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version 1.14, 2002/02/20 17:05:44
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version 1.34, 2002/03/13 17:19:16
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/* $Id$
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| /*********************** Imach **************************************
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Interpolated Markov Chain
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| This program computes Healthy Life Expectancies from cross-longitudinal
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| data. Cross-longitudinal consist in a first survey ("cross") where
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Short summary of the programme:
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| individuals from different ages are interviewed on their health status
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| or degree of disability. At least a second wave of interviews
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This program computes Healthy Life Expectancies from
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| ("longitudinal") should measure each new individual health status.
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cross-longitudinal data. Cross-longitudinal data consist in: -1- a
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| Health expectancies are computed from the transistions observed between
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first survey ("cross") where individuals from different ages are
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| waves and are computed for each degree of severity of disability (number
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interviewed on their health status or degree of disability (in the
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| of life states). More degrees you consider, more time is necessary to
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case of a health survey which is our main interest) -2- at least a
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| reach the Maximum Likelihood of the parameters involved in the model.
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second wave of interviews ("longitudinal") which measure each change
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| The simplest model is the multinomial logistic model where pij is
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(if any) in individual health status. Health expectancies are
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| the probabibility to be observed in state j at the second wave conditional
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computed from the time spent in each health state according to a
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| to be observed in state i at the first wave. Therefore the model is:
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model. More health states you consider, more time is necessary to reach the
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| log(pij/pii)= aij + bij*age+ cij*sex + etc , where 'age' is age and 'sex'
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Maximum Likelihood of the parameters involved in the model. The
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| is a covariate. If you want to have a more complex model than "constant and
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simplest model is the multinomial logistic model where pij is the
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| age", you should modify the program where the markup
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probabibility to be observed in state j at the second wave
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| *Covariates have to be included here again* invites you to do it.
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conditional to be observed in state i at the first wave. Therefore
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| More covariates you add, less is the speed of the convergence.
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the model is: log(pij/pii)= aij + bij*age+ cij*sex + etc , where
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'age' is age and 'sex' is a covariate. If you want to have a more
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| The advantage that this computer programme claims, comes from that if the
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complex model than "constant and age", you should modify the program
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| delay between waves is not identical for each individual, or if some
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where the markup *Covariates have to be included here again* invites
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| individual missed an interview, the information is not rounded or lost, but
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you to do it. More covariates you add, slower the
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| taken into account using an interpolation or extrapolation.
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convergence.
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| hPijx is the probability to be
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| observed in state i at age x+h conditional to the observed state i at age
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The advantage of this computer programme, compared to a simple
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| x. The delay 'h' can be split into an exact number (nh*stepm) of
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multinomial logistic model, is clear when the delay between waves is not
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| unobserved intermediate states. This elementary transition (by month or
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identical for each individual. Also, if a individual missed an
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| quarter trimester, semester or year) is model as a multinomial logistic.
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intermediate interview, the information is lost, but taken into
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| The hPx matrix is simply the matrix product of nh*stepm elementary matrices
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account using an interpolation or extrapolation.
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| and the contribution of each individual to the likelihood is simply hPijx.
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hPijx is the probability to be observed in state i at age x+h
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conditional to the observed state i at age x. The delay 'h' can be
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split into an exact number (nh*stepm) of unobserved intermediate
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states. This elementary transition (by month or quarter trimester,
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semester or year) is model as a multinomial logistic. The hPx
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matrix is simply the matrix product of nh*stepm elementary matrices
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and the contribution of each individual to the likelihood is simply
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hPijx.
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| Also this programme outputs the covariance matrix of the parameters but also
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Also this programme outputs the covariance matrix of the parameters but also
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| of the life expectancies. It also computes the prevalence limits.
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of the life expectancies. It also computes the prevalence limits.
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Line 56
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| #include <unistd.h>
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#include <unistd.h>
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| #define MAXLINE 256
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#define MAXLINE 256
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#define GNUPLOTPROGRAM "..\\gp37mgw\\wgnuplot"
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| #define FILENAMELENGTH 80
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#define FILENAMELENGTH 80
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| /*#define DEBUG*/
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/*#define DEBUG*/
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| #define windows
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#define windows
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Line 67
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Line 76
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| #define AGEBASE 40
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#define AGEBASE 40
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int erreur; /* Error number */
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| int nvar;
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int nvar;
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| int cptcovn, cptcovage=0, cptcoveff=0,cptcov;
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int cptcovn, cptcovage=0, cptcoveff=0,cptcov;
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| int npar=NPARMAX;
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int npar=NPARMAX;
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| int nlstate=2; /* Number of live states */
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int nlstate=2; /* Number of live states */
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| int ndeath=1; /* Number of dead states */
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int ndeath=1; /* Number of dead states */
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| int ncovmodel, ncov; /* Total number of covariables including constant a12*1 +b12*x ncovmodel=2 */
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int ncovmodel, ncovcol; /* Total number of covariables including constant a12*1 +b12*x ncovmodel=2 */
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| int popbased=0, fprev,lprev;
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int popbased=0;
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| int *wav; /* Number of waves for this individuual 0 is possible */
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int *wav; /* Number of waves for this individuual 0 is possible */
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| int maxwav; /* Maxim number of waves */
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int maxwav; /* Maxim number of waves */
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Line 84 int **dh; /* dh[mi][i] is number of step
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Line 94 int **dh; /* dh[mi][i] is number of step
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| double jmean; /* Mean space between 2 waves */
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double jmean; /* Mean space between 2 waves */
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| double **oldm, **newm, **savm; /* Working pointers to matrices */
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double **oldm, **newm, **savm; /* Working pointers to matrices */
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| double **oldms, **newms, **savms; /* Fixed working pointers to matrices */
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double **oldms, **newms, **savms; /* Fixed working pointers to matrices */
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| FILE *fic,*ficpar, *ficparo,*ficres, *ficrespl, *ficrespij, *ficrest,*ficresf;
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FILE *fic,*ficpar, *ficparo,*ficres, *ficrespl, *ficrespij, *ficrest,*ficresf,*ficrespop;
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| FILE *ficgp, *fichtm,*ficresprob;
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FILE *ficgp,*ficresprob,*ficpop;
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| FILE *ficreseij;
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FILE *ficreseij;
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| char filerese[FILENAMELENGTH];
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char filerese[FILENAMELENGTH];
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| FILE *ficresvij;
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FILE *ficresvij;
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Line 113 FILE *ficreseij;
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Line 123 FILE *ficreseij;
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| static double maxarg1,maxarg2;
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static double maxarg1,maxarg2;
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| #define FMAX(a,b) (maxarg1=(a),maxarg2=(b),(maxarg1)>(maxarg2)? (maxarg1):(maxarg2))
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#define FMAX(a,b) (maxarg1=(a),maxarg2=(b),(maxarg1)>(maxarg2)? (maxarg1):(maxarg2))
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| #define FMIN(a,b) (maxarg1=(a),maxarg2=(b),(maxarg1)<(maxarg2)? (maxarg1):(maxarg2))
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#define FMIN(a,b) (maxarg1=(a),maxarg2=(b),(maxarg1)<(maxarg2)? (maxarg1):(maxarg2))
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| #define SIGN(a,b) ((b)>0.0 ? fabs(a) : -fabs(a))
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#define SIGN(a,b) ((b)>0.0 ? fabs(a) : -fabs(a))
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| #define rint(a) floor(a+0.5)
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#define rint(a) floor(a+0.5)
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Line 129 int m,nb;
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Line 139 int m,nb;
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| int *num, firstpass=0, lastpass=4,*cod, *ncodemax, *Tage;
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int *num, firstpass=0, lastpass=4,*cod, *ncodemax, *Tage;
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| double **agev,*moisnais, *annais, *moisdc, *andc,**mint, **anint;
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double **agev,*moisnais, *annais, *moisdc, *andc,**mint, **anint;
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| double **pmmij, ***probs, ***mobaverage;
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double **pmmij, ***probs, ***mobaverage;
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double dateintmean=0;
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| double *weight;
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double *weight;
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| int **s; /* Status */
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int **s; /* Status */
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Line 139 double ftol=FTOL; /* Tolerance for compu
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Line 150 double ftol=FTOL; /* Tolerance for compu
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| double ftolhess; /* Tolerance for computing hessian */
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double ftolhess; /* Tolerance for computing hessian */
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| /**************** split *************************/
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/**************** split *************************/
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| static int split( char *path, char *dirc, char *name )
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static int split( char *path, char *dirc, char *name, char *ext, char *finame )
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| {
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{
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| char *s; /* pointer */
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char *s; /* pointer */
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| int l1, l2; /* length counters */
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int l1, l2; /* length counters */
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| l1 = strlen( path ); /* length of path */
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l1 = strlen( path ); /* length of path */
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| if ( l1 == 0 ) return( GLOCK_ERROR_NOPATH );
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if ( l1 == 0 ) return( GLOCK_ERROR_NOPATH );
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#ifdef windows
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| s = strrchr( path, '\\' ); /* find last / */
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s = strrchr( path, '\\' ); /* find last / */
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#else
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s = strrchr( path, '/' ); /* find last / */
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#endif
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| if ( s == NULL ) { /* no directory, so use current */
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if ( s == NULL ) { /* no directory, so use current */
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| #if defined(__bsd__) /* get current working directory */
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#if defined(__bsd__) /* get current working directory */
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| extern char *getwd( );
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extern char *getwd( );
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Line 169 static int split( char *path, char *dirc
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Line 184 static int split( char *path, char *dirc
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| dirc[l1-l2] = 0; /* add zero */
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dirc[l1-l2] = 0; /* add zero */
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| }
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}
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| l1 = strlen( dirc ); /* length of directory */
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l1 = strlen( dirc ); /* length of directory */
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#ifdef windows
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| if ( dirc[l1-1] != '\\' ) { dirc[l1] = '\\'; dirc[l1+1] = 0; }
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if ( dirc[l1-1] != '\\' ) { dirc[l1] = '\\'; dirc[l1+1] = 0; }
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#else
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if ( dirc[l1-1] != '/' ) { dirc[l1] = '/'; dirc[l1+1] = 0; }
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#endif
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s = strrchr( name, '.' ); /* find last / */
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s++;
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strcpy(ext,s); /* save extension */
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l1= strlen( name);
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l2= strlen( s)+1;
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strncpy( finame, name, l1-l2);
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finame[l1-l2]= 0;
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| return( 0 ); /* we're done */
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return( 0 ); /* we're done */
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| }
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}
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Line 717 double **pmij(double **ps, double *cov,
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Line 743 double **pmij(double **ps, double *cov,
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| s2 += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];
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s2 += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];
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| /*printf("Int j>i s1=%.17e, s2=%.17e %lx %lx\n",s1,s2,s1,s2);*/
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/*printf("Int j>i s1=%.17e, s2=%.17e %lx %lx\n",s1,s2,s1,s2);*/
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| }
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}
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| ps[i][j]=(s2);
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ps[i][j]=s2;
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| }
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}
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| }
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}
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| /*ps[3][2]=1;*/
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/*ps[3][2]=1;*/
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Line 900 void mlikeli(FILE *ficres,double p[], in
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Line 926 void mlikeli(FILE *ficres,double p[], in
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| powell(p,xi,npar,ftol,&iter,&fret,func);
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powell(p,xi,npar,ftol,&iter,&fret,func);
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| printf("\n#Number of iterations = %d, -2 Log likelihood = %.12f\n",iter,func(p));
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printf("\n#Number of iterations = %d, -2 Log likelihood = %.12f\n",iter,func(p));
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| fprintf(ficres,"#Number of iterations = %d, -2 Log likelihood = %.12f ",iter,func(p));
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fprintf(ficres,"#Number of iterations = %d, -2 Log likelihood = %.12f \n",iter,func(p));
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| }
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}
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Line 1150 void lubksb(double **a, int n, int *indx
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Line 1176 void lubksb(double **a, int n, int *indx
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| }
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}
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| /************ Frequencies ********************/
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/************ Frequencies ********************/
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| void freqsummary(char fileres[], int agemin, int agemax, int **s, double **agev, int nlstate, int imx, int *Tvar, int **nbcode, int *ncodemax)
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void freqsummary(char fileres[], int agemin, int agemax, int **s, double **agev, int nlstate, int imx, int *Tvar, int **nbcode, int *ncodemax,double **mint,double **anint, double dateprev1,double dateprev2,double jprev1, double mprev1,double anprev1,double jprev2, double mprev2,double anprev2)
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| { /* Some frequencies */
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{ /* Some frequencies */
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| int i, m, jk, k1, i1, j1, bool, z1,z2,j;
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int i, m, jk, k1,i1, j1, bool, z1,z2,j;
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| double ***freq; /* Frequencies */
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double ***freq; /* Frequencies */
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| double *pp;
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double *pp;
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| double pos;
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double pos, k2, dateintsum=0,k2cpt=0;
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| FILE *ficresp;
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FILE *ficresp;
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| char fileresp[FILENAMELENGTH];
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char fileresp[FILENAMELENGTH];
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| pp=vector(1,nlstate);
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pp=vector(1,nlstate);
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| probs= ma3x(1,130 ,1,8, 1,8);
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probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX);
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| strcpy(fileresp,"p");
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strcpy(fileresp,"p");
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| strcat(fileresp,fileres);
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strcat(fileresp,fileres);
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| if((ficresp=fopen(fileresp,"w"))==NULL) {
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if((ficresp=fopen(fileresp,"w"))==NULL) {
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Line 1183 void freqsummary(char fileres[], int ag
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Line 1209 void freqsummary(char fileres[], int ag
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| for (jk=-1; jk<=nlstate+ndeath; jk++)
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for (jk=-1; jk<=nlstate+ndeath; jk++)
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| for(m=agemin; m <= agemax+3; m++)
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for(m=agemin; m <= agemax+3; m++)
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| freq[i][jk][m]=0;
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freq[i][jk][m]=0;
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dateintsum=0;
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k2cpt=0;
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| for (i=1; i<=imx; i++) {
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for (i=1; i<=imx; i++) {
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| bool=1;
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bool=1;
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| if (cptcovn>0) {
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if (cptcovn>0) {
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Line 1191 void freqsummary(char fileres[], int ag
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Line 1219 void freqsummary(char fileres[], int ag
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| if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]])
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if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]])
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| bool=0;
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bool=0;
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| }
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}
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| if (bool==1) {
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if (bool==1) {
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| for(m=fprev; m<=lprev; m++){
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for(m=firstpass; m<=lastpass; m++){
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| if(agev[m][i]==0) agev[m][i]=agemax+1;
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k2=anint[m][i]+(mint[m][i]/12.);
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| if(agev[m][i]==1) agev[m][i]=agemax+2;
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if ((k2>=dateprev1) && (k2<=dateprev2)) {
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| freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i];
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if(agev[m][i]==0) agev[m][i]=agemax+1;
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| freq[s[m][i]][s[m+1][i]][(int) agemax+3] += weight[i];
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if(agev[m][i]==1) agev[m][i]=agemax+2;
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freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i];
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freq[s[m][i]][s[m+1][i]][(int) agemax+3] += weight[i];
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if ((agev[m][i]>1) && (agev[m][i]< (agemax+3))) {
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dateintsum=dateintsum+k2;
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k2cpt++;
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}
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}
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| }
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}
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| }
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}
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| }
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}
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fprintf(ficresp, "#Count between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);
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| if (cptcovn>0) {
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if (cptcovn>0) {
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| fprintf(ficresp, "\n#********** Variable ");
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fprintf(ficresp, "\n#********** Variable ");
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| for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
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for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
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Line 1258 void freqsummary(char fileres[], int ag
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Line 1297 void freqsummary(char fileres[], int ag
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| }
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}
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| }
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}
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| }
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}
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dateintmean=dateintsum/k2cpt;
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| fclose(ficresp);
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fclose(ficresp);
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| free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath,(int) agemin,(int) agemax+3);
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free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath,(int) agemin,(int) agemax+3);
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| free_vector(pp,1,nlstate);
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free_vector(pp,1,nlstate);
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/* End of Freq */
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}
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/************ Prevalence ********************/
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void prevalence(int agemin, float agemax, int **s, double **agev, int nlstate, int imx, int *Tvar, int **nbcode, int *ncodemax,double **mint,double **anint, double dateprev1,double dateprev2, double calagedate)
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{ /* Some frequencies */
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int i, m, jk, k1, i1, j1, bool, z1,z2,j;
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double ***freq; /* Frequencies */
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double *pp;
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double pos, k2;
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pp=vector(1,nlstate);
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probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX);
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freq=ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,agemin,agemax+3);
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j1=0;
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j=cptcoveff;
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if (cptcovn<1) {j=1;ncodemax[1]=1;}
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for(k1=1; k1<=j;k1++){
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for(i1=1; i1<=ncodemax[k1];i1++){
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j1++;
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for (i=-1; i<=nlstate+ndeath; i++)
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for (jk=-1; jk<=nlstate+ndeath; jk++)
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for(m=agemin; m <= agemax+3; m++)
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freq[i][jk][m]=0;
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for (i=1; i<=imx; i++) {
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bool=1;
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if (cptcovn>0) {
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for (z1=1; z1<=cptcoveff; z1++)
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if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[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++){
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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]=agemax+1;
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if(agev[m][i]==1) agev[m][i]=agemax+2;
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freq[s[m][i]][s[m+1][i]][(int)(agev[m][i]+1-((int)calagedate %12)/12.)] += weight[i];
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/* freq[s[m][i]][s[m+1][i]][(int)(agemax+3+1)] += weight[i]; */
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}
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}
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}
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}
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for(i=(int)agemin; i <= (int)agemax+3; i++){
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for(jk=1; jk <=nlstate ; jk++){
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for(m=-1, pp[jk]=0; m <=nlstate+ndeath ; m++)
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pp[jk] += freq[jk][m][i];
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}
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for(jk=1; jk <=nlstate ; jk++){
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for(m=-1, pos=0; m <=0 ; m++)
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pos += freq[jk][m][i];
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}
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|
| |
for(jk=1; jk <=nlstate ; jk++){
|
| |
for(m=0, pp[jk]=0; m <=nlstate+ndeath; m++)
|
| |
pp[jk] += freq[jk][m][i];
|
| |
}
|
| |
|
| |
for(jk=1,pos=0; jk <=nlstate ; jk++) pos += pp[jk];
|
| |
|
| |
for(jk=1; jk <=nlstate ; jk++){
|
| |
if( i <= (int) agemax){
|
| |
if(pos>=1.e-5){
|
| |
probs[i][jk][j1]= pp[jk]/pos;
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
|
| |
free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath,(int) agemin,(int) agemax+3);
|
| |
free_vector(pp,1,nlstate);
|
| |
|
| } /* End of Freq */
|
} /* End of Freq */
|
|
|
|
| /************* Waves Concatenation ***************/
|
/************* Waves Concatenation ***************/
|
|
Line 1321 void concatwav(int wav[], int **dh, int
|
Line 1443 void concatwav(int wav[], int **dh, int
|
| if (j >= jmax) jmax=j;
|
if (j >= jmax) jmax=j;
|
| if (j <= jmin) jmin=j;
|
if (j <= jmin) jmin=j;
|
| sum=sum+j;
|
sum=sum+j;
|
| /* if (j<10) printf("j=%d num=%d ",j,i); */
|
/*if (j<0) printf("j=%d num=%d \n",j,i); */
|
| }
|
}
|
| }
|
}
|
| else{
|
else{
|
|
Line 1329 void concatwav(int wav[], int **dh, int
|
Line 1451 void concatwav(int wav[], int **dh, int
|
| k=k+1;
|
k=k+1;
|
| if (j >= jmax) jmax=j;
|
if (j >= jmax) jmax=j;
|
| else if (j <= jmin)jmin=j;
|
else if (j <= jmin)jmin=j;
|
| /* if (j<10) printf("j=%d jmin=%d num=%d ",j,jmin,i); */
|
/* if (j<10) printf("j=%d jmin=%d num=%d ",j,jmin,i); */
|
| sum=sum+j;
|
sum=sum+j;
|
| }
|
}
|
| jk= j/stepm;
|
jk= j/stepm;
|
|
Line 1391 void tricode(int *Tvar, int **nbcode, in
|
Line 1513 void tricode(int *Tvar, int **nbcode, in
|
|
|
|
| ij=1;
|
ij=1;
|
| for (i=1; i<=10; i++) {
|
for (i=1; i<=10; i++) {
|
| if((Ndum[i]!=0) && (i<=ncov)){
|
if((Ndum[i]!=0) && (i<=ncovcol)){
|
| Tvaraff[ij]=i;
|
Tvaraff[ij]=i;
|
| ij++;
|
ij++;
|
| }
|
}
|
|
Line 1405 void tricode(int *Tvar, int **nbcode, in
|
Line 1527 void tricode(int *Tvar, int **nbcode, in
|
| void evsij(char fileres[], double ***eij, double x[], int nlstate, int stepm, int bage, int fage, double **oldm, double **savm, int ij)
|
void evsij(char fileres[], double ***eij, double x[], int nlstate, int stepm, int bage, int fage, double **oldm, double **savm, int ij)
|
| {
|
{
|
| /* Health expectancies */
|
/* Health expectancies */
|
| int i, j, nhstepm, hstepm, h;
|
int i, j, nhstepm, hstepm, h, nstepm, k;
|
| double age, agelim,hf;
|
double age, agelim,hf;
|
| double ***p3mat;
|
double ***p3mat;
|
|
|
|
|
Line 1416 void evsij(char fileres[], double ***eij
|
Line 1538 void evsij(char fileres[], double ***eij
|
| fprintf(ficreseij," %1d-%1d",i,j);
|
fprintf(ficreseij," %1d-%1d",i,j);
|
| fprintf(ficreseij,"\n");
|
fprintf(ficreseij,"\n");
|
|
|
|
| hstepm=1*YEARM; /* Every j years of age (in month) */
|
k=1; /* For example stepm=6 months */
|
| hstepm=hstepm/stepm; /* Typically in stepm units, if j= 2 years, = 2/6 months = 4 */
|
hstepm=k*YEARM; /* (a) Every k years of age (in months), for example every k=2 years 24 m */
|
| |
hstepm=stepm; /* or (b) 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 agelin.
|
| |
Look at hpijx to understand the reason of that which relies in memory size
|
| |
and note for a fixed period like k years */
|
| |
/* 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 only each 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 k= 2 years, = 2/6 months = 4 */
|
|
|
|
| agelim=AGESUP;
|
agelim=AGESUP;
|
| for (age=bage; age<=fage; age ++){ /* If stepm=6 months */
|
for (age=bage; age<=fage; age ++){ /* If stepm=6 months */
|
| /* nhstepm age range expressed in number of stepm */
|
/* nhstepm age range expressed in number of stepm */
|
| nhstepm=(int) rint((agelim-age)*YEARM/stepm);
|
nstepm=(int) rint((agelim-age)*YEARM/stepm);
|
| /* Typically if 20 years = 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;*/
|
| nhstepm = nhstepm/hstepm;/* Expressed in hstepm, typically 40/4=10 */
|
nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */
|
| p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| /* Computed by stepm unit matrices, product of hstepm matrices, stored
|
/* Computed by stepm unit matrices, product of hstepm matrices, stored
|
| in an array of nhstepm length: nhstepm=10, hstepm=4, stepm=6 months */
|
in an array of nhstepm length: nhstepm=10, hstepm=4, stepm=6 months */
|
| hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, ij);
|
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm, savm, ij);
|
|
|
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */
|
|
|
|
| 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; h++){
|
for (h=0, eij[i][j][(int)age]=0; h<=nhstepm-1; h++){
|
| eij[i][j][(int)age] +=p3mat[i][j][h];
|
eij[i][j][(int)age] += (p3mat[i][j][h]+p3mat[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]);*/
|
| }
|
}
|
|
|
fprintf(ficreseij,"%3.0f",age );
|
| hf=1;
|
|
| if (stepm >= YEARM) hf=stepm/YEARM;
|
|
| fprintf(ficreseij,"%.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++){
|
| fprintf(ficreseij," %.4f", hf*eij[i][j][(int)age]);
|
fprintf(ficreseij," %9.4f", eij[i][j][(int)age]);
|
| }
|
}
|
| fprintf(ficreseij,"\n");
|
fprintf(ficreseij,"\n");
|
| free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
|
Line 1500 void varevsij(char fileres[], double ***
|
Line 1632 void varevsij(char fileres[], double ***
|
| for(i=1; i<=nlstate;i++)
|
for(i=1; i<=nlstate;i++)
|
| prlim[i][i]=probs[(int)age][i][ij];
|
prlim[i][i]=probs[(int)age][i][ij];
|
| }
|
}
|
|
|
|
| for(j=1; j<= nlstate; j++){
|
for(j=1; j<= nlstate; j++){
|
| for(h=0; h<=nhstepm; h++){
|
for(h=0; h<=nhstepm; h++){
|
| for(i=1, gp[h][j]=0.;i<=nlstate;i++)
|
for(i=1, gp[h][j]=0.;i<=nlstate;i++)
|
|
Line 1512 void varevsij(char fileres[], double ***
|
Line 1644 void varevsij(char fileres[], double ***
|
| xp[i] = x[i] - (i==theta ?delti[theta]:0);
|
xp[i] = x[i] - (i==theta ?delti[theta]:0);
|
| hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij);
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij);
|
| prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij);
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij);
|
|
|
|
| if (popbased==1) {
|
if (popbased==1) {
|
| for(i=1; i<=nlstate;i++)
|
for(i=1; i<=nlstate;i++)
|
| prlim[i][i]=probs[(int)age][i][ij];
|
prlim[i][i]=probs[(int)age][i][ij];
|
|
Line 1564 void varevsij(char fileres[], double ***
|
Line 1696 void varevsij(char fileres[], double ***
|
| free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar);
|
free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar);
|
| free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| } /* End age */
|
} /* End age */
|
|
|
|
| free_vector(xp,1,npar);
|
free_vector(xp,1,npar);
|
| free_matrix(doldm,1,nlstate,1,npar);
|
free_matrix(doldm,1,nlstate,1,npar);
|
| free_matrix(dnewm,1,nlstate,1,nlstate);
|
free_matrix(dnewm,1,nlstate,1,nlstate);
|
|
Line 1756 if (i== 4) fprintf(ficresprob,"%.3e %.3e
|
Line 1888 if (i== 4) fprintf(ficresprob,"%.3e %.3e
|
| }
|
}
|
| free_vector(xp,1,npar);
|
free_vector(xp,1,npar);
|
| fclose(ficresprob);
|
fclose(ficresprob);
|
| exit(0);
|
|
| }
|
|
|
|
|
| /***********************************************/
|
|
| /**************** Main Program *****************/
|
|
| /***********************************************/
|
|
|
|
|
| /*int main(int argc, char *argv[])*/
|
}
|
| int main()
|
|
| {
|
|
|
|
|
| int i,j, k, n=MAXN,iter,m,size,cptcode, cptcod;
|
/******************* Printing html file ***********/
|
| double agedeb, agefin,hf;
|
void printinghtml(char fileres[], char title[], char datafile[], int firstpass, int lastpass, int stepm, int weightopt, char model[],int imx,int jmin, int jmax, double jmeanint,char optionfile[],char optionfilehtm[],char rfileres[] ){
|
| double agemin=1.e20, agemax=-1.e20;
|
int jj1, k1, i1, cpt;
|
| |
FILE *fichtm;
|
| |
/*char optionfilehtm[FILENAMELENGTH];*/
|
|
|
|
| double fret;
|
strcpy(optionfilehtm,optionfile);
|
| double **xi,tmp,delta;
|
strcat(optionfilehtm,".htm");
|
| |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) {
|
| |
printf("Problem with %s \n",optionfilehtm), exit(0);
|
| |
}
|
|
|
|
| double dum; /* Dummy variable */
|
fprintf(fichtm,"<body><ul> <font size=\"6\">Imach, Version 0.8 </font> <hr size=\"2\" color=\"#EC5E5E\">
|
| double ***p3mat;
|
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s<br>
|
| int *indx;
|
|
| char line[MAXLINE], linepar[MAXLINE];
|
|
| char title[MAXLINE];
|
|
| char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH], optionfilehtm[FILENAMELENGTH];
|
|
| char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], fileresf[FILENAMELENGTH];
|
|
| char filerest[FILENAMELENGTH];
|
|
| char fileregp[FILENAMELENGTH];
|
|
| char path[80],pathc[80],pathcd[80],pathtot[80],model[20];
|
|
| int firstobs=1, lastobs=10;
|
|
| int sdeb, sfin; /* Status at beginning and end */
|
|
| int c, h , cpt,l;
|
|
| int ju,jl, mi;
|
|
| int i1,j1, k1,k2,k3,jk,aa,bb, stepsize, ij;
|
|
| int jnais,jdc,jint4,jint1,jint2,jint3,**outcome,**adl,*tab;
|
|
| int mobilav=0, fprevfore=1, lprevfore=1;
|
|
| int hstepm, nhstepm;
|
|
|
|
|
| double bage, fage, age, agelim, agebase;
|
Total number of observations=%d <br>
|
| double ftolpl=FTOL;
|
Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf<br>
|
| double **prlim;
|
<hr size=\"2\" color=\"#EC5E5E\">
|
| double *severity;
|
<li>Outputs files<br><br>\n
|
| double ***param; /* Matrix of parameters */
|
- Observed prevalence in each state: <a href=\"p%s\">p%s</a> <br>\n
|
| double *p;
|
- Estimated parameters and the covariance matrix: <a href=\"%s\">%s</a> <br>
|
| double **matcov; /* Matrix of covariance */
|
- Stationary prevalence in each state: <a href=\"pl%s\">pl%s</a> <br>
|
| double ***delti3; /* Scale */
|
- Transition probabilities: <a href=\"pij%s\">pij%s</a><br>
|
| double *delti; /* Scale */
|
- Copy of the parameter file: <a href=\"o%s\">o%s</a><br>
|
| double ***eij, ***vareij;
|
- Life expectancies by age and initial health status: <a href=\"e%s\">e%s</a> <br>
|
| double **varpl; /* Variances of prevalence limits by age */
|
- Variances of life expectancies by age and initial health status: <a href=\"v%s\">v%s</a><br>
|
| double *epj, vepp;
|
- Health expectancies with their variances: <a href=\"t%s\">t%s</a> <br>
|
| double kk1;
|
- Standard deviation of stationary prevalences: <a href=\"vpl%s\">vpl%s</a> <br>
|
| |
- Prevalences forecasting: <a href=\"f%s\">f%s</a> <br>
|
| |
- Population forecasting (if popforecast=1): <a href=\"pop%s\">pop%s</a> <br>
|
| |
<br>",title,datafile,firstpass,lastpass,stepm, weightopt,model,imx,jmin,jmax,jmean,fileres,fileres,rfileres,rfileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres);
|
| |
|
| |
fprintf(fichtm," <li>Graphs</li><p>");
|
|
|
|
| char version[80]="Imach version 64b, May 2001, INED-EUROREVES ";
|
m=cptcoveff;
|
| char *alph[]={"a","a","b","c","d","e"}, str[4];
|
if (cptcovn < 1) {m=1;ncodemax[1]=1;}
|
|
|
|
| |
jj1=0;
|
| |
for(k1=1; k1<=m;k1++){
|
| |
for(i1=1; i1<=ncodemax[k1];i1++){
|
| |
jj1++;
|
| |
if (cptcovn > 0) {
|
| |
fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates");
|
| |
for (cpt=1; cpt<=cptcoveff;cpt++)
|
| |
fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]);
|
| |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">");
|
| |
}
|
| |
fprintf(fichtm,"<br>- Probabilities: pe%s%d.gif<br>
|
| |
<img src=\"pe%s%d.gif\">",strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1);
|
| |
for(cpt=1; cpt<nlstate;cpt++){
|
| |
fprintf(fichtm,"<br>- Prevalence of disability : p%s%d%d.gif<br>
|
| |
<img src=\"p%s%d%d.gif\">",strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1);
|
| |
}
|
| |
for(cpt=1; cpt<=nlstate;cpt++) {
|
| |
fprintf(fichtm,"<br>- Observed and stationary prevalence (with confident
|
| |
interval) in state (%d): v%s%d%d.gif <br>
|
| |
<img src=\"v%s%d%d.gif\">",cpt,strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1);
|
| |
}
|
| |
for(cpt=1; cpt<=nlstate;cpt++) {
|
| |
fprintf(fichtm,"\n<br>- Health life expectancies by age and initial health state (%d): exp%s%d%d.gif <br>
|
| |
<img src=\"exp%s%d%d.gif\">",cpt,strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1);
|
| |
}
|
| |
fprintf(fichtm,"\n<br>- Total life expectancy by age and
|
| |
health expectancies in states (1) and (2): e%s%d.gif<br>
|
| |
<img src=\"e%s%d.gif\">",strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1);
|
| |
fprintf(fichtm,"\n</body>");
|
| |
}
|
| |
}
|
| |
fclose(fichtm);
|
| |
}
|
|
|
|
| char z[1]="c", occ;
|
/******************* Gnuplot file **************/
|
| #include <sys/time.h>
|
void printinggnuplot(char fileres[],char optionfilefiname[],char optionfile[],char optionfilegnuplot[], double agemin, double agemaxpar, double fage , char pathc[], double p[]){
|
| #include <time.h>
|
|
| char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80];
|
|
| /* long total_usecs;
|
|
| struct timeval start_time, end_time;
|
|
|
|
|
| gettimeofday(&start_time, (struct timezone*)0); */ /* at first time */
|
|
|
|
|
| |
int m,cpt,k1,i,k,j,jk,k2,k3,ij,l;
|
|
|
|
| printf("\nIMACH, Version 0.64b");
|
strcpy(optionfilegnuplot,optionfilefiname);
|
| printf("\nEnter the parameter file name: ");
|
strcat(optionfilegnuplot,".plt");
|
| |
if((ficgp=fopen(optionfilegnuplot,"w"))==NULL) {
|
| |
printf("Problem with file %s",optionfilegnuplot);
|
| |
}
|
|
|
|
| #ifdef windows
|
#ifdef windows
|
| scanf("%s",pathtot);
|
fprintf(ficgp,"cd \"%s\" \n",pathc);
|
| getcwd(pathcd, size);
|
#endif
|
| /*cygwin_split_path(pathtot,path,optionfile);
|
m=pow(2,cptcoveff);
|
| printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/
|
|
| /* cutv(path,optionfile,pathtot,'\\');*/
|
/* 1eme*/
|
| |
for (cpt=1; cpt<= nlstate ; cpt ++) {
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
|
|
|
| split(pathtot, path,optionfile);
|
#ifdef windows
|
| chdir(path);
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter gif small size 400,300\nplot [%.f:%.f] \"vpl%s\" every :::%d::%d u 1:2 \"\%%lf",agemin,fage,fileres,k1-1,k1-1);
|
| replace(pathc,path);
|
|
| #endif
|
#endif
|
| #ifdef unix
|
#ifdef unix
|
| scanf("%s",optionfile);
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nplot [%.f:%.f] \"vpl%s\" u 1:2 \"\%%lf",agemin,fage,fileres);
|
| #endif
|
#endif
|
|
|
|
| /*-------- arguments in the command line --------*/
|
for (i=1; i<= nlstate ; i ++) {
|
|
|
if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
| strcpy(fileres,"r");
|
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| strcat(fileres, optionfile);
|
}
|
|
|
fprintf(ficgp,"\" t\"Stationary prevalence\" w l 0,\"vpl%s\" every :::%d::%d u 1:($2+2*$3) \"\%%lf",fileres,k1-1,k1-1);
|
| /*---------arguments file --------*/
|
for (i=1; i<= nlstate ; i ++) {
|
|
|
if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
| if((ficpar=fopen(optionfile,"r"))==NULL) {
|
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| printf("Problem with optionfile %s\n",optionfile);
|
}
|
| goto end;
|
fprintf(ficgp,"\" t\"95\%% CI\" w l 1,\"vpl%s\" every :::%d::%d u 1:($2-2*$3) \"\%%lf",fileres,k1-1,k1-1);
|
| }
|
for (i=1; i<= nlstate ; i ++) {
|
|
|
if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
| strcpy(filereso,"o");
|
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| strcat(filereso,fileres);
|
}
|
| if((ficparo=fopen(filereso,"w"))==NULL) {
|
fprintf(ficgp,"\" t\"\" w l 1,\"p%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l 2",fileres,k1-1,k1-1,2+4*(cpt-1));
|
| printf("Problem with Output resultfile: %s\n", filereso);goto end;
|
#ifdef unix
|
| |
fprintf(ficgp,"\nset ter gif small size 400,300");
|
| |
#endif
|
| |
fprintf(ficgp,"\nset out \"v%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
| |
}
|
| }
|
}
|
| |
/*2 eme*/
|
|
|
|
| /* Reads comments: lines beginning with '#' */
|
for (k1=1; k1<= m ; k1 ++) {
|
| while((c=getc(ficpar))=='#' && c!= EOF){
|
fprintf(ficgp,"set ylabel \"Years\" \nset ter gif small size 400,300\nplot [%.f:%.f] ",agemin,fage);
|
| ungetc(c,ficpar);
|
|
| fgets(line, MAXLINE, ficpar);
|
for (i=1; i<= nlstate+1 ; i ++) {
|
| puts(line);
|
k=2*i;
|
| fputs(line,ficparo);
|
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:2 \"\%%lf",fileres,k1-1,k1-1);
|
| |
for (j=1; j<= nlstate+1 ; j ++) {
|
| |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
| |
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| |
}
|
| |
if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l ,");
|
| |
else fprintf(ficgp,"\" t\"LE in state (%d)\" w l ,",i-1);
|
| |
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2-$3*2) \"\%%lf",fileres,k1-1,k1-1);
|
| |
for (j=1; j<= nlstate+1 ; j ++) {
|
| |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
| |
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| |
}
|
| |
fprintf(ficgp,"\" t\"\" w l 0,");
|
| |
fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2+$3*2) \"\%%lf",fileres,k1-1,k1-1);
|
| |
for (j=1; j<= nlstate+1 ; j ++) {
|
| |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
| |
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| |
}
|
| |
if (i== (nlstate+1)) fprintf(ficgp,"\" t\"\" w l 0");
|
| |
else fprintf(ficgp,"\" t\"\" w l 0,");
|
| |
}
|
| |
fprintf(ficgp,"\nset out \"e%s%d.gif\" \nreplot\n\n",strtok(optionfile, "."),k1);
|
| }
|
}
|
| ungetc(c,ficpar);
|
|
| |
/*3eme*/
|
|
|
|
| fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n",title, datafile, &lastobs, &firstpass,&lastpass,&ftol, &stepm, &ncov, &nlstate,&ndeath, &maxwav, &mle, &weightopt,model);
|
for (k1=1; k1<= m ; k1 ++) {
|
| printf("title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncov, nlstate,ndeath, maxwav, mle, weightopt,model);
|
for (cpt=1; cpt<= nlstate ; cpt ++) {
|
| fprintf(ficparo,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncov,nlstate,ndeath,maxwav, mle, weightopt,model);
|
k=2+nlstate*(cpt-1);
|
| while((c=getc(ficpar))=='#' && c!= EOF){
|
fprintf(ficgp,"set ter gif small size 400,300\nplot [%.f:%.f] \"e%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",agemin,fage,fileres,k1-1,k1-1,k,cpt);
|
| ungetc(c,ficpar);
|
for (i=1; i< nlstate ; i ++) {
|
| fgets(line, MAXLINE, ficpar);
|
fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",fileres,k1-1,k1-1,k+i,cpt,i+1);
|
| puts(line);
|
}
|
| fputs(line,ficparo);
|
fprintf(ficgp,"\nset out \"exp%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
| }
|
}
|
| ungetc(c,ficpar);
|
}
|
| |
|
| |
/* CV preval stat */
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
| |
for (cpt=1; cpt<nlstate ; cpt ++) {
|
| |
k=3;
|
| |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter gif small size 400,300\nplot [%.f:%.f] \"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",agemin,agemaxpar,fileres,k1,k+cpt+1,k+1);
|
| |
|
| |
for (i=1; i< nlstate ; i ++)
|
| |
fprintf(ficgp,"+$%d",k+i+1);
|
| |
fprintf(ficgp,")) t\"prev(%d,%d)\" w l",cpt,cpt+1);
|
| |
|
| |
l=3+(nlstate+ndeath)*cpt;
|
| |
fprintf(ficgp,",\"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",fileres,k1,l+cpt+1,l+1);
|
| |
for (i=1; i< nlstate ; i ++) {
|
| |
l=3+(nlstate+ndeath)*cpt;
|
| |
fprintf(ficgp,"+$%d",l+i+1);
|
| |
}
|
| |
fprintf(ficgp,")) t\"prev(%d,%d)\" w l\n",cpt+1,cpt+1);
|
| |
fprintf(ficgp,"set out \"p%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
| |
}
|
| |
}
|
| |
|
| |
/* proba elementaires */
|
| |
for(i=1,jk=1; i <=nlstate; i++){
|
| |
for(k=1; k <=(nlstate+ndeath); k++){
|
| |
if (k != i) {
|
| |
for(j=1; j <=ncovmodel; j++){
|
| |
|
| |
fprintf(ficgp,"p%d=%f ",jk,p[jk]);
|
| |
jk++;
|
| |
fprintf(ficgp,"\n");
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
for(jk=1; jk <=m; jk++) {
|
| |
fprintf(ficgp,"\nset ter gif small size 400,300\nset log y\nplot [%.f:%.f] ",agemin,agemaxpar);
|
| |
i=1;
|
| |
for(k2=1; k2<=nlstate; k2++) {
|
| |
k3=i;
|
| |
for(k=1; k<=(nlstate+ndeath); k++) {
|
| |
if (k != k2){
|
| |
fprintf(ficgp," exp(p%d+p%d*x",i,i+1);
|
| |
ij=1;
|
| |
for(j=3; j <=ncovmodel; j++) {
|
| |
if(((j-2)==Tage[ij]) &&(ij <=cptcovage)) {
|
| |
fprintf(ficgp,"+p%d*%d*x",i+j-1,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]);
|
| |
ij++;
|
| |
}
|
| |
else
|
| |
fprintf(ficgp,"+p%d*%d",i+j-1,nbcode[Tvar[j-2]][codtab[jk][j-2]]);
|
| |
}
|
| |
fprintf(ficgp,")/(1");
|
| |
|
| |
for(k1=1; k1 <=nlstate; k1++){
|
| |
fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1);
|
| |
ij=1;
|
| |
for(j=3; j <=ncovmodel; j++){
|
| |
if(((j-2)==Tage[ij]) &&(ij <=cptcovage)) {
|
| |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]);
|
| |
ij++;
|
| |
}
|
| |
else
|
| |
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2,nbcode[Tvar[j-2]][codtab[jk][j-2]]);
|
| |
}
|
| |
fprintf(ficgp,")");
|
| |
}
|
| |
fprintf(ficgp,") t \"p%d%d\" ", k2,k);
|
| |
if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,",");
|
| |
i=i+ncovmodel;
|
| |
}
|
| |
}
|
| |
}
|
| |
fprintf(ficgp,"\nset out \"pe%s%d.gif\" \nreplot\n\n",strtok(optionfile, "."),jk);
|
| |
}
|
| |
|
| |
fclose(ficgp);
|
| |
} /* end gnuplot */
|
| |
|
| |
|
| |
/*************** Moving average **************/
|
| |
void movingaverage(double agedeb, double fage,double agemin, double ***mobaverage){
|
| |
|
| |
int i, cpt, cptcod;
|
| |
for (agedeb=agemin; agedeb<=fage; agedeb++)
|
| |
for (i=1; i<=nlstate;i++)
|
| |
for (cptcod=1;cptcod<=ncodemax[cptcov];cptcod++)
|
| |
mobaverage[(int)agedeb][i][cptcod]=0.;
|
| |
|
| |
for (agedeb=agemin+4; agedeb<=fage; agedeb++){
|
| |
for (i=1; i<=nlstate;i++){
|
| |
for (cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){
|
| |
for (cpt=0;cpt<=4;cpt++){
|
| |
mobaverage[(int)agedeb-2][i][cptcod]=mobaverage[(int)agedeb-2][i][cptcod]+probs[(int)agedeb-cpt][i][cptcod];
|
| |
}
|
| |
mobaverage[(int)agedeb-2][i][cptcod]=mobaverage[(int)agedeb-2][i][cptcod]/5;
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
}
|
| |
|
| |
|
| |
/************** Forecasting ******************/
|
| |
prevforecast(char fileres[], double anproj1,double mproj1,double jproj1,double agemin, double agemax,double dateprev1, double dateprev2, int mobilav, double agedeb, double fage, int popforecast, char popfile[], double anproj2,double p[], int i2){
|
| |
|
| |
int cpt, stepsize, hstepm, nhstepm, j,k,c, cptcod, i,h;
|
| |
int *popage;
|
| |
double calagedate, agelim, kk1, kk2, yp,yp1,yp2,jprojmean,mprojmean,anprojmean;
|
| |
double *popeffectif,*popcount;
|
| |
double ***p3mat;
|
| |
char fileresf[FILENAMELENGTH];
|
| |
|
| |
agelim=AGESUP;
|
| |
calagedate=(anproj1+mproj1/12.+jproj1/365.-dateintmean)*YEARM;
|
| |
|
| |
prevalence(agemin, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax,mint,anint,dateprev1,dateprev2, calagedate);
|
| |
|
| |
|
| |
strcpy(fileresf,"f");
|
| |
strcat(fileresf,fileres);
|
| |
if((ficresf=fopen(fileresf,"w"))==NULL) {
|
| |
printf("Problem with forecast resultfile: %s\n", fileresf);
|
| |
}
|
| |
printf("Computing forecasting: result on file '%s' \n", fileresf);
|
| |
|
| |
if (cptcoveff==0) ncodemax[cptcoveff]=1;
|
| |
|
| |
if (mobilav==1) {
|
| |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
movingaverage(agedeb, fage, agemin, mobaverage);
|
| |
}
|
| |
|
| |
stepsize=(int) (stepm+YEARM-1)/YEARM;
|
| |
if (stepm<=12) stepsize=1;
|
| |
|
| |
agelim=AGESUP;
|
| |
|
| |
hstepm=1;
|
| |
hstepm=hstepm/stepm;
|
| |
yp1=modf(dateintmean,&yp);
|
| |
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;
|
| |
|
| |
fprintf(ficresf,"# Estimated date of observed prevalence: %.lf/%.lf/%.lf ",jprojmean,mprojmean,anprojmean);
|
| |
|
| |
for(cptcov=1;cptcov<=i2;cptcov++){
|
| |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){
|
| |
k=k+1;
|
| |
fprintf(ficresf,"\n#******");
|
| |
for(j=1;j<=cptcoveff;j++) {
|
| |
fprintf(ficresf," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| |
}
|
| |
fprintf(ficresf,"******\n");
|
| |
fprintf(ficresf,"# StartingAge FinalAge");
|
| |
for(j=1; j<=nlstate+ndeath;j++) fprintf(ficresf," P.%d",j);
|
| |
|
| |
|
| |
for (cpt=0; cpt<=(anproj2-anproj1);cpt++) {
|
| |
fprintf(ficresf,"\n");
|
| |
fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+cpt);
|
| |
|
| |
for (agedeb=(fage-((int)calagedate %12/12.)); agedeb>=(agemin-((int)calagedate %12)/12.); agedeb--){
|
| |
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm);
|
| |
nhstepm = nhstepm/hstepm;
|
| |
|
| |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| |
oldm=oldms;savm=savms;
|
| |
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
| |
|
| |
for (h=0; h<=nhstepm; h++){
|
| |
if (h==(int) (calagedate+YEARM*cpt)) {
|
| |
fprintf(ficresf,"\n %.f ",agedeb+h*hstepm/YEARM*stepm);
|
| |
}
|
| |
for(j=1; j<=nlstate+ndeath;j++) {
|
| |
kk1=0.;kk2=0;
|
| |
for(i=1; i<=nlstate;i++) {
|
| |
if (mobilav==1)
|
| |
kk1=kk1+p3mat[i][j][h]*mobaverage[(int)agedeb+1][i][cptcod];
|
| |
else {
|
| |
kk1=kk1+p3mat[i][j][h]*probs[(int)(agedeb+1)][i][cptcod];
|
| |
}
|
| |
|
| |
}
|
| |
if (h==(int)(calagedate+12*cpt)){
|
| |
fprintf(ficresf," %.3f", kk1);
|
| |
|
| |
}
|
| |
}
|
| |
}
|
| |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
if (mobilav==1) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
|
| |
fclose(ficresf);
|
| |
}
|
| |
/************** Forecasting ******************/
|
| |
populforecast(char fileres[], double anpyram,double mpyram,double jpyram,double agemin, double agemax,double dateprev1, double dateprev2, int mobilav, double agedeb, double fage, int popforecast, char popfile[], double anpyram1,double p[], int i2){
|
| |
|
| |
int cpt, stepsize, hstepm, nhstepm, j,k,c, cptcod, i,h;
|
| |
int *popage;
|
| |
double calagedate, agelim, kk1, kk2, yp,yp1,yp2,jprojmean,mprojmean,anprojmean;
|
| |
double *popeffectif,*popcount;
|
| |
double ***p3mat,***tabpop,***tabpopprev;
|
| |
char filerespop[FILENAMELENGTH];
|
| |
|
| |
tabpop= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
tabpopprev= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
agelim=AGESUP;
|
| |
calagedate=(anpyram+mpyram/12.+jpyram/365.-dateintmean)*YEARM;
|
| |
|
| |
prevalence(agemin, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax,mint,anint,dateprev1,dateprev2, calagedate);
|
| |
|
| |
|
| |
strcpy(filerespop,"pop");
|
| |
strcat(filerespop,fileres);
|
| |
if((ficrespop=fopen(filerespop,"w"))==NULL) {
|
| |
printf("Problem with forecast resultfile: %s\n", filerespop);
|
| |
}
|
| |
printf("Computing forecasting: result on file '%s' \n", filerespop);
|
| |
|
| |
if (cptcoveff==0) ncodemax[cptcoveff]=1;
|
| |
|
| |
if (mobilav==1) {
|
| |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
movingaverage(agedeb, fage, agemin, mobaverage);
|
| |
}
|
| |
|
| |
stepsize=(int) (stepm+YEARM-1)/YEARM;
|
| |
if (stepm<=12) stepsize=1;
|
| |
|
| |
agelim=AGESUP;
|
| |
|
| |
hstepm=1;
|
| |
hstepm=hstepm/stepm;
|
| |
|
| |
if (popforecast==1) {
|
| |
if((ficpop=fopen(popfile,"r"))==NULL) {
|
| |
printf("Problem with population file : %s\n",popfile);exit(0);
|
| |
}
|
| |
popage=ivector(0,AGESUP);
|
| |
popeffectif=vector(0,AGESUP);
|
| |
popcount=vector(0,AGESUP);
|
| |
|
| |
i=1;
|
| |
while ((c=fscanf(ficpop,"%d %lf\n",&popage[i],&popcount[i])) != EOF) i=i+1;
|
| |
|
| |
imx=i;
|
| |
for (i=1; i<imx;i++) popeffectif[popage[i]]=popcount[i];
|
| |
}
|
| |
|
| |
for(cptcov=1;cptcov<=i2;cptcov++){
|
| |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){
|
| |
k=k+1;
|
| |
fprintf(ficrespop,"\n#******");
|
| |
for(j=1;j<=cptcoveff;j++) {
|
| |
fprintf(ficrespop," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| |
}
|
| |
fprintf(ficrespop,"******\n");
|
| |
fprintf(ficrespop,"# Age");
|
| |
for(j=1; j<=nlstate+ndeath;j++) fprintf(ficrespop," P.%d",j);
|
| |
if (popforecast==1) fprintf(ficrespop," [Population]");
|
| |
|
| |
for (cpt=0; cpt<=0;cpt++) {
|
| |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt);
|
| |
|
| |
for (agedeb=(fage-((int)calagedate %12/12.)); agedeb>=(agemin-((int)calagedate %12)/12.); agedeb--){
|
| |
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm);
|
| |
nhstepm = nhstepm/hstepm;
|
| |
|
| |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| |
oldm=oldms;savm=savms;
|
| |
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
| |
|
| |
for (h=0; h<=nhstepm; h++){
|
| |
if (h==(int) (calagedate+YEARM*cpt)) {
|
| |
fprintf(ficrespop,"\n %3.f ",agedeb+h*hstepm/YEARM*stepm);
|
| |
}
|
| |
for(j=1; j<=nlstate+ndeath;j++) {
|
| |
kk1=0.;kk2=0;
|
| |
for(i=1; i<=nlstate;i++) {
|
| |
if (mobilav==1)
|
| |
kk1=kk1+p3mat[i][j][h]*mobaverage[(int)agedeb+1][i][cptcod];
|
| |
else {
|
| |
kk1=kk1+p3mat[i][j][h]*probs[(int)(agedeb+1)][i][cptcod];
|
| |
}
|
| |
}
|
| |
if (h==(int)(calagedate+12*cpt)){
|
| |
tabpop[(int)(agedeb)][j][cptcod]=kk1;
|
| |
/*fprintf(ficrespop," %.3f", kk1);
|
| |
if (popforecast==1) fprintf(ficrespop," [%.f]", kk1*popeffectif[(int)agedeb+1]);*/
|
| |
}
|
| |
}
|
| |
for(i=1; i<=nlstate;i++){
|
| |
kk1=0.;
|
| |
for(j=1; j<=nlstate;j++){
|
| |
kk1= kk1+tabpop[(int)(agedeb)][j][cptcod];
|
| |
}
|
| |
tabpopprev[(int)(agedeb)][i][cptcod]=tabpop[(int)(agedeb)][i][cptcod]/kk1*popeffectif[(int)(agedeb+(calagedate+12*cpt)*hstepm/YEARM*stepm-1)];
|
| |
}
|
| |
|
| |
if (h==(int)(calagedate+12*cpt)) 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);
|
| |
}
|
| |
}
|
| |
|
| |
/******/
|
| |
|
| |
for (cpt=1; cpt<=(anpyram1-anpyram);cpt++) {
|
| |
fprintf(ficrespop,"\n\n# Forecasting at date %.lf/%.lf/%.lf ",jpyram,mpyram,anpyram+cpt);
|
| |
for (agedeb=(fage-((int)calagedate %12/12.)); agedeb>=(agemin-((int)calagedate %12)/12.); agedeb--){
|
| |
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm);
|
| |
nhstepm = nhstepm/hstepm;
|
| |
|
| |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| |
oldm=oldms;savm=savms;
|
| |
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
| |
for (h=0; h<=nhstepm; h++){
|
| |
if (h==(int) (calagedate+YEARM*cpt)) {
|
| |
fprintf(ficresf,"\n %3.f ",agedeb+h*hstepm/YEARM*stepm);
|
| |
}
|
| |
for(j=1; j<=nlstate+ndeath;j++) {
|
| |
kk1=0.;kk2=0;
|
| |
for(i=1; i<=nlstate;i++) {
|
| |
kk1=kk1+p3mat[i][j][h]*tabpopprev[(int)agedeb+1][i][cptcod];
|
| |
}
|
| |
if (h==(int)(calagedate+12*cpt)) fprintf(ficresf," %15.2f", kk1);
|
| |
}
|
| |
}
|
| |
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
if (mobilav==1) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
|
| |
if (popforecast==1) {
|
| |
free_ivector(popage,0,AGESUP);
|
| |
free_vector(popeffectif,0,AGESUP);
|
| |
free_vector(popcount,0,AGESUP);
|
| |
}
|
| |
free_ma3x(tabpop,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
free_ma3x(tabpopprev,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
fclose(ficrespop);
|
| |
}
|
| |
|
| |
/***********************************************/
|
| |
/**************** Main Program *****************/
|
| |
/***********************************************/
|
| |
|
| |
int main(int argc, char *argv[])
|
| |
{
|
| |
|
| |
int i,j, k, n=MAXN,iter,m,size,cptcode, cptcod;
|
| |
double agedeb, agefin,hf;
|
| |
double agemin=1.e20, agemaxpar=-1.e20, agemax=-1.e20;
|
| |
|
| |
double fret;
|
| |
double **xi,tmp,delta;
|
| |
|
| |
double dum; /* Dummy variable */
|
| |
double ***p3mat;
|
| |
int *indx;
|
| |
char line[MAXLINE], linepar[MAXLINE];
|
| |
char title[MAXLINE];
|
| |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH];
|
| |
char optionfilext[10], optionfilefiname[FILENAMELENGTH], optionfilehtm[FILENAMELENGTH], optionfilegnuplot[FILENAMELENGTH], plotcmd[FILENAMELENGTH];
|
| |
|
| |
char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH];
|
| |
|
| |
char filerest[FILENAMELENGTH];
|
| |
char fileregp[FILENAMELENGTH];
|
| |
char popfile[FILENAMELENGTH];
|
| |
char path[80],pathc[80],pathcd[80],pathtot[80],model[20];
|
| |
int firstobs=1, lastobs=10;
|
| |
int sdeb, sfin; /* Status at beginning and end */
|
| |
int c, h , cpt,l;
|
| |
int ju,jl, mi;
|
| |
int i1,j1, k1,k2,k3,jk,aa,bb, stepsize, ij;
|
| |
int jnais,jdc,jint4,jint1,jint2,jint3,**outcome,**adl,*tab;
|
| |
int mobilav=0,popforecast=0;
|
| |
int hstepm, nhstepm;
|
| |
double jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,jpyram, mpyram,anpyram,jpyram1, mpyram1,anpyram1;
|
| |
|
| |
double bage, fage, age, agelim, agebase;
|
| |
double ftolpl=FTOL;
|
| |
double **prlim;
|
| |
double *severity;
|
| |
double ***param; /* Matrix of parameters */
|
| |
double *p;
|
| |
double **matcov; /* Matrix of covariance */
|
| |
double ***delti3; /* Scale */
|
| |
double *delti; /* Scale */
|
| |
double ***eij, ***vareij;
|
| |
double **varpl; /* Variances of prevalence limits by age */
|
| |
double *epj, vepp;
|
| |
double kk1, kk2;
|
| |
double dateprev1, dateprev2,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2;
|
|
|
|
| fscanf(ficpar,"fprevalence=%d lprevalence=%d pop_based=%d\n",&fprev,&lprev,&popbased);
|
|
| while((c=getc(ficpar))=='#' && c!= EOF){
|
char version[80]="Imach version 0.8, March 2002, INED-EUROREVES ";
|
| |
char *alph[]={"a","a","b","c","d","e"}, str[4];
|
| |
|
| |
|
| |
char z[1]="c", occ;
|
| |
#include <sys/time.h>
|
| |
#include <time.h>
|
| |
char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80];
|
| |
|
| |
/* long total_usecs;
|
| |
struct timeval start_time, end_time;
|
| |
|
| |
gettimeofday(&start_time, (struct timezone*)0); */ /* at first time */
|
| |
|
| |
|
| |
printf("\n%s",version);
|
| |
if(argc <=1){
|
| |
printf("\nEnter the parameter file name: ");
|
| |
scanf("%s",pathtot);
|
| |
}
|
| |
else{
|
| |
strcpy(pathtot,argv[1]);
|
| |
}
|
| |
/*if(getcwd(pathcd, 80)!= NULL)printf ("Error pathcd\n");*/
|
| |
/*cygwin_split_path(pathtot,path,optionfile);
|
| |
printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/
|
| |
/* cutv(path,optionfile,pathtot,'\\');*/
|
| |
|
| |
split(pathtot,path,optionfile,optionfilext,optionfilefiname);
|
| |
printf("pathtot=%s, path=%s, optionfile=%s optionfilext=%s optionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname);
|
| |
chdir(path);
|
| |
replace(pathc,path);
|
| |
|
| |
/*-------- arguments in the command line --------*/
|
| |
|
| |
strcpy(fileres,"r");
|
| |
strcat(fileres, optionfilefiname);
|
| |
strcat(fileres,".txt"); /* Other files have txt extension */
|
| |
|
| |
/*---------arguments file --------*/
|
| |
|
| |
if((ficpar=fopen(optionfile,"r"))==NULL) {
|
| |
printf("Problem with optionfile %s\n",optionfile);
|
| |
goto end;
|
| |
}
|
| |
|
| |
strcpy(filereso,"o");
|
| |
strcat(filereso,fileres);
|
| |
if((ficparo=fopen(filereso,"w"))==NULL) {
|
| |
printf("Problem with Output resultfile: %s\n", filereso);goto end;
|
| |
}
|
| |
|
| |
/* Reads comments: lines beginning with '#' */
|
| |
while((c=getc(ficpar))=='#' && c!= EOF){
|
| |
ungetc(c,ficpar);
|
| |
fgets(line, MAXLINE, ficpar);
|
| |
puts(line);
|
| |
fputs(line,ficparo);
|
| |
}
|
| |
ungetc(c,ficpar);
|
| |
|
| |
fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n",title, datafile, &lastobs, &firstpass,&lastpass,&ftol, &stepm, &ncovcol, &nlstate,&ndeath, &maxwav, &mle, &weightopt,model);
|
| |
printf("title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt,model);
|
| |
fprintf(ficparo,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncovcol,nlstate,ndeath,maxwav, mle, weightopt,model);
|
| |
while((c=getc(ficpar))=='#' && c!= EOF){
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
| fgets(line, MAXLINE, ficpar);
|
fgets(line, MAXLINE, ficpar);
|
| puts(line);
|
puts(line);
|
|
Line 1886 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2538 while((c=getc(ficpar))=='#' && c!= EOF){
|
| }
|
}
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
|
|
|
| fscanf(ficpar,"fprevalence=%d lprevalence=%d mob_average=%d\n",&fprevfore,&lprevfore,&mobilav);
|
|
|
|
|
| covar=matrix(0,NCOVMAX,1,n);
|
covar=matrix(0,NCOVMAX,1,n);
|
| cptcovn=0;
|
cptcovn=0;
|
| if (strlen(model)>1) cptcovn=nbocc(model,'+')+1;
|
if (strlen(model)>1) cptcovn=nbocc(model,'+')+1;
|
|
Line 1983 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2634 while((c=getc(ficpar))=='#' && c!= EOF){
|
| printf("\n");
|
printf("\n");
|
|
|
|
|
|
|
| /*-------- data file ----------*/
|
/*-------- Rewriting paramater file ----------*/
|
| if((ficres =fopen(fileres,"w"))==NULL) {
|
strcpy(rfileres,"r"); /* "Rparameterfile */
|
| printf("Problem with resultfile: %s\n", fileres);goto end;
|
strcat(rfileres,optionfilefiname); /* Parameter file first name*/
|
| |
strcat(rfileres,"."); /* */
|
| |
strcat(rfileres,optionfilext); /* Other files have txt extension */
|
| |
if((ficres =fopen(rfileres,"w"))==NULL) {
|
| |
printf("Problem writing new parameter file: %s\n", fileres);goto end;
|
| }
|
}
|
| fprintf(ficres,"#%s\n",version);
|
fprintf(ficres,"#%s\n",version);
|
|
|
|
| |
/*-------- data file ----------*/
|
| if((fic=fopen(datafile,"r"))==NULL) {
|
if((fic=fopen(datafile,"r"))==NULL) {
|
| printf("Problem with datafile: %s\n", datafile);goto end;
|
printf("Problem with datafile: %s\n", datafile);goto end;
|
| }
|
}
|
|
Line 2030 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2686 while((c=getc(ficpar))=='#' && c!= EOF){
|
| cutv(stra, strb,line,' '); moisnais[i]=(double)(atoi(strb)); strcpy(line,stra);
|
cutv(stra, strb,line,' '); moisnais[i]=(double)(atoi(strb)); strcpy(line,stra);
|
|
|
|
| cutv(stra, strb,line,' '); weight[i]=(double)(atoi(strb)); strcpy(line,stra);
|
cutv(stra, strb,line,' '); weight[i]=(double)(atoi(strb)); strcpy(line,stra);
|
| for (j=ncov;j>=1;j--){
|
for (j=ncovcol;j>=1;j--){
|
| cutv(stra, strb,line,' '); covar[j][i]=(double)(atoi(strb)); strcpy(line,stra);
|
cutv(stra, strb,line,' '); covar[j][i]=(double)(atoi(strb)); strcpy(line,stra);
|
| }
|
}
|
| num[i]=atol(stra);
|
num[i]=atol(stra);
|
|
Line 2050 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2706 while((c=getc(ficpar))=='#' && c!= EOF){
|
| if ((s[2][i]==3) && (s[3][i]==2)) s[3][i]=3;
|
if ((s[2][i]==3) && (s[3][i]==2)) s[3][i]=3;
|
| if ((s[3][i]==3) && (s[4][i]==2)) s[4][i]=3;
|
if ((s[3][i]==3) && (s[4][i]==2)) s[4][i]=3;
|
| }
|
}
|
| for (i=1; i<=imx; i++) printf("%d %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]), (weight[i]), (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]), (mint[2][i]), (anint[2][i]), (s[2][i]), (mint[3][i]), (anint[3][i]), (s[3][i]), (mint[4][i]), (anint[4][i]), (s[4][i]));*/
|
|
| |
for (i=1; i<=imx; i++)
|
| |
if (covar[1][i]==0) printf("%d %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]), (weight[i]), (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]), (mint[2][i]), (anint[2][i]), (s[2][i]), (mint[3][i]), (anint[3][i]), (s[3][i]), (mint[4][i]), (anint[4][i]), (s[4][i]));*/
|
|
|
|
| /* Calculation of the number of parameter from char model*/
|
/* Calculation of the number of parameter from char model*/
|
| Tvar=ivector(1,15);
|
Tvar=ivector(1,15);
|
|
Line 2097 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2755 while((c=getc(ficpar))=='#' && c!= EOF){
|
| }
|
}
|
| else {
|
else {
|
| cutv(strb,stre,strc,'V');
|
cutv(strb,stre,strc,'V');
|
| Tvar[i]=ncov+k1;
|
Tvar[i]=ncovcol+k1;
|
| cutv(strb,strc,strd,'V');
|
cutv(strb,strc,strd,'V');
|
| Tprod[k1]=i;
|
Tprod[k1]=i;
|
| Tvard[k1][1]=atoi(strc);
|
Tvard[k1][1]=atoi(strc);
|
|
Line 2105 while((c=getc(ficpar))=='#' && c!= EOF){
|
Line 2763 while((c=getc(ficpar))=='#' && c!= EOF){
|
| Tvar[cptcovn+k2]=Tvard[k1][1];
|
Tvar[cptcovn+k2]=Tvard[k1][1];
|
| Tvar[cptcovn+k2+1]=Tvard[k1][2];
|
Tvar[cptcovn+k2+1]=Tvard[k1][2];
|
| for (k=1; k<=lastobs;k++)
|
for (k=1; k<=lastobs;k++)
|
| covar[ncov+k1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k];
|
covar[ncovcol+k1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k];
|
| k1++;
|
k1++;
|
| k2=k2+2;
|
k2=k2+2;
|
| }
|
}
|
|
Line 2196 printf("Total number of individuals= %d,
|
Line 2854 printf("Total number of individuals= %d,
|
| free_imatrix(outcome,1,maxwav+1,1,n);
|
free_imatrix(outcome,1,maxwav+1,1,n);
|
| free_vector(moisnais,1,n);
|
free_vector(moisnais,1,n);
|
| 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);
|
|
|
|
|
Line 2241 printf("Total number of individuals= %d,
|
Line 2899 printf("Total number of individuals= %d,
|
|
|
|
| /* 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,Tvar,nbcode, ncodemax);
|
|
|
|
|
| |
|
| |
|
| pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
| oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
| newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
|
Line 2258 printf("Total number of individuals= %d,
|
Line 2917 printf("Total number of individuals= %d,
|
| }
|
}
|
|
|
|
| /*--------- results files --------------*/
|
/*--------- results files --------------*/
|
| fprintf(ficres,"\ntitle=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncov, nlstate, ndeath, maxwav, mle,weightopt,model);
|
fprintf(ficres,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle= 0 weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncovcol, nlstate, ndeath, maxwav, weightopt,model);
|
|
|
|
| |
|
| jk=1;
|
jk=1;
|
| fprintf(ficres,"# Parameters\n");
|
fprintf(ficres,"# Parameters nlstate*nlstate*ncov a12*1 + b12 * age + ...\n");
|
| printf("# Parameters\n");
|
printf("# Parameters nlstate*nlstate*ncov a12*1 + b12 * age + ...\n");
|
| for(i=1,jk=1; i <=nlstate; i++){
|
for(i=1,jk=1; i <=nlstate; i++){
|
| for(k=1; k <=(nlstate+ndeath); k++){
|
for(k=1; k <=(nlstate+ndeath); k++){
|
| if (k != i)
|
if (k != i)
|
|
Line 2275 printf("Total number of individuals= %d,
|
Line 2935 printf("Total number of individuals= %d,
|
| jk++;
|
jk++;
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| fprintf(ficres,"\n");
|
fprintf(ficres,"\n");
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
| if(mle==1){
|
if(mle==1){
|
| /* Computing hessian and covariance matrix */
|
/* Computing hessian and covariance matrix */
|
| ftolhess=ftol; /* Usually correct */
|
ftolhess=ftol; /* Usually correct */
|
| hesscov(matcov, p, npar, delti, ftolhess, func);
|
hesscov(matcov, p, npar, delti, ftolhess, func);
|
| }
|
}
|
| fprintf(ficres,"# Scales\n");
|
fprintf(ficres,"# Scales (for hessian or gradient estimation)\n");
|
| printf("# Scales\n");
|
printf("# Scales (for hessian or gradient estimation)\n");
|
| for(i=1,jk=1; i <=nlstate; i++){
|
for(i=1,jk=1; i <=nlstate; i++){
|
| for(j=1; j <=nlstate+ndeath; j++){
|
for(j=1; j <=nlstate+ndeath; j++){
|
| if (j!=i) {
|
if (j!=i) {
|
| fprintf(ficres,"%1d%1d",i,j);
|
fprintf(ficres,"%1d%1d",i,j);
|
| printf("%1d%1d",i,j);
|
printf("%1d%1d",i,j);
|
| for(k=1; k<=ncovmodel;k++){
|
for(k=1; k<=ncovmodel;k++){
|
| printf(" %.5e",delti[jk]);
|
printf(" %.5e",delti[jk]);
|
| fprintf(ficres," %.5e",delti[jk]);
|
fprintf(ficres," %.5e",delti[jk]);
|
| jk++;
|
jk++;
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| fprintf(ficres,"\n");
|
fprintf(ficres,"\n");
|
| }
|
|
| }
|
|
| }
|
|
|
|
|
| k=1;
|
|
| fprintf(ficres,"# Covariance\n");
|
|
| printf("# Covariance\n");
|
|
| for(i=1;i<=npar;i++){
|
|
| /* if (k>nlstate) k=1;
|
|
| i1=(i-1)/(ncovmodel*nlstate)+1;
|
|
| fprintf(ficres,"%s%d%d",alph[k],i1,tab[i]);
|
|
| printf("%s%d%d",alph[k],i1,tab[i]);*/
|
|
| fprintf(ficres,"%3d",i);
|
|
| printf("%3d",i);
|
|
| for(j=1; j<=i;j++){
|
|
| fprintf(ficres," %.5e",matcov[i][j]);
|
|
| printf(" %.5e",matcov[i][j]);
|
|
| }
|
|
| fprintf(ficres,"\n");
|
|
| printf("\n");
|
|
| k++;
|
|
| }
|
|
|
|
|
| while((c=getc(ficpar))=='#' && c!= EOF){
|
|
| ungetc(c,ficpar);
|
|
| fgets(line, MAXLINE, ficpar);
|
|
| puts(line);
|
|
| fputs(line,ficparo);
|
|
| }
|
|
| ungetc(c,ficpar);
|
|
|
|
|
| fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf\n",&agemin,&agemax, &bage, &fage);
|
|
|
|
|
| if (fage <= 2) {
|
|
| bage = agemin;
|
|
| fage = agemax;
|
|
| }
|
|
|
|
|
| fprintf(ficres,"# agemin agemax for life expectancy, bage fage (if mle==0 ie no data nor Max likelihood).\n");
|
|
| fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemax,bage,fage);
|
|
|
|
|
|
|
|
| /*------------ gnuplot -------------*/
|
|
| chdir(pathcd);
|
|
| if((ficgp=fopen("graph.plt","w"))==NULL) {
|
|
| printf("Problem with file graph.gp");goto end;
|
|
| }
|
|
| #ifdef windows
|
|
| fprintf(ficgp,"cd \"%s\" \n",pathc);
|
|
| #endif
|
|
| m=pow(2,cptcoveff);
|
|
|
|
|
| /* 1eme*/
|
|
| for (cpt=1; cpt<= nlstate ; cpt ++) {
|
|
| for (k1=1; k1<= m ; k1 ++) {
|
|
|
|
|
| #ifdef windows
|
|
| fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter gif small size 400,300\nplot [%.f:%.f] \"vpl%s\" every :::%d::%d u 1:2 \"\%%lf",agemin,fage,fileres,k1-1,k1-1);
|
|
| #endif
|
|
| #ifdef unix
|
|
| fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nplot [%.f:%.f] \"vpl%s\" u 1:2 \"\%%lf",agemin,fage,fileres);
|
|
| #endif
|
|
|
|
|
| for (i=1; i<= nlstate ; i ++) {
|
|
| if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| fprintf(ficgp,"\" t\"Stationary prevalence\" w l 0,\"vpl%s\" every :::%d::%d u 1:($2+2*$3) \"\%%lf",fileres,k1-1,k1-1);
|
|
| for (i=1; i<= nlstate ; i ++) {
|
|
| if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| fprintf(ficgp,"\" t\"95\%% CI\" w l 1,\"vpl%s\" every :::%d::%d u 1:($2-2*$3) \"\%%lf",fileres,k1-1,k1-1);
|
|
| for (i=1; i<= nlstate ; i ++) {
|
|
| if (i==cpt) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| fprintf(ficgp,"\" t\"\" w l 1,\"p%s\" every :::%d::%d u 1:($%d) t\"Observed prevalence \" w l 2",fileres,k1-1,k1-1,2+4*(cpt-1));
|
|
| #ifdef unix
|
|
| fprintf(ficgp,"\nset ter gif small size 400,300");
|
|
| #endif
|
|
| fprintf(ficgp,"\nset out \"v%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
|
| }
|
|
| }
|
|
| /*2 eme*/
|
|
|
|
|
| for (k1=1; k1<= m ; k1 ++) {
|
|
| fprintf(ficgp,"set ylabel \"Years\" \nset ter gif small size 400,300\nplot [%.f:%.f] ",agemin,fage);
|
|
|
|
|
| for (i=1; i<= nlstate+1 ; i ++) {
|
|
| k=2*i;
|
|
| fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:2 \"\%%lf",fileres,k1-1,k1-1);
|
|
| for (j=1; j<= nlstate+1 ; j ++) {
|
|
| if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| if (i== 1) fprintf(ficgp,"\" t\"TLE\" w l ,");
|
|
| else fprintf(ficgp,"\" t\"LE in state (%d)\" w l ,",i-1);
|
|
| fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2-$3*2) \"\%%lf",fileres,k1-1,k1-1);
|
|
| for (j=1; j<= nlstate+1 ; j ++) {
|
|
| if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| fprintf(ficgp,"\" t\"\" w l 0,");
|
|
| fprintf(ficgp,"\"t%s\" every :::%d::%d u 1:($2+$3*2) \"\%%lf",fileres,k1-1,k1-1);
|
|
| for (j=1; j<= nlstate+1 ; j ++) {
|
|
| if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
|
| else fprintf(ficgp," \%%*lf (\%%*lf)");
|
|
| }
|
|
| if (i== (nlstate+1)) fprintf(ficgp,"\" t\"\" w l 0");
|
|
| else fprintf(ficgp,"\" t\"\" w l 0,");
|
|
| }
|
|
| fprintf(ficgp,"\nset out \"e%s%d.gif\" \nreplot\n\n",strtok(optionfile, "."),k1);
|
|
| }
|
|
|
|
|
| /*3eme*/
|
|
|
|
|
| for (k1=1; k1<= m ; k1 ++) {
|
|
| for (cpt=1; cpt<= nlstate ; cpt ++) {
|
|
| k=2+nlstate*(cpt-1);
|
|
| fprintf(ficgp,"set ter gif small size 400,300\nplot [%.f:%.f] \"e%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",agemin,fage,fileres,k1-1,k1-1,k,cpt);
|
|
| for (i=1; i< nlstate ; i ++) {
|
|
| fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:%d t \"e%d%d\" w l",fileres,k1-1,k1-1,k+i,cpt,i+1);
|
|
| }
|
|
| fprintf(ficgp,"\nset out \"exp%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
|
| }
|
|
| }
|
|
|
|
|
| /* CV preval stat */
|
|
| for (k1=1; k1<= m ; k1 ++) {
|
|
| for (cpt=1; cpt<nlstate ; cpt ++) {
|
|
| k=3;
|
|
| fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter gif small size 400,300\nplot [%.f:%.f] \"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",agemin,agemax,fileres,k1,k+cpt+1,k+1);
|
|
| for (i=1; i< nlstate ; i ++)
|
|
| fprintf(ficgp,"+$%d",k+i+1);
|
|
| fprintf(ficgp,")) t\"prev(%d,%d)\" w l",cpt,cpt+1);
|
|
|
|
|
| l=3+(nlstate+ndeath)*cpt;
|
|
| fprintf(ficgp,",\"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",fileres,k1,l+cpt+1,l+1);
|
|
| for (i=1; i< nlstate ; i ++) {
|
|
| l=3+(nlstate+ndeath)*cpt;
|
|
| fprintf(ficgp,"+$%d",l+i+1);
|
|
| }
|
|
| fprintf(ficgp,")) t\"prev(%d,%d)\" w l\n",cpt+1,cpt+1);
|
|
| fprintf(ficgp,"set out \"p%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1);
|
|
| }
|
|
| }
|
|
|
|
|
| /* proba elementaires */
|
|
| for(i=1,jk=1; i <=nlstate; i++){
|
|
| for(k=1; k <=(nlstate+ndeath); k++){
|
|
| if (k != i) {
|
|
| for(j=1; j <=ncovmodel; j++){
|
|
| /*fprintf(ficgp,"%s%1d%1d=%f ",alph[j],i,k,p[jk]);*/
|
|
| /*fprintf(ficgp,"%s",alph[1]);*/
|
|
| fprintf(ficgp,"p%d=%f ",jk,p[jk]);
|
|
| jk++;
|
|
| fprintf(ficgp,"\n");
|
|
| }
|
}
|
| }
|
}
|
| |
}
|
| |
|
| |
k=1;
|
| |
fprintf(ficres,"# Covariance matrix \n# 121 Var(a12)\n# 122 Cov(b12,a12) Var(b12)\n# ...\n# 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n");
|
| |
printf("# Covariance matrix \n# 121 Var(a12)\n# 122 Cov(b12,a12) Var(b12)\n# ...\n# 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n");
|
| |
for(i=1;i<=npar;i++){
|
| |
/* if (k>nlstate) k=1;
|
| |
i1=(i-1)/(ncovmodel*nlstate)+1;
|
| |
fprintf(ficres,"%s%d%d",alph[k],i1,tab[i]);
|
| |
printf("%s%d%d",alph[k],i1,tab[i]);*/
|
| |
fprintf(ficres,"%3d",i);
|
| |
printf("%3d",i);
|
| |
for(j=1; j<=i;j++){
|
| |
fprintf(ficres," %.5e",matcov[i][j]);
|
| |
printf(" %.5e",matcov[i][j]);
|
| |
}
|
| |
fprintf(ficres,"\n");
|
| |
printf("\n");
|
| |
k++;
|
| }
|
}
|
| |
|
| |
while((c=getc(ficpar))=='#' && c!= EOF){
|
| |
ungetc(c,ficpar);
|
| |
fgets(line, MAXLINE, ficpar);
|
| |
puts(line);
|
| |
fputs(line,ficparo);
|
| }
|
}
|
|
|
ungetc(c,ficpar);
|
| for(jk=1; jk <=m; jk++) {
|
|
| fprintf(ficgp,"\nset ter gif small size 400,300\nset log y\nplot [%.f:%.f] ",agemin,agemax);
|
fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf\n",&agemin,&agemaxpar, &bage, &fage);
|
| i=1;
|
|
| for(k2=1; k2<=nlstate; k2++) {
|
if (fage <= 2) {
|
| k3=i;
|
bage = agemin;
|
| for(k=1; k<=(nlstate+ndeath); k++) {
|
fage = agemaxpar;
|
| if (k != k2){
|
}
|
| fprintf(ficgp," exp(p%d+p%d*x",i,i+1);
|
|
| ij=1;
|
fprintf(ficres,"# agemin agemax for life expectancy, bage fage (if mle==0 ie no data nor Max likelihood).\n");
|
| for(j=3; j <=ncovmodel; j++) {
|
fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemaxpar,bage,fage);
|
| if(((j-2)==Tage[ij]) &&(ij <=cptcovage)) {
|
fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemaxpar,bage,fage);
|
| fprintf(ficgp,"+p%d*%d*x",i+j-1,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]);
|
|
| ij++;
|
while((c=getc(ficpar))=='#' && c!= EOF){
|
| }
|
ungetc(c,ficpar);
|
| else
|
fgets(line, MAXLINE, ficpar);
|
| fprintf(ficgp,"+p%d*%d",i+j-1,nbcode[Tvar[j-2]][codtab[jk][j-2]]);
|
puts(line);
|
| }
|
fputs(line,ficparo);
|
| fprintf(ficgp,")/(1");
|
|
|
|
|
| for(k1=1; k1 <=nlstate; k1++){
|
|
| fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1);
|
|
| ij=1;
|
|
| for(j=3; j <=ncovmodel; j++){
|
|
| if(((j-2)==Tage[ij]) &&(ij <=cptcovage)) {
|
|
| fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2,nbcode[Tvar[j-2]][codtab[jk][Tvar[j-2]]]);
|
|
| ij++;
|
|
| }
|
|
| else
|
|
| fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2,nbcode[Tvar[j-2]][codtab[jk][j-2]]);
|
|
| }
|
|
| fprintf(ficgp,")");
|
|
| }
|
|
| fprintf(ficgp,") t \"p%d%d\" ", k2,k);
|
|
| if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,",");
|
|
| i=i+ncovmodel;
|
|
| }
|
|
| }
|
|
| }
|
|
| fprintf(ficgp,"\nset out \"pe%s%d.gif\" \nreplot\n\n",strtok(optionfile, "."),jk);
|
|
| }
|
}
|
|
|
ungetc(c,ficpar);
|
| fclose(ficgp);
|
|
|
|
|
| chdir(path);
|
|
| free_matrix(agev,1,maxwav,1,imx);
|
|
| free_ivector(wav,1,imx);
|
|
| free_imatrix(dh,1,lastpass-firstpass+1,1,imx);
|
|
| free_imatrix(mw,1,lastpass-firstpass+1,1,imx);
|
|
|
|
|
| free_imatrix(s,1,maxwav+1,1,n);
|
|
|
|
|
|
|
|
| free_ivector(num,1,n);
|
|
| free_vector(agedc,1,n);
|
|
| free_vector(weight,1,n);
|
|
| /*free_matrix(covar,1,NCOVMAX,1,n);*/
|
|
| fclose(ficparo);
|
|
| fclose(ficres);
|
|
| /* }*/
|
|
|
|
|
| /*________fin mle=1_________*/
|
|
|
|
|
|
|
|
|
|
|
| /* No more information from the sample is required now */
|
fscanf(ficpar,"begin-prev-date=%lf/%lf/%lf end-prev-date=%lf/%lf/%lf\n",&jprev1, &mprev1,&anprev1,&jprev2, &mprev2,&anprev2);
|
| /* Reads comments: lines beginning with '#' */
|
fprintf(ficparo,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);
|
| |
fprintf(ficres,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);
|
| |
|
| while((c=getc(ficpar))=='#' && c!= EOF){
|
while((c=getc(ficpar))=='#' && c!= EOF){
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
| fgets(line, MAXLINE, ficpar);
|
fgets(line, MAXLINE, ficpar);
|
|
Line 2534 chdir(path);
|
Line 3019 chdir(path);
|
| fputs(line,ficparo);
|
fputs(line,ficparo);
|
| }
|
}
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
| |
|
| |
|
| |
dateprev1=anprev1+mprev1/12.+jprev1/365.;
|
| |
dateprev2=anprev2+mprev2/12.+jprev2/365.;
|
| |
|
| |
fscanf(ficpar,"pop_based=%d\n",&popbased);
|
| |
fprintf(ficparo,"pop_based=%d\n",popbased);
|
| |
fprintf(ficres,"pop_based=%d\n",popbased);
|
|
|
|
| fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf\n",&agemin,&agemax, &bage, &fage);
|
while((c=getc(ficpar))=='#' && c!= EOF){
|
| printf("agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemax, bage, fage);
|
ungetc(c,ficpar);
|
| fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemax,bage,fage);
|
fgets(line, MAXLINE, ficpar);
|
| /*--------- index.htm --------*/
|
puts(line);
|
| |
fputs(line,ficparo);
|
| |
}
|
| |
ungetc(c,ficpar);
|
|
|
|
| strcpy(optionfilehtm,optionfile);
|
fscanf(ficpar,"starting-proj-date=%lf/%lf/%lf final-proj-date=%lf/%lf/%lf mov_average=%d\n",&jproj1,&mproj1,&anproj1,&jproj2,&mproj2,&anproj2,&mobilav);
|
| strcat(optionfilehtm,".htm");
|
fprintf(ficparo,"starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mov_average=%d\n",jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilav);
|
| if((fichtm=fopen(optionfilehtm,"w"))==NULL) {
|
fprintf(ficres,"starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mov_average=%d\n",jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilav);
|
| printf("Problem with %s \n",optionfilehtm);goto end;
|
|
| |
|
| |
while((c=getc(ficpar))=='#' && c!= EOF){
|
| |
ungetc(c,ficpar);
|
| |
fgets(line, MAXLINE, ficpar);
|
| |
puts(line);
|
| |
fputs(line,ficparo);
|
| }
|
}
|
| |
ungetc(c,ficpar);
|
|
|
|
| fprintf(fichtm,"<body><ul> <font size=\"6\">Imach, Version 0.64b </font> <hr size=\"2\" color=\"#EC5E5E\">
|
fscanf(ficpar,"popforecast=%d popfile=%s popfiledate=%lf/%lf/%lf last-popfiledate=%lf/%lf/%lf\n",&popforecast,popfile,&jpyram,&mpyram,&anpyram,&jpyram1,&mpyram1,&anpyram1);
|
| Titre=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s<br>
|
fprintf(ficparo,"popforecast=%d popfile=%s popfiledate=%.lf/%.lf/%.lf last-popfiledate=%.lf/%.lf/%.lf\n",popforecast,popfile,jpyram,mpyram,anpyram,jpyram1,mpyram1,anpyram1);
|
| Total number of observations=%d <br>
|
fprintf(ficres,"popforecast=%d popfile=%s popfiledate=%.lf/%.lf/%.lf last-popfiledate=%.lf/%.lf/%.lf\n",popforecast,popfile,jpyram,mpyram,anpyram,jpyram1,mpyram1,anpyram1);
|
| Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf<br>
|
|
| <hr size=\"2\" color=\"#EC5E5E\">
|
|
| <li>Outputs files<br><br>\n
|
|
| - Observed prevalence in each state: <a href=\"p%s\">p%s</a> <br>\n
|
|
| - Estimated parameters and the covariance matrix: <a href=\"%s\">%s</a> <br>
|
|
| - Stationary prevalence in each state: <a href=\"pl%s\">pl%s</a> <br>
|
|
| - Transition probabilities: <a href=\"pij%s\">pij%s</a><br>
|
|
| - Copy of the parameter file: <a href=\"o%s\">o%s</a><br>
|
|
| - Life expectancies by age and initial health status: <a href=\"e%s\">e%s</a> <br>
|
|
| - Variances of life expectancies by age and initial health status: <a href=\"v%s\">v%s</a><br>
|
|
| - Health expectancies with their variances: <a href=\"t%s\">t%s</a> <br>
|
|
| - Standard deviation of stationary prevalences: <a href=\"vpl%s\">vpl%s</a> <br>
|
|
| - Prevalences forecasting: <a href=\"f%s\">f%s</a> <br>
|
|
| <br>",title,datafile,firstpass,lastpass,stepm, weightopt,model,imx,jmin,jmax,jmean,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres);
|
|
|
|
|
| fprintf(fichtm," <li>Graphs</li><p>");
|
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax,mint,anint,dateprev1,dateprev2,jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);
|
|
|
|
| m=cptcoveff;
|
/*------------ gnuplot -------------*/
|
| if (cptcovn < 1) {m=1;ncodemax[1]=1;}
|
printinggnuplot(fileres,optionfilefiname,optionfile,optionfilegnuplot, agemin,agemaxpar,fage, pathc,p);
|
| |
|
| |
/*------------ free_vector -------------*/
|
| |
chdir(path);
|
| |
|
| |
free_ivector(wav,1,imx);
|
| |
free_imatrix(dh,1,lastpass-firstpass+1,1,imx);
|
| |
free_imatrix(mw,1,lastpass-firstpass+1,1,imx);
|
| |
free_ivector(num,1,n);
|
| |
free_vector(agedc,1,n);
|
| |
/*free_matrix(covar,1,NCOVMAX,1,n);*/
|
| |
fclose(ficparo);
|
| |
fclose(ficres);
|
|
|
|
| j1=0;
|
/*--------- index.htm --------*/
|
| for(k1=1; k1<=m;k1++){
|
|
| for(i1=1; i1<=ncodemax[k1];i1++){
|
|
| j1++;
|
|
| if (cptcovn > 0) {
|
|
| fprintf(fichtm,"<hr size=\"2\" color=\"#EC5E5E\">************ Results for covariates");
|
|
| for (cpt=1; cpt<=cptcoveff;cpt++)
|
|
| fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[j1][cpt]]);
|
|
| fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">");
|
|
| }
|
|
| fprintf(fichtm,"<br>- Probabilities: pe%s%d.gif<br>
|
|
| <img src=\"pe%s%d.gif\">",strtok(optionfile, "."),j1,strtok(optionfile, "."),j1);
|
|
| for(cpt=1; cpt<nlstate;cpt++){
|
|
| fprintf(fichtm,"<br>- Prevalence of disability : p%s%d%d.gif<br>
|
|
| <img src=\"p%s%d%d.gif\">",strtok(optionfile, "."),cpt,j1,strtok(optionfile, "."),cpt,j1);
|
|
| }
|
|
| for(cpt=1; cpt<=nlstate;cpt++) {
|
|
| fprintf(fichtm,"<br>- Observed and stationary prevalence (with confident
|
|
| interval) in state (%d): v%s%d%d.gif <br>
|
|
| <img src=\"v%s%d%d.gif\">",cpt,strtok(optionfile, "."),cpt,j1,strtok(optionfile, "."),cpt,j1);
|
|
| }
|
|
| for(cpt=1; cpt<=nlstate;cpt++) {
|
|
| fprintf(fichtm,"\n<br>- Health life expectancies by age and initial health state (%d): exp%s%d%d.gif <br>
|
|
| <img src=\"exp%s%d%d.gif\">",cpt,strtok(optionfile, "."),cpt,j1,strtok(optionfile, "."),cpt,j1);
|
|
| }
|
|
| fprintf(fichtm,"\n<br>- Total life expectancy by age and
|
|
| health expectancies in states (1) and (2): e%s%d.gif<br>
|
|
| <img src=\"e%s%d.gif\">",strtok(optionfile, "."),j1,strtok(optionfile, "."),j1);
|
|
| fprintf(fichtm,"\n</body>");
|
|
| }
|
|
| }
|
|
| fclose(fichtm);
|
|
|
|
|
| |
printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,model,imx,jmin,jmax,jmean,optionfile,optionfilehtm,rfileres);
|
| |
|
| |
|
| /*--------------- Prevalence limit --------------*/
|
/*--------------- Prevalence limit --------------*/
|
|
|
|
| strcpy(filerespl,"pl");
|
strcpy(filerespl,"pl");
|
|
Line 2623 fclose(fichtm);
|
Line 3096 fclose(fichtm);
|
| oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
| k=0;
|
k=0;
|
| agebase=agemin;
|
agebase=agemin;
|
| agelim=agemax;
|
agelim=agemaxpar;
|
| ftolpl=1.e-10;
|
ftolpl=1.e-10;
|
| i1=cptcoveff;
|
i1=cptcoveff;
|
| if (cptcovn < 1){i1=1;}
|
if (cptcovn < 1){i1=1;}
|
|
Line 2700 fclose(fichtm);
|
Line 3173 fclose(fichtm);
|
|
|
|
| fclose(ficrespij);
|
fclose(ficrespij);
|
|
|
|
| /*---------- Forecasting ------------------*/
|
|
|
|
|
| strcpy(fileresf,"f");
|
|
| strcat(fileresf,fileres);
|
|
| if((ficresf=fopen(fileresf,"w"))==NULL) {
|
|
| printf("Problem with forecast resultfile: %s\n", fileresf);goto end;
|
|
| }
|
|
| printf("Computing forecasting: result on file '%s' \n", fileresf);
|
|
|
|
|
| /* Mobile average */
|
|
|
|
|
| /* for (agedeb=bage; agedeb<=fage; agedeb++)
|
|
| for (i=1; i<=nlstate;i++)
|
|
| for (cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++)
|
|
| printf("%f %d i=%d j1=%d\n", probs[(int)agedeb][i][cptcod],(int) agedeb,i,cptcod);*/
|
|
|
|
|
| if (cptcoveff==0) ncodemax[cptcoveff]=1;
|
|
|
|
|
| if (mobilav==1) {
|
/*---------- Forecasting ------------------*/
|
| mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
if((stepm == 1) && (strcmp(model,".")==0)){
|
| for (agedeb=bage+3; agedeb<=fage-2; agedeb++)
|
prevforecast(fileres, anproj1,mproj1,jproj1, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anproj2,p, i1);
|
| for (i=1; i<=nlstate;i++)
|
if (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);
|
| for (cptcod=1;cptcod<=ncodemax[cptcov];cptcod++)
|
free_matrix(mint,1,maxwav,1,n);
|
| mobaverage[(int)agedeb][i][cptcod]=0.;
|
free_matrix(anint,1,maxwav,1,n); free_imatrix(s,1,maxwav+1,1,n);
|
|
|
free_vector(weight,1,n);}
|
| for (agedeb=bage+4; agedeb<=fage; agedeb++){
|
else{
|
| for (i=1; i<=nlstate;i++){
|
erreur=108;
|
| for (cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){
|
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);
|
| for (cpt=0;cpt<=4;cpt++){
|
|
| mobaverage[(int)agedeb-2][i][cptcod]=mobaverage[(int)agedeb-2][i][cptcod]+probs[(int)agedeb-cpt][i][cptcod];
|
|
| }
|
|
| mobaverage[(int)agedeb-2][i][cptcod]=mobaverage[(int)agedeb-2][i][cptcod]/5;
|
|
| }
|
|
| }
|
|
| }
|
|
| }
|
}
|
| |
|
|
|
|
| stepsize=(int) (stepm+YEARM-1)/YEARM;
|
|
| if (stepm<=24) stepsize=2;
|
|
|
|
|
| agelim=AGESUP;
|
|
| hstepm=stepsize*YEARM; /* Every year of age */
|
|
| hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */
|
|
| hstepm=12;
|
|
| k=0;
|
|
| for(cptcov=1;cptcov<=i1;cptcov++){
|
|
| for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){
|
|
| k=k+1;
|
|
| fprintf(ficresf,"\n#****** ");
|
|
| for(j=1;j<=cptcoveff;j++) {
|
|
| fprintf(ficresf,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
|
| }
|
|
|
|
|
| fprintf(ficresf,"******\n");
|
|
|
|
|
| fprintf(ficresf,"# StartingAge FinalAge Horizon(in years)");
|
|
| for(j=1; j<=nlstate+ndeath;j++) fprintf(ficresf," P.%d",j);
|
|
|
|
|
| for (agedeb=fage; agedeb>=bage; agedeb--){
|
|
| fprintf(ficresf,"\n%d %.f %.f 0 ",k,agedeb, agedeb);
|
|
| if (mobilav==1) {
|
|
| for(j=1; j<=nlstate;j++)
|
|
| fprintf(ficresf,"%.5f ",mobaverage[(int)agedeb][j][cptcod]);
|
|
| }
|
|
| else {
|
|
| for(j=1; j<=nlstate;j++)
|
|
| fprintf(ficresf,"%.5f ",probs[(int)agedeb][j][cptcod]);
|
|
| }
|
|
|
|
|
| for(j=1; j<=ndeath;j++) fprintf(ficresf,"0.");
|
|
| }
|
|
| for (cpt=1; cpt<=NCOVMAX;cpt++)
|
|
| for (agedeb=fage; agedeb>=bage; agedeb--){ /* If stepm=6 months */
|
|
|
|
|
| nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */
|
|
| nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */
|
|
| /*printf("stepm=%d hstepm=%d nhstepm=%d \n",stepm,hstepm,nhstepm);*/
|
|
|
|
|
| p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
|
| oldm=oldms;savm=savms;
|
|
| hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
|
|
|
|
| for (h=0; h<=nhstepm; h++){
|
|
|
|
|
| if (h*hstepm/YEARM*stepm==cpt)
|
|
| fprintf(ficresf,"\n%d %.f %.f %.f",k,agedeb, agedeb+ h*hstepm/YEARM*stepm, h*hstepm/YEARM*stepm);
|
|
|
|
|
| for(j=1; j<=nlstate+ndeath;j++) {
|
|
| kk1=0.;
|
|
| for(i=1; i<=nlstate;i++) {
|
|
| if (mobilav==1)
|
|
| kk1=kk1+p3mat[i][j][h]*mobaverage[(int)agedeb][i][cptcod];
|
|
| else kk1=kk1+p3mat[i][j][h]*probs[(int)agedeb][i][cptcod];
|
|
| }
|
|
| if (h*hstepm/YEARM*stepm==cpt) fprintf(ficresf," %.5f ", kk1);
|
|
| }
|
|
| }
|
|
| free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
|
| }
|
|
| }
|
|
| }
|
|
| if (mobilav==1) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
|
| fclose(ficresf);
|
|
| /*---------- Health expectancies and variances ------------*/
|
/*---------- Health expectancies and variances ------------*/
|
|
|
|
| strcpy(filerest,"t");
|
strcpy(filerest,"t");
|
|
Line 2851 fclose(fichtm);
|
Line 3235 fclose(fichtm);
|
| evsij(fileres, eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k);
|
evsij(fileres, eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k);
|
| vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);
|
vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);
|
| oldm=oldms;savm=savms;
|
oldm=oldms;savm=savms;
|
| varevsij(fileres, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k);
|
varevsij(fileres, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k);
|
|
|
|
| |
|
| |
|
| fprintf(ficrest,"#Total LEs with variances: e.. (std) ");
|
fprintf(ficrest,"#Total LEs with variances: 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");
|
|
|
|
| hf=1;
|
|
| if (stepm >= YEARM) hf=stepm/YEARM;
|
|
| epj=vector(1,nlstate+1);
|
epj=vector(1,nlstate+1);
|
| for(age=bage; age <=fage ;age++){
|
for(age=bage; age <=fage ;age++){
|
| prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k);
|
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k);
|
|
Line 2867 fclose(fichtm);
|
Line 3251 fclose(fichtm);
|
| prlim[i][i]=probs[(int)age][i][k];
|
prlim[i][i]=probs[(int)age][i][k];
|
| }
|
}
|
|
|
|
| fprintf(ficrest," %.0f",age);
|
fprintf(ficrest," %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]*hf*eij[i][j][(int)age];
|
epj[j] += prlim[i][i]*eij[i][j][(int)age];
|
| }
|
}
|
| epj[nlstate+1] +=epj[j];
|
epj[nlstate+1] +=epj[j];
|
| }
|
}
|
| 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," %.2f (%.2f)", epj[nlstate+1],hf*sqrt(vepp));
|
fprintf(ficrest," %7.2f (%7.2f)", epj[nlstate+1],sqrt(vepp));
|
| for(j=1;j <=nlstate;j++){
|
for(j=1;j <=nlstate;j++){
|
| fprintf(ficrest," %.2f (%.2f)", epj[j],hf*sqrt(vareij[j][j][(int)age]));
|
fprintf(ficrest," %7.2f (%7.2f)", epj[j],sqrt(vareij[j][j][(int)age]));
|
| }
|
}
|
| fprintf(ficrest,"\n");
|
fprintf(ficrest,"\n");
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
|
|
|
|
|
|
|
|
|
|
|
|
| fclose(ficreseij);
|
fclose(ficreseij);
|
| fclose(ficresvij);
|
fclose(ficresvij);
|
| fclose(ficrest);
|
fclose(ficrest);
|
| fclose(ficpar);
|
fclose(ficpar);
|
| free_vector(epj,1,nlstate+1);
|
free_vector(epj,1,nlstate+1);
|
| /* scanf("%d ",i); */
|
|
|
|
|
| /*------- Variance limit prevalence------*/
|
/*------- Variance limit prevalence------*/
|
|
|
|
| strcpy(fileresvpl,"vpl");
|
strcpy(fileresvpl,"vpl");
|
| strcat(fileresvpl,fileres);
|
strcat(fileresvpl,fileres);
|
| if((ficresvpl=fopen(fileresvpl,"w"))==NULL) {
|
if((ficresvpl=fopen(fileresvpl,"w"))==NULL) {
|
| printf("Problem with variance prev lim resultfile: %s\n", fileresvpl);
|
printf("Problem with variance prev lim resultfile: %s\n", fileresvpl);
|
|
Line 2906 strcpy(fileresvpl,"vpl");
|
Line 3286 strcpy(fileresvpl,"vpl");
|
| }
|
}
|
| printf("Computing Variance-covariance of Prevalence limit: file '%s' \n", fileresvpl);
|
printf("Computing Variance-covariance of Prevalence limit: file '%s' \n", fileresvpl);
|
|
|
|
| k=0;
|
k=0;
|
| for(cptcov=1;cptcov<=i1;cptcov++){
|
for(cptcov=1;cptcov<=i1;cptcov++){
|
| for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){
|
for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){
|
| k=k+1;
|
k=k+1;
|
| fprintf(ficresvpl,"\n#****** ");
|
fprintf(ficresvpl,"\n#****** ");
|
| for(j=1;j<=cptcoveff;j++)
|
for(j=1;j<=cptcoveff;j++)
|
| fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[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,k);
|
varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k);
|
| }
|
}
|
| }
|
}
|
|
|
|
| fclose(ficresvpl);
|
fclose(ficresvpl);
|
|
Line 2937 strcpy(fileresvpl,"vpl");
|
Line 3317 strcpy(fileresvpl,"vpl");
|
|
|
|
| free_matrix(matcov,1,npar,1,npar);
|
free_matrix(matcov,1,npar,1,npar);
|
| free_vector(delti,1,npar);
|
free_vector(delti,1,npar);
|
|
|
free_matrix(agev,1,maxwav,1,imx);
|
| free_ma3x(param,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel);
|
free_ma3x(param,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel);
|
|
|
|
| printf("End of Imach\n");
|
if(erreur >0)
|
| |
printf("End of Imach with error or warning %d\n",erreur);
|
| |
else printf("End of Imach\n");
|
| /* gettimeofday(&end_time, (struct timezone*)0);*/ /* after time */
|
/* gettimeofday(&end_time, (struct timezone*)0);*/ /* after time */
|
|
|
|
| /* printf("Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec);*/
|
/* printf("Total time was %d Sec. %d uSec.\n", end_time.tv_sec -start_time.tv_sec, end_time.tv_usec -start_time.tv_usec);*/
|
|
Line 2950 strcpy(fileresvpl,"vpl");
|
Line 3332 strcpy(fileresvpl,"vpl");
|
|
|
|
| end:
|
end:
|
| #ifdef windows
|
#ifdef windows
|
| chdir(pathcd);
|
/* chdir(pathcd);*/
|
| #endif
|
#endif
|
|
|
/*system("wgnuplot graph.plt");*/
|
| system("..\\gp37mgw\\wgnuplot graph.plt");
|
/*system("../gp37mgw/wgnuplot graph.plt");*/
|
| |
/*system("cd ../gp37mgw");*/
|
| |
/* system("..\\gp37mgw\\wgnuplot graph.plt");*/
|
| |
strcpy(plotcmd,GNUPLOTPROGRAM);
|
| |
strcat(plotcmd," ");
|
| |
strcat(plotcmd,optionfilegnuplot);
|
| |
system(plotcmd);
|
|
|
|
| #ifdef windows
|
#ifdef windows
|
| while (z[0] != 'q') {
|
while (z[0] != 'q') {
|
| chdir(pathcd);
|
chdir(path);
|
| printf("\nType e to edit output files, c to start again, and q for exiting: ");
|
printf("\nType e to edit output files, c to start again, and q for exiting: ");
|
| scanf("%s",z);
|
scanf("%s",z);
|
| if (z[0] == 'c') system("./imach");
|
if (z[0] == 'c') system("./imach");
|
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