); |
/*}*/ |
/*}*/ |
} /* end j1 */ |
} /* end j1 */ |
dateintmean=dateintsum/k2cpt; |
dateintmean=dateintsum/k2cpt; |
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fclose(ficresp); |
fclose(ficresp); |
free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin, iagemax+3); |
fclose(ficresphtm); |
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fclose(ficresphtmfr); |
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free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin-AGEMARGE, iagemax+3+AGEMARGE); |
free_vector(pp,1,nlstate); |
free_vector(pp,1,nlstate); |
free_matrix(prop,1,nlstate,iagemin, iagemax+3); |
free_matrix(prop,1,nlstate,iagemin-AGEMARGE, iagemax+3+AGEMARGE); |
/* End of Freq */ |
/* End of Freq */ |
} |
} |
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Line 3370 void prevalence(double ***probs, double
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Line 3948 void prevalence(double ***probs, double
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*/ |
*/ |
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int i, m, jk, j1, bool, z1,j; |
int i, m, jk, j1, bool, z1,j; |
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int mi; /* Effective wave */ |
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int iage; |
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double agebegin, ageend; |
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double **prop; |
double **prop; |
double posprop; |
double posprop; |
Line 3380 void prevalence(double ***probs, double
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Line 3961 void prevalence(double ***probs, double
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iagemin= (int) agemin; |
iagemin= (int) agemin; |
iagemax= (int) agemax; |
iagemax= (int) agemax; |
/*pp=vector(1,nlstate);*/ |
/*pp=vector(1,nlstate);*/ |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
prop=matrix(1,nlstate,iagemin-AGEMARGE,iagemax+3+AGEMARGE); |
/* freq=ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,iagemin,iagemax+3);*/ |
/* freq=ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,iagemin,iagemax+3);*/ |
j1=0; |
j1=0; |
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Line 3389 void prevalence(double ***probs, double
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Line 3970 void prevalence(double ***probs, double
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first=1; |
first=1; |
for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ |
for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ |
/*for(i1=1; i1<=ncodemax[k1];i1++){ |
for (i=1; i<=nlstate; i++) |
j1++;*/ |
for(iage=iagemin-AGEMARGE; iage <= iagemax+3+AGEMARGE; iage++) |
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prop[i][iage]=0.0; |
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for (i=1; i<=imx; i++) { /* Each individual */ |
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bool=1; |
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if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
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for (z1=1; z1<=cptcoveff; z1++) |
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if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]) |
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bool=0; |
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} |
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if (bool==1) { |
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/* for(m=firstpass; m<=lastpass; m++){/\* Other selection (we can limit to certain interviews*\/ */ |
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for(mi=1; mi<wav[i];mi++){ |
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m=mw[mi][i]; |
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agebegin=agev[m][i]; /* Age at beginning of wave before transition*/ |
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/* ageend=agev[m][i]+(dh[m][i])*stepm/YEARM; /\* Age at end of wave and transition *\/ */ |
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if(m >=firstpass && m <=lastpass){ |
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y2=anint[m][i]+(mint[m][i]/12.); /* Fractional date in year */ |
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if ((y2>=dateprev1) && (y2<=dateprev2)) { /* Here is the main selection (fractional years) */ |
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if(agev[m][i]==0) agev[m][i]=iagemax+1; |
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if(agev[m][i]==1) agev[m][i]=iagemax+2; |
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if((int)agev[m][i] <iagemin-AGEMARGE || (int)agev[m][i] >iagemax+3+AGEMARGE){ |
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printf("Error on individual # %d agev[m][i]=%f <%d-%d or > %d+3+%d m=%d; either change agemin or agemax or fix data\n",i, agev[m][i],iagemin,AGEMARGE, iagemax,AGEMARGE,m); |
|
exit(1); |
|
} |
|
if (s[m][i]>0 && s[m][i]<=nlstate) { |
|
/*if(i>4620) printf(" i=%d m=%d s[m][i]=%d (int)agev[m][i]=%d weight[i]=%f prop=%f\n",i,m,s[m][i],(int)agev[m][m],weight[i],prop[s[m][i]][(int)agev[m][i]]);*/ |
|
prop[s[m][i]][(int)agev[m][i]] += weight[i];/* At age of beginning of transition, where status is known */ |
|
prop[s[m][i]][iagemax+3] += weight[i]; |
|
} /* end valid statuses */ |
|
} /* end selection of dates */ |
|
} /* end selection of waves */ |
|
} /* end effective waves */ |
|
} /* end bool */ |
|
} |
|
for(i=iagemin; i <= iagemax+3; i++){ |
|
for(jk=1,posprop=0; jk <=nlstate ; jk++) { |
|
posprop += prop[jk][i]; |
|
} |
|
|
for (i=1; i<=nlstate; i++) |
for(jk=1; jk <=nlstate ; jk++){ |
for(m=iagemin; m <= iagemax+3; m++) |
if( i <= iagemax){ |
prop[i][m]=0.0; |
if(posprop>=1.e-5){ |
|
probs[i][jk][j1]= prop[jk][i]/posprop; |
for (i=1; i<=imx; i++) { /* Each individual */ |
} else{ |
bool=1; |
if(first==1){ |
if (cptcovn>0) { |
first=0; |
for (z1=1; z1<=cptcoveff; z1++) |
printf("Warning Observed prevalence probs[%d][%d][%d]=%lf because of lack of cases\nSee others on log file...\n",jk,i,j1,probs[i][jk][j1]); |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]) |
} |
bool=0; |
} |
} |
} |
if (bool==1) { |
}/* end jk */ |
for(m=firstpass; m<=lastpass; m++){/* Other selection (we can limit to certain interviews*/ |
}/* end i */ |
y2=anint[m][i]+(mint[m][i]/12.); /* Fractional date in year */ |
|
if ((y2>=dateprev1) && (y2<=dateprev2)) { /* Here is the main selection (fractional years) */ |
|
if(agev[m][i]==0) agev[m][i]=iagemax+1; |
|
if(agev[m][i]==1) agev[m][i]=iagemax+2; |
|
if((int)agev[m][i] <iagemin || (int)agev[m][i] >iagemax+3) printf("Error on individual =%d agev[m][i]=%f m=%d\n",i, agev[m][i],m); |
|
if (s[m][i]>0 && s[m][i]<=nlstate) { |
|
/*if(i>4620) printf(" i=%d m=%d s[m][i]=%d (int)agev[m][i]=%d weight[i]=%f prop=%f\n",i,m,s[m][i],(int)agev[m][m],weight[i],prop[s[m][i]][(int)agev[m][i]]);*/ |
|
prop[s[m][i]][(int)agev[m][i]] += weight[i]; |
|
prop[s[m][i]][iagemax+3] += weight[i]; |
|
} |
|
} |
|
} /* end selection of waves */ |
|
} |
|
} |
|
for(i=iagemin; i <= iagemax+3; i++){ |
|
for(jk=1,posprop=0; jk <=nlstate ; jk++) { |
|
posprop += prop[jk][i]; |
|
} |
|
|
|
for(jk=1; jk <=nlstate ; jk++){ |
|
if( i <= iagemax){ |
|
if(posprop>=1.e-5){ |
|
probs[i][jk][j1]= prop[jk][i]/posprop; |
|
} else{ |
|
if(first==1){ |
|
first=0; |
|
printf("Warning Observed prevalence probs[%d][%d][%d]=%lf because of lack of cases\nSee others on log file...\n",jk,i,j1,probs[i][jk][j1]); |
|
} |
|
} |
|
} |
|
}/* end jk */ |
|
}/* end i */ |
|
/*} *//* end i1 */ |
/*} *//* end i1 */ |
} /* end j1 */ |
} /* end j1 */ |
|
|
/* free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath, iagemin, iagemax+3);*/ |
/* free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath, iagemin, iagemax+3);*/ |
/*free_vector(pp,1,nlstate);*/ |
/*free_vector(pp,1,nlstate);*/ |
free_matrix(prop,1,nlstate, iagemin,iagemax+3); |
free_matrix(prop,1,nlstate, iagemin-AGEMARGE,iagemax+3+AGEMARGE); |
} /* End of prevalence */ |
} /* End of prevalence */ |
|
|
/************* Waves Concatenation ***************/ |
/************* Waves Concatenation ***************/ |
Line 3459 void concatwav(int wav[], int **dh, int
|
Line 4046 void concatwav(int wav[], int **dh, int
|
int i, mi, m; |
int i, mi, m; |
/* int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1; |
/* int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1; |
double sum=0., jmean=0.;*/ |
double sum=0., jmean=0.;*/ |
int first; |
int first, firstwo, firsthree, firstfour; |
int j, k=0,jk, ju, jl; |
int j, k=0,jk, ju, jl; |
double sum=0.; |
double sum=0.; |
first=0; |
first=0; |
|
firstwo=0; |
|
firsthree=0; |
|
firstfour=0; |
jmin=100000; |
jmin=100000; |
jmax=-1; |
jmax=-1; |
jmean=0.; |
jmean=0.; |
for(i=1; i<=imx; i++){ |
for(i=1; i<=imx; i++){ /* For simple cases and if state is death */ |
mi=0; |
mi=0; |
m=firstpass; |
m=firstpass; |
while(s[m][i] <= nlstate){ |
while(s[m][i] <= nlstate){ /* a live state */ |
if(s[m][i]>=1 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5) |
if(s[m][i]>=1 || s[m][i]==-4 || s[m][i]==-5){ /* Since 0.98r4 if status=-2 vital status is really unknown, wave should be skipped */ |
mw[++mi][i]=m; |
mw[++mi][i]=m; |
if(m >=lastpass) |
} |
|
if(m >=lastpass){ |
|
if(s[m][i]==-1 && (int) andc[i] == 9999 && (int)anint[m][i] != 9999){ |
|
if(firsthree == 0){ |
|
printf("Information! Unknown health status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood.\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m); |
|
firsthree=1; |
|
} |
|
fprintf(ficlog,"Information! Unknown status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood.\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m); |
|
mw[++mi][i]=m; |
|
} |
|
if(s[m][i]==-2){ /* Vital status is really unknown */ |
|
nbwarn++; |
|
if((int)anint[m][i] == 9999){ /* Has the vital status really been verified? */ |
|
printf("Warning! Vital status for individual %ld (line=%d) at last wave %d interviewed at date %d/%d is unknown %d. Please, check if the vital status and the date of death %d/%d are really unknown. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], s[m][i], (int) moisdc[i], (int) andc[i], i, m); |
|
fprintf(ficlog,"Warning! Vital status for individual %ld (line=%d) at last wave %d interviewed at date %d/%d is unknown %d. Please, check if the vital status and the date of death %d/%d are really unknown. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], s[m][i], (int) moisdc[i], (int) andc[i], i, m); |
|
} |
|
break; |
|
} |
break; |
break; |
|
} |
else |
else |
m++; |
m++; |
}/* end while */ |
}/* end while */ |
if (s[m][i] > nlstate){ |
|
|
/* After last pass */ |
|
if (s[m][i] > nlstate){ /* In a death state */ |
mi++; /* Death is another wave */ |
mi++; /* Death is another wave */ |
/* if(mi==0) never been interviewed correctly before death */ |
/* if(mi==0) never been interviewed correctly before death */ |
/* Only death is a correct wave */ |
/* Only death is a correct wave */ |
mw[mi][i]=m; |
mw[mi][i]=m; |
|
}else if ((int) andc[i] != 9999) { /* Status is either death or negative. A death occured after lastpass, we can't take it into account because of potential bias */ |
|
/* m++; */ |
|
/* mi++; */ |
|
/* s[m][i]=nlstate+1; /\* We are setting the status to the last of non live state *\/ */ |
|
/* mw[mi][i]=m; */ |
|
nberr++; |
|
if ((int)anint[m][i]!= 9999) { /* date of last interview is known */ |
|
if(firstwo==0){ |
|
printf("Error! Death for individual %ld line=%d occurred %d/%d after last wave %d interviewed at %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
firstwo=1; |
|
} |
|
fprintf(ficlog,"Error! Death for individual %ld line=%d occurred %d/%d after last wave %d interviewed at %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
}else{ /* end date of interview is known */ |
|
/* death is known but not confirmed by death status at any wave */ |
|
if(firstfour==0){ |
|
printf("Error! Death for individual %ld line=%d occurred %d/%d but not confirmed by any death status for any wave, including last wave %d at unknown date %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
firstfour=1; |
|
} |
|
fprintf(ficlog,"Error! Death for individual %ld line=%d occurred %d/%d but not confirmed by any death status for any wave, including last wave %d at unknown date %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
} |
} |
} |
|
|
wav[i]=mi; |
wav[i]=mi; |
if(mi==0){ |
if(mi==0){ |
nbwarn++; |
nbwarn++; |
Line 3496 void concatwav(int wav[], int **dh, int
|
Line 4125 void concatwav(int wav[], int **dh, int
|
} |
} |
} /* end mi==0 */ |
} /* end mi==0 */ |
} /* End individuals */ |
} /* End individuals */ |
|
/* wav and mw are no more changed */ |
|
|
|
|
for(i=1; i<=imx; i++){ |
for(i=1; i<=imx; i++){ |
for(mi=1; mi<wav[i];mi++){ |
for(mi=1; mi<wav[i];mi++){ |
if (stepm <=0) |
if (stepm <=0) |
Line 3926 void cvevsij(double ***eij, double x[],
|
Line 4557 void cvevsij(double ***eij, double x[],
|
/* Typically if 20 years nstepm = 20*12/6=40 stepm */ |
/* Typically if 20 years nstepm = 20*12/6=40 stepm */ |
/* if (stepm >= YEARM) hstepm=1;*/ |
/* if (stepm >= YEARM) hstepm=1;*/ |
nhstepma = nstepma/hstepm;/* Expressed in hstepm, typically nhstepma=40/4=10 */ |
nhstepma = nstepma/hstepm;/* Expressed in hstepm, typically nhstepma=40/4=10 */ |
|
|
/* If stepm=6 months */ |
/* If stepm=6 months */ |
/* Computed by stepm unit matrices, product of hstepma matrices, stored |
/* Computed by stepm unit matrices, product of hstepma matrices, stored |
in an array of nhstepma length: nhstepma=10, hstepm=4, stepm=6 months */ |
in an array of nhstepma length: nhstepma=10, hstepm=4, stepm=6 months */ |
|
|
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
|
|
/* Computing Variances of health expectancies */ |
/* Computing Variances of health expectancies */ |
/* Gradient is computed with plus gp and minus gm. Code is duplicated in order to |
/* Gradient is computed with plus gp and minus gm. Code is duplicated in order to |
decrease memory allocation */ |
decrease memory allocation */ |
for(theta=1; theta <=npar; theta++){ |
for(theta=1; theta <=npar; theta++){ |
for(i=1; i<=npar; i++){ |
for(i=1; i<=npar; i++){ |
xp[i] = x[i] + (i==theta ?delti[theta]:0); |
xp[i] = x[i] + (i==theta ?delti[theta]:0); |
xm[i] = x[i] - (i==theta ?delti[theta]:0); |
xm[i] = x[i] - (i==theta ?delti[theta]:0); |
} |
} |
hpxij(p3matp,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, cij); |
hpxij(p3matp,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, cij); |
hpxij(p3matm,nhstepm,age,hstepm,xm,nlstate,stepm,oldm,savm, cij); |
hpxij(p3matm,nhstepm,age,hstepm,xm,nlstate,stepm,oldm,savm, cij); |
|
|
for(j=1; j<= nlstate; j++){ |
for(j=1; j<= nlstate; j++){ |
for(i=1; i<=nlstate; i++){ |
for(i=1; i<=nlstate; i++){ |
for(h=0; h<=nhstepm-1; h++){ |
for(h=0; h<=nhstepm-1; h++){ |
gp[h][(j-1)*nlstate + i] = (p3matp[i][j][h]+p3matp[i][j][h+1])/2.; |
gp[h][(j-1)*nlstate + i] = (p3matp[i][j][h]+p3matp[i][j][h+1])/2.; |
gm[h][(j-1)*nlstate + i] = (p3matm[i][j][h]+p3matm[i][j][h+1])/2.; |
gm[h][(j-1)*nlstate + i] = (p3matm[i][j][h]+p3matm[i][j][h+1])/2.; |
} |
} |
} |
} |
} |
} |
|
|
for(ij=1; ij<= nlstate*nlstate; ij++) |
for(ij=1; ij<= nlstate*nlstate; ij++) |
for(h=0; h<=nhstepm-1; h++){ |
for(h=0; h<=nhstepm-1; h++){ |
gradg[h][theta][ij]= (gp[h][ij]-gm[h][ij])/2./delti[theta]; |
gradg[h][theta][ij]= (gp[h][ij]-gm[h][ij])/2./delti[theta]; |
} |
} |
}/* End theta */ |
}/* End theta */ |
|
|
|
|
for(h=0; h<=nhstepm-1; h++) |
for(h=0; h<=nhstepm-1; h++) |
for(j=1; j<=nlstate*nlstate;j++) |
for(j=1; j<=nlstate*nlstate;j++) |
for(theta=1; theta <=npar; theta++) |
for(theta=1; theta <=npar; theta++) |
trgradg[h][j][theta]=gradg[h][theta][j]; |
trgradg[h][j][theta]=gradg[h][theta][j]; |
|
|
|
|
for(ij=1;ij<=nlstate*nlstate;ij++) |
for(ij=1;ij<=nlstate*nlstate;ij++) |
for(ji=1;ji<=nlstate*nlstate;ji++) |
for(ji=1;ji<=nlstate*nlstate;ji++) |
varhe[ij][ji][(int)age] =0.; |
varhe[ij][ji][(int)age] =0.; |
|
|
printf("%d|",(int)age);fflush(stdout); |
printf("%d|",(int)age);fflush(stdout); |
fprintf(ficlog,"%d|",(int)age);fflush(ficlog); |
fprintf(ficlog,"%d|",(int)age);fflush(ficlog); |
for(h=0;h<=nhstepm-1;h++){ |
for(h=0;h<=nhstepm-1;h++){ |
for(k=0;k<=nhstepm-1;k++){ |
for(k=0;k<=nhstepm-1;k++){ |
matprod2(dnewm,trgradg[h],1,nlstate*nlstate,1,npar,1,npar,matcov); |
matprod2(dnewm,trgradg[h],1,nlstate*nlstate,1,npar,1,npar,matcov); |
matprod2(doldm,dnewm,1,nlstate*nlstate,1,npar,1,nlstate*nlstate,gradg[k]); |
matprod2(doldm,dnewm,1,nlstate*nlstate,1,npar,1,nlstate*nlstate,gradg[k]); |
for(ij=1;ij<=nlstate*nlstate;ij++) |
for(ij=1;ij<=nlstate*nlstate;ij++) |
for(ji=1;ji<=nlstate*nlstate;ji++) |
for(ji=1;ji<=nlstate*nlstate;ji++) |
varhe[ij][ji][(int)age] += doldm[ij][ji]*hf*hf; |
varhe[ij][ji][(int)age] += doldm[ij][ji]*hf*hf; |
} |
} |
} |
} |
|
|
/* Computing expectancies */ |
/* Computing expectancies */ |
hpxij(p3matm,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, cij); |
hpxij(p3matm,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, cij); |
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] += (p3matm[i][j][h]+p3matm[i][j][h+1])/2.0*hf; |
eij[i][j][(int)age] += (p3matm[i][j][h]+p3matm[i][j][h+1])/2.0*hf; |
|
|
/* 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]);*/ |
|
|
} |
} |
|
|
fprintf(ficresstdeij,"%3.0f",age ); |
fprintf(ficresstdeij,"%3.0f",age ); |
for(i=1; i<=nlstate;i++){ |
for(i=1; i<=nlstate;i++){ |
eip=0.; |
eip=0.; |
vip=0.; |
vip=0.; |
for(j=1; j<=nlstate;j++){ |
for(j=1; j<=nlstate;j++){ |
eip += eij[i][j][(int)age]; |
eip += eij[i][j][(int)age]; |
for(k=1; k<=nlstate;k++) /* Sum on j and k of cov(eij,eik) */ |
for(k=1; k<=nlstate;k++) /* Sum on j and k of cov(eij,eik) */ |
vip += varhe[(j-1)*nlstate+i][(k-1)*nlstate+i][(int)age]; |
vip += varhe[(j-1)*nlstate+i][(k-1)*nlstate+i][(int)age]; |
fprintf(ficresstdeij," %9.4f (%.4f)", eij[i][j][(int)age], sqrt(varhe[(j-1)*nlstate+i][(j-1)*nlstate+i][(int)age]) ); |
fprintf(ficresstdeij," %9.4f (%.4f)", eij[i][j][(int)age], sqrt(varhe[(j-1)*nlstate+i][(j-1)*nlstate+i][(int)age]) ); |
} |
} |
fprintf(ficresstdeij," %9.4f (%.4f)", eip, sqrt(vip)); |
fprintf(ficresstdeij," %9.4f (%.4f)", eip, sqrt(vip)); |
} |
} |
fprintf(ficresstdeij,"\n"); |
fprintf(ficresstdeij,"\n"); |
|
|
fprintf(ficrescveij,"%3.0f",age ); |
fprintf(ficrescveij,"%3.0f",age ); |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
for(j=1; j<=nlstate;j++){ |
for(j=1; j<=nlstate;j++){ |
cptj= (j-1)*nlstate+i; |
cptj= (j-1)*nlstate+i; |
for(i2=1; i2<=nlstate;i2++) |
for(i2=1; i2<=nlstate;i2++) |
for(j2=1; j2<=nlstate;j2++){ |
for(j2=1; j2<=nlstate;j2++){ |
cptj2= (j2-1)*nlstate+i2; |
cptj2= (j2-1)*nlstate+i2; |
if(cptj2 <= cptj) |
if(cptj2 <= cptj) |
fprintf(ficrescveij," %.4f", varhe[cptj][cptj2][(int)age]); |
fprintf(ficrescveij," %.4f", varhe[cptj][cptj2][(int)age]); |
} |
} |
} |
} |
fprintf(ficrescveij,"\n"); |
fprintf(ficrescveij,"\n"); |
|
|
} |
} |
free_matrix(gm,0,nhstepm,1,nlstate*nlstate); |
free_matrix(gm,0,nhstepm,1,nlstate*nlstate); |
free_matrix(gp,0,nhstepm,1,nlstate*nlstate); |
free_matrix(gp,0,nhstepm,1,nlstate*nlstate); |
Line 4029 void cvevsij(double ***eij, double x[],
|
Line 4660 void cvevsij(double ***eij, double x[],
|
free_ma3x(p3matp,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
free_ma3x(p3matp,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
printf("\n"); |
printf("\n"); |
fprintf(ficlog,"\n"); |
fprintf(ficlog,"\n"); |
|
|
free_vector(xm,1,npar); |
free_vector(xm,1,npar); |
free_vector(xp,1,npar); |
free_vector(xp,1,npar); |
free_matrix(dnewm,1,nlstate*nlstate,1,npar); |
free_matrix(dnewm,1,nlstate*nlstate,1,npar); |
free_matrix(doldm,1,nlstate*nlstate,1,nlstate*nlstate); |
free_matrix(doldm,1,nlstate*nlstate,1,nlstate*nlstate); |
free_ma3x(varhe,1,nlstate*nlstate,1,nlstate*nlstate,(int) bage, (int)fage); |
free_ma3x(varhe,1,nlstate*nlstate,1,nlstate*nlstate,(int) bage, (int)fage); |
} |
} |
|
|
/************ Variance ******************/ |
/************ Variance ******************/ |
void varevsij(char optionfilefiname[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, int estepm, int cptcov, int cptcod, int popbased, int mobilav, char strstart[]) |
void varevsij(char optionfilefiname[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, int estepm, int cptcov, int cptcod, int popbased, int mobilav, char strstart[]) |
{ |
{ |
/* Variance of health expectancies */ |
/* Variance of health expectancies */ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/ |
/* double **newm;*/ |
/* double **newm;*/ |
/* 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 movingaverage(); |
/* int movingaverage(); */ |
double **dnewm,**doldm; |
double **dnewm,**doldm; |
double **dnewmp,**doldmp; |
double **dnewmp,**doldmp; |
int i, j, nhstepm, hstepm, h, nstepm ; |
int i, j, nhstepm, hstepm, h, nstepm ; |
int k; |
int k; |
double *xp; |
double *xp; |
double **gp, **gm; /* for var eij */ |
double **gp, **gm; /* for var eij */ |
double ***gradg, ***trgradg; /*for var eij */ |
double ***gradg, ***trgradg; /*for var eij */ |
double **gradgp, **trgradgp; /* for var p point j */ |
double **gradgp, **trgradgp; /* for var p point j */ |
double *gpp, *gmp; /* for var p point j */ |
double *gpp, *gmp; /* for var p point j */ |
double **varppt; /* for var p point j nlstate to nlstate+ndeath */ |
double **varppt; /* for var p point j nlstate to nlstate+ndeath */ |
double ***p3mat; |
double ***p3mat; |
double age,agelim, hf; |
double age,agelim, hf; |
double ***mobaverage; |
/* double ***mobaverage; */ |
int theta; |
int theta; |
char digit[4]; |
char digit[4]; |
char digitp[25]; |
char digitp[25]; |
|
|
char fileresprobmorprev[FILENAMELENGTH]; |
char fileresprobmorprev[FILENAMELENGTH]; |
|
|
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) { |
|
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ |
|
fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
|
printf(" Error in movingaverage mobilav=%d\n",mobilav); |
|
} |
|
} |
|
|
|
strcpy(fileresprobmorprev,"PRMORPREV-"); |
|
sprintf(digit,"%-d",ij); |
|
/*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/ |
|
strcat(fileresprobmorprev,digit); /* Tvar to be done */ |
|
strcat(fileresprobmorprev,digitp); /* Popbased or not, mobilav or not */ |
|
strcat(fileresprobmorprev,fileresu); |
|
if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) { |
|
printf("Problem with resultfile: %s\n", fileresprobmorprev); |
|
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev); |
|
} |
|
printf("Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); |
|
fprintf(ficlog,"Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); |
|
pstamp(ficresprobmorprev); |
|
fprintf(ficresprobmorprev,"# probabilities of dying before estepm=%d months for people of exact age and weighted probabilities w1*p1j+w2*p2j+... stand dev in()\n",estepm); |
|
fprintf(ficresprobmorprev,"# Age cov=%-d",ij); |
|
for(j=nlstate+1; j<=(nlstate+ndeath);j++){ |
|
fprintf(ficresprobmorprev," p.%-d SE",j); |
|
for(i=1; i<=nlstate;i++) |
|
fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j); |
|
} |
|
fprintf(ficresprobmorprev,"\n"); |
|
|
|
fprintf(ficgp,"\n# Routine varevsij"); |
|
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<br>%s <br>\n",digitp); |
|
/* } */ |
|
varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
|
pstamp(ficresvij); |
|
fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are "); |
|
if(popbased==1) |
|
fprintf(ficresvij,"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 |
|
fprintf(ficresvij,"the age specific period (stable) prevalences in each health state \n"); |
|
fprintf(ficresvij,"# Age"); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate;j++) |
|
fprintf(ficresvij," Cov(e.%1d, e.%1d)",i,j); |
|
fprintf(ficresvij,"\n"); |
|
|
|
xp=vector(1,npar); |
|
dnewm=matrix(1,nlstate,1,npar); |
|
doldm=matrix(1,nlstate,1,nlstate); |
|
dnewmp= matrix(nlstate+1,nlstate+ndeath,1,npar); |
|
doldmp= matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
|
|
|
gradgp=matrix(1,npar,nlstate+1,nlstate+ndeath); |
|
gpp=vector(nlstate+1,nlstate+ndeath); |
|
gmp=vector(nlstate+1,nlstate+ndeath); |
|
trgradgp =matrix(nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ |
|
|
|
if(estepm < stepm){ |
|
printf ("Problem %d lower than %d\n",estepm, stepm); |
|
} |
|
else hstepm=estepm; |
|
/* For example we decided to compute the life expectancy with the smallest unit */ |
|
/* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm. |
|
nhstepm is the number of hstepm from age to agelim |
|
nstepm is the number of stepm from age to agelim. |
|
Look at function hpijx to understand why because of memory size limitations, |
|
we decided (b) to get a life expectancy respecting the most precise curvature of the |
|
survival function given by stepm (the optimization length). Unfortunately it |
|
means that if the survival funtion is printed every two years of age and if |
|
you sum them up and add 1 year (area under the trapezoids) you won't get the same |
|
results. So we changed our mind and took the option of the best precision. |
|
*/ |
|
hstepm=hstepm/stepm; /* Typically in stepm units, if stepm=6 & estepm=24 , = 24/6 months = 4 */ |
|
agelim = AGESUP; |
|
for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ |
|
nstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ |
|
nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */ |
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
gradg=ma3x(0,nhstepm,1,npar,1,nlstate); |
|
gp=matrix(0,nhstepm,1,nlstate); |
|
gm=matrix(0,nhstepm,1,nlstate); |
|
|
|
|
|
for(theta=1; theta <=npar; theta++){ |
|
for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ |
|
xp[i] = x[i] + (i==theta ?delti[theta]:0); |
|
} |
|
|
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
|
|
if (popbased==1) { |
|
if(mobilav ==0){ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=probs[(int)age][i][ij]; |
|
}else{ /* mobilav */ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=mobaverage[(int)age][i][ij]; |
|
} |
|
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); /* Returns p3mat[i][j][h] for h=1 to nhstepm */ |
|
for(j=1; j<= nlstate; j++){ |
|
for(h=0; h<=nhstepm; h++){ |
|
for(i=1, gp[h][j]=0.;i<=nlstate;i++) |
|
gp[h][j] += prlim[i][i]*p3mat[i][j][h]; |
|
} |
|
} |
|
/* Next for computing probability of death (h=1 means |
|
computed over hstepm matrices product = hstepm*stepm months) |
|
as a weighted average of prlim. |
|
*/ |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
|
for(i=1,gpp[j]=0.; i<= nlstate; i++) |
|
gpp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
for(i=1; i<=npar; i++) /* Computes gradient x - delta */ |
|
xp[i] = x[i] - (i==theta ?delti[theta]:0); |
|
|
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp, ij); |
|
|
|
if (popbased==1) { |
|
if(mobilav ==0){ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=probs[(int)age][i][ij]; |
|
}else{ /* mobilav */ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=mobaverage[(int)age][i][ij]; |
|
} |
|
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); |
|
|
|
for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ |
|
for(h=0; h<=nhstepm; h++){ |
|
for(i=1, gm[h][j]=0.;i<=nlstate;i++) |
|
gm[h][j] += prlim[i][i]*p3mat[i][j][h]; |
|
} |
|
} |
|
/* This for computing probability of death (h=1 means |
|
computed over hstepm matrices product = hstepm*stepm months) |
|
as a weighted average of prlim. |
|
*/ |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
|
for(i=1,gmp[j]=0.; i<= nlstate; i++) |
|
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
for(j=1; j<= nlstate; j++) /* vareij */ |
|
for(h=0; h<=nhstepm; h++){ |
|
gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta]; |
|
} |
|
|
|
for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu */ |
|
gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta]; |
|
} |
|
|
|
} /* End theta */ |
|
|
|
trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */ |
|
|
|
for(h=0; h<=nhstepm; h++) /* veij */ |
|
for(j=1; j<=nlstate;j++) |
|
for(theta=1; theta <=npar; theta++) |
|
trgradg[h][j][theta]=gradg[h][theta][j]; |
|
|
|
for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */ |
|
for(theta=1; theta <=npar; theta++) |
|
trgradgp[j][theta]=gradgp[theta][j]; |
|
|
|
|
|
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
|
for(i=1;i<=nlstate;i++) |
|
for(j=1;j<=nlstate;j++) |
|
vareij[i][j][(int)age] =0.; |
|
|
|
for(h=0;h<=nhstepm;h++){ |
/* if (mobilav!=0) { */ |
for(k=0;k<=nhstepm;k++){ |
/* mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov); |
/* if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ */ |
matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]); |
/* fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); */ |
for(i=1;i<=nlstate;i++) |
/* printf(" Error in movingaverage mobilav=%d\n",mobilav); */ |
for(j=1;j<=nlstate;j++) |
/* } */ |
vareij[i][j][(int)age] += doldm[i][j]*hf*hf; |
/* } */ |
} |
|
} |
strcpy(fileresprobmorprev,"PRMORPREV-"); |
|
sprintf(digit,"%-d",ij); |
|
/*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/ |
|
strcat(fileresprobmorprev,digit); /* Tvar to be done */ |
|
strcat(fileresprobmorprev,digitp); /* Popbased or not, mobilav or not */ |
|
strcat(fileresprobmorprev,fileresu); |
|
if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) { |
|
printf("Problem with resultfile: %s\n", fileresprobmorprev); |
|
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev); |
|
} |
|
printf("Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); |
|
fprintf(ficlog,"Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); |
|
pstamp(ficresprobmorprev); |
|
fprintf(ficresprobmorprev,"# probabilities of dying before estepm=%d months for people of exact age and weighted probabilities w1*p1j+w2*p2j+... stand dev in()\n",estepm); |
|
fprintf(ficresprobmorprev,"# Age cov=%-d",ij); |
|
for(j=nlstate+1; j<=(nlstate+ndeath);j++){ |
|
fprintf(ficresprobmorprev," p.%-d SE",j); |
|
for(i=1; i<=nlstate;i++) |
|
fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j); |
|
} |
|
fprintf(ficresprobmorprev,"\n"); |
|
|
|
fprintf(ficgp,"\n# Routine varevsij"); |
|
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<br>%s <br>\n",digitp); |
|
/* } */ |
|
varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
|
pstamp(ficresvij); |
|
fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are "); |
|
if(popbased==1) |
|
fprintf(ficresvij,"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 |
|
fprintf(ficresvij,"the age specific period (stable) prevalences in each health state \n"); |
|
fprintf(ficresvij,"# Age"); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate;j++) |
|
fprintf(ficresvij," Cov(e.%1d, e.%1d)",i,j); |
|
fprintf(ficresvij,"\n"); |
|
|
|
xp=vector(1,npar); |
|
dnewm=matrix(1,nlstate,1,npar); |
|
doldm=matrix(1,nlstate,1,nlstate); |
|
dnewmp= matrix(nlstate+1,nlstate+ndeath,1,npar); |
|
doldmp= matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
|
|
|
gradgp=matrix(1,npar,nlstate+1,nlstate+ndeath); |
|
gpp=vector(nlstate+1,nlstate+ndeath); |
|
gmp=vector(nlstate+1,nlstate+ndeath); |
|
trgradgp =matrix(nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ |
|
|
/* pptj */ |
if(estepm < stepm){ |
matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov); |
printf ("Problem %d lower than %d\n",estepm, stepm); |
matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp); |
} |
for(j=nlstate+1;j<=nlstate+ndeath;j++) |
else hstepm=estepm; |
for(i=nlstate+1;i<=nlstate+ndeath;i++) |
/* For example we decided to compute the life expectancy with the smallest unit */ |
varppt[j][i]=doldmp[j][i]; |
/* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm. |
/* end ppptj */ |
nhstepm is the number of hstepm from age to agelim |
/* x centered again */ |
nstepm is the number of stepm from age to agelim. |
|
Look at function hpijx to understand why because of memory size limitations, |
prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ncvyearp,ij); |
we decided (b) to get a life expectancy respecting the most precise curvature of the |
|
survival function given by stepm (the optimization length). Unfortunately it |
if (popbased==1) { |
means that if the survival funtion is printed every two years of age and if |
if(mobilav ==0){ |
you sum them up and add 1 year (area under the trapezoids) you won't get the same |
for(i=1; i<=nlstate;i++) |
results. So we changed our mind and took the option of the best precision. |
prlim[i][i]=probs[(int)age][i][ij]; |
*/ |
}else{ /* mobilav */ |
hstepm=hstepm/stepm; /* Typically in stepm units, if stepm=6 & estepm=24 , = 24/6 months = 4 */ |
for(i=1; i<=nlstate;i++) |
agelim = AGESUP; |
prlim[i][i]=mobaverage[(int)age][i][ij]; |
for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ |
} |
nstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ |
} |
nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */ |
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
/* This for computing probability of death (h=1 means |
gradg=ma3x(0,nhstepm,1,npar,1,nlstate); |
computed over hstepm (estepm) matrices product = hstepm*stepm months) |
gp=matrix(0,nhstepm,1,nlstate); |
as a weighted average of prlim. |
gm=matrix(0,nhstepm,1,nlstate); |
|
|
|
|
|
for(theta=1; theta <=npar; theta++){ |
|
for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ |
|
xp[i] = x[i] + (i==theta ?delti[theta]:0); |
|
} |
|
|
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
|
|
if (popbased==1) { |
|
if(mobilav ==0){ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=probs[(int)age][i][ij]; |
|
}else{ /* mobilav */ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=mobaverage[(int)age][i][ij]; |
|
} |
|
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); /* Returns p3mat[i][j][h] for h=1 to nhstepm */ |
|
for(j=1; j<= nlstate; j++){ |
|
for(h=0; h<=nhstepm; h++){ |
|
for(i=1, gp[h][j]=0.;i<=nlstate;i++) |
|
gp[h][j] += prlim[i][i]*p3mat[i][j][h]; |
|
} |
|
} |
|
/* Next for computing probability of death (h=1 means |
|
computed over hstepm matrices product = hstepm*stepm months) |
|
as a weighted average of prlim. |
|
*/ |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
|
for(i=1,gpp[j]=0.; i<= nlstate; i++) |
|
gpp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
for(i=1; i<=npar; i++) /* Computes gradient x - delta */ |
|
xp[i] = x[i] - (i==theta ?delti[theta]:0); |
|
|
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp, ij); |
|
|
|
if (popbased==1) { |
|
if(mobilav ==0){ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=probs[(int)age][i][ij]; |
|
}else{ /* mobilav */ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=mobaverage[(int)age][i][ij]; |
|
} |
|
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); |
|
|
|
for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ |
|
for(h=0; h<=nhstepm; h++){ |
|
for(i=1, gm[h][j]=0.;i<=nlstate;i++) |
|
gm[h][j] += prlim[i][i]*p3mat[i][j][h]; |
|
} |
|
} |
|
/* This for computing probability of death (h=1 means |
|
computed over hstepm matrices product = hstepm*stepm months) |
|
as a weighted average of prlim. |
|
*/ |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
|
for(i=1,gmp[j]=0.; i<= nlstate; i++) |
|
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
for(j=1; j<= nlstate; j++) /* vareij */ |
|
for(h=0; h<=nhstepm; h++){ |
|
gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta]; |
|
} |
|
|
|
for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu */ |
|
gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta]; |
|
} |
|
|
|
} /* End theta */ |
|
|
|
trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */ |
|
|
|
for(h=0; h<=nhstepm; h++) /* veij */ |
|
for(j=1; j<=nlstate;j++) |
|
for(theta=1; theta <=npar; theta++) |
|
trgradg[h][j][theta]=gradg[h][theta][j]; |
|
|
|
for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */ |
|
for(theta=1; theta <=npar; theta++) |
|
trgradgp[j][theta]=gradgp[theta][j]; |
|
|
|
|
|
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ |
|
for(i=1;i<=nlstate;i++) |
|
for(j=1;j<=nlstate;j++) |
|
vareij[i][j][(int)age] =0.; |
|
|
|
for(h=0;h<=nhstepm;h++){ |
|
for(k=0;k<=nhstepm;k++){ |
|
matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov); |
|
matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]); |
|
for(i=1;i<=nlstate;i++) |
|
for(j=1;j<=nlstate;j++) |
|
vareij[i][j][(int)age] += doldm[i][j]*hf*hf; |
|
} |
|
} |
|
|
|
/* pptj */ |
|
matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov); |
|
matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp); |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++) |
|
for(i=nlstate+1;i<=nlstate+ndeath;i++) |
|
varppt[j][i]=doldmp[j][i]; |
|
/* end ppptj */ |
|
/* x centered again */ |
|
|
|
prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
|
|
if (popbased==1) { |
|
if(mobilav ==0){ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=probs[(int)age][i][ij]; |
|
}else{ /* mobilav */ |
|
for(i=1; i<=nlstate;i++) |
|
prlim[i][i]=mobaverage[(int)age][i][ij]; |
|
} |
|
} |
|
|
|
/* This for computing probability of death (h=1 means |
|
computed over hstepm (estepm) matrices product = hstepm*stepm months) |
|
as a weighted average of prlim. |
|
*/ |
|
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij); |
|
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
|
for(i=1,gmp[j]=0.;i<= nlstate; i++) |
|
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
fprintf(ficresprobmorprev,"%3d %d ",(int) age, ij); |
|
for(j=nlstate+1; j<=(nlstate+ndeath);j++){ |
|
fprintf(ficresprobmorprev," %11.3e %11.3e",gmp[j], sqrt(varppt[j][j])); |
|
for(i=1; i<=nlstate;i++){ |
|
fprintf(ficresprobmorprev," %11.3e %11.3e ",prlim[i][i],p3mat[i][j][1]); |
|
} |
|
} |
|
fprintf(ficresprobmorprev,"\n"); |
|
|
|
fprintf(ficresvij,"%.0f ",age ); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate;j++){ |
|
fprintf(ficresvij," %.4f", vareij[i][j][(int)age]); |
|
} |
|
fprintf(ficresvij,"\n"); |
|
free_matrix(gp,0,nhstepm,1,nlstate); |
|
free_matrix(gm,0,nhstepm,1,nlstate); |
|
free_ma3x(gradg,0,nhstepm,1,npar,1,nlstate); |
|
free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar); |
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
} /* End age */ |
|
free_vector(gpp,nlstate+1,nlstate+ndeath); |
|
free_vector(gmp,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*/ |
|
/* 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 */ |
|
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 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 plot \"%s\" u 1:($3) not w l lt 1 ",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(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.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.svg\"> <br>\n", stepm,YEARM,digitp,digit); |
*/ |
*/ |
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij); |
/* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.svg\";replot;",digitp,optionfilefiname,digit); */ |
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
fprintf(ficgp,"\nset out;\nset out \"%s%s.svg\";replot;set out;\n",subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); |
for(i=1,gmp[j]=0.;i<= nlstate; i++) |
|
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
|
} |
|
/* end probability of death */ |
|
|
|
fprintf(ficresprobmorprev,"%3d %d ",(int) age, ij); |
|
for(j=nlstate+1; j<=(nlstate+ndeath);j++){ |
|
fprintf(ficresprobmorprev," %11.3e %11.3e",gmp[j], sqrt(varppt[j][j])); |
|
for(i=1; i<=nlstate;i++){ |
|
fprintf(ficresprobmorprev," %11.3e %11.3e ",prlim[i][i],p3mat[i][j][1]); |
|
} |
|
} |
|
fprintf(ficresprobmorprev,"\n"); |
|
|
|
fprintf(ficresvij,"%.0f ",age ); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate;j++){ |
|
fprintf(ficresvij," %.4f", vareij[i][j][(int)age]); |
|
} |
|
fprintf(ficresvij,"\n"); |
|
free_matrix(gp,0,nhstepm,1,nlstate); |
|
free_matrix(gm,0,nhstepm,1,nlstate); |
|
free_ma3x(gradg,0,nhstepm,1,npar,1,nlstate); |
|
free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar); |
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
} /* End age */ |
|
free_vector(gpp,nlstate+1,nlstate+ndeath); |
|
free_vector(gmp,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*/ |
|
/* 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 */ |
|
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 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 plot \"%s\" u 1:($3) not w l lt 1 ",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(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.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.svg\"> <br>\n", stepm,YEARM,digitp,digit); |
|
*/ |
|
/* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.svg\";replot;",digitp,optionfilefiname,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); |
free_matrix(dnewm,1,nlstate,1,npar); |
free_matrix(dnewm,1,nlstate,1,npar); |
free_matrix(doldmp,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
free_matrix(doldmp,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); |
free_matrix(dnewmp,nlstate+1,nlstate+ndeath,1,npar); |
free_matrix(dnewmp,nlstate+1,nlstate+ndeath,1,npar); |
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); |
fflush(ficgp); |
fflush(ficgp); |
fflush(fichtm); |
fflush(fichtm); |
} /* end varevsij */ |
} /* end varevsij */ |
|
|
/************ Variance of prevlim ******************/ |
/************ Variance of prevlim ******************/ |
void varprevlim(char fileres[], double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, char strstart[]) |
void varprevlim(char fileres[], double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, char strstart[]) |
Line 4811 To be simple, these graphs help to under
|
Line 5442 To be simple, these graphs help to under
|
void printinghtml(char fileresu[], 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 prevfcast, int estepm , \ |
int popforecast, int prevfcast, int backcast, int estepm , \ |
double jprev1, double mprev1,double anprev1, \ |
double jprev1, double mprev1,double anprev1, double dateprev1, \ |
double jprev2, double mprev2,double anprev2){ |
double jprev2, double mprev2,double anprev2, double dateprev2){ |
int jj1, k1, i1, cpt; |
int jj1, k1, i1, cpt; |
|
|
fprintf(fichtm,"<ul><li><a href='#firstorder'>Result files (first order: no variance)</a>\n \ |
fprintf(fichtm,"<ul><li><a href='#firstorder'>Result files (first order: no variance)</a>\n \ |
<li><a href='#secondorder'>Result files (second order (variance)</a>\n \ |
<li><a href='#secondorder'>Result files (second order (variance)</a>\n \ |
</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 ", |
fprintf(fichtm,"<li>- Observed frequency between two states (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> (html file)<br/>\n", |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileresu,"P_"),subdirf2(fileresu,"P_")); |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTMFR_",".htm"),subdirfext3(optionfilefiname,"PHTMFR_",".htm")); |
|
fprintf(fichtm,"<li> - Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> (html file) ", |
|
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTM_",".htm"),subdirfext3(optionfilefiname,"PHTM_",".htm")); |
|
fprintf(fichtm,", <a href=\"%s\">%s</a> (text file) <br>\n",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(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); |
stepm,subdirf2(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
|
- Estimated back transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
|
stepm,subdirf2(fileresu,"PIJB_"),subdirf2(fileresu,"PIJB_")); |
|
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(fileresu,"PL_"),subdirf2(fileresu,"PL_")); |
subdirf2(fileresu,"PL_"),subdirf2(fileresu,"PL_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
|
- Period (stable) back prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
|
subdirf2(fileresu,"PLB_"),subdirf2(fileresu,"PLB_")); |
|
fprintf(fichtm,"\ |
- (a) Life expectancies by health status at initial age, e<sub>i.</sub> (b) health expectancies by health status at initial age, e<sub>ij</sub> . 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, e<sub>i.</sub> (b) health expectancies by health status at initial age, e<sub>ij</sub> . 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(fileresu,"E_"),subdirf2(fileresu,"E_")); |
estepm,subdirf2(fileresu,"E_"),subdirf2(fileresu,"E_")); |
Line 4880 divided by h: <sub>h</sub>P<sub>ij</sub>
|
Line 5520 divided by h: <sub>h</sub>P<sub>ij</sub>
|
} |
} |
/* Period (stable) prevalence in each health state */ |
/* Period (stable) prevalence in each health state */ |
for(cpt=1; cpt<=nlstate;cpt++){ |
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> \ |
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); |
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1); |
} |
} |
|
if(backcast==1){ |
|
/* Period (stable) back prevalence in each health state */ |
|
for(cpt=1; cpt<=nlstate;cpt++){ |
|
fprintf(fichtm,"<br>\n- Convergence to period (stable) back 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,"PB_"),cpt,jj1,subdirf2(optionfilefiname,"PB_"),cpt,jj1,subdirf2(optionfilefiname,"PB_"),cpt,jj1); |
|
} |
|
} |
if(prevfcast==1){ |
if(prevfcast==1){ |
/* Projection of prevalence up to period (stable) prevalence in each health state */ |
/* Projection of prevalence up to period (stable) prevalence in each health state */ |
for(cpt=1; cpt<=nlstate;cpt++){ |
for(cpt=1; cpt<=nlstate;cpt++){ |
fprintf(fichtm,"<br>\n- Projection of prevalece up 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> \ |
fprintf(fichtm,"<br>\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f) up 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,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1); |
<img src=\"%s_%d-%d.svg\">", dateprev1, dateprev2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1); |
} |
} |
} |
} |
|
|
Line 4961 See page 'Matrix of variance-covariance
|
Line 5608 See page 'Matrix of variance-covariance
|
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,"\n<br>- Observed (cross-sectional) and period (incidence based) \ |
prevalence (with 95%% confidence interval) in state (%d): <a href=\"%s_%d%d.svg\"> %s_%d-%d.svg <br>\ |
prevalence (with 95%% confidence interval) in state (%d): <a href=\"%s_%d-%d.svg\"> %s_%d-%d.svg</a>\n <br>\ |
<img src=\"%s_%d-%d.svg\">",cpt,subdirf2(optionfilefiname,"V_"),cpt,jj1,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,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: <a href=\"%s_%d.svg\">%s_%d.svg<br>\ |
observed and cahotic prevalences: <a href=\"%s_%d.svg\">%s_%d.svg</a>\n<br>\ |
<img src=\"%s_%d.svg\">",subdirf2(optionfilefiname,"E_"),jj1,subdirf2(optionfilefiname,"E_"),jj1,subdirf2(optionfilefiname,"E_"),jj1); |
<img src=\"%s_%d.svg\">",subdirf2(optionfilefiname,"E_"),jj1,subdirf2(optionfilefiname,"E_"),jj1,subdirf2(optionfilefiname,"E_"),jj1); |
/* } /\* end i1 *\/ */ |
/* } /\* end i1 *\/ */ |
}/* End k1 */ |
}/* End k1 */ |
Line 4978 true period expectancies (those weighted
|
Line 5625 true period expectancies (those weighted
|
} |
} |
|
|
/******************* Gnuplot file **************/ |
/******************* Gnuplot file **************/ |
void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , int prevfcast, char pathc[], double p[]){ |
void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , int prevfcast, int backcast, 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; |
Line 5006 true period expectancies (those weighted
|
Line 5653 true period expectancies (those weighted
|
/* replot exp(p1+p2*x)/(1+exp(p1+p2*x)+exp(p3+p4*x)+exp(p5+p6*x)) t "p12(x)" */ |
/* 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.svg\";",subdirf2(optionfilefiname,"ILK_")); */ |
fprintf(ficgp,"\nset out \"%s-dest.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset out \"%s-dest.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$12):5 t \"All sample, transitions colored by destination\" with dots lc variable; set out;\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$13):6 t \"All sample, transitions colored by destination\" with dots lc variable; set out;\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset out \"%s-ori.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset out \"%s-ori.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$12):4 t \"All sample, transitions colored by origin\" with dots lc variable; set out;\n\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$13):5 t \"All sample, transitions colored by origin\" with dots lc variable; set out;\n\n",subdirf(fileresilk)); |
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
fprintf(ficgp,"\nset out \"%s-p%dj.png\";set ylabel \"Probability for each individual/wave\";",subdirf2(optionfilefiname,"ILK_"),i); |
fprintf(ficgp,"\nset out \"%s-p%dj.png\";set ylabel \"Probability for each individual/wave\";",subdirf2(optionfilefiname,"ILK_"),i); |
fprintf(ficgp,"unset log;\n# plot weighted, mean weight should have point size of 0.5\n plot \"%s\"",subdirf(fileresilk)); |
fprintf(ficgp,"unset log;\n# plot weighted, mean weight should have point size of 0.5\n plot \"%s\"",subdirf(fileresilk)); |
fprintf(ficgp," u 2:($4 == %d && $5==%d ? $9 : 1/0):($11/4.):5 t \"p%d%d\" with points pointtype 7 ps variable lc variable \\\n",i,1,i,1); |
fprintf(ficgp," u 2:($5 == %d && $6==%d ? $10 : 1/0):($12/4.):6 t \"p%d%d\" with points pointtype 7 ps variable lc variable \\\n",i,1,i,1); |
for (j=2; j<= nlstate+ndeath ; j ++) { |
for (j=2; j<= nlstate+ndeath ; j ++) { |
fprintf(ficgp,",\\\n \"\" u 2:($4 == %d && $5==%d ? $9 : 1/0):($11/4.):5 t \"p%d%d\" with points pointtype 7 ps variable lc variable ",i,j,i,j); |
fprintf(ficgp,",\\\n \"\" u 2:($5 == %d && $6==%d ? $10 : 1/0):($12/4.):6 t \"p%d%d\" with points pointtype 7 ps variable lc variable ",i,j,i,j); |
} |
} |
fprintf(ficgp,";\nset out; unset ylabel;\n"); |
fprintf(ficgp,";\nset out; unset ylabel;\n"); |
} |
} |
Line 5062 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
Line 5709 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
if (i==cpt) fprintf(ficgp," %%lf (%%lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
else fprintf(ficgp," %%*lf (%%*lf)"); |
} |
} |
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l lt 2",subdirf2(fileresu,"P_"),k1-1,k1-1,2+4*(cpt-1)); |
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence\" w l lt 2",subdirf2(fileresu,"P_"),k1-1,k1-1,2+4*(cpt-1)); |
|
if(backcast==1){ |
|
fprintf(ficgp,",\"%s\" every :::%d::%d u 1:($%d) t\"Backward stable prevalence\" w l lt 3",subdirf2(fileresu,"PLB_"),k1-1,k1-1,1+cpt); |
|
} |
fprintf(ficgp,"\nset out \n"); |
fprintf(ficgp,"\nset out \n"); |
} /* k1 */ |
} /* k1 */ |
} /* cpt */ |
} /* cpt */ |
Line 5170 unset log y\n\
|
Line 5820 unset log y\n\
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
k=3; |
k=3; |
for (i=1; i<= nlstate ; i ++){ |
for (i=1; i<= nlstate ; i ++){ |
if(i==1) |
if(i==1){ |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"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=2; j<= nlstate+ndeath ; j ++) |
for (j=2; j<= nlstate+ndeath ; j ++) |
Line 5262 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 5913 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
fprintf(ficgp,"\nset out\n"); |
fprintf(ficgp,"\nset out\n"); |
} /* end cpt state*/ |
} /* end cpt state*/ |
} /* end covariate */ |
} /* end covariate */ |
|
if(backcast == 1){ |
|
/* CV back preval stable (period) for each covariate */ |
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
|
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
|
fprintf(ficgp,"\n#\n#\n#CV Back preval stable (period): 'pij' files, covariatecombination#=%d state=%d",k1, cpt); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"PB_"),cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
|
set ter svg size 640, 480\n \ |
|
unset log y\n \ |
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
k=3; /* Offset */ |
|
for (i=1; i<= nlstate ; i ++){ |
|
if(i==1) |
|
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJB_")); |
|
else |
|
fprintf(ficgp,", '' "); |
|
/* l=(nlstate+ndeath)*(i-1)+1; */ |
|
l=(nlstate+ndeath)*(cpt-1)+1; |
|
/* fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); /\* a vérifier *\/ */ |
|
/* fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l+(cpt-1)+i-1); /\* a vérifier *\/ */ |
|
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d",k1,k+l+(cpt-1)+i-1); /* a vérifier */ |
|
/* for (j=2; j<= nlstate ; j ++) */ |
|
/* fprintf(ficgp,"+$%d",k+l+j-1); */ |
|
/* /\* fprintf(ficgp,"+$%d",k+l+j-1); *\/ */ |
|
fprintf(ficgp,") t \"bprev(%d,%d)\" w l",i,cpt); |
|
} /* nlstate */ |
|
fprintf(ficgp,"\nset out\n"); |
|
} /* end cpt state*/ |
|
} /* end covariate */ |
|
} /* End if backcast */ |
|
|
if(prevfcast==1){ |
if(prevfcast==1){ |
/* Projection from cross-sectional to stable (period) for each covariate */ |
/* Projection from cross-sectional to stable (period) for each covariate */ |
|
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
fprintf(ficgp,"\n#\n#\n#Projection of prevalence to stable (period): 'PROJ_' files, covariatecombination#=%d state=%d",k1, cpt); |
fprintf(ficgp,"\n#\n#\n#Projection of prevalence to stable (period): 'PROJ_' files, covariatecombination#=%d state=%d",k1, cpt); |
Line 5430 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 6121 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
else |
else |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
} |
} |
if(ng != 1){ |
}else{ |
fprintf(ficgp,")/(1"); |
i=i-ncovmodel; |
|
if(ng !=1 ) /* For logit formula of log p11 is more difficult to get */ |
|
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]][codtabm(jk,j-2)]); |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
/* fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
/* fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
ij++; |
ij++; |
} |
|
} |
} |
else |
|
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
|
} |
} |
fprintf(ficgp,")"); |
else |
|
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(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); |
|
} |
} |
if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,","); |
fprintf(ficgp,")"); |
i=i+ncovmodel; |
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 */ |
|
if( k !=k2) /* logit p11 is hard to draw */ |
|
fprintf(ficgp," t \"logit(p%d%d)\" ", k2,k); |
} |
} |
|
if ((k+k2)!= (nlstate*2+ndeath) && ng != 1) |
|
fprintf(ficgp,","); |
|
if (ng == 1 && k!=k2 && (k+k2)!= (nlstate*2+ndeath)) |
|
fprintf(ficgp,","); |
|
i=i+ncovmodel; |
} /* end k */ |
} /* end k */ |
} /* end k2 */ |
} /* end k2 */ |
fprintf(ficgp,"\n set out\n"); |
fprintf(ficgp,"\n set out\n"); |
Line 5475 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 6175 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
|
|
|
|
/*************** Moving average **************/ |
/*************** Moving average **************/ |
int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav){ |
/* int movingaverage(double ***probs, double bage, double fage, double ***mobaverage, int mobilav, double bageout, double fageout){ */ |
|
int movingaverage(double ***probs, double bage, double fage, double ***mobaverage, int mobilav){ |
|
|
int i, cpt, cptcod; |
int i, cpt, cptcod; |
int modcovmax =1; |
int modcovmax =1; |
int mobilavrange, mob; |
int mobilavrange, mob; |
double age; |
double age; |
|
int iage=0; |
|
double *sumnewp, *sumnewm; |
|
double *agemingood, *agemaxgood; /* Currently identical for all covariates */ |
|
|
|
sumnewp = vector(1,modcovmax); |
|
sumnewm = vector(1,modcovmax); |
|
agemingood = vector(1,modcovmax); |
|
agemaxgood = vector(1,modcovmax); |
|
|
|
|
modcovmax=2*cptcoveff;/* Max number of modalities. We suppose |
modcovmax=2*cptcoveff;/* Max number of modalities. We suppose |
a covariate has 2 modalities */ |
a covariate has 2 modalities, should be equal to ncovcombmax */ |
if (cptcovn<1) modcovmax=1; /* At least 1 pass */ |
if (cptcovn<1) modcovmax=1; /* At least 1 pass */ |
|
|
if(mobilav==1||mobilav ==3 ||mobilav==5 ||mobilav== 7){ |
if(mobilav==1||mobilav ==3 ||mobilav==5 ||mobilav== 7){ |
if(mobilav==1) mobilavrange=5; /* default */ |
if(mobilav==1) mobilavrange=5; /* default */ |
else mobilavrange=mobilav; |
else mobilavrange=mobilav; |
Line 5502 int movingaverage(double ***probs, doubl
|
Line 6212 int movingaverage(double ***probs, doubl
|
for (i=1; i<=nlstate;i++){ |
for (i=1; i<=nlstate;i++){ |
for (cptcod=1;cptcod<=modcovmax;cptcod++){ |
for (cptcod=1;cptcod<=modcovmax;cptcod++){ |
mobaverage[(int)age][i][cptcod] =probs[(int)age][i][cptcod]; |
mobaverage[(int)age][i][cptcod] =probs[(int)age][i][cptcod]; |
for (cpt=1;cpt<=(mob-1)/2;cpt++){ |
for (cpt=1;cpt<=(mob-1)/2;cpt++){ |
mobaverage[(int)age][i][cptcod] +=probs[(int)age-cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age-cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age+cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age+cpt][i][cptcod]; |
} |
} |
mobaverage[(int)age][i][cptcod]=mobaverage[(int)age][i][cptcod]/mob; |
mobaverage[(int)age][i][cptcod]=mobaverage[(int)age][i][cptcod]/mob; |
} |
} |
} |
} |
}/* end age */ |
}/* end age */ |
}/* end mob */ |
}/* end mob */ |
}else return -1; |
}else |
|
return -1; |
|
for (cptcod=1;cptcod<=modcovmax;cptcod++){ |
|
/* for (age=bage+(mob-1)/2; age<=fage-(mob-1)/2; age++){ */ |
|
agemingood[cptcod]=fage+(mob-1)/2; |
|
for (age=fage-(mob-1)/2; age>=bage; age--){/* From oldest to youngest, finding the youngest wrong */ |
|
sumnewm[cptcod]=0.; |
|
for (i=1; i<=nlstate;i++){ |
|
sumnewm[cptcod]+=mobaverage[(int)age][i][cptcod]; |
|
} |
|
if(fabs(sumnewm[cptcod] - 1.) <= 1.e-3) { /* good */ |
|
agemingood[cptcod]=age; |
|
}else{ /* bad */ |
|
for (i=1; i<=nlstate;i++){ |
|
mobaverage[(int)age][i][cptcod]=mobaverage[(int)agemingood[cptcod]][i][cptcod]; |
|
} /* i */ |
|
} /* end bad */ |
|
}/* age */ |
|
/* From youngest, finding the oldest wrong */ |
|
agemaxgood[cptcod]=bage+(mob-1)/2; |
|
for (age=bage+(mob-1)/2; age<=fage; age++){ |
|
sumnewm[cptcod]=0.; |
|
for (i=1; i<=nlstate;i++){ |
|
sumnewm[cptcod]+=mobaverage[(int)age][i][cptcod]; |
|
} |
|
if(fabs(sumnewm[cptcod] - 1.) <= 1.e-3) { /* good */ |
|
agemaxgood[cptcod]=age; |
|
}else{ /* bad */ |
|
for (i=1; i<=nlstate;i++){ |
|
mobaverage[(int)age][i][cptcod]=mobaverage[(int)agemaxgood[cptcod]][i][cptcod]; |
|
} /* i */ |
|
} /* end bad */ |
|
}/* age */ |
|
for (age=bage; age<=fage; age++){ |
|
printf("%d %d ", cptcod, (int)age); |
|
sumnewp[cptcod]=0.; |
|
sumnewm[cptcod]=0.; |
|
for (i=1; i<=nlstate;i++){ |
|
sumnewp[cptcod]+=probs[(int)age][i][cptcod]; |
|
sumnewm[cptcod]+=mobaverage[(int)age][i][cptcod]; |
|
printf("%.4f %.4f ",probs[(int)age][i][cptcod], mobaverage[(int)age][i][cptcod]); |
|
} |
|
printf("%.4f %.4f \n",sumnewp[cptcod], sumnewm[cptcod]); |
|
} |
|
printf("\n"); |
|
/* brutal averaging */ |
|
for (i=1; i<=nlstate;i++){ |
|
for (age=1; age<=bage; age++){ |
|
mobaverage[(int)age][i][cptcod]=mobaverage[(int)agemingood[cptcod]][i][cptcod]; |
|
printf("age=%d i=%d cptcod=%d mobaverage=%.4f \n",(int)age,i, cptcod, mobaverage[(int)age][i][cptcod]); |
|
} |
|
for (age=fage; age<=AGESUP; age++){ |
|
mobaverage[(int)age][i][cptcod]=mobaverage[(int)agemaxgood[cptcod]][i][cptcod]; |
|
printf("age=%d i=%d cptcod=%d mobaverage=%.4f \n",(int)age,i, cptcod, mobaverage[(int)age][i][cptcod]); |
|
} |
|
} /* end i status */ |
|
for (i=nlstate+1; i<=nlstate+ndeath;i++){ |
|
for (age=1; age<=AGESUP; age++){ |
|
/*printf("i=%d, age=%d, cptcod=%d\n",i, (int)age, cptcod);*/ |
|
mobaverage[(int)age][i][cptcod]=0.; |
|
} |
|
} |
|
}/* end cptcod */ |
|
free_vector(sumnewm,1, modcovmax); |
|
free_vector(sumnewp,1, modcovmax); |
|
free_vector(agemaxgood,1, modcovmax); |
|
free_vector(agemingood,1, modcovmax); |
return 0; |
return 0; |
}/* End movingaverage */ |
}/* End movingaverage */ |
|
|
|
|
/************** Forecasting ******************/ |
/************** Forecasting ******************/ |
void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){ |
void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){ |
Line 5528 void prevforecast(char fileres[], double
|
Line 6304 void prevforecast(char fileres[], double
|
double agelim, ppij, yp,yp1,yp2,jprojmean,mprojmean,anprojmean; |
double agelim, ppij, yp,yp1,yp2,jprojmean,mprojmean,anprojmean; |
double *popeffectif,*popcount; |
double *popeffectif,*popcount; |
double ***p3mat; |
double ***p3mat; |
double ***mobaverage; |
/* double ***mobaverage; */ |
char fileresf[FILENAMELENGTH]; |
char fileresf[FILENAMELENGTH]; |
|
|
agelim=AGESUP; |
agelim=AGESUP; |
Line 5536 void prevforecast(char fileres[], double
|
Line 6312 void prevforecast(char fileres[], double
|
in each health status at the date of interview (if between dateprev1 and dateprev2). |
in each health status at the date of interview (if between dateprev1 and dateprev2). |
We still use firstpass and lastpass as another selection. |
We still use firstpass and lastpass as another selection. |
*/ |
*/ |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ */ |
|
/* firstpass, lastpass, stepm, weightopt, model); */ |
|
|
strcpy(fileresf,"F_"); |
strcpy(fileresf,"F_"); |
strcat(fileresf,fileresu); |
strcat(fileresf,fileresu); |
Line 5544 void prevforecast(char fileres[], double
|
Line 6321 void prevforecast(char fileres[], double
|
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); |
} |
} |
printf("Computing forecasting: result on file '%s' \n", fileresf); |
printf("Computing forecasting: result on file '%s', please wait... \n", fileresf); |
fprintf(ficlog,"Computing forecasting: result on file '%s' \n", fileresf); |
fprintf(ficlog,"Computing forecasting: result on file '%s', please wait... \n", fileresf); |
|
|
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
|
|
if (mobilav!=0) { |
|
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
if (movingaverage(probs, ageminpar, fage, mobaverage,mobilav)!=0){ |
|
fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
|
printf(" Error in movingaverage mobilav=%d\n",mobilav); |
|
} |
|
} |
|
|
|
stepsize=(int) (stepm+YEARM-1)/YEARM; |
stepsize=(int) (stepm+YEARM-1)/YEARM; |
if (stepm<=12) stepsize=1; |
if (stepm<=12) stepsize=1; |
Line 5596 void prevforecast(char fileres[], double
|
Line 6366 void prevforecast(char fileres[], double
|
fprintf(ficresf," p%d%d",i,j); |
fprintf(ficresf," p%d%d",i,j); |
fprintf(ficresf," p.%d",j); |
fprintf(ficresf," p.%d",j); |
} |
} |
for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { |
for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { |
fprintf(ficresf,"\n"); |
fprintf(ficresf,"\n"); |
fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+yearp); |
fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+yearp); |
|
|
for (agec=fage; agec>=(ageminpar-1); agec--){ |
for (agec=fage; agec>=(ageminpar-1); agec--){ |
nhstepm=(int) rint((agelim-agec)*YEARM/stepm); |
nhstepm=(int) rint((agelim-agec)*YEARM/stepm); |
nhstepm = nhstepm/hstepm; |
nhstepm = nhstepm/hstepm; |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
hpxij(p3mat,nhstepm,agec,hstepm,p,nlstate,stepm,oldm,savm, k); |
hpxij(p3mat,nhstepm,agec,hstepm,p,nlstate,stepm,oldm,savm, k); |
|
|
for (h=0; h<=nhstepm; h++){ |
for (h=0; h<=nhstepm; h++){ |
if (h*hstepm/YEARM*stepm ==yearp) { |
if (h*hstepm/YEARM*stepm ==yearp) { |
Line 5637 void prevforecast(char fileres[], double
|
Line 6406 void prevforecast(char fileres[], double
|
} /* end cptcod */ |
} /* end cptcod */ |
} /* end cptcov */ |
} /* end cptcov */ |
|
|
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
|
|
fclose(ficresf); |
fclose(ficresf); |
|
printf("End of Computing forecasting \n"); |
|
fprintf(ficlog,"End of Computing forecasting\n"); |
|
|
} |
} |
|
|
|
/* /\************** Back Forecasting ******************\/ */ |
|
/* void prevbackforecast(char fileres[], double anback1, double mback1, double jback1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anback2, double p[], int cptcoveff){ */ |
|
/* /\* back1, year, month, day of starting backection */ |
|
/* agemin, agemax range of age */ |
|
/* dateprev1 dateprev2 range of dates during which prevalence is computed */ |
|
/* anback2 year of en of backection (same day and month as back1). */ |
|
/* *\/ */ |
|
/* int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1; */ |
|
/* double agec; /\* generic age *\/ */ |
|
/* double agelim, ppij, yp,yp1,yp2,jprojmean,mprojmean,anprojmean; */ |
|
/* double *popeffectif,*popcount; */ |
|
/* double ***p3mat; */ |
|
/* /\* double ***mobaverage; *\/ */ |
|
/* char fileresfb[FILENAMELENGTH]; */ |
|
|
|
/* agelim=AGESUP; */ |
|
/* /\* Compute observed prevalence between dateprev1 and dateprev2 by counting the number of people */ |
|
/* in each health status at the date of interview (if between dateprev1 and dateprev2). */ |
|
/* We still use firstpass and lastpass as another selection. */ |
|
/* *\/ */ |
|
/* /\* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ *\/ */ |
|
/* /\* firstpass, lastpass, stepm, weightopt, model); *\/ */ |
|
/* prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); */ |
|
|
|
/* strcpy(fileresfb,"FB_"); */ |
|
/* strcat(fileresfb,fileresu); */ |
|
/* if((ficresfb=fopen(fileresfb,"w"))==NULL) { */ |
|
/* printf("Problem with back forecast resultfile: %s\n", fileresfb); */ |
|
/* fprintf(ficlog,"Problem with back forecast resultfile: %s\n", fileresfb); */ |
|
/* } */ |
|
/* printf("Computing back forecasting: result on file '%s', please wait... \n", fileresfb); */ |
|
/* fprintf(ficlog,"Computing back forecasting: result on file '%s', please wait... \n", fileresfb); */ |
|
|
|
/* if (cptcoveff==0) ncodemax[cptcoveff]=1; */ |
|
|
|
/* /\* if (mobilav!=0) { *\/ */ |
|
/* /\* mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); *\/ */ |
|
/* /\* if (movingaverage(probs, ageminpar, fage, mobaverage,mobilav)!=0){ *\/ */ |
|
/* /\* fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); *\/ */ |
|
/* /\* printf(" Error in movingaverage mobilav=%d\n",mobilav); *\/ */ |
|
/* /\* } *\/ */ |
|
/* /\* } *\/ */ |
|
|
|
/* stepsize=(int) (stepm+YEARM-1)/YEARM; */ |
|
/* if (stepm<=12) stepsize=1; */ |
|
/* if(estepm < stepm){ */ |
|
/* printf ("Problem %d lower than %d\n",estepm, stepm); */ |
|
/* } */ |
|
/* else hstepm=estepm; */ |
|
|
|
/* hstepm=hstepm/stepm; */ |
|
/* yp1=modf(dateintmean,&yp);/\* extracts integral of datemean in yp and */ |
|
/* fractional in yp1 *\/ */ |
|
/* anprojmean=yp; */ |
|
/* yp2=modf((yp1*12),&yp); */ |
|
/* mprojmean=yp; */ |
|
/* yp1=modf((yp2*30.5),&yp); */ |
|
/* jprojmean=yp; */ |
|
/* if(jprojmean==0) jprojmean=1; */ |
|
/* if(mprojmean==0) jprojmean=1; */ |
|
|
|
/* i1=cptcoveff; */ |
|
/* if (cptcovn < 1){i1=1;} */ |
|
|
|
/* fprintf(ficresfb,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jprojmean,mprojmean,anprojmean,dateintmean,dateprev1,dateprev2); */ |
|
|
|
/* fprintf(ficresfb,"#****** Routine prevbackforecast **\n"); */ |
|
|
|
/* /\* if (h==(int)(YEARM*yearp)){ *\/ */ |
|
/* for(cptcov=1, k=0;cptcov<=i1;cptcov++){ */ |
|
/* for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ */ |
|
/* k=k+1; */ |
|
/* fprintf(ficresfb,"\n#****** hbijx=probability over h years, hp.jx is weighted by observed prev \n#"); */ |
|
/* for(j=1;j<=cptcoveff;j++) { */ |
|
/* fprintf(ficresfb," V%d (=) %d",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ |
|
/* } */ |
|
/* fprintf(ficresfb," yearbproj age"); */ |
|
/* for(j=1; j<=nlstate+ndeath;j++){ */ |
|
/* for(i=1; i<=nlstate;i++) */ |
|
/* fprintf(ficresfb," p%d%d",i,j); */ |
|
/* fprintf(ficresfb," p.%d",j); */ |
|
/* } */ |
|
/* for (yearp=0; yearp>=(anback2-anback1);yearp -=stepsize) { */ |
|
/* /\* for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { *\/ */ |
|
/* fprintf(ficresfb,"\n"); */ |
|
/* fprintf(ficresfb,"\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp); */ |
|
/* for (agec=fage; agec>=(ageminpar-1); agec--){ */ |
|
/* nhstepm=(int) rint((agelim-agec)*YEARM/stepm); */ |
|
/* nhstepm = nhstepm/hstepm; */ |
|
/* p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); */ |
|
/* oldm=oldms;savm=savms; */ |
|
/* hbxij(p3mat,nhstepm,agec,hstepm,p,prevacurrent,nlstate,stepm,oldm,savm,oldm,savm, dnewm, doldm, dsavm, k); */ |
|
/* for (h=0; h<=nhstepm; h++){ */ |
|
/* if (h*hstepm/YEARM*stepm ==yearp) { */ |
|
/* fprintf(ficresfb,"\n"); */ |
|
/* for(j=1;j<=cptcoveff;j++) */ |
|
/* fprintf(ficresfb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ |
|
/* fprintf(ficresfb,"%.f %.f ",anback1+yearp,agec+h*hstepm/YEARM*stepm); */ |
|
/* } */ |
|
/* for(j=1; j<=nlstate+ndeath;j++) { */ |
|
/* ppij=0.; */ |
|
/* for(i=1; i<=nlstate;i++) { */ |
|
/* if (mobilav==1) */ |
|
/* ppij=ppij+p3mat[i][j][h]*mobaverage[(int)agec][i][cptcod]; */ |
|
/* else { */ |
|
/* ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][cptcod]; */ |
|
/* } */ |
|
/* if (h*hstepm/YEARM*stepm== yearp) { */ |
|
/* fprintf(ficresfb," %.3f", p3mat[i][j][h]); */ |
|
/* } */ |
|
/* } /\* end i *\/ */ |
|
/* if (h*hstepm/YEARM*stepm==yearp) { */ |
|
/* fprintf(ficresfb," %.3f", ppij); */ |
|
/* } */ |
|
/* }/\* end j *\/ */ |
|
/* } /\* end h *\/ */ |
|
/* free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); */ |
|
/* } /\* end agec *\/ */ |
|
/* } /\* end yearp *\/ */ |
|
/* } /\* end cptcod *\/ */ |
|
/* } /\* end cptcov *\/ */ |
|
|
|
/* /\* if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); *\/ */ |
|
|
|
/* fclose(ficresfb); */ |
|
/* printf("End of Computing Back forecasting \n"); */ |
|
/* fprintf(ficlog,"End of Computing Back forecasting\n"); */ |
|
|
|
/* } */ |
|
|
/************** Forecasting *****not tested NB*************/ |
/************** Forecasting *****not tested NB*************/ |
void populforecast(char fileres[], double anpyram,double mpyram,double jpyram,double ageminpar, double agemax,double dateprev1, double dateprev2, int mobilav, double agedeb, double fage, int popforecast, char popfile[], double anpyram1,double p[], int i2){ |
void populforecast(char fileres[], double anpyram,double mpyram,double jpyram,double ageminpar, double agemax,double dateprev1, double dateprev2, int mobilav, double agedeb, double fage, int popforecast, char popfile[], double anpyram1,double p[], int i2){ |
|
|
Line 5650 void populforecast(char fileres[], doubl
|
Line 6550 void populforecast(char fileres[], doubl
|
double calagedatem, agelim, kk1, kk2; |
double calagedatem, agelim, kk1, kk2; |
double *popeffectif,*popcount; |
double *popeffectif,*popcount; |
double ***p3mat,***tabpop,***tabpopprev; |
double ***p3mat,***tabpop,***tabpopprev; |
double ***mobaverage; |
/* double ***mobaverage; */ |
char filerespop[FILENAMELENGTH]; |
char filerespop[FILENAMELENGTH]; |
|
|
tabpop= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
tabpop= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
Line 5672 void populforecast(char fileres[], doubl
|
Line 6572 void populforecast(char fileres[], doubl
|
|
|
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
|
|
if (mobilav!=0) { |
/* if (mobilav!=0) { */ |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
/* mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
if (movingaverage(probs, ageminpar, fage, mobaverage,mobilav)!=0){ |
/* if (movingaverage(probs, ageminpar, fage, mobaverage,mobilav)!=0){ */ |
fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
/* fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); */ |
printf(" Error in movingaverage mobilav=%d\n",mobilav); |
/* printf(" Error in movingaverage mobilav=%d\n",mobilav); */ |
} |
/* } */ |
} |
/* } */ |
|
|
stepsize=(int) (stepm+YEARM-1)/YEARM; |
stepsize=(int) (stepm+YEARM-1)/YEARM; |
if (stepm<=12) stepsize=1; |
if (stepm<=12) stepsize=1; |
Line 5687 void populforecast(char fileres[], doubl
|
Line 6587 void populforecast(char fileres[], doubl
|
|
|
hstepm=1; |
hstepm=1; |
hstepm=hstepm/stepm; |
hstepm=hstepm/stepm; |
|
|
if (popforecast==1) { |
if (popforecast==1) { |
if((ficpop=fopen(popfile,"r"))==NULL) { |
if((ficpop=fopen(popfile,"r"))==NULL) { |
printf("Problem with population file : %s\n",popfile);exit(0); |
printf("Problem with population file : %s\n",popfile);exit(0); |
Line 5699 void populforecast(char fileres[], doubl
|
Line 6599 void populforecast(char fileres[], doubl
|
|
|
i=1; |
i=1; |
while ((c=fscanf(ficpop,"%d %lf\n",&popage[i],&popcount[i])) != EOF) i=i+1; |
while ((c=fscanf(ficpop,"%d %lf\n",&popage[i],&popcount[i])) != EOF) i=i+1; |
|
|
imx=i; |
imx=i; |
for (i=1; i<imx;i++) popeffectif[popage[i]]=popcount[i]; |
for (i=1; i<imx;i++) popeffectif[popage[i]]=popcount[i]; |
} |
} |
|
|
for(cptcov=1,k=0;cptcov<=i2;cptcov++){ |
for(cptcov=1,k=0;cptcov<=i2;cptcov++){ |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ |
k=k+1; |
k=k+1; |
fprintf(ficrespop,"\n#******"); |
fprintf(ficrespop,"\n#******"); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
Line 5719 void populforecast(char fileres[], doubl
|
Line 6619 void populforecast(char fileres[], doubl
|
for (cpt=0; cpt<=0;cpt++) { |
for (cpt=0; cpt<=0;cpt++) { |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt); |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt); |
|
|
for (agedeb=(fage-((int)calagedatem %12/12.)); agedeb>=(ageminpar-((int)calagedatem %12)/12.); agedeb--){ |
for (agedeb=(fage-((int)calagedatem %12/12.)); agedeb>=(ageminpar-((int)calagedatem %12)/12.); agedeb--){ |
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); |
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); |
nhstepm = nhstepm/hstepm; |
nhstepm = nhstepm/hstepm; |
|
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k); |
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k); |
|
|
for (h=0; h<=nhstepm; h++){ |
for (h=0; h<=nhstepm; h++){ |
if (h==(int) (calagedatem+YEARM*cpt)) { |
if (h==(int) (calagedatem+YEARM*cpt)) { |
fprintf(ficrespop,"\n %3.f ",agedeb+h*hstepm/YEARM*stepm); |
fprintf(ficrespop,"\n %3.f ",agedeb+h*hstepm/YEARM*stepm); |
Line 5742 void populforecast(char fileres[], doubl
|
Line 6642 void populforecast(char fileres[], doubl
|
} |
} |
if (h==(int)(calagedatem+12*cpt)){ |
if (h==(int)(calagedatem+12*cpt)){ |
tabpop[(int)(agedeb)][j][cptcod]=kk1; |
tabpop[(int)(agedeb)][j][cptcod]=kk1; |
/*fprintf(ficrespop," %.3f", kk1); |
/*fprintf(ficrespop," %.3f", kk1); |
if (popforecast==1) fprintf(ficrespop," [%.f]", kk1*popeffectif[(int)agedeb+1]);*/ |
if (popforecast==1) fprintf(ficrespop," [%.f]", kk1*popeffectif[(int)agedeb+1]);*/ |
} |
} |
} |
} |
for(i=1; i<=nlstate;i++){ |
for(i=1; i<=nlstate;i++){ |
kk1=0.; |
kk1=0.; |
for(j=1; j<=nlstate;j++){ |
for(j=1; j<=nlstate;j++){ |
kk1= kk1+tabpop[(int)(agedeb)][j][cptcod]; |
kk1= kk1+tabpop[(int)(agedeb)][j][cptcod]; |
} |
} |
tabpopprev[(int)(agedeb)][i][cptcod]=tabpop[(int)(agedeb)][i][cptcod]/kk1*popeffectif[(int)(agedeb+(calagedatem+12*cpt)*hstepm/YEARM*stepm-1)]; |
tabpopprev[(int)(agedeb)][i][cptcod]=tabpop[(int)(agedeb)][i][cptcod]/kk1*popeffectif[(int)(agedeb+(calagedatem+12*cpt)*hstepm/YEARM*stepm-1)]; |
} |
} |
|
|
if (h==(int)(calagedatem+12*cpt)) for(j=1; j<=nlstate;j++) |
if (h==(int)(calagedatem+12*cpt)) |
fprintf(ficrespop," %15.2f",tabpopprev[(int)(agedeb+1)][j][cptcod]); |
for(j=1; j<=nlstate;j++) |
|
fprintf(ficrespop," %15.2f",tabpopprev[(int)(agedeb+1)][j][cptcod]); |
} |
} |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
} |
} |
} |
} |
|
|
/******/ |
/******/ |
|
|
for (cpt=1; cpt<=(anpyram1-anpyram);cpt++) { |
for (cpt=1; cpt<=(anpyram1-anpyram);cpt++) { |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt); |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt); |
for (agedeb=(fage-((int)calagedatem %12/12.)); agedeb>=(ageminpar-((int)calagedatem %12)/12.); agedeb--){ |
for (agedeb=(fage-((int)calagedatem %12/12.)); agedeb>=(ageminpar-((int)calagedatem %12)/12.); agedeb--){ |
Line 5787 void populforecast(char fileres[], doubl
|
Line 6688 void populforecast(char fileres[], doubl
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
} |
} |
} |
} |
} |
} |
} |
} |
|
|
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
/* if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
|
|
if (popforecast==1) { |
if (popforecast==1) { |
free_ivector(popage,0,AGESUP); |
free_ivector(popage,0,AGESUP); |
free_vector(popeffectif,0,AGESUP); |
free_vector(popeffectif,0,AGESUP); |
Line 5801 void populforecast(char fileres[], doubl
|
Line 6702 void populforecast(char fileres[], doubl
|
free_ma3x(tabpopprev,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
free_ma3x(tabpopprev,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
fclose(ficrespop); |
fclose(ficrespop); |
} /* End of popforecast */ |
} /* End of popforecast */ |
|
|
int fileappend(FILE *fichier, char *optionfich) |
int fileappend(FILE *fichier, char *optionfich) |
{ |
{ |
if((fichier=fopen(optionfich,"a"))==NULL) { |
if((fichier=fopen(optionfich,"a"))==NULL) { |
Line 6076 int readdata(char datafile[], int firsto
|
Line 6977 int readdata(char datafile[], int firsto
|
|
|
|
|
if((fic=fopen(datafile,"r"))==NULL) { |
if((fic=fopen(datafile,"r"))==NULL) { |
printf("Problem while opening datafile: %s\n", datafile);fflush(stdout); |
printf("Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(stdout); |
fprintf(ficlog,"Problem while opening datafile: %s\n", datafile);fflush(ficlog);return 1; |
fprintf(ficlog,"Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(ficlog);return 1; |
} |
} |
|
|
i=1; |
i=1; |
Line 6454 int decodemodel ( char model[], int last
|
Line 7355 int decodemodel ( char model[], int last
|
int calandcheckages(int imx, int maxwav, double *agemin, double *agemax, int *nberr, int *nbwarn ) |
int calandcheckages(int imx, int maxwav, double *agemin, double *agemax, int *nberr, int *nbwarn ) |
{ |
{ |
int i, m; |
int i, m; |
|
int firstone=0; |
|
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
for(m=2; (m<= maxwav); m++) { |
for(m=2; (m<= maxwav); m++) { |
if (((int)mint[m][i]== 99) && (s[m][i] <= nlstate)){ |
if (((int)mint[m][i]== 99) && (s[m][i] <= nlstate)){ |
anint[m][i]=9999; |
anint[m][i]=9999; |
s[m][i]=-1; |
if (s[m][i] != -2) /* Keeping initial status of unknown vital status */ |
|
s[m][i]=-1; |
} |
} |
if((int)moisdc[i]==99 && (int)andc[i]==9999 && s[m][i]>nlstate){ |
if((int)moisdc[i]==99 && (int)andc[i]==9999 && s[m][i]>nlstate){ |
*nberr = *nberr + 1; |
*nberr = *nberr + 1; |
printf("Error! Date of death (month %2d and year %4d) of individual %ld on line %d was unknown, you must set an arbitrary year of death or he/she is skipped and results are biased (%d)\n",(int)moisdc[i],(int)andc[i],num[i],i, *nberr); |
if(firstone == 0){ |
fprintf(ficlog,"Error! Date of death (month %2d and year %4d) of individual %ld on line %d was unknown, you must set an arbitrary year of death or he/she is skipped and results are biased (%d)\n",(int)moisdc[i],(int)andc[i],num[i],i, *nberr); |
firstone=1; |
|
printf("Error! Date of death (month %2d and year %4d) of individual %ld on line %d was unknown, you must set an arbitrary year of death or he/she is skipped and results can be biased (%d) because status is a death state %d at wave %d. Wave dropped.\nOther similar cases in log file\n",(int)moisdc[i],(int)andc[i],num[i],i, *nberr,s[m][i],m); |
|
} |
|
fprintf(ficlog,"Error! Date of death (month %2d and year %4d) of individual %ld on line %d was unknown, you must set an arbitrary year of death or he/she is skipped and results can be biased (%d) because status is a death state %d at wave %d. Wave dropped.\n",(int)moisdc[i],(int)andc[i],num[i],i, *nberr,s[m][i],m); |
s[m][i]=-1; |
s[m][i]=-1; |
} |
} |
if((int)moisdc[i]==99 && (int)andc[i]!=9999 && s[m][i]>nlstate){ |
if((int)moisdc[i]==99 && (int)andc[i]!=9999 && s[m][i]>nlstate){ |
Line 6479 int calandcheckages(int imx, int maxwav,
|
Line 7385 int calandcheckages(int imx, int maxwav,
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]); |
agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]); |
for(m=firstpass; (m<= lastpass); m++){ |
for(m=firstpass; (m<= lastpass); m++){ |
if(s[m][i] >0 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5){ |
if(s[m][i] >0 || s[m][i]==-1 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5){ /* What if s[m][i]=-1 */ |
if (s[m][i] >= nlstate+1) { |
if (s[m][i] >= nlstate+1) { |
if(agedc[i]>0){ |
if(agedc[i]>0){ |
if((int)moisdc[i]!=99 && (int)andc[i]!=9999){ |
if((int)moisdc[i]!=99 && (int)andc[i]!=9999){ |
agev[m][i]=agedc[i]; |
agev[m][i]=agedc[i]; |
/*if(moisdc[i]==99 && andc[i]==9999) s[m][i]=-1;*/ |
/*if(moisdc[i]==99 && andc[i]==9999) s[m][i]=-1;*/ |
}else { |
}else { |
if ((int)andc[i]!=9999){ |
if ((int)andc[i]!=9999){ |
nbwarn++; |
nbwarn++; |
Line 6494 int calandcheckages(int imx, int maxwav,
|
Line 7400 int calandcheckages(int imx, int maxwav,
|
} |
} |
} |
} |
} /* agedc > 0 */ |
} /* agedc > 0 */ |
} |
} /* end if */ |
else if(s[m][i] !=9){ /* Standard case, age in fractional |
else if(s[m][i] !=9){ /* Standard case, age in fractional |
years but with the precision of a month */ |
years but with the precision of a month */ |
agev[m][i]=(mint[m][i]/12.+1./24.+anint[m][i])-(moisnais[i]/12.+1./24.+annais[i]); |
agev[m][i]=(mint[m][i]/12.+1./24.+anint[m][i])-(moisnais[i]/12.+1./24.+annais[i]); |
Line 6510 int calandcheckages(int imx, int maxwav,
|
Line 7416 int calandcheckages(int imx, int maxwav,
|
} |
} |
/*agev[m][i]=anint[m][i]-annais[i];*/ |
/*agev[m][i]=anint[m][i]-annais[i];*/ |
/* agev[m][i] = age[i]+2*m;*/ |
/* agev[m][i] = age[i]+2*m;*/ |
} |
} /* en if 9*/ |
else { /* =9 */ |
else { /* =9 */ |
|
/* printf("Debug num[%d]=%ld s[%d][%d]=%d\n",i,num[i], m,i, s[m][i]); */ |
agev[m][i]=1; |
agev[m][i]=1; |
s[m][i]=-1; |
s[m][i]=-1; |
} |
} |
} |
} |
else /*= 0 Unknown */ |
else if(s[m][i]==0) /*= 0 Unknown */ |
agev[m][i]=1; |
agev[m][i]=1; |
} |
else{ |
|
printf("Warning, num[%d]=%ld, s[%d][%d]=%d\n", i, num[i], m, i,s[m][i]); |
|
fprintf(ficlog, "Warning, num[%d]=%ld, s[%d][%d]=%d\n", i, num[i], m, i,s[m][i]); |
|
agev[m][i]=0; |
|
} |
|
} /* End for lastpass */ |
} |
} |
|
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
for(m=firstpass; (m<=lastpass); m++){ |
for(m=firstpass; (m<=lastpass); m++){ |
if (s[m][i] > (nlstate+ndeath)) { |
if (s[m][i] > (nlstate+ndeath)) { |
Line 6818 void syscompilerinfo(int logged)
|
Line 7730 void syscompilerinfo(int logged)
|
return 0; |
return 0; |
} |
} |
|
|
|
int back_prevalence_limit(double *p, double **bprlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyearp, double dateprev1,double dateprev2, int firstpass, int lastpass, int mobilavproj){ |
|
/*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ |
|
|
|
/* Computes the back prevalence limit for any combination of covariate values |
|
* at any age between ageminpar and agemaxpar |
|
*/ |
|
int i, j, k, i1 ; |
|
/* double ftolpl = 1.e-10; */ |
|
double age, agebase, agelim; |
|
double tot; |
|
/* double ***mobaverage; */ |
|
/* double **dnewm, **doldm, **dsavm; /\* for use *\/ */ |
|
|
|
strcpy(fileresplb,"PLB_"); |
|
strcat(fileresplb,fileresu); |
|
if((ficresplb=fopen(fileresplb,"w"))==NULL) { |
|
printf("Problem with period (stable) back prevalence resultfile: %s\n", fileresplb);return 1; |
|
fprintf(ficlog,"Problem with period (stable) back prevalence resultfile: %s\n", fileresplb);return 1; |
|
} |
|
printf("Computing period (stable) back prevalence: result on file '%s' \n", fileresplb); |
|
fprintf(ficlog,"Computing period (stable) back prevalence: result on file '%s' \n", fileresplb); |
|
pstamp(ficresplb); |
|
fprintf(ficresplb,"# Period (stable) back prevalence. Precision given by ftolpl=%g \n", ftolpl); |
|
fprintf(ficresplb,"#Age "); |
|
for(i=1; i<=nlstate;i++) fprintf(ficresplb,"%d-%d ",i,i); |
|
fprintf(ficresplb,"\n"); |
|
|
|
|
|
/* prlim=matrix(1,nlstate,1,nlstate);*/ /* back in main */ |
|
|
|
agebase=ageminpar; |
|
agelim=agemaxpar; |
|
|
|
|
|
i1=pow(2,cptcoveff); |
|
if (cptcovn < 1){i1=1;} |
|
|
|
for(cptcov=1,k=0;cptcov<=i1;cptcov++){ |
|
/* for(cptcov=1,k=0;cptcov<=1;cptcov++){ */ |
|
//for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ |
|
k=k+1; |
|
/* to clean */ |
|
//printf("cptcov=%d cptcod=%d codtab=%d\n",cptcov, cptcod,codtabm(cptcod,cptcov)); |
|
fprintf(ficresplb,"#******"); |
|
printf("#******"); |
|
fprintf(ficlog,"#******"); |
|
for(j=1;j<=cptcoveff;j++) { |
|
fprintf(ficresplb," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
} |
|
fprintf(ficresplb,"******\n"); |
|
printf("******\n"); |
|
fprintf(ficlog,"******\n"); |
|
|
|
fprintf(ficresplb,"#Age "); |
|
for(j=1;j<=cptcoveff;j++) { |
|
fprintf(ficresplb,"V%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
} |
|
for(i=1; i<=nlstate;i++) fprintf(ficresplb," %d-%d ",i,i); |
|
fprintf(ficresplb,"Total Years_to_converge\n"); |
|
|
|
|
|
for (age=agebase; age<=agelim; age++){ |
|
/* for (age=agebase; age<=agebase; age++){ */ |
|
if(mobilavproj > 0){ |
|
/* bprevalim(bprlim, mobaverage, nlstate, p, age, ageminpar, agemaxpar, oldm, savm, doldm, dsavm, ftolpl, ncvyearp, k); */ |
|
/* bprevalim(bprlim, mobaverage, nlstate, p, age, oldm, savm, dnewm, doldm, dsavm, ftolpl, ncvyearp, k); */ |
|
bprevalim(bprlim, mobaverage, nlstate, p, age, ftolpl, ncvyearp, k); |
|
}else if (mobilavproj == 0){ |
|
printf("There is no chance to get back prevalence limit if data aren't non zero and summing to 1, please try a non null mobil_average(=%d) parameter or mobil_average=-1 if you want to try at your own risk.\n",mobilavproj); |
|
fprintf(ficlog,"There is no chance to get back prevalence limit if data aren't non zero and summing to 1, please try a non null mobil_average(=%d) parameter or mobil_average=-1 if you want to try at your own risk.\n",mobilavproj); |
|
exit(1); |
|
}else{ |
|
/* bprevalim(bprlim, probs, nlstate, p, age, oldm, savm, dnewm, doldm, dsavm, ftolpl, ncvyearp, k); */ |
|
bprevalim(bprlim, probs, nlstate, p, age, ftolpl, ncvyearp, k); |
|
} |
|
fprintf(ficresplb,"%.0f ",age ); |
|
for(j=1;j<=cptcoveff;j++) |
|
fprintf(ficresplb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
tot=0.; |
|
for(i=1; i<=nlstate;i++){ |
|
tot += bprlim[i][i]; |
|
fprintf(ficresplb," %.5f", bprlim[i][i]); |
|
} |
|
fprintf(ficresplb," %.3f %d\n", tot, *ncvyearp); |
|
} /* Age */ |
|
/* was end of cptcod */ |
|
} /* cptcov */ |
|
|
|
/* hBijx(p, bage, fage); */ |
|
/* fclose(ficrespijb); */ |
|
|
|
return 0; |
|
} |
|
|
int hPijx(double *p, int bage, int fage){ |
int hPijx(double *p, int bage, int fage){ |
/*------------- h Pij x at various ages ------------*/ |
/*------------- h Pij x at various ages ------------*/ |
|
|
Line 6844 int hPijx(double *p, int bage, int fage)
|
Line 7852 int hPijx(double *p, int bage, int fage)
|
agelim=AGESUP; |
agelim=AGESUP; |
hstepm=stepsize*YEARM; /* Every year of age */ |
hstepm=stepsize*YEARM; /* Every year of age */ |
hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */ |
hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */ |
|
|
/* hstepm=1; aff par mois*/ |
/* hstepm=1; aff par mois*/ |
pstamp(ficrespij); |
pstamp(ficrespij); |
fprintf(ficrespij,"#****** h Pij x Probability to be in state j at age x+h being in i at x "); |
fprintf(ficrespij,"#****** h Pij x Probability to be in state j at age x+h being in i at x "); |
i1= pow(2,cptcoveff); |
i1= pow(2,cptcoveff); |
/* for(cptcov=1,k=0;cptcov<=i1;cptcov++){ */ |
/* for(cptcov=1,k=0;cptcov<=i1;cptcov++){ */ |
/* /\*for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*\/ */ |
/* /\*for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*\/ */ |
/* k=k+1; */ |
/* k=k+1; */ |
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++) |
Line 6885 int hPijx(double *p, int bage, int fage)
|
Line 7893 int hPijx(double *p, int bage, int fage)
|
} |
} |
/*}*/ |
/*}*/ |
} |
} |
return 0; |
return 0; |
} |
} |
|
|
|
int hBijx(double *p, int bage, int fage, double ***prevacurrent){ |
|
/*------------- h Bij x at various ages ------------*/ |
|
|
|
int stepsize; |
|
/* int agelim; */ |
|
int ageminl; |
|
int hstepm; |
|
int nhstepm; |
|
int h, i, i1, j, k; |
|
|
|
double agedeb; |
|
double ***p3mat; |
|
|
|
strcpy(filerespijb,"PIJB_"); strcat(filerespijb,fileresu); |
|
if((ficrespijb=fopen(filerespijb,"w"))==NULL) { |
|
printf("Problem with Pij back resultfile: %s\n", filerespijb); return 1; |
|
fprintf(ficlog,"Problem with Pij back resultfile: %s\n", filerespijb); return 1; |
|
} |
|
printf("Computing pij back: result on file '%s' \n", filerespijb); |
|
fprintf(ficlog,"Computing pij back: result on file '%s' \n", filerespijb); |
|
|
|
stepsize=(int) (stepm+YEARM-1)/YEARM; |
|
/*if (stepm<=24) stepsize=2;*/ |
|
|
|
/* agelim=AGESUP; */ |
|
ageminl=30; |
|
hstepm=stepsize*YEARM; /* Every year of age */ |
|
hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */ |
|
|
|
/* hstepm=1; aff par mois*/ |
|
pstamp(ficrespijb); |
|
fprintf(ficrespijb,"#****** h Pij x Back Probability to be in state i at age x-h being in j at x "); |
|
i1= pow(2,cptcoveff); |
|
/* for(cptcov=1,k=0;cptcov<=i1;cptcov++){ */ |
|
/* /\*for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*\/ */ |
|
/* k=k+1; */ |
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
|
fprintf(ficrespijb,"\n#****** "); |
|
for(j=1;j<=cptcoveff;j++) |
|
fprintf(ficrespijb,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
fprintf(ficrespijb,"******\n"); |
|
|
|
/* for (agedeb=fage; agedeb>=bage; agedeb--){ /\* If stepm=6 months *\/ */ |
|
for (agedeb=bage; agedeb<=fage; agedeb++){ /* If stepm=6 months and estepm=24 (2 years) */ |
|
/* nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); /\* Typically 20 years = 20*12/6=40 *\/ */ |
|
nhstepm=(int) rint((agedeb-ageminl)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ |
|
nhstepm = nhstepm/hstepm; /* Typically 40/4=10, because estepm=24 stepm=6 => hstepm=24/6=4 */ |
|
|
|
/* nhstepm=nhstepm*YEARM; aff par mois*/ |
|
|
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
/* oldm=oldms;savm=savms; */ |
|
/* hbxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k); */ |
|
hbxij(p3mat,nhstepm,agedeb,hstepm,p,prevacurrent,nlstate,stepm, k); |
|
/* hbxij(p3mat,nhstepm,agedeb,hstepm,p,prevacurrent,nlstate,stepm,oldm,savm, dnewm, doldm, dsavm, k); */ |
|
fprintf(ficrespijb,"# Cov Agex agex-h hpijx with i,j="); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate+ndeath;j++) |
|
fprintf(ficrespijb," %1d-%1d",i,j); |
|
fprintf(ficrespijb,"\n"); |
|
for (h=0; h<=nhstepm; h++){ |
|
/*agedebphstep = agedeb + h*hstepm/YEARM*stepm;*/ |
|
fprintf(ficrespijb,"%d %3.f %3.f",k, agedeb, agedeb - h*hstepm/YEARM*stepm ); |
|
/* fprintf(ficrespijb,"%d %3.f %3.f",k, agedeb, agedeb + h*hstepm/YEARM*stepm ); */ |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate+ndeath;j++) |
|
fprintf(ficrespijb," %.5f", p3mat[i][j][h]); |
|
fprintf(ficrespijb,"\n"); |
|
} |
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
fprintf(ficrespijb,"\n"); |
|
} |
|
/*}*/ |
|
} |
|
return 0; |
|
} /* hBijx */ |
|
|
|
|
/***********************************************/ |
/***********************************************/ |
Line 6919 int main(int argc, char *argv[])
|
Line 8004 int main(int argc, char *argv[])
|
double agedeb=0.; |
double agedeb=0.; |
|
|
double ageminpar=AGEOVERFLOW,agemin=AGEOVERFLOW, agemaxpar=-AGEOVERFLOW, agemax=-AGEOVERFLOW; |
double ageminpar=AGEOVERFLOW,agemin=AGEOVERFLOW, agemaxpar=-AGEOVERFLOW, agemax=-AGEOVERFLOW; |
|
double ageminout=-AGEOVERFLOW,agemaxout=AGEOVERFLOW; /* Smaller Age range redefined after movingaverage */ |
|
|
double fret; |
double fret; |
double dum=0.; /* Dummy variable */ |
double dum=0.; /* Dummy variable */ |
double ***p3mat; |
double ***p3mat; |
double ***mobaverage; |
/* double ***mobaverage; */ |
|
|
char line[MAXLINE]; |
char line[MAXLINE]; |
char path[MAXLINE],pathc[MAXLINE],pathcd[MAXLINE],pathtot[MAXLINE]; |
char path[MAXLINE],pathc[MAXLINE],pathcd[MAXLINE],pathtot[MAXLINE]; |
Line 6939 int main(int argc, char *argv[])
|
Line 8025 int main(int argc, char *argv[])
|
|
|
int *tab; |
int *tab; |
int mobilavproj=0 , prevfcast=0 ; /* moving average of prev, If prevfcast=1 prevalence projection */ |
int mobilavproj=0 , prevfcast=0 ; /* moving average of prev, If prevfcast=1 prevalence projection */ |
|
int backcast=0; |
int mobilav=0,popforecast=0; |
int mobilav=0,popforecast=0; |
int hstepm=0, nhstepm=0; |
int hstepm=0, nhstepm=0; |
int agemortsup; |
int agemortsup; |
Line 6949 int main(int argc, char *argv[])
|
Line 8036 int main(int argc, char *argv[])
|
double bage=0, fage=110., age, agelim=0., agebase=0.; |
double bage=0, fage=110., age, agelim=0., agebase=0.; |
double ftolpl=FTOL; |
double ftolpl=FTOL; |
double **prlim; |
double **prlim; |
|
double **bprlim; |
double ***param; /* Matrix of parameters */ |
double ***param; /* Matrix of parameters */ |
double *p; |
double *p; |
double **matcov; /* Matrix of covariance */ |
double **matcov; /* Matrix of covariance */ |
Line 6960 int main(int argc, char *argv[])
|
Line 8048 int main(int argc, char *argv[])
|
double *epj, vepp; |
double *epj, vepp; |
|
|
double dateprev1, dateprev2,jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000; |
double dateprev1, dateprev2,jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000; |
|
double jback1=1,mback1=1,anback1=2000,jback2=1,mback2=1,anback2=2000; |
|
|
double **ximort; |
double **ximort; |
char *alph[]={"a","a","b","c","d","e"}, str[4]="1234"; |
char *alph[]={"a","a","b","c","d","e"}, str[4]="1234"; |
int *dcwave; |
int *dcwave; |
Line 7396 This is probably because your covariance
|
Line 8486 This is probably because your covariance
|
Please run with mle=-1 to get a correct covariance matrix.\n",optionfile,numlinepar, i1,j1,jk, npar, model); |
Please run with mle=-1 to get a correct covariance matrix.\n",optionfile,numlinepar, i1,j1,jk, npar, model); |
exit(1); |
exit(1); |
}else |
}else |
if(mle==1) |
if(mle==1) |
printf("%1d%1d%1d",i1,j1,jk); |
printf("%1d%1d%1d",i1,j1,jk); |
fprintf(ficlog,"%1d%1d%1d",i1,j1,jk); |
fprintf(ficlog,"%1d%1d%1d",i1,j1,jk); |
fprintf(ficparo,"%1d%1d%1d",i1,j1,jk); |
fprintf(ficparo,"%1d%1d%1d",i1,j1,jk); |
for(j=1; j <=i; j++){ |
for(j=1; j <=i; j++){ |
Line 7437 Please run with mle=-1 to get a correct
|
Line 8527 Please run with mle=-1 to get a correct
|
} |
} |
fprintf(ficres,"#%s\n",version); |
fprintf(ficres,"#%s\n",version); |
} /* End of mle != -3 */ |
} /* End of mle != -3 */ |
|
|
/* Main data |
/* Main data |
*/ |
*/ |
n= lastobs; |
n= lastobs; |
Line 7519 Please run with mle=-1 to get a correct
|
Line 8609 Please run with mle=-1 to get a correct
|
free_vector(annais,1,n); |
free_vector(annais,1,n); |
/* free_matrix(mint,1,maxwav,1,n); |
/* free_matrix(mint,1,maxwav,1,n); |
free_matrix(anint,1,maxwav,1,n);*/ |
free_matrix(anint,1,maxwav,1,n);*/ |
free_vector(moisdc,1,n); |
/* free_vector(moisdc,1,n); */ |
free_vector(andc,1,n); |
/* free_vector(andc,1,n); */ |
/* */ |
/* */ |
|
|
wav=ivector(1,imx); |
wav=ivector(1,imx); |
dh=imatrix(1,lastpass-firstpass+1,1,imx); |
/* dh=imatrix(1,lastpass-firstpass+1,1,imx); */ |
bh=imatrix(1,lastpass-firstpass+1,1,imx); |
/* bh=imatrix(1,lastpass-firstpass+1,1,imx); */ |
mw=imatrix(1,lastpass-firstpass+1,1,imx); |
/* mw=imatrix(1,lastpass-firstpass+1,1,imx); */ |
|
dh=imatrix(1,lastpass-firstpass+2,1,imx); /* We are adding a wave if status is unknown at last wave but death occurs after last wave.*/ |
|
bh=imatrix(1,lastpass-firstpass+2,1,imx); |
|
mw=imatrix(1,lastpass-firstpass+2,1,imx); |
|
|
/* Concatenates waves */ |
/* Concatenates waves */ |
|
/* Concatenates waves: wav[i] is the number of effective (useful waves) of individual i. |
|
Death is a valid wave (if date is known). |
|
mw[mi][i] is the number of (mi=1 to wav[i]) effective wave out of mi of individual i |
|
dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective waves m=mw[mi][i] |
|
and mw[mi+1][i]. dh depends on stepm. |
|
*/ |
|
|
concatwav(wav, dh, bh, mw, s, agedc, agev, firstpass, lastpass, imx, nlstate, stepm); |
concatwav(wav, dh, bh, mw, s, agedc, agev, firstpass, lastpass, imx, nlstate, stepm); |
/* */ |
/* */ |
|
|
|
free_vector(moisdc,1,n); |
|
free_vector(andc,1,n); |
|
|
/* Routine tricode is to calculate cptcoveff (real number of unique covariates) and to associate covariable number and modality */ |
/* Routine tricode is to calculate cptcoveff (real number of unique covariates) and to associate covariable number and modality */ |
|
|
nbcode=imatrix(0,NCOVMAX,0,NCOVMAX); |
nbcode=imatrix(0,NCOVMAX,0,NCOVMAX); |
Line 7584 Please run with mle=-1 to get a correct
|
Line 8687 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 |
*/ |
*/ |
/* How to do the opposite? From combination h (=1 to 2**k) how to get the value on the covariates? |
/* How to do the opposite? From combination h (=1 to 2**k) how to get the value on the covariates? */ |
/* from h=5 and m, we get then number of covariates k=log(m)/log(2)=4 |
/* from h=5 and m, we get then number of covariates k=log(m)/log(2)=4 |
* and the value of each covariate? |
* and the value of each covariate? |
* V1=1, V2=1, V3=2, V4=1 ? |
* V1=1, V2=1, V3=2, V4=1 ? |
Line 7705 Title=%s <br>Datafile=%s Firstpass=%d La
|
Line 8808 Title=%s <br>Datafile=%s Firstpass=%d La
|
optionfilehtmcov,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
optionfilehtmcov,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
} |
} |
|
|
fprintf(fichtm,"<html><head>\n<head>\n<meta charset=\"utf-8\"/><meta http-equiv=\"Content-Type\" content=\"text/html; charset=utf-8\" />\n<title>IMaCh %s</title></head>\n <body><font size=\"7\"><a href=http:/euroreves.ined.fr/imach>IMaCh for Interpolated Markov Chain</a> </font><br>\n<font size=\"3\">Sponsored by Copyright (C) 2002-2015 <a href=http://www.ined.fr>INED</a>-EUROREVES-Institut de longévité-Japan Society for the Promotion of Sciences 日本学術振興会 (<a href=https://www.jsps.go.jp/english/e-grants/>Grant-in-Aid for Scientific Research 25293121</a>) - <a href=https://software.intel.com/en-us>Intel Software 2015</a></font><br> \ |
fprintf(fichtm,"<html><head>\n<head>\n<meta charset=\"utf-8\"/><meta http-equiv=\"Content-Type\" content=\"text/html; charset=utf-8\" />\n<title>IMaCh %s</title></head>\n <body><font size=\"7\"><a href=http:/euroreves.ined.fr/imach>IMaCh for Interpolated Markov Chain</a> </font><br>\n<font size=\"3\">Sponsored by Copyright (C) 2002-2015 <a href=http://www.ined.fr>INED</a>-EUROREVES-Institut de longévité-2013-2016-Japan Society for the Promotion of Sciences 日本学術振興会 (<a href=https://www.jsps.go.jp/english/e-grants/>Grant-in-Aid for Scientific Research 25293121</a>) - <a href=https://software.intel.com/en-us>Intel Software 2015-2018</a></font><br> \ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<font size=\"2\">IMaCh-%s <br> %s</font> \ |
<font size=\"2\">IMaCh-%s <br> %s</font> \ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
Line 7735 Title=%s <br>Datafile=%s Firstpass=%d La
|
Line 8838 Title=%s <br>Datafile=%s Firstpass=%d La
|
|
|
/* 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,strstart); |
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ |
|
firstpass, lastpass, stepm, weightopt, model); |
|
|
fprintf(fichtm,"\n"); |
fprintf(fichtm,"\n"); |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
Line 7747 Interval (in months) between two waves:
|
Line 8851 Interval (in months) between two waves:
|
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 */ |
oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */ |
oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */ |
|
|
|
|
/* For Powell, parameters are in a vector p[] starting at p[1] |
/* For Powell, parameters are in a vector p[] starting at p[1] |
so we point p on param[1][1] so that p[1] maps on param[1][1][1] */ |
so we point p on param[1][1] so that p[1] maps on param[1][1][1] */ |
p=param[1][1]; /* *(*(*(param +1)+1)+0) */ |
p=param[1][1]; /* *(*(*(param +1)+1)+0) */ |
Line 7766 Interval (in months) between two waves:
|
Line 8869 Interval (in months) between two waves:
|
for (i=1; i<=imx; i++){ |
for (i=1; i<=imx; i++){ |
dcwave[i]=-1; |
dcwave[i]=-1; |
for (m=firstpass; m<=lastpass; m++) |
for (m=firstpass; m<=lastpass; m++) |
if (s[m][i]>nlstate) { |
if (s[m][i]>nlstate) { |
dcwave[i]=m; |
dcwave[i]=m; |
/* printf("i=%d j=%d s=%d dcwave=%d\n",i,j, s[j][i],dcwave[i]);*/ |
/* printf("i=%d j=%d s=%d dcwave=%d\n",i,j, s[j][i],dcwave[i]);*/ |
break; |
break; |
} |
} |
} |
} |
|
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
if (wav[i]>0){ |
if (wav[i]>0){ |
ageexmed[i]=agev[mw[1][i]][i]; |
ageexmed[i]=agev[mw[1][i]][i]; |
j=wav[i]; |
j=wav[i]; |
agecens[i]=1.; |
agecens[i]=1.; |
|
|
if (ageexmed[i]> 1 && wav[i] > 0){ |
if (ageexmed[i]> 1 && wav[i] > 0){ |
agecens[i]=agev[mw[j][i]][i]; |
agecens[i]=agev[mw[j][i]][i]; |
cens[i]= 1; |
cens[i]= 1; |
}else if (ageexmed[i]< 1) |
}else if (ageexmed[i]< 1) |
cens[i]= -1; |
cens[i]= -1; |
if (agedc[i]< AGESUP && agedc[i]>1 && dcwave[i]>firstpass && dcwave[i]<=lastpass) |
if (agedc[i]< AGESUP && agedc[i]>1 && dcwave[i]>firstpass && dcwave[i]<=lastpass) |
cens[i]=0 ; |
cens[i]=0 ; |
} |
} |
else cens[i]=-1; |
else cens[i]=-1; |
} |
} |
|
|
for (i=1;i<=NDIM;i++) { |
for (i=1;i<=NDIM;i++) { |
for (j=1;j<=NDIM;j++) |
for (j=1;j<=NDIM;j++) |
ximort[i][j]=(i == j ? 1.0 : 0.0); |
ximort[i][j]=(i == j ? 1.0 : 0.0); |
} |
} |
|
|
/*p[1]=0.0268; p[NDIM]=0.083;*/ |
/*p[1]=0.0268; p[NDIM]=0.083;*/ |
Line 8248 Please run with mle=-1 to get a correct
|
Line 9351 Please run with mle=-1 to get a correct
|
fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); |
fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); |
/* day and month of proj2 are not used but only year anproj2.*/ |
/* day and month of proj2 are not used but only year anproj2.*/ |
|
|
|
while((c=getc(ficpar))=='#' && c!= EOF){ |
|
ungetc(c,ficpar); |
|
fgets(line, MAXLINE, ficpar); |
|
fputs(line,stdout); |
|
fputs(line,ficparo); |
|
} |
|
ungetc(c,ficpar); |
|
|
|
fscanf(ficpar,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj); |
|
fscanf(ficparo,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj); |
|
fscanf(ficlog,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj); |
|
fscanf(ficres,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj); |
|
/* day and month of proj2 are not used but only year anproj2.*/ |
|
|
|
|
/* 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); */ |
Line 8262 Please run with mle=-1 to get a correct
|
Line 9378 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(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, pathc,p); |
printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p); |
|
|
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,prevfcast,estepm, \ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,prevfcast,backcast, estepm, \ |
jprev1,mprev1,anprev1,jprev2,mprev2,anprev2); |
jprev1,mprev1,anprev1,dateprev1,jprev2,mprev2,anprev2,dateprev2); |
|
|
/*------------ free_vector -------------*/ |
/*------------ free_vector -------------*/ |
/* chdir(path); */ |
/* chdir(path); */ |
|
|
free_ivector(wav,1,imx); |
/* free_ivector(wav,1,imx); */ /* Moved after last prevalence call */ |
free_imatrix(dh,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(dh,1,lastpass-firstpass+2,1,imx); */ |
free_imatrix(bh,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(bh,1,lastpass-firstpass+2,1,imx); */ |
free_imatrix(mw,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(mw,1,lastpass-firstpass+2,1,imx); */ |
free_lvector(num,1,n); |
free_lvector(num,1,n); |
free_vector(agedc,1,n); |
free_vector(agedc,1,n); |
/*free_matrix(covar,0,NCOVMAX,1,n);*/ |
/*free_matrix(covar,0,NCOVMAX,1,n);*/ |
Line 8292 Please run with mle=-1 to get a correct
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Line 9408 Please run with mle=-1 to get a correct
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prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl, &ncvyear); |
prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl, &ncvyear); |
fclose(ficrespl); |
fclose(ficrespl); |
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#ifdef FREEEXIT2 |
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#include "freeexit2.h" |
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#endif |
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/*------------- h Pij x at various ages ------------*/ |
/*------------- h Pij x at various ages ------------*/ |
/*#include "hpijx.h"*/ |
/*#include "hpijx.h"*/ |
hPijx(p, bage, fage); |
hPijx(p, bage, fage); |
fclose(ficrespij); |
fclose(ficrespij); |
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ncovcombmax= pow(2,cptcoveff); |
/*-------------- Variance of one-step probabilities---*/ |
/*-------------- Variance of one-step probabilities---*/ |
k=1; |
k=1; |
varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); |
varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); |
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/* Prevalence for each covariates in probs[age][status][cov] */ |
probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX); |
probs= ma3x(1,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); |
for(i=1;i<=AGESUP;i++) |
for(i=1;i<=AGESUP;i++) |
for(j=1;j<=NCOVMAX;j++) |
for(j=1;j<=nlstate;j++) |
for(k=1;k<=NCOVMAX;k++) |
for(k=1;k<=ncovcombmax;k++) |
probs[i][j][k]=0.; |
probs[i][j][k]=0.; |
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prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
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if (mobilav!=0 ||mobilavproj !=0 ) { |
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mobaverage= ma3x(1, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); |
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if (mobilav!=0) { |
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if (movingaverage(probs, ageminpar, agemaxpar, mobaverage, mobilav)!=0){ |
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fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
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printf(" Error in movingaverage mobilav=%d\n",mobilav); |
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} |
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} |
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/* /\* Prevalence for each covariates in probs[age][status][cov] *\/ */ |
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/* prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); */ |
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else if (mobilavproj !=0) { |
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if (movingaverage(probs, ageminpar, agemaxpar, mobaverage, mobilavproj)!=0){ |
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fprintf(ficlog," Error in movingaverage mobilavproj=%d\n",mobilavproj); |
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printf(" Error in movingaverage mobilavproj=%d\n",mobilavproj); |
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} |
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} |
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}/* end if moving average */ |
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/*---------- Forecasting ------------------*/ |
/*---------- Forecasting ------------------*/ |
/*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(fileresu, 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);*/ |
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/* } */ |
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/* else{ */ |
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/* erreur=108; */ |
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/* printf("Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
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/* fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
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/* } */ |
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} |
} |
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if(backcast==1){ |
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ddnewms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); |
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ddoldms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); |
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ddsavms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); |
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/*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ |
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/*#include "prevlim.h"*/ /* Use ficresplb, ficlog */ |
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bprlim=matrix(1,nlstate,1,nlstate); |
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back_prevalence_limit(p, bprlim, ageminpar, agemaxpar, ftolpl, &ncvyear, dateprev1, dateprev2, firstpass, lastpass, mobilavproj); |
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fclose(ficresplb); |
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hBijx(p, bage, fage, mobaverage); |
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fclose(ficrespijb); |
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free_matrix(bprlim,1,nlstate,1,nlstate); /*here or after loop ? */ |
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/* prevbackforecast(fileresu, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); */ |
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free_matrix(ddnewms, 1, nlstate+ndeath, 1, nlstate+ndeath); |
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free_matrix(ddsavms, 1, nlstate+ndeath, 1, nlstate+ndeath); |
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free_matrix(ddoldms, 1, nlstate+ndeath, 1, nlstate+ndeath); |
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} |
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/* if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
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/* if (mobilavproj!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
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/* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ |
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/* } */ |
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/* else{ */ |
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/* erreur=108; */ |
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/* printf("Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
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/* fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
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/* } */ |
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/* ------ Other prevalence ratios------------ */ |
/* ------ Other prevalence ratios------------ */ |
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/* Computes prevalence between agemin (i.e minimal age computed) and no more ageminpar */ |
/* Computes prevalence between agemin (i.e minimal age computed) and no more ageminpar */ |
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prevalence(probs, agemin, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
/* prevalence(probs, agemin, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); */ |
/* printf("ageminpar=%f, agemax=%f, s[lastpass][imx]=%d, agev[lastpass][imx]=%f, nlstate=%d, imx=%d, mint[lastpass][imx]=%f, anint[lastpass][imx]=%f,dateprev1=%f, dateprev2=%f, firstpass=%d, lastpass=%d\n",\ |
/* printf("ageminpar=%f, agemax=%f, s[lastpass][imx]=%d, agev[lastpass][imx]=%f, nlstate=%d, imx=%d, mint[lastpass][imx]=%f, anint[lastpass][imx]=%f,dateprev1=%f, dateprev2=%f, firstpass=%d, lastpass=%d\n",\ |
ageminpar, agemax, s[lastpass][imx], agev[lastpass][imx], nlstate, imx, mint[lastpass][imx],anint[lastpass][imx], dateprev1, dateprev2, firstpass, lastpass); |
ageminpar, agemax, s[lastpass][imx], agev[lastpass][imx], nlstate, imx, mint[lastpass][imx],anint[lastpass][imx], dateprev1, dateprev2, firstpass, lastpass); |
*/ |
*/ |
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free_ivector(wav,1,imx); |
if (mobilav!=0) { |
free_imatrix(dh,1,lastpass-firstpass+2,1,imx); |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
free_imatrix(bh,1,lastpass-firstpass+2,1,imx); |
if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ |
free_imatrix(mw,1,lastpass-firstpass+2,1,imx); |
fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
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printf(" Error in movingaverage mobilav=%d\n",mobilav); |
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} |
/* if (mobilav!=0) { */ |
} |
/* mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ |
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/* if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ */ |
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/* fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); */ |
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/* printf(" Error in movingaverage mobilav=%d\n",mobilav); */ |
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/* } */ |
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/* } */ |
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/*---------- Health expectancies, no variances ------------*/ |
/*---------- Health expectancies, no variances ------------*/ |
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strcpy(filerese,"E_"); |
strcpy(filerese,"E_"); |
strcat(filerese,fileresu); |
strcat(filerese,fileresu); |
if((ficreseij=fopen(filerese,"w"))==NULL) { |
if((ficreseij=fopen(filerese,"w"))==NULL) { |
Line 8356 Please run with mle=-1 to get a correct
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Line 9516 Please run with mle=-1 to get a correct
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fprintf(ficlog,"Computing Health Expectancies: result on file '%s' ...", filerese);fflush(ficlog); |
fprintf(ficlog,"Computing Health Expectancies: result on file '%s' ...", filerese);fflush(ficlog); |
/*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ |
/*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ |
for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ |
for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ |
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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]][codtabm(k,j)]); |
fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficreseij,"******\n"); |
fprintf(ficreseij,"******\n"); |
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eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
evsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, strstart); |
evsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, strstart); |
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free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
/*}*/ |
/*}*/ |
} |
} |
fclose(ficreseij); |
fclose(ficreseij); |
printf("done evsij\n");fflush(stdout); |
printf("done evsij\n");fflush(stdout); |
fprintf(ficlog,"done evsij\n");fflush(ficlog); |
fprintf(ficlog,"done evsij\n");fflush(ficlog); |
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/*---------- Health expectancies and variances ------------*/ |
/*---------- Health expectancies and variances ------------*/ |
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strcpy(filerest,"T_"); |
strcpy(filerest,"T_"); |
strcat(filerest,fileresu); |
strcat(filerest,fileresu); |
if((ficrest=fopen(filerest,"w"))==NULL) { |
if((ficrest=fopen(filerest,"w"))==NULL) { |
Line 8386 Please run with mle=-1 to get a correct
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Line 9546 Please run with mle=-1 to get a correct
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} |
} |
printf("Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(stdout); |
printf("Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(stdout); |
fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(ficlog); |
fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(ficlog); |
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strcpy(fileresstde,"STDE_"); |
strcpy(fileresstde,"STDE_"); |
strcat(fileresstde,fileresu); |
strcat(fileresstde,fileresu); |
Line 8421 Please run with mle=-1 to get a correct
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Line 9581 Please run with mle=-1 to get a correct
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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]][codtabm(k,j)]); |
fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficrest,"******\n"); |
fprintf(ficrest,"******\n"); |
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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]][codtabm(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]][codtabm(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"); |
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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]][codtabm(k,j)]); |
fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresvij,"******\n"); |
fprintf(ficresvij,"******\n"); |
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eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); |
Line 8455 Please run with mle=-1 to get a correct
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Line 9615 Please run with mle=-1 to get a correct
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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; /* ZZ Segmentation fault */ |
oldm=oldms;savm=savms; /* ZZ Segmentation fault */ |
cptcod= 0; /* To be deleted */ |
cptcod= 0; /* To be deleted */ |
printf("varevsij %d \n",vpopbased); |
printf("varevsij %d \n",vpopbased); |
fprintf(ficlog, "varevsij %d \n",vpopbased); |
fprintf(ficlog, "varevsij %d \n",vpopbased); |
varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, 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, &ncvyear, 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 "); |
if(vpopbased==1) |
if(vpopbased==1) |
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 popbased mobilav 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"); */ |
/* 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); |
printf("Computing age specific period (stable) prevalences in each health state \n"); |
printf("Computing age specific period (stable) prevalences in each health state \n"); |
fprintf(ficlog,"Computing age specific period (stable) prevalences in each health state \n"); |
fprintf(ficlog,"Computing age specific period (stable) prevalences in each health state \n"); |
for(age=bage; age <=fage ;age++){ |
for(age=bage; age <=fage ;age++){ |
prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, &ncvyear, k); /*ZZ Is it the correct prevalim */ |
prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, &ncvyear, 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++) |
prlim[i][i]=probs[(int)age][i][k]; |
prlim[i][i]=probs[(int)age][i][k]; |
}else{ /* mobilav */ |
}else{ /* mobilav */ |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
prlim[i][i]=mobaverage[(int)age][i][k]; |
prlim[i][i]=mobaverage[(int)age][i][k]; |
} |
} |
} |
} |
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fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav); |
fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav); |
/* fprintf(ficrest," %4.0f %d %d %d %d",age, vpopbased, mobilav,Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ /* to be done */ |
/* fprintf(ficrest," %4.0f %d %d %d %d",age, vpopbased, mobilav,Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ /* to be done */ |
/* printf(" age %4.0f ",age); */ |
/* 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]; |
/*ZZZ 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]); */ |
/* 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); */ |
/* printf(" age %4.0f \n",age); */ |
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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++) |
vepp += vareij[i][j][(int)age]; |
vepp += vareij[i][j][(int)age]; |
fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp)); |
fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp)); |
for(j=1;j <=nlstate;j++){ |
for(j=1;j <=nlstate;j++){ |
fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age])); |
fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age])); |
} |
} |
fprintf(ficrest,"\n"); |
fprintf(ficrest,"\n"); |
} |
} |
} /* End vpopbased */ |
} /* End vpopbased */ |
free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage); |
Line 8546 Please run with mle=-1 to get a correct
|
Line 9706 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]][codtabm(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); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, k, strstart); |
varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, k, strstart); |
free_matrix(varpl,1,nlstate,(int) bage, (int)fage); |
free_matrix(varpl,1,nlstate,(int) bage, (int)fage); |
/*}*/ |
/*}*/ |
} |
} |
|
|
fclose(ficresvpl); |
fclose(ficresvpl); |
printf("done variance-covariance of period prevalence\n");fflush(stdout); |
printf("done variance-covariance of period prevalence\n");fflush(stdout); |
fprintf(ficlog,"done variance-covariance of period prevalence\n");fflush(ficlog); |
fprintf(ficlog,"done variance-covariance of period prevalence\n");fflush(ficlog); |
|
|
/*---------- End : free ----------------*/ |
/*---------- End : free ----------------*/ |
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
if (mobilav!=0 ||mobilavproj !=0) free_ma3x(mobaverage,1, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); /* We need to have a squared matrix with prevalence of the dead! */ |
free_ma3x(probs,1,AGESUP,1,NCOVMAX, 1,NCOVMAX); |
free_ma3x(probs,1,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); |
} /* mle==-3 arrives here for freeing */ |
} /* mle==-3 arrives here for freeing */ |
/* endfree:*/ |
/* endfree:*/ |
free_matrix(prlim,1,nlstate,1,nlstate); /*here or after loop ? */ |
free_matrix(prlim,1,nlstate,1,nlstate); /*here or after loop ? */ |
Line 8593 Please run with mle=-1 to get a correct
|
Line 9753 Please run with mle=-1 to get a correct
|
|
|
|
|
if((nberr >0) || (nbwarn>0)){ |
if((nberr >0) || (nbwarn>0)){ |
printf("End of Imach with %d errors and/or %d warnings\n",nberr,nbwarn); |
printf("End of Imach with %d errors and/or %d warnings. Please look at the log file for details.\n",nberr,nbwarn); |
fprintf(ficlog,"End of Imach with %d errors and/or warnings %d\n",nberr,nbwarn); |
fprintf(ficlog,"End of Imach with %d errors and/or warnings %d. Please look at the log file for details.\n",nberr,nbwarn); |
}else{ |
}else{ |
printf("End of Imach\n"); |
printf("End of Imach\n"); |
fprintf(ficlog,"End of Imach\n"); |
fprintf(ficlog,"End of Imach\n"); |