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version 1.7, 2001/05/02 17:50:24
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version 1.50, 2002/06/26 23:25:02
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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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probability 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 "gnuplot"
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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 75
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| #define YEARM 12. /* Number of months per year */
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#define YEARM 12. /* Number of months per year */
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| #define AGESUP 130
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#define AGESUP 130
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| #define AGEBASE 40
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#define AGEBASE 40
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#ifdef windows
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#define DIRSEPARATOR '\\'
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#define ODIRSEPARATOR '/'
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#else
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#define DIRSEPARATOR '/'
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#define ODIRSEPARATOR '\\'
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#endif
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char version[80]="Imach version 0.8i, June 2002, INED-EUROREVES ";
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int erreur; /* Error number */
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| int nvar;
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int nvar;
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| static int cptcov;
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int cptcovn=0, cptcovage=0, cptcoveff=0,cptcov;
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| int cptcovn, cptcovage=0, cptcoveff=0;
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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;
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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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int jmin, jmax; /* min, max spacing between 2 waves */
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| int mle, weightopt;
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int mle, weightopt;
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| int **mw; /* mw[mi][i] is number of the mi wave for this individual */
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int **mw; /* mw[mi][i] is number of the mi wave for this individual */
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| int **dh; /* dh[mi][i] is number of steps between mi,mi+1 for this individual */
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int **dh; /* dh[mi][i] is number of steps between mi,mi+1 for this individual */
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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;
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FILE *fic,*ficpar, *ficparo,*ficres, *ficrespl, *ficrespij, *ficrest,*ficresf,*ficrespop;
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| FILE *ficgp, *fichtm;
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FILE *ficlog;
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FILE *ficgp,*ficresprob,*ficpop, *ficresprobcov, *ficresprobcor;
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FILE *ficresprobmorprev;
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FILE *fichtm; /* Html File */
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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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| char fileresv[FILENAMELENGTH];
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char fileresv[FILENAMELENGTH];
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| FILE *ficresvpl;
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FILE *ficresvpl;
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| char fileresvpl[FILENAMELENGTH];
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char fileresvpl[FILENAMELENGTH];
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char title[MAXLINE];
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char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH];
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char optionfilext[10], optionfilefiname[FILENAMELENGTH], plotcmd[FILENAMELENGTH];
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char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH];
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char filelog[FILENAMELENGTH]; /* Log file */
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char filerest[FILENAMELENGTH];
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char fileregp[FILENAMELENGTH];
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char popfile[FILENAMELENGTH];
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char optionfilegnuplot[FILENAMELENGTH], optionfilehtm[FILENAMELENGTH];
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| #define NR_END 1
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#define NR_END 1
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| #define FREE_ARG char*
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#define FREE_ARG char*
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Line 111 FILE *ficreseij;
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Line 145 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 123 int imx;
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Line 157 int imx;
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| int stepm;
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int stepm;
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| /* Stepm, step in month: minimum step interpolation*/
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/* Stepm, step in month: minimum step interpolation*/
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int estepm;
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/* Estepm, step in month to interpolate survival function in order to approximate Life Expectancy*/
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| int m,nb;
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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;
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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 137 double ftol=FTOL; /* Tolerance for compu
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Line 175 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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| s = strrchr( path, '\\' ); /* find last / */
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s= strrchr( path, DIRSEPARATOR ); /* find last / */
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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(strrchr(path, ODIRSEPARATOR )==NULL)
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printf("Warning you should use %s as a separator\n",DIRSEPARATOR);*/
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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 167 static int split( char *path, char *dirc
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Line 207 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 200 int nbocc(char *s, char occ)
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Line 251 int nbocc(char *s, char occ)
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| void cutv(char *u,char *v, char*t, char occ)
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void cutv(char *u,char *v, char*t, char occ)
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| {
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{
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/* cuts string t into u and v where u is ended by char occ excluding it
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and v is after occ excluding it too : ex cutv(u,v,"abcdef2ghi2j",2)
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gives u="abcedf" and v="ghi2j" */
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| int i,lg,j,p=0;
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int i,lg,j,p=0;
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| i=0;
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i=0;
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| for(j=0; j<=strlen(t)-1; j++) {
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for(j=0; j<=strlen(t)-1; j++) {
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Line 396 double brent(double ax, double bx, doubl
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Line 450 double brent(double ax, double bx, doubl
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| tol2=2.0*(tol1=tol*fabs(x)+ZEPS);
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tol2=2.0*(tol1=tol*fabs(x)+ZEPS);
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| /* if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret)))*/
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/* if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret)))*/
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| printf(".");fflush(stdout);
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printf(".");fflush(stdout);
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fprintf(ficlog,".");fflush(ficlog);
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| #ifdef DEBUG
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#ifdef DEBUG
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| printf("br %d,x=%.10e xm=%.10e b=%.10e a=%.10e tol=%.10e tol1=%.10e tol2=%.10e x-xm=%.10e fx=%.12e fu=%.12e,fw=%.12e,ftemp=%.12e,ftol=%.12e\n",iter,x,xm,b,a,tol,tol1,tol2,(x-xm),fx,fu,fw,ftemp,ftol);
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printf("br %d,x=%.10e xm=%.10e b=%.10e a=%.10e tol=%.10e tol1=%.10e tol2=%.10e x-xm=%.10e fx=%.12e fu=%.12e,fw=%.12e,ftemp=%.12e,ftol=%.12e\n",iter,x,xm,b,a,tol,tol1,tol2,(x-xm),fx,fu,fw,ftemp,ftol);
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fprintf(ficlog,"br %d,x=%.10e xm=%.10e b=%.10e a=%.10e tol=%.10e tol1=%.10e tol2=%.10e x-xm=%.10e fx=%.12e fu=%.12e,fw=%.12e,ftemp=%.12e,ftol=%.12e\n",iter,x,xm,b,a,tol,tol1,tol2,(x-xm),fx,fu,fw,ftemp,ftol);
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| /* if ((fabs(x-xm) <= (tol2-0.5*(b-a)))||(2.0*fabs(fu-ftemp) <= ftol*1.e-2*(fabs(fu)+fabs(ftemp)))) { */
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/* if ((fabs(x-xm) <= (tol2-0.5*(b-a)))||(2.0*fabs(fu-ftemp) <= ftol*1.e-2*(fabs(fu)+fabs(ftemp)))) { */
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| #endif
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#endif
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| if (fabs(x-xm) <= (tol2-0.5*(b-a))){
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if (fabs(x-xm) <= (tol2-0.5*(b-a))){
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Line 522 void linmin(double p[], double xi[], int
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Line 578 void linmin(double p[], double xi[], int
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| *fret=brent(ax,xx,bx,f1dim,TOL,&xmin);
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*fret=brent(ax,xx,bx,f1dim,TOL,&xmin);
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| #ifdef DEBUG
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#ifdef DEBUG
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| printf("retour brent fret=%.12e xmin=%.12e\n",*fret,xmin);
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printf("retour brent fret=%.12e xmin=%.12e\n",*fret,xmin);
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fprintf(ficlog,"retour brent fret=%.12e xmin=%.12e\n",*fret,xmin);
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| #endif
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#endif
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| for (j=1;j<=n;j++) {
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for (j=1;j<=n;j++) {
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| xi[j] *= xmin;
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xi[j] *= xmin;
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Line 552 void powell(double p[], double **xi, int
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Line 609 void powell(double p[], double **xi, int
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| ibig=0;
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ibig=0;
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| del=0.0;
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del=0.0;
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| printf("\nPowell iter=%d -2*LL=%.12f",*iter,*fret);
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printf("\nPowell iter=%d -2*LL=%.12f",*iter,*fret);
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fprintf(ficlog,"\nPowell iter=%d -2*LL=%.12f",*iter,*fret);
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| for (i=1;i<=n;i++)
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for (i=1;i<=n;i++)
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| printf(" %d %.12f",i, p[i]);
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printf(" %d %.12f",i, p[i]);
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fprintf(ficlog," %d %.12f",i, p[i]);
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| printf("\n");
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printf("\n");
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fprintf(ficlog,"\n");
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| for (i=1;i<=n;i++) {
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for (i=1;i<=n;i++) {
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| for (j=1;j<=n;j++) xit[j]=xi[j][i];
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for (j=1;j<=n;j++) xit[j]=xi[j][i];
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| fptt=(*fret);
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fptt=(*fret);
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| #ifdef DEBUG
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#ifdef DEBUG
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| printf("fret=%lf \n",*fret);
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printf("fret=%lf \n",*fret);
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fprintf(ficlog,"fret=%lf \n",*fret);
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| #endif
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#endif
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| printf("%d",i);fflush(stdout);
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printf("%d",i);fflush(stdout);
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fprintf(ficlog,"%d",i);fflush(ficlog);
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| linmin(p,xit,n,fret,func);
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linmin(p,xit,n,fret,func);
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| if (fabs(fptt-(*fret)) > del) {
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if (fabs(fptt-(*fret)) > del) {
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| del=fabs(fptt-(*fret));
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del=fabs(fptt-(*fret));
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Line 569 void powell(double p[], double **xi, int
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Line 631 void powell(double p[], double **xi, int
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| }
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}
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| #ifdef DEBUG
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#ifdef DEBUG
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| printf("%d %.12e",i,(*fret));
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printf("%d %.12e",i,(*fret));
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fprintf(ficlog,"%d %.12e",i,(*fret));
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| for (j=1;j<=n;j++) {
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for (j=1;j<=n;j++) {
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| xits[j]=FMAX(fabs(p[j]-pt[j]),1.e-5);
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xits[j]=FMAX(fabs(p[j]-pt[j]),1.e-5);
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| printf(" x(%d)=%.12e",j,xit[j]);
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printf(" x(%d)=%.12e",j,xit[j]);
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fprintf(ficlog," x(%d)=%.12e",j,xit[j]);
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| }
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}
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| for(j=1;j<=n;j++)
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for(j=1;j<=n;j++) {
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| printf(" p=%.12e",p[j]);
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printf(" p=%.12e",p[j]);
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fprintf(ficlog," p=%.12e",p[j]);
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}
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| printf("\n");
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printf("\n");
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fprintf(ficlog,"\n");
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| #endif
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#endif
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| }
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}
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| if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret))) {
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if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret))) {
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Line 584 void powell(double p[], double **xi, int
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Line 651 void powell(double p[], double **xi, int
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| k[0]=1;
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k[0]=1;
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| k[1]=-1;
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k[1]=-1;
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| printf("Max: %.12e",(*func)(p));
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printf("Max: %.12e",(*func)(p));
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| for (j=1;j<=n;j++)
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fprintf(ficlog,"Max: %.12e",(*func)(p));
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for (j=1;j<=n;j++) {
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| printf(" %.12e",p[j]);
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printf(" %.12e",p[j]);
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fprintf(ficlog," %.12e",p[j]);
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}
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| printf("\n");
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printf("\n");
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fprintf(ficlog,"\n");
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| for(l=0;l<=1;l++) {
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for(l=0;l<=1;l++) {
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| for (j=1;j<=n;j++) {
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for (j=1;j<=n;j++) {
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| ptt[j]=p[j]+(p[j]-pt[j])*k[l];
|
ptt[j]=p[j]+(p[j]-pt[j])*k[l];
|
| printf("l=%d j=%d ptt=%.12e, xits=%.12e, p=%.12e, xit=%.12e", l,j,ptt[j],xits[j],p[j],xit[j]);
|
printf("l=%d j=%d ptt=%.12e, xits=%.12e, p=%.12e, xit=%.12e", l,j,ptt[j],xits[j],p[j],xit[j]);
|
| |
fprintf(ficlog,"l=%d j=%d ptt=%.12e, xits=%.12e, p=%.12e, xit=%.12e", l,j,ptt[j],xits[j],p[j],xit[j]);
|
| }
|
}
|
| printf("func(ptt)=%.12e, deriv=%.12e\n",(*func)(ptt),(ptt[j]-p[j])/((*func)(ptt)-(*func)(p)));
|
printf("func(ptt)=%.12e, deriv=%.12e\n",(*func)(ptt),(ptt[j]-p[j])/((*func)(ptt)-(*func)(p)));
|
| |
fprintf(ficlog,"func(ptt)=%.12e, deriv=%.12e\n",(*func)(ptt),(ptt[j]-p[j])/((*func)(ptt)-(*func)(p)));
|
| }
|
}
|
| #endif
|
#endif
|
|
|
|
|
Line 620 void powell(double p[], double **xi, int
|
Line 693 void powell(double p[], double **xi, int
|
| }
|
}
|
| #ifdef DEBUG
|
#ifdef DEBUG
|
| printf("Direction changed last moved %d in place of ibig=%d, new last is the average:\n",n,ibig);
|
printf("Direction changed last moved %d in place of ibig=%d, new last is the average:\n",n,ibig);
|
| for(j=1;j<=n;j++)
|
fprintf(ficlog,"Direction changed last moved %d in place of ibig=%d, new last is the average:\n",n,ibig);
|
| |
for(j=1;j<=n;j++){
|
| printf(" %.12e",xit[j]);
|
printf(" %.12e",xit[j]);
|
| |
fprintf(ficlog," %.12e",xit[j]);
|
| |
}
|
| printf("\n");
|
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| #endif
|
#endif
|
| }
|
}
|
| }
|
}
|
|
Line 658 double **prevalim(double **prlim, int nl
|
Line 735 double **prevalim(double **prlim, int nl
|
|
|
|
| for (k=1; k<=cptcovn;k++) {
|
for (k=1; k<=cptcovn;k++) {
|
| cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]];
|
cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]];
|
| /*printf("ij=%d Tvar[k]=%d nbcode=%d cov=%lf\n",ij, Tvar[k],nbcode[Tvar[k]][codtab[ij][Tvar[k]]],cov[2+k]);*/
|
/* printf("ij=%d k=%d Tvar[k]=%d nbcode=%d cov=%lf codtab[ij][Tvar[k]]=%d \n",ij,k, Tvar[k],nbcode[Tvar[k]][codtab[ij][Tvar[k]]],cov[2+k], codtab[ij][Tvar[k]]);*/
|
| }
|
}
|
| for (k=1; k<=cptcovage;k++)
|
for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2];
|
| cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2];
|
|
| for (k=1; k<=cptcovprod;k++)
|
for (k=1; k<=cptcovprod;k++)
|
| cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]];
|
cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]];
|
|
|
|
| /*printf("ij=%d cptcovprod=%d tvar=%d ", ij, cptcovprod, Tvar[1]);*/
|
/*printf("ij=%d cptcovprod=%d tvar=%d ", ij, cptcovprod, Tvar[1]);*/
|
|
|
|
| /*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/
|
/*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/
|
|
|
/*printf("ij=%d cov[3]=%lf \n",ij, cov[3]);*/
|
| out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm);
|
out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm);
|
|
|
|
| savm=oldm;
|
savm=oldm;
|
|
Line 693 double **prevalim(double **prlim, int nl
|
Line 768 double **prevalim(double **prlim, int nl
|
| }
|
}
|
| }
|
}
|
|
|
|
| /*************** transition probabilities **********/
|
/*************** transition probabilities ***************/
|
|
|
|
| double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate )
|
double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate )
|
| {
|
{
|
|
Line 719 double **pmij(double **ps, double *cov,
|
Line 794 double **pmij(double **ps, double *cov,
|
| ps[i][j]=s2;
|
ps[i][j]=s2;
|
| }
|
}
|
| }
|
}
|
| |
/*ps[3][2]=1;*/
|
| |
|
| for(i=1; i<= nlstate; i++){
|
for(i=1; i<= nlstate; i++){
|
| s1=0;
|
s1=0;
|
| for(j=1; j<i; j++)
|
for(j=1; j<i; j++)
|
|
Line 740 double **pmij(double **ps, double *cov,
|
Line 817 double **pmij(double **ps, double *cov,
|
| }
|
}
|
| }
|
}
|
|
|
|
| |
|
| /* for(ii=1; ii<= nlstate+ndeath; ii++){
|
/* for(ii=1; ii<= nlstate+ndeath; ii++){
|
| for(jj=1; jj<= nlstate+ndeath; jj++){
|
for(jj=1; jj<= nlstate+ndeath; jj++){
|
| printf("%lf ",ps[ii][jj]);
|
printf("%lf ",ps[ii][jj]);
|
|
Line 757 double **pmij(double **ps, double *cov,
|
Line 835 double **pmij(double **ps, double *cov,
|
|
|
|
| double **matprod2(double **out, double **in,long nrl, long nrh, long ncl, long nch, long ncolol, long ncoloh, double **b)
|
double **matprod2(double **out, double **in,long nrl, long nrh, long ncl, long nch, long ncolol, long ncoloh, double **b)
|
| {
|
{
|
| /* Computes the matric product of in(1,nrh-nrl+1)(1,nch-ncl+1) times
|
/* Computes the matrix product of in(1,nrh-nrl+1)(1,nch-ncl+1) times
|
| b(1,nch-ncl+1)(1,ncoloh-ncolol+1) into out(...) */
|
b(1,nch-ncl+1)(1,ncoloh-ncolol+1) into out(...) */
|
| /* in, b, out are matrice of pointers which should have been initialized
|
/* in, b, out are matrice of pointers which should have been initialized
|
| before: only the contents of out is modified. The function returns
|
before: only the contents of out is modified. The function returns
|
|
Line 804 double ***hpxij(double ***po, int nhstep
|
Line 882 double ***hpxij(double ***po, int nhstep
|
| cov[1]=1.;
|
cov[1]=1.;
|
| cov[2]=age+((h-1)*hstepm + (d-1))*stepm/YEARM;
|
cov[2]=age+((h-1)*hstepm + (d-1))*stepm/YEARM;
|
| for (k=1; k<=cptcovn;k++) cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]];
|
for (k=1; k<=cptcovn;k++) cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]];
|
| for (k=1; k<=cptcovage;k++)
|
for (k=1; k<=cptcovage;k++)
|
| cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2];
|
cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2];
|
| for (k=1; k<=cptcovprod;k++)
|
for (k=1; k<=cptcovprod;k++)
|
| cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]];
|
cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]];
|
|
|
|
|
|
|
|
Line 841 double func( double *x)
|
Line 919 double func( double *x)
|
| /* We are differentiating ll according to initial status */
|
/* We are differentiating ll according to initial status */
|
| /* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/
|
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/
|
| /*for(i=1;i<imx;i++)
|
/*for(i=1;i<imx;i++)
|
| printf(" %d\n",s[4][i]);
|
printf(" %d\n",s[4][i]);
|
| */
|
*/
|
| cov[1]=1.;
|
cov[1]=1.;
|
|
|
|
| for(k=1; k<=nlstate; k++) ll[k]=0.;
|
for(k=1; k<=nlstate; k++) ll[k]=0.;
|
| for (i=1,ipmx=0, sw=0.; i<=imx; i++){
|
for (i=1,ipmx=0, sw=0.; i<=imx; i++){
|
| for (k=1; k<=cptcovn;k++) cov[2+k]=covar[Tvar[k]][i];
|
for (k=1; k<=cptcovn;k++) cov[2+k]=covar[Tvar[k]][i];
|
| for(mi=1; mi<= wav[i]-1; mi++){
|
for(mi=1; mi<= wav[i]-1; mi++){
|
| for (ii=1;ii<=nlstate+ndeath;ii++)
|
for (ii=1;ii<=nlstate+ndeath;ii++)
|
| for (j=1;j<=nlstate+ndeath;j++) oldm[ii][j]=(ii==j ? 1.0 : 0.0);
|
for (j=1;j<=nlstate+ndeath;j++) oldm[ii][j]=(ii==j ? 1.0 : 0.0);
|
| for(d=0; d<dh[mi][i]; d++){
|
for(d=0; d<dh[mi][i]; d++){
|
| newm=savm;
|
newm=savm;
|
| cov[2]=agev[mw[mi][i]][i]+d*stepm/YEARM;
|
cov[2]=agev[mw[mi][i]][i]+d*stepm/YEARM;
|
| for (kk=1; kk<=cptcovage;kk++) {
|
for (kk=1; kk<=cptcovage;kk++) {
|
| cov[Tage[kk]+2]=covar[Tvar[Tage[kk]]][i]*cov[2];
|
cov[Tage[kk]+2]=covar[Tvar[Tage[kk]]][i]*cov[2];
|
| /*printf("%d %d",kk,Tage[kk]);*/
|
}
|
| }
|
|
| /*cov[4]=covar[1][i]*cov[2];scanf("%d", i);*/
|
out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,
|
| /*cov[3]=pow(cov[2],2)/1000.;*/
|
1,nlstate+ndeath,pmij(pmmij,cov,ncovmodel,x,nlstate));
|
|
|
savm=oldm;
|
| out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,
|
oldm=newm;
|
| 1,nlstate+ndeath,pmij(pmmij,cov,ncovmodel,x,nlstate));
|
|
| savm=oldm;
|
|
| oldm=newm;
|
|
|
|
|
|
|
|
| } /* end mult */
|
} /* end mult */
|
|
|
|
| lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]);
|
lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]);
|
| /* printf(" %f ",out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]);*/
|
/* printf(" %f ",out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]);*/
|
| ipmx +=1;
|
ipmx +=1;
|
|
Line 895 void mlikeli(FILE *ficres,double p[], in
|
Line 970 void mlikeli(FILE *ficres,double p[], in
|
| for (i=1;i<=npar;i++)
|
for (i=1;i<=npar;i++)
|
| for (j=1;j<=npar;j++)
|
for (j=1;j<=npar;j++)
|
| xi[i][j]=(i==j ? 1.0 : 0.0);
|
xi[i][j]=(i==j ? 1.0 : 0.0);
|
| printf("Powell\n");
|
printf("Powell\n"); fprintf(ficlog,"Powell\n");
|
| powell(p,xi,npar,ftol,&iter,&fret,func);
|
powell(p,xi,npar,ftol,&iter,&fret,func);
|
|
|
|
| printf("\n#Number of iterations = %d, -2 Log likelihood = %.12f\n",iter,func(p));
|
printf("\n#Number of iterations = %d, -2 Log likelihood = %.12f\n",iter,func(p));
|
| fprintf(ficres,"#Number of iterations = %d, -2 Log likelihood = %.12f ",iter,func(p));
|
fprintf(ficlog,"#Number of iterations = %d, -2 Log likelihood = %.12f \n",iter,func(p));
|
| |
fprintf(ficres,"#Number of iterations = %d, -2 Log likelihood = %.12f \n",iter,func(p));
|
|
|
|
| }
|
}
|
|
|
|
|
Line 916 void hesscov(double **matcov, double p[]
|
Line 992 void hesscov(double **matcov, double p[]
|
| void lubksb(double **a, int npar, int *indx, double b[]) ;
|
void lubksb(double **a, int npar, int *indx, double b[]) ;
|
| void ludcmp(double **a, int npar, int *indx, double *d) ;
|
void ludcmp(double **a, int npar, int *indx, double *d) ;
|
|
|
|
|
|
|
| hess=matrix(1,npar,1,npar);
|
hess=matrix(1,npar,1,npar);
|
|
|
|
| printf("\nCalculation of the hessian matrix. Wait...\n");
|
printf("\nCalculation of the hessian matrix. Wait...\n");
|
| |
fprintf(ficlog,"\nCalculation of the hessian matrix. Wait...\n");
|
| for (i=1;i<=npar;i++){
|
for (i=1;i<=npar;i++){
|
| printf("%d",i);fflush(stdout);
|
printf("%d",i);fflush(stdout);
|
| |
fprintf(ficlog,"%d",i);fflush(ficlog);
|
| hess[i][i]=hessii(p,ftolhess,i,delti);
|
hess[i][i]=hessii(p,ftolhess,i,delti);
|
| /*printf(" %f ",p[i]);*/
|
/*printf(" %f ",p[i]);*/
|
| |
/*printf(" %lf ",hess[i][i]);*/
|
| }
|
}
|
|
|
|
| for (i=1;i<=npar;i++) {
|
for (i=1;i<=npar;i++) {
|
| for (j=1;j<=npar;j++) {
|
for (j=1;j<=npar;j++) {
|
| if (j>i) {
|
if (j>i) {
|
| printf(".%d%d",i,j);fflush(stdout);
|
printf(".%d%d",i,j);fflush(stdout);
|
| |
fprintf(ficlog,".%d%d",i,j);fflush(ficlog);
|
| hess[i][j]=hessij(p,delti,i,j);
|
hess[i][j]=hessij(p,delti,i,j);
|
| hess[j][i]=hess[i][j];
|
hess[j][i]=hess[i][j];
|
| |
/*printf(" %lf ",hess[i][j]);*/
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
|
|
|
| printf("\nInverting the hessian to get the covariance matrix. Wait...\n");
|
printf("\nInverting the hessian to get the covariance matrix. Wait...\n");
|
| |
fprintf(ficlog,"\nInverting the hessian to get the covariance matrix. Wait...\n");
|
|
|
|
| a=matrix(1,npar,1,npar);
|
a=matrix(1,npar,1,npar);
|
| y=matrix(1,npar,1,npar);
|
y=matrix(1,npar,1,npar);
|
|
Line 957 void hesscov(double **matcov, double p[]
|
Line 1039 void hesscov(double **matcov, double p[]
|
| }
|
}
|
|
|
|
| printf("\n#Hessian matrix#\n");
|
printf("\n#Hessian matrix#\n");
|
| |
fprintf(ficlog,"\n#Hessian matrix#\n");
|
| for (i=1;i<=npar;i++) {
|
for (i=1;i<=npar;i++) {
|
| for (j=1;j<=npar;j++) {
|
for (j=1;j<=npar;j++) {
|
| printf("%.3e ",hess[i][j]);
|
printf("%.3e ",hess[i][j]);
|
| |
fprintf(ficlog,"%.3e ",hess[i][j]);
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| }
|
}
|
|
|
|
| /* Recompute Inverse */
|
/* Recompute Inverse */
|
|
Line 978 void hesscov(double **matcov, double p[]
|
Line 1063 void hesscov(double **matcov, double p[]
|
| for (i=1;i<=npar;i++){
|
for (i=1;i<=npar;i++){
|
| y[i][j]=x[i];
|
y[i][j]=x[i];
|
| printf("%.3e ",y[i][j]);
|
printf("%.3e ",y[i][j]);
|
| |
fprintf(ficlog,"%.3e ",y[i][j]);
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| }
|
}
|
| */
|
*/
|
|
|
|
|
Line 1021 double hessii( double x[], double delta,
|
Line 1108 double hessii( double x[], double delta,
|
|
|
|
| #ifdef DEBUG
|
#ifdef DEBUG
|
| printf("%d %d k1=%.12e k2=%.12e xk1=%.12e xk2=%.12e delt=%.12e res=%.12e l=%d k=%d,fx=%.12e\n",theta,theta,k1,k2,x[theta]+delt,x[theta]-delt,delt,res, l, k,fx);
|
printf("%d %d k1=%.12e k2=%.12e xk1=%.12e xk2=%.12e delt=%.12e res=%.12e l=%d k=%d,fx=%.12e\n",theta,theta,k1,k2,x[theta]+delt,x[theta]-delt,delt,res, l, k,fx);
|
| |
fprintf(ficlog,"%d %d k1=%.12e k2=%.12e xk1=%.12e xk2=%.12e delt=%.12e res=%.12e l=%d k=%d,fx=%.12e\n",theta,theta,k1,k2,x[theta]+delt,x[theta]-delt,delt,res, l, k,fx);
|
| #endif
|
#endif
|
| /*if(fabs(k1-2.0*fx+k2) <1.e-13){ */
|
/*if(fabs(k1-2.0*fx+k2) <1.e-13){ */
|
| if((k1 <khi/nkhi/2.) || (k2 <khi/nkhi/2.)){
|
if((k1 <khi/nkhi/2.) || (k2 <khi/nkhi/2.)){
|
|
Line 1035 double hessii( double x[], double delta,
|
Line 1123 double hessii( double x[], double delta,
|
| }
|
}
|
| }
|
}
|
| delti[theta]=delts;
|
delti[theta]=delts;
|
| return res;
|
return res;
|
|
|
|
| }
|
}
|
|
|
|
|
Line 1068 double hessij( double x[], double delti[
|
Line 1156 double hessij( double x[], double delti[
|
| res=(k1-k2-k3+k4)/4.0/delti[thetai]*k/delti[thetaj]*k/2.; /* Because of L not 2*L */
|
res=(k1-k2-k3+k4)/4.0/delti[thetai]*k/delti[thetaj]*k/2.; /* Because of L not 2*L */
|
| #ifdef DEBUG
|
#ifdef DEBUG
|
| printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti/k=%.12e deltj/k=%.12e, xi-de/k=%.12e xj-de/k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);
|
printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti/k=%.12e deltj/k=%.12e, xi-de/k=%.12e xj-de/k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);
|
| |
fprintf(ficlog,"%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti/k=%.12e deltj/k=%.12e, xi-de/k=%.12e xj-de/k=%.12e res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);
|
| #endif
|
#endif
|
| }
|
}
|
| return res;
|
return res;
|
|
Line 1148 void lubksb(double **a, int n, int *indx
|
Line 1237 void lubksb(double **a, int n, int *indx
|
| }
|
}
|
|
|
|
| /************ Frequencies ********************/
|
/************ Frequencies ********************/
|
| void freqsummary(char fileres[], int agemin, int agemax, int **s, double **agev, int nlstate, int imx, int *Tvar, int **nbcode, int *ncodemax)
|
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)
|
| { /* Some frequencies */
|
{ /* Some frequencies */
|
|
|
|
| int i, m, jk, k1, i1, j1, bool, z1,z2,j;
|
int i, m, jk, k1,i1, j1, bool, z1,z2,j;
|
| |
int first;
|
| double ***freq; /* Frequencies */
|
double ***freq; /* Frequencies */
|
| double *pp;
|
double *pp;
|
| double pos;
|
double pos, k2, dateintsum=0,k2cpt=0;
|
| FILE *ficresp;
|
FILE *ficresp;
|
| char fileresp[FILENAMELENGTH];
|
char fileresp[FILENAMELENGTH];
|
|
|
|
| pp=vector(1,nlstate);
|
pp=vector(1,nlstate);
|
|
|
probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| strcpy(fileresp,"p");
|
strcpy(fileresp,"p");
|
| strcat(fileresp,fileres);
|
strcat(fileresp,fileres);
|
| if((ficresp=fopen(fileresp,"w"))==NULL) {
|
if((ficresp=fopen(fileresp,"w"))==NULL) {
|
| printf("Problem with prevalence resultfile: %s\n", fileresp);
|
printf("Problem with prevalence resultfile: %s\n", fileresp);
|
| |
fprintf(ficlog,"Problem with prevalence resultfile: %s\n", fileresp);
|
| exit(0);
|
exit(0);
|
| }
|
}
|
| freq= ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,agemin,agemax+3);
|
freq= ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,agemin,agemax+3);
|
| j1=0;
|
j1=0;
|
|
|
|
| j=cptcoveff;
|
j=cptcoveff;
|
| if (cptcovn<1) {j=1;ncodemax[1]=1;}
|
if (cptcovn<1) {j=1;ncodemax[1]=1;}
|
|
|
|
| for(k1=1; k1<=j;k1++){
|
first=1;
|
| for(i1=1; i1<=ncodemax[k1];i1++){
|
|
| j1++;
|
|
|
|
|
| for (i=-1; i<=nlstate+ndeath; i++)
|
for(k1=1; k1<=j;k1++){
|
| for (jk=-1; jk<=nlstate+ndeath; jk++)
|
for(i1=1; i1<=ncodemax[k1];i1++){
|
| for(m=agemin; m <= agemax+3; m++)
|
j1++;
|
| freq[i][jk][m]=0;
|
/*printf("cptcoveff=%d Tvaraff=%d", cptcoveff,Tvaraff[1]);
|
|
|
scanf("%d", i);*/
|
| for (i=1; i<=imx; i++) {
|
for (i=-1; i<=nlstate+ndeath; i++)
|
| bool=1;
|
for (jk=-1; jk<=nlstate+ndeath; jk++)
|
| if (cptcovn>0) {
|
for(m=agemin; m <= agemax+3; m++)
|
| for (z1=1; z1<=cptcoveff; z1++)
|
freq[i][jk][m]=0;
|
| if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]]) bool=0;
|
|
| }
|
dateintsum=0;
|
| if (bool==1) {
|
k2cpt=0;
|
| for(m=firstpass; m<=lastpass-1; m++){
|
for (i=1; i<=imx; i++) {
|
| if(agev[m][i]==0) agev[m][i]=agemax+1;
|
bool=1;
|
| if(agev[m][i]==1) agev[m][i]=agemax+2;
|
if (cptcovn>0) {
|
| freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i];
|
for (z1=1; z1<=cptcoveff; z1++)
|
| freq[s[m][i]][s[m+1][i]][(int) agemax+3] += weight[i];
|
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]])
|
| }
|
bool=0;
|
| }
|
}
|
| }
|
if (bool==1) {
|
| if (cptcovn>0) {
|
for(m=firstpass; m<=lastpass; m++){
|
| fprintf(ficresp, "\n#********** Variable ");
|
k2=anint[m][i]+(mint[m][i]/12.);
|
| for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
if ((k2>=dateprev1) && (k2<=dateprev2)) {
|
| }
|
if(agev[m][i]==0) agev[m][i]=agemax+1;
|
| fprintf(ficresp, "**********\n#");
|
if(agev[m][i]==1) agev[m][i]=agemax+2;
|
| for(i=1; i<=nlstate;i++)
|
if (m<lastpass) {
|
| fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i);
|
freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i];
|
| fprintf(ficresp, "\n");
|
freq[s[m][i]][s[m+1][i]][(int) agemax+3] += weight[i];
|
| |
}
|
| |
|
| |
if ((agev[m][i]>1) && (agev[m][i]< (agemax+3))) {
|
| |
dateintsum=dateintsum+k2;
|
| |
k2cpt++;
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
|
|
|
| for(i=(int)agemin; i <= (int)agemax+3; i++){
|
fprintf(ficresp, "#Count between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);
|
| if(i==(int)agemax+3)
|
|
| printf("Total");
|
if (cptcovn>0) {
|
| else
|
fprintf(ficresp, "\n#********** Variable ");
|
| printf("Age %d", i);
|
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| for(jk=1; jk <=nlstate ; jk++){
|
fprintf(ficresp, "**********\n#");
|
| for(m=-1, pp[jk]=0; m <=nlstate+ndeath ; m++)
|
}
|
| pp[jk] += freq[jk][m][i];
|
for(i=1; i<=nlstate;i++)
|
| }
|
fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i);
|
| for(jk=1; jk <=nlstate ; jk++){
|
fprintf(ficresp, "\n");
|
| for(m=-1, pos=0; m <=0 ; m++)
|
|
| pos += freq[jk][m][i];
|
for(i=(int)agemin; i <= (int)agemax+3; i++){
|
| if(pp[jk]>=1.e-10)
|
if(i==(int)agemax+3){
|
| printf(" %d.=%.0f loss[%d]=%.1f%%",jk,pp[jk],jk,100*pos/pp[jk]);
|
fprintf(ficlog,"Total");
|
| else
|
}else{
|
| printf(" %d.=%.0f loss[%d]=NaNQ%%",jk,pp[jk],jk);
|
if(first==1){
|
| }
|
first=0;
|
| for(jk=1; jk <=nlstate ; jk++){
|
printf("See log file for details...\n");
|
| for(m=1, pp[jk]=0; m <=nlstate+ndeath; m++)
|
}
|
| pp[jk] += freq[jk][m][i];
|
fprintf(ficlog,"Age %d", i);
|
| }
|
}
|
| for(jk=1,pos=0; jk <=nlstate ; jk++)
|
for(jk=1; jk <=nlstate ; jk++){
|
| pos += pp[jk];
|
for(m=-1, pp[jk]=0; m <=nlstate+ndeath ; m++)
|
| for(jk=1; jk <=nlstate ; jk++){
|
pp[jk] += freq[jk][m][i];
|
| if(pos>=1.e-5)
|
}
|
| printf(" %d.=%.0f prev[%d]=%.1f%%",jk,pp[jk],jk,100*pp[jk]/pos);
|
for(jk=1; jk <=nlstate ; jk++){
|
| else
|
for(m=-1, pos=0; m <=0 ; m++)
|
| printf(" %d.=%.0f prev[%d]=NaNQ%%",jk,pp[jk],jk);
|
pos += freq[jk][m][i];
|
| if( i <= (int) agemax){
|
if(pp[jk]>=1.e-10){
|
| if(pos>=1.e-5)
|
if(first==1){
|
| fprintf(ficresp," %d %.5f %.0f %.0f",i,pp[jk]/pos, pp[jk],pos);
|
printf(" %d.=%.0f loss[%d]=%.1f%%",jk,pp[jk],jk,100*pos/pp[jk]);
|
| else
|
}
|
| fprintf(ficresp," %d NaNq %.0f %.0f",i,pp[jk],pos);
|
fprintf(ficlog," %d.=%.0f loss[%d]=%.1f%%",jk,pp[jk],jk,100*pos/pp[jk]);
|
| |
}else{
|
| |
if(first==1)
|
| |
printf(" %d.=%.0f loss[%d]=NaNQ%%",jk,pp[jk],jk);
|
| |
fprintf(ficlog," %d.=%.0f loss[%d]=NaNQ%%",jk,pp[jk],jk);
|
| |
}
|
| |
}
|
| |
|
| |
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(pos>=1.e-5){
|
| |
if(first==1)
|
| |
printf(" %d.=%.0f prev[%d]=%.1f%%",jk,pp[jk],jk,100*pp[jk]/pos);
|
| |
fprintf(ficlog," %d.=%.0f prev[%d]=%.1f%%",jk,pp[jk],jk,100*pp[jk]/pos);
|
| |
}else{
|
| |
if(first==1)
|
| |
printf(" %d.=%.0f prev[%d]=NaNQ%%",jk,pp[jk],jk);
|
| |
fprintf(ficlog," %d.=%.0f prev[%d]=NaNQ%%",jk,pp[jk],jk);
|
| |
}
|
| |
if( i <= (int) agemax){
|
| |
if(pos>=1.e-5){
|
| |
fprintf(ficresp," %d %.5f %.0f %.0f",i,pp[jk]/pos, pp[jk],pos);
|
| |
probs[i][jk][j1]= pp[jk]/pos;
|
| |
/*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/
|
| |
}
|
| |
else
|
| |
fprintf(ficresp," %d NaNq %.0f %.0f",i,pp[jk],pos);
|
| |
}
|
| |
}
|
| |
|
| |
for(jk=-1; jk <=nlstate+ndeath; jk++)
|
| |
for(m=-1; m <=nlstate+ndeath; m++)
|
| |
if(freq[jk][m][i] !=0 ) {
|
| |
if(first==1)
|
| |
printf(" %d%d=%.0f",jk,m,freq[jk][m][i]);
|
| |
fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]);
|
| |
}
|
| |
if(i <= (int) agemax)
|
| |
fprintf(ficresp,"\n");
|
| |
if(first==1)
|
| |
printf("Others in log...\n");
|
| |
fprintf(ficlog,"\n");
|
| }
|
}
|
| }
|
}
|
| for(jk=-1; jk <=nlstate+ndeath; jk++)
|
}
|
| for(m=-1; m <=nlstate+ndeath; m++)
|
dateintmean=dateintsum/k2cpt;
|
| if(freq[jk][m][i] !=0 ) printf(" %d%d=%.0f",jk,m,freq[jk][m][i]);
|
|
| if(i <= (int) agemax)
|
|
| fprintf(ficresp,"\n");
|
|
| printf("\n");
|
|
| }
|
|
| }
|
|
| }
|
|
|
|
|
| fclose(ficresp);
|
fclose(ficresp);
|
| free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath,(int) agemin,(int) agemax+3);
|
free_ma3x(freq,-1,nlstate+ndeath,-1,nlstate+ndeath,(int) agemin,(int) agemax+3);
|
| free_vector(pp,1,nlstate);
|
free_vector(pp,1,nlstate);
|
| |
|
| |
/* End of Freq */
|
| |
}
|
| |
|
| |
/************ Prevalence ********************/
|
| |
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)
|
| |
{ /* Some frequencies */
|
| |
|
| |
int i, m, jk, k1, i1, j1, bool, z1,z2,j;
|
| |
double ***freq; /* Frequencies */
|
| |
double *pp;
|
| |
double pos, k2;
|
| |
|
| |
pp=vector(1,nlstate);
|
| |
probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX);
|
| |
|
| |
freq=ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,agemin,agemax+3);
|
| |
j1=0;
|
| |
|
| |
j=cptcoveff;
|
| |
if (cptcovn<1) {j=1;ncodemax[1]=1;}
|
| |
|
| |
for(k1=1; k1<=j;k1++){
|
| |
for(i1=1; i1<=ncodemax[k1];i1++){
|
| |
j1++;
|
| |
|
| |
for (i=-1; i<=nlstate+ndeath; i++)
|
| |
for (jk=-1; jk<=nlstate+ndeath; jk++)
|
| |
for(m=agemin; m <= agemax+3; m++)
|
| |
freq[i][jk][m]=0;
|
| |
|
| |
for (i=1; i<=imx; i++) {
|
| |
bool=1;
|
| |
if (cptcovn>0) {
|
| |
for (z1=1; z1<=cptcoveff; z1++)
|
| |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]])
|
| |
bool=0;
|
| |
}
|
| |
if (bool==1) {
|
| |
for(m=firstpass; m<=lastpass; m++){
|
| |
k2=anint[m][i]+(mint[m][i]/12.);
|
| |
if ((k2>=dateprev1) && (k2<=dateprev2)) {
|
| |
if(agev[m][i]==0) agev[m][i]=agemax+1;
|
| |
if(agev[m][i]==1) agev[m][i]=agemax+2;
|
| |
if (m<lastpass) {
|
| |
if (calagedate>0)
|
| |
freq[s[m][i]][s[m+1][i]][(int)(agev[m][i]+1-((int)calagedate %12)/12.)] += weight[i];
|
| |
else
|
| |
freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i];
|
| |
freq[s[m][i]][s[m+1][i]][(int)(agemax+3)] += weight[i];
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
}
|
| |
for(i=(int)agemin; i <= (int)agemax+3; i++){
|
| |
for(jk=1; jk <=nlstate ; jk++){
|
| |
for(m=-1, pp[jk]=0; m <=nlstate+ndeath ; m++)
|
| |
pp[jk] += freq[jk][m][i];
|
| |
}
|
| |
for(jk=1; jk <=nlstate ; jk++){
|
| |
for(m=-1, pos=0; m <=0 ; m++)
|
| |
pos += freq[jk][m][i];
|
| |
}
|
| |
|
| |
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;
|
| |
}
|
| |
}
|
| |
}/* end jk */
|
| |
}/* end i */
|
| |
} /* end i1 */
|
| |
} /* end k1 */
|
|
|
|
| |
|
| |
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 1268 void concatwav(int wav[], int **dh, int
|
Line 1493 void concatwav(int wav[], int **dh, int
|
| */
|
*/
|
|
|
|
| int i, mi, m;
|
int i, mi, m;
|
| int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1;
|
/* int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1;
|
| float sum=0.;
|
double sum=0., jmean=0.;*/
|
|
|
int first;
|
| |
int j, k=0,jk, ju, jl;
|
| |
double sum=0.;
|
| |
first=0;
|
| |
jmin=1e+5;
|
| |
jmax=-1;
|
| |
jmean=0.;
|
| for(i=1; i<=imx; i++){
|
for(i=1; i<=imx; i++){
|
| mi=0;
|
mi=0;
|
| m=firstpass;
|
m=firstpass;
|
|
Line 1290 float sum=0.;
|
Line 1521 float sum=0.;
|
| }
|
}
|
|
|
|
| wav[i]=mi;
|
wav[i]=mi;
|
| if(mi==0)
|
if(mi==0){
|
| printf("Warning, no any valid information for:%d line=%d\n",num[i],i);
|
if(first==0){
|
| |
printf("Warning, no any valid information for:%d line=%d and may be others, see log file\n",num[i],i);
|
| |
first=1;
|
| |
}
|
| |
if(first==1){
|
| |
fprintf(ficlog,"Warning, no any valid information for:%d line=%d\n",num[i],i);
|
| |
}
|
| |
} /* end mi==0 */
|
| }
|
}
|
|
|
|
| for(i=1; i<=imx; i++){
|
for(i=1; i<=imx; i++){
|
|
Line 1300 float sum=0.;
|
Line 1538 float sum=0.;
|
| dh[mi][i]=1;
|
dh[mi][i]=1;
|
| else{
|
else{
|
| if (s[mw[mi+1][i]][i] > nlstate) {
|
if (s[mw[mi+1][i]][i] > nlstate) {
|
| |
if (agedc[i] < 2*AGESUP) {
|
| j= rint(agedc[i]*12-agev[mw[mi][i]][i]*12);
|
j= rint(agedc[i]*12-agev[mw[mi][i]][i]*12);
|
| if(j=0) j=1; /* Survives at least one month after exam */
|
if(j==0) j=1; /* Survives at least one month after exam */
|
| |
k=k+1;
|
| |
if (j >= jmax) jmax=j;
|
| |
if (j <= jmin) jmin=j;
|
| |
sum=sum+j;
|
| |
/*if (j<0) printf("j=%d num=%d \n",j,i); */
|
| |
}
|
| }
|
}
|
| else{
|
else{
|
| j= rint( (agev[mw[mi+1][i]][i]*12 - agev[mw[mi][i]][i]*12));
|
j= rint( (agev[mw[mi+1][i]][i]*12 - agev[mw[mi][i]][i]*12));
|
| 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); */
|
| sum=sum+j;
|
sum=sum+j;
|
| }
|
}
|
| jk= j/stepm;
|
jk= j/stepm;
|
|
Line 1322 float sum=0.;
|
Line 1568 float sum=0.;
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
| printf("Delay (in months) between two waves Min=%d Max=%d Mean=%f\n\n ",jmin, jmax,sum/k);
|
jmean=sum/k;
|
| }
|
printf("Delay (in months) between two waves Min=%d Max=%d Mean=%f\n\n ",jmin, jmax,jmean);
|
| |
fprintf(ficlog,"Delay (in months) between two waves Min=%d Max=%d Mean=%f\n\n ",jmin, jmax,jmean);
|
| |
}
|
| |
|
| /*********** Tricode ****************************/
|
/*********** Tricode ****************************/
|
| void tricode(int *Tvar, int **nbcode, int imx)
|
void tricode(int *Tvar, int **nbcode, int imx)
|
| {
|
{
|
|
Line 1338 void tricode(int *Tvar, int **nbcode, in
|
Line 1587 void tricode(int *Tvar, int **nbcode, in
|
| for (i=1; i<=imx; i++) {
|
for (i=1; i<=imx; i++) {
|
| ij=(int)(covar[Tvar[j]][i]);
|
ij=(int)(covar[Tvar[j]][i]);
|
| Ndum[ij]++;
|
Ndum[ij]++;
|
| |
/*printf("i=%d ij=%d Ndum[ij]=%d imx=%d",i,ij,Ndum[ij],imx);*/
|
| if (ij > cptcode) cptcode=ij;
|
if (ij > cptcode) cptcode=ij;
|
| }
|
}
|
|
|
|
| /*printf("cptcode=%d cptcovn=%d ",cptcode,cptcovn);*/
|
|
| for (i=0; i<=cptcode; i++) {
|
for (i=0; i<=cptcode; i++) {
|
| if(Ndum[i]!=0) ncodemax[j]++;
|
if(Ndum[i]!=0) ncodemax[j]++;
|
| }
|
}
|
| ij=1;
|
ij=1;
|
|
|
|
| |
|
| for (i=1; i<=ncodemax[j]; i++) {
|
for (i=1; i<=ncodemax[j]; i++) {
|
| for (k=0; k<=19; k++) {
|
for (k=0; k<=19; k++) {
|
| if (Ndum[k] != 0) {
|
if (Ndum[k] != 0) {
|
| nbcode[Tvar[j]][ij]=k;
|
nbcode[Tvar[j]][ij]=k;
|
| /* printf("ij=%d ",nbcode[Tvar[2]][1]);*/
|
|
| ij++;
|
ij++;
|
| }
|
}
|
| if (ij > ncodemax[j]) break;
|
if (ij > ncodemax[j]) break;
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
| for (i=1; i<=10; i++) {
|
|
| ij=Tvar[i];
|
for (k=0; k<19; k++) Ndum[k]=0;
|
| Ndum[ij]++;
|
|
| }
|
for (i=1; i<=ncovmodel-2; i++) {
|
| |
ij=Tvar[i];
|
| |
Ndum[ij]++;
|
| |
}
|
| |
|
| ij=1;
|
ij=1;
|
| for (i=1; i<=cptcovn; i++) {
|
for (i=1; i<=10; i++) {
|
| if((Ndum[i]!=0) && (i<=ncov)){
|
if((Ndum[i]!=0) && (i<=ncovcol)){
|
| Tvaraff[i]=ij;
|
Tvaraff[ij]=i;
|
| ij++;
|
ij++;
|
| }
|
}
|
| }
|
}
|
|
|
|
| for (j=1; j<=(cptcovn+2*cptcovprod); j++) {
|
cptcoveff=ij-1;
|
| if ((Tvar[j]>= cptcoveff) && (Tvar[j] <=ncov)) cptcoveff=Tvar[j];
|
|
| /*printf("j=%d %d\n",j,Tvar[j]);*/
|
|
| }
|
|
|
|
|
| /* printf("cptcoveff=%d Tvaraff=%d %d\n",cptcoveff, Tvaraff[1],Tvaraff[2]);
|
|
| scanf("%d",i);*/
|
|
| }
|
}
|
|
|
|
| /*********** Health Expectancies ****************/
|
/*********** Health Expectancies ****************/
|
|
|
|
| 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, int estepm,double delti[],double **matcov )
|
| |
|
| {
|
{
|
| /* Health expectancies */
|
/* Health expectancies */
|
| int i, j, nhstepm, hstepm, h;
|
int i, j, nhstepm, hstepm, h, nstepm, k, cptj;
|
| double age, agelim,hf;
|
double age, agelim, hf;
|
| double ***p3mat;
|
double ***p3mat,***varhe;
|
| |
double **dnewm,**doldm;
|
| |
double *xp;
|
| |
double **gp, **gm;
|
| |
double ***gradg, ***trgradg;
|
| |
int theta;
|
| |
|
| |
varhe=ma3x(1,nlstate*2,1,nlstate*2,(int) bage, (int) fage);
|
| |
xp=vector(1,npar);
|
| |
dnewm=matrix(1,nlstate*2,1,npar);
|
| |
doldm=matrix(1,nlstate*2,1,nlstate*2);
|
|
|
|
| fprintf(ficreseij,"# Health expectancies\n");
|
fprintf(ficreseij,"# Health expectancies\n");
|
| fprintf(ficreseij,"# Age");
|
fprintf(ficreseij,"# 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," %1d-%1d",i,j);
|
fprintf(ficreseij," %1d-%1d (SE)",i,j);
|
| fprintf(ficreseij,"\n");
|
fprintf(ficreseij,"\n");
|
|
|
|
| hstepm=1*YEARM; /* Every j years of age (in month) */
|
if(estepm < stepm){
|
| hstepm=hstepm/stepm; /* Typically in stepm units, if j= 2 years, = 2/6 months = 4 */
|
printf ("Problem %d lower than %d\n",estepm, stepm);
|
| |
}
|
| |
else hstepm=estepm;
|
| |
/* We compute the life expectancy from trapezoids spaced every estepm months
|
| |
* This is mainly to measure the difference between two models: for example
|
| |
* if stepm=24 months pijx are given only every 2 years and by summing them
|
| |
* we are calculating an estimate of the Life Expectancy assuming a linear
|
| |
* progression inbetween and thus overestimating or underestimating according
|
| |
* to the curvature of the survival function. If, for the same date, we
|
| |
* estimate the model with stepm=1 month, we can keep estepm to 24 months
|
| |
* to compare the new estimate of Life expectancy with the same linear
|
| |
* hypothesis. A more precise result, taking into account a more precise
|
| |
* curvature will be obtained if estepm is as small as stepm. */
|
| |
|
| |
/* For example we decided to compute the life expectancy with the smallest unit */
|
| |
/* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm.
|
| |
nhstepm is the number of hstepm from age to agelim
|
| |
nstepm is the number of stepm from age to agelin.
|
| |
Look at hpijx to understand the reason of that which relies in memory size
|
| |
and note for a fixed period like estepm months */
|
| |
/* 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 stepm=6 & estepm=24 , = 24/6 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);
|
| |
gradg=ma3x(0,nhstepm,1,npar,1,nlstate*2);
|
| |
gp=matrix(0,nhstepm,1,nlstate*2);
|
| |
gm=matrix(0,nhstepm,1,nlstate*2);
|
| |
|
| /* 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. */
|
| |
|
| |
/* Computing Variances of health expectancies */
|
| |
|
| |
for(theta=1; theta <=npar; theta++){
|
| |
for(i=1; i<=npar; i++){
|
| |
xp[i] = x[i] + (i==theta ?delti[theta]:0);
|
| |
}
|
| |
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij);
|
| |
|
| |
cptj=0;
|
| |
for(j=1; j<= nlstate; j++){
|
| |
for(i=1; i<=nlstate; i++){
|
| |
cptj=cptj+1;
|
| |
for(h=0, gp[h][cptj]=0.; h<=nhstepm-1; h++){
|
| |
gp[h][cptj] = (p3mat[i][j][h]+p3mat[i][j][h+1])/2.;
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
|
| |
for(i=1; i<=npar; i++)
|
| |
xp[i] = x[i] - (i==theta ?delti[theta]:0);
|
| |
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij);
|
| |
|
| |
cptj=0;
|
| |
for(j=1; j<= nlstate; j++){
|
| |
for(i=1;i<=nlstate;i++){
|
| |
cptj=cptj+1;
|
| |
for(h=0, gm[h][cptj]=0.; h<=nhstepm-1; h++){
|
| |
gm[h][cptj] = (p3mat[i][j][h]+p3mat[i][j][h+1])/2.;
|
| |
}
|
| |
}
|
| |
}
|
| |
for(j=1; j<= nlstate*2; j++)
|
| |
for(h=0; h<=nhstepm-1; h++){
|
| |
gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta];
|
| |
}
|
| |
}
|
| |
|
| |
/* End theta */
|
|
|
|
| |
trgradg =ma3x(0,nhstepm,1,nlstate*2,1,npar);
|
| |
|
| |
for(h=0; h<=nhstepm-1; h++)
|
| |
for(j=1; j<=nlstate*2;j++)
|
| |
for(theta=1; theta <=npar; theta++)
|
| |
trgradg[h][j][theta]=gradg[h][theta][j];
|
| |
|
|
|
|
| |
for(i=1;i<=nlstate*2;i++)
|
| |
for(j=1;j<=nlstate*2;j++)
|
| |
varhe[i][j][(int)age] =0.;
|
| |
|
| |
printf("%d|",(int)age);fflush(stdout);
|
| |
fprintf(ficlog,"%d|",(int)age);fflush(ficlog);
|
| |
for(h=0;h<=nhstepm-1;h++){
|
| |
for(k=0;k<=nhstepm-1;k++){
|
| |
matprod2(dnewm,trgradg[h],1,nlstate*2,1,npar,1,npar,matcov);
|
| |
matprod2(doldm,dnewm,1,nlstate*2,1,npar,1,nlstate*2,gradg[k]);
|
| |
for(i=1;i<=nlstate*2;i++)
|
| |
for(j=1;j<=nlstate*2;j++)
|
| |
varhe[i][j][(int)age] += doldm[i][j]*hf*hf;
|
| |
}
|
| |
}
|
| |
/* Computing expectancies */
|
| for(i=1; i<=nlstate;i++)
|
for(i=1; i<=nlstate;i++)
|
| for(j=1; j<=nlstate;j++)
|
for(j=1; j<=nlstate;j++)
|
| for (h=0, eij[i][j][(int)age]=0; h<=nhstepm; 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]);*/
|
| |
|
| }
|
}
|
|
|
|
| hf=1;
|
fprintf(ficreseij,"%3.0f",age );
|
| if (stepm >= YEARM) hf=stepm/YEARM;
|
cptj=0;
|
| 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]);
|
cptj++;
|
| |
fprintf(ficreseij," %9.4f (%.4f)", eij[i][j][(int)age], sqrt(varhe[cptj][cptj][(int)age]) );
|
| }
|
}
|
| fprintf(ficreseij,"\n");
|
fprintf(ficreseij,"\n");
|
| |
|
| |
free_matrix(gm,0,nhstepm,1,nlstate*2);
|
| |
free_matrix(gp,0,nhstepm,1,nlstate*2);
|
| |
free_ma3x(gradg,0,nhstepm,1,npar,1,nlstate*2);
|
| |
free_ma3x(trgradg,0,nhstepm,1,nlstate*2,1,npar);
|
| free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| }
|
}
|
| |
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| |
|
| |
free_vector(xp,1,npar);
|
| |
free_matrix(dnewm,1,nlstate*2,1,npar);
|
| |
free_matrix(doldm,1,nlstate*2,1,nlstate*2);
|
| |
free_ma3x(varhe,1,nlstate*2,1,nlstate*2,(int) bage, (int)fage);
|
| }
|
}
|
|
|
|
| /************ Variance ******************/
|
/************ Variance ******************/
|
| void varevsij(char fileres[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int ij)
|
void varevsij(char optionfilefiname[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int ij, int estepm, int cptcov, int cptcod, int popbased)
|
| {
|
{
|
| /* Variance of health expectancies */
|
/* Variance of health expectancies */
|
| /* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/
|
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/
|
| double **newm;
|
/* double **newm;*/
|
| double **dnewm,**doldm;
|
double **dnewm,**doldm;
|
| int i, j, nhstepm, hstepm, h;
|
double **dnewmp,**doldmp;
|
| |
int i, j, nhstepm, hstepm, h, nstepm ;
|
| int k, cptcode;
|
int k, cptcode;
|
| double *xp;
|
double *xp;
|
| double **gp, **gm;
|
double **gp, **gm; /* for var eij */
|
| double ***gradg, ***trgradg;
|
double ***gradg, ***trgradg; /*for var eij */
|
| |
double **gradgp, **trgradgp; /* for var p point j */
|
| |
double *gpp, *gmp; /* for var p point j */
|
| |
double **varppt; /* for var p point j nlstate to nlstate+ndeath */
|
| double ***p3mat;
|
double ***p3mat;
|
| double age,agelim;
|
double age,agelim, hf;
|
| int theta;
|
int theta;
|
| |
char digit[4];
|
| |
char digitp[16];
|
| |
|
| |
char fileresprobmorprev[FILENAMELENGTH];
|
| |
|
| |
if(popbased==1)
|
| |
strcpy(digitp,"-populbased-");
|
| |
else
|
| |
strcpy(digitp,"-stablbased-");
|
| |
|
| |
strcpy(fileresprobmorprev,"prmorprev");
|
| |
sprintf(digit,"%-d",ij);
|
| |
/*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/
|
| |
strcat(fileresprobmorprev,digit); /* Tvar to be done */
|
| |
strcat(fileresprobmorprev,digitp); /* Popbased or not */
|
| |
strcat(fileresprobmorprev,fileres);
|
| |
if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) {
|
| |
printf("Problem with resultfile: %s\n", fileresprobmorprev);
|
| |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev);
|
| |
}
|
| |
printf("Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev);
|
| |
fprintf(ficlog,"Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev);
|
| |
fprintf(ficresprobmorprev,"# probabilities of dying during a year and weighted mean w1*p1j+w2*p2j+... stand dev in()\n");
|
| |
fprintf(ficresprobmorprev,"# Age cov=%-d",ij);
|
| |
for(j=nlstate+1; j<=(nlstate+ndeath);j++){
|
| |
fprintf(ficresprobmorprev," p.%-d SE",j);
|
| |
for(i=1; i<=nlstate;i++)
|
| |
fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j);
|
| |
}
|
| |
fprintf(ficresprobmorprev,"\n");
|
| |
if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) {
|
| |
printf("Problem with gnuplot file: %s\n", optionfilegnuplot);
|
| |
fprintf(ficlog,"Problem with gnuplot file: %s\n", optionfilegnuplot);
|
| |
exit(0);
|
| |
}
|
| |
else{
|
| |
fprintf(ficgp,"\n# Routine varevsij");
|
| |
}
|
| |
if((fichtm=fopen(optionfilehtm,"a"))==NULL) {
|
| |
printf("Problem with html file: %s\n", optionfilehtm);
|
| |
fprintf(ficlog,"Problem with html file: %s\n", optionfilehtm);
|
| |
exit(0);
|
| |
}
|
| |
else{
|
| |
fprintf(fichtm,"\n<li><h4> Computing step probabilities of dying and weighted average (i.e global mortality independent of initial healh state)</h4></li>\n");
|
| |
}
|
| |
varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath);
|
|
|
|
| fprintf(ficresvij,"# Covariances of life expectancies\n");
|
fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are the stable prevalence in health states i\n");
|
| fprintf(ficresvij,"# Age");
|
fprintf(ficresvij,"# 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++)
|
|
Line 1455 void varevsij(char fileres[], double ***
|
Line 1876 void varevsij(char fileres[], double ***
|
| xp=vector(1,npar);
|
xp=vector(1,npar);
|
| dnewm=matrix(1,nlstate,1,npar);
|
dnewm=matrix(1,nlstate,1,npar);
|
| doldm=matrix(1,nlstate,1,nlstate);
|
doldm=matrix(1,nlstate,1,nlstate);
|
| |
dnewmp= matrix(nlstate+1,nlstate+ndeath,1,npar);
|
| |
doldmp= matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath);
|
| |
|
| |
gradgp=matrix(1,npar,nlstate+1,nlstate+ndeath);
|
| |
gpp=vector(nlstate+1,nlstate+ndeath);
|
| |
gmp=vector(nlstate+1,nlstate+ndeath);
|
| |
trgradgp =matrix(nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/
|
|
|
|
| hstepm=1*YEARM; /* Every year of age */
|
if(estepm < stepm){
|
| hstepm=hstepm/stepm; /* Typically in stepm units, if j= 2 years, = 2/6 months = 4 */
|
printf ("Problem %d lower than %d\n",estepm, stepm);
|
| |
}
|
| |
else hstepm=estepm;
|
| |
/* For example we decided to compute the life expectancy with the smallest unit */
|
| |
/* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm.
|
| |
nhstepm is the number of hstepm from age to agelim
|
| |
nstepm is the number of stepm from age to 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 stepm=6 & estepm=24 , = 24/6 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=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */
|
nstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */
|
| if (stepm >= YEARM) hstepm=1;
|
nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */
|
| nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */
|
|
| p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| gradg=ma3x(0,nhstepm,1,npar,1,nlstate);
|
gradg=ma3x(0,nhstepm,1,npar,1,nlstate);
|
| gp=matrix(0,nhstepm,1,nlstate);
|
gp=matrix(0,nhstepm,1,nlstate);
|
| gm=matrix(0,nhstepm,1,nlstate);
|
gm=matrix(0,nhstepm,1,nlstate);
|
|
|
|
| |
|
| for(theta=1; theta <=npar; theta++){
|
for(theta=1; theta <=npar; theta++){
|
| for(i=1; i<=npar; i++){ /* Computes gradient */
|
for(i=1; i<=npar; i++){ /* Computes gradient */
|
| 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) {
|
| |
for(i=1; i<=nlstate;i++)
|
| |
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++)
|
| gp[h][j] += prlim[i][i]*p3mat[i][j][h];
|
gp[h][j] += prlim[i][i]*p3mat[i][j][h];
|
| }
|
}
|
| }
|
}
|
|
|
/* This for computing forces of mortality (h=1)as a weighted average */
|
| |
for(j=nlstate+1,gpp[j]=0.;j<=nlstate+ndeath;j++){
|
| |
for(i=1; i<= nlstate; i++)
|
| |
gpp[j] += prlim[i][i]*p3mat[i][j][1];
|
| |
}
|
| |
/* end force of mortality */
|
| |
|
| for(i=1; i<=npar; i++) /* Computes gradient */
|
for(i=1; i<=npar; i++) /* Computes gradient */
|
| 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) {
|
| |
for(i=1; i<=nlstate;i++)
|
| |
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, gm[h][j]=0.;i<=nlstate;i++)
|
for(i=1, gm[h][j]=0.;i<=nlstate;i++)
|
| gm[h][j] += prlim[i][i]*p3mat[i][j][h];
|
gm[h][j] += prlim[i][i]*p3mat[i][j][h];
|
| }
|
}
|
| }
|
}
|
| for(j=1; j<= nlstate; j++)
|
/* This for computing force of mortality (h=1)as a weighted average */
|
| |
for(j=nlstate+1,gmp[j]=0.;j<=nlstate+ndeath;j++){
|
| |
for(i=1; i<= nlstate; i++)
|
| |
gmp[j] += prlim[i][i]*p3mat[i][j][1];
|
| |
}
|
| |
/* end force of mortality */
|
| |
|
| |
for(j=1; j<= nlstate; j++) /* vareij */
|
| for(h=0; h<=nhstepm; h++){
|
for(h=0; h<=nhstepm; h++){
|
| gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta];
|
gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta];
|
| }
|
}
|
| |
for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu */
|
| |
gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta];
|
| |
}
|
| |
|
| } /* End theta */
|
} /* End theta */
|
|
|
|
| trgradg =ma3x(0,nhstepm,1,nlstate,1,npar);
|
trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */
|
|
|
|
| for(h=0; h<=nhstepm; h++)
|
for(h=0; h<=nhstepm; h++) /* veij */
|
| for(j=1; j<=nlstate;j++)
|
for(j=1; j<=nlstate;j++)
|
| for(theta=1; theta <=npar; theta++)
|
for(theta=1; theta <=npar; theta++)
|
| trgradg[h][j][theta]=gradg[h][theta][j];
|
trgradg[h][j][theta]=gradg[h][theta][j];
|
|
|
|
| |
for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */
|
| |
for(theta=1; theta <=npar; theta++)
|
| |
trgradgp[j][theta]=gradgp[theta][j];
|
| |
|
| |
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */
|
| for(i=1;i<=nlstate;i++)
|
for(i=1;i<=nlstate;i++)
|
| for(j=1;j<=nlstate;j++)
|
for(j=1;j<=nlstate;j++)
|
| vareij[i][j][(int)age] =0.;
|
vareij[i][j][(int)age] =0.;
|
| |
|
| for(h=0;h<=nhstepm;h++){
|
for(h=0;h<=nhstepm;h++){
|
| for(k=0;k<=nhstepm;k++){
|
for(k=0;k<=nhstepm;k++){
|
| matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov);
|
matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov);
|
| matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]);
|
matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]);
|
| for(i=1;i<=nlstate;i++)
|
for(i=1;i<=nlstate;i++)
|
| for(j=1;j<=nlstate;j++)
|
for(j=1;j<=nlstate;j++)
|
| vareij[i][j][(int)age] += doldm[i][j];
|
vareij[i][j][(int)age] += doldm[i][j]*hf*hf;
|
| }
|
}
|
| }
|
}
|
| h=1;
|
|
| if (stepm >= YEARM) h=stepm/YEARM;
|
/* pptj */
|
| |
matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov);
|
| |
matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp);
|
| |
for(j=nlstate+1;j<=nlstate+ndeath;j++)
|
| |
for(i=nlstate+1;i<=nlstate+ndeath;i++)
|
| |
varppt[j][i]=doldmp[j][i];
|
| |
/* end ppptj */
|
| |
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij);
|
| |
prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ij);
|
| |
|
| |
if (popbased==1) {
|
| |
for(i=1; i<=nlstate;i++)
|
| |
prlim[i][i]=probs[(int)age][i][ij];
|
| |
}
|
| |
|
| |
/* This for computing force of mortality (h=1)as a weighted average */
|
| |
for(j=nlstate+1,gmp[j]=0.;j<=nlstate+ndeath;j++){
|
| |
for(i=1; i<= nlstate; i++)
|
| |
gmp[j] += prlim[i][i]*p3mat[i][j][1];
|
| |
}
|
| |
/* end force of mortality */
|
| |
|
| |
fprintf(ficresprobmorprev,"%3d %d ",(int) age, ij);
|
| |
for(j=nlstate+1; j<=(nlstate+ndeath);j++){
|
| |
fprintf(ficresprobmorprev," %11.3e %11.3e",gmp[j], sqrt(varppt[j][j]));
|
| |
for(i=1; i<=nlstate;i++){
|
| |
fprintf(ficresprobmorprev," %11.3e %11.3e ",prlim[i][i],p3mat[i][j][1]);
|
| |
}
|
| |
}
|
| |
fprintf(ficresprobmorprev,"\n");
|
| |
|
| fprintf(ficresvij,"%.0f ",age );
|
fprintf(ficresvij,"%.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(ficresvij," %.4f", h*vareij[i][j][(int)age]);
|
fprintf(ficresvij," %.4f", vareij[i][j][(int)age]);
|
| }
|
}
|
| fprintf(ficresvij,"\n");
|
fprintf(ficresvij,"\n");
|
| free_matrix(gp,0,nhstepm,1,nlstate);
|
free_matrix(gp,0,nhstepm,1,nlstate);
|
|
Line 1530 void varevsij(char fileres[], double ***
|
Line 2038 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(gpp,nlstate+1,nlstate+ndeath);
|
| |
free_vector(gmp,nlstate+1,nlstate+ndeath);
|
| |
free_matrix(gradgp,1,npar,nlstate+1,nlstate+ndeath);
|
| |
free_matrix(trgradgp,nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/
|
| |
fprintf(ficgp,"\nset noparametric;set nolabel; set ter png small;set size 0.65, 0.65");
|
| |
/* for(j=nlstate+1; j<= nlstate+ndeath; j++){ *//* Only the first actually */
|
| |
fprintf(ficgp,"\n set log y; set nolog x;set xlabel \"Age\"; set ylabel \"Force of mortality (year-1)\";");
|
| |
fprintf(ficgp,"\n plot \"%s\" u 1:($3*%6.3f) not w l 1 ",fileresprobmorprev,YEARM/estepm);
|
| |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)*%6.3f) t \"95\%% interval\" w l 2 ",fileresprobmorprev,YEARM/estepm);
|
| |
fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)*%6.3f) not w l 2 ",fileresprobmorprev,YEARM/estepm);
|
| |
fprintf(fichtm,"\n<br> File (multiple files are possible if covariates are present): <A href=\"%s\">%s</a>\n",fileresprobmorprev,fileresprobmorprev);
|
| |
fprintf(fichtm,"\n<br> Probability is computed over estepm=%d months and then divided by estepm and multiplied by %.0f in order to have the probability to die over a year <br> <img src=\"varmuptjgr%s%s.png\"> <br>\n", stepm,YEARM,digitp,digit);
|
| |
fprintf(ficgp,"\nset out \"varmuptjgr%s%s.png\";replot;",digitp,digit);
|
| |
|
| free_vector(xp,1,npar);
|
free_vector(xp,1,npar);
|
| free_matrix(doldm,1,nlstate,1,npar);
|
free_matrix(doldm,1,nlstate,1,nlstate);
|
| free_matrix(dnewm,1,nlstate,1,nlstate);
|
free_matrix(dnewm,1,nlstate,1,npar);
|
| |
free_matrix(doldmp,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath);
|
| |
free_matrix(dnewmp,nlstate+1,nlstate+ndeath,1,npar);
|
| |
free_matrix(varppt,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath);
|
| |
fclose(ficresprobmorprev);
|
| |
fclose(ficgp);
|
| |
fclose(fichtm);
|
|
|
|
| }
|
}
|
|
|
|
|
Line 1552 void varprevlim(char fileres[], double *
|
Line 2079 void varprevlim(char fileres[], double *
|
| double age,agelim;
|
double age,agelim;
|
| int theta;
|
int theta;
|
|
|
|
| fprintf(ficresvpl,"# Standard deviation of prevalences limit\n");
|
fprintf(ficresvpl,"# Standard deviation of prevalence's limit\n");
|
| fprintf(ficresvpl,"# Age");
|
fprintf(ficresvpl,"# Age");
|
| for(i=1; i<=nlstate;i++)
|
for(i=1; i<=nlstate;i++)
|
| fprintf(ficresvpl," %1d-%1d",i,i);
|
fprintf(ficresvpl," %1d-%1d",i,i);
|
|
Line 1620 void varprevlim(char fileres[], double *
|
Line 2147 void varprevlim(char fileres[], double *
|
|
|
|
| }
|
}
|
|
|
|
| |
/************ Variance of one-step probabilities ******************/
|
| |
void varprob(char optionfilefiname[], double **matcov, double x[], double delti[], int nlstate, double bage, double fage, int ij, int *Tvar, int **nbcode, int *ncodemax)
|
| |
{
|
| |
int i, j=0, i1, k1, l1, t, tj;
|
| |
int k2, l2, j1, z1;
|
| |
int k=0,l, cptcode;
|
| |
int first=1, first1;
|
| |
double cv12, mu1, mu2, lc1, lc2, v12, v21, v11, v22,v1,v2;
|
| |
double **dnewm,**doldm;
|
| |
double *xp;
|
| |
double *gp, *gm;
|
| |
double **gradg, **trgradg;
|
| |
double **mu;
|
| |
double age,agelim, cov[NCOVMAX];
|
| |
double std=2.0; /* Number of standard deviation wide of confidence ellipsoids */
|
| |
int theta;
|
| |
char fileresprob[FILENAMELENGTH];
|
| |
char fileresprobcov[FILENAMELENGTH];
|
| |
char fileresprobcor[FILENAMELENGTH];
|
| |
|
| |
double ***varpij;
|
| |
|
| |
strcpy(fileresprob,"prob");
|
| |
strcat(fileresprob,fileres);
|
| |
if((ficresprob=fopen(fileresprob,"w"))==NULL) {
|
| |
printf("Problem with resultfile: %s\n", fileresprob);
|
| |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprob);
|
| |
}
|
| |
strcpy(fileresprobcov,"probcov");
|
| |
strcat(fileresprobcov,fileres);
|
| |
if((ficresprobcov=fopen(fileresprobcov,"w"))==NULL) {
|
| |
printf("Problem with resultfile: %s\n", fileresprobcov);
|
| |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcov);
|
| |
}
|
| |
strcpy(fileresprobcor,"probcor");
|
| |
strcat(fileresprobcor,fileres);
|
| |
if((ficresprobcor=fopen(fileresprobcor,"w"))==NULL) {
|
| |
printf("Problem with resultfile: %s\n", fileresprobcor);
|
| |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcor);
|
| |
}
|
| |
printf("Computing standard deviation of one-step probabilities: result on file '%s' \n",fileresprob);
|
| |
fprintf(ficlog,"Computing standard deviation of one-step probabilities: result on file '%s' \n",fileresprob);
|
| |
printf("Computing matrix of variance covariance of one-step probabilities: result on file '%s' \n",fileresprobcov);
|
| |
fprintf(ficlog,"Computing matrix of variance covariance of one-step probabilities: result on file '%s' \n",fileresprobcov);
|
| |
printf("and correlation matrix of one-step probabilities: result on file '%s' \n",fileresprobcor);
|
| |
fprintf(ficlog,"and correlation matrix of one-step probabilities: result on file '%s' \n",fileresprobcor);
|
| |
|
| |
fprintf(ficresprob,"#One-step probabilities and stand. devi in ()\n");
|
| |
fprintf(ficresprob,"# Age");
|
| |
fprintf(ficresprobcov,"#One-step probabilities and covariance matrix\n");
|
| |
fprintf(ficresprobcov,"# Age");
|
| |
fprintf(ficresprobcor,"#One-step probabilities and correlation matrix\n");
|
| |
fprintf(ficresprobcov,"# Age");
|
| |
|
| |
|
| |
for(i=1; i<=nlstate;i++)
|
| |
for(j=1; j<=(nlstate+ndeath);j++){
|
| |
fprintf(ficresprob," p%1d-%1d (SE)",i,j);
|
| |
fprintf(ficresprobcov," p%1d-%1d ",i,j);
|
| |
fprintf(ficresprobcor," p%1d-%1d ",i,j);
|
| |
}
|
| |
fprintf(ficresprob,"\n");
|
| |
fprintf(ficresprobcov,"\n");
|
| |
fprintf(ficresprobcor,"\n");
|
| |
xp=vector(1,npar);
|
| |
dnewm=matrix(1,(nlstate)*(nlstate+ndeath),1,npar);
|
| |
doldm=matrix(1,(nlstate)*(nlstate+ndeath),1,(nlstate)*(nlstate+ndeath));
|
| |
mu=matrix(1,(nlstate)*(nlstate+ndeath), (int) bage, (int)fage);
|
| |
varpij=ma3x(1,nlstate*(nlstate+ndeath),1,nlstate*(nlstate+ndeath),(int) bage, (int) fage);
|
| |
first=1;
|
| |
if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) {
|
| |
printf("Problem with gnuplot file: %s\n", optionfilegnuplot);
|
| |
fprintf(ficlog,"Problem with gnuplot file: %s\n", optionfilegnuplot);
|
| |
exit(0);
|
| |
}
|
| |
else{
|
| |
fprintf(ficgp,"\n# Routine varprob");
|
| |
}
|
| |
if((fichtm=fopen(optionfilehtm,"a"))==NULL) {
|
| |
printf("Problem with html file: %s\n", optionfilehtm);
|
| |
fprintf(ficlog,"Problem with html file: %s\n", optionfilehtm);
|
| |
exit(0);
|
| |
}
|
| |
else{
|
| |
fprintf(fichtm,"\n<li><h4> Computing and drawing one step probabilities with their confidence intervals</h4></li>\n");
|
| |
fprintf(fichtm,"\n");
|
| |
|
| |
fprintf(fichtm,"\n<li><h4> Computing matrix of variance-covariance of step probabilities</h4></li>\n");
|
| |
fprintf(fichtm,"\nWe have drawn ellipsoids of confidence around the p<inf>ij</inf>, p<inf>kl</inf> to understand the covariance between two incidences. They are expressed in year<sup>-1</sup> in order to be less dependent of stepm.<br>\n");
|
| |
fprintf(fichtm,"\n<br> We have drawn x'cov<sup>-1</sup>x = 4 where x is the column vector (pij,pkl). It means that if pij and pkl where uncorrelated the (2X2) matrix would have been (1/(var pij), 0 , 0, 1/(var pkl)), and the confidence interval would be 2 standard deviations wide on each axis. <br> When both incidences are correlated we diagonalised the inverse of the covariance matrix and made the appropriate rotation.<br> \n");
|
| |
|
| |
}
|
| |
|
| |
|
| |
cov[1]=1;
|
| |
tj=cptcoveff;
|
| |
if (cptcovn<1) {tj=1;ncodemax[1]=1;}
|
| |
j1=0;
|
| |
for(t=1; t<=tj;t++){
|
| |
for(i1=1; i1<=ncodemax[t];i1++){
|
| |
j1++;
|
| |
|
| |
if (cptcovn>0) {
|
| |
fprintf(ficresprob, "\n#********** Variable ");
|
| |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprob, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| |
fprintf(ficresprob, "**********\n#");
|
| |
fprintf(ficresprobcov, "\n#********** Variable ");
|
| |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcov, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| |
fprintf(ficresprobcov, "**********\n#");
|
| |
|
| |
fprintf(ficgp, "\n#********** Variable ");
|
| |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficgp, "# V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| |
fprintf(ficgp, "**********\n#");
|
| |
|
| |
|
| |
fprintf(fichtm, "\n<hr size=\"2\" color=\"#EC5E5E\">********** Variable ");
|
| |
for (z1=1; z1<=cptcoveff; z1++) fprintf(fichtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| |
fprintf(fichtm, "**********\n<hr size=\"2\" color=\"#EC5E5E\">");
|
| |
|
| |
fprintf(ficresprobcor, "\n#********** Variable ");
|
| |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcor, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
|
| |
fprintf(ficgp, "**********\n#");
|
| |
}
|
| |
|
| |
for (age=bage; age<=fage; age ++){
|
| |
cov[2]=age;
|
| |
for (k=1; k<=cptcovn;k++) {
|
| |
cov[2+k]=nbcode[Tvar[k]][codtab[j1][Tvar[k]]];
|
| |
}
|
| |
for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2];
|
| |
for (k=1; k<=cptcovprod;k++)
|
| |
cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]];
|
| |
|
| |
gradg=matrix(1,npar,1,(nlstate)*(nlstate+ndeath));
|
| |
trgradg=matrix(1,(nlstate)*(nlstate+ndeath),1,npar);
|
| |
gp=vector(1,(nlstate)*(nlstate+ndeath));
|
| |
gm=vector(1,(nlstate)*(nlstate+ndeath));
|
| |
|
| |
for(theta=1; theta <=npar; theta++){
|
| |
for(i=1; i<=npar; i++)
|
| |
xp[i] = x[i] + (i==theta ?delti[theta]:0);
|
| |
|
| |
pmij(pmmij,cov,ncovmodel,xp,nlstate);
|
| |
|
| |
k=0;
|
| |
for(i=1; i<= (nlstate); i++){
|
| |
for(j=1; j<=(nlstate+ndeath);j++){
|
| |
k=k+1;
|
| |
gp[k]=pmmij[i][j];
|
| |
}
|
| |
}
|
| |
|
| |
for(i=1; i<=npar; i++)
|
| |
xp[i] = x[i] - (i==theta ?delti[theta]:0);
|
| |
|
| |
pmij(pmmij,cov,ncovmodel,xp,nlstate);
|
| |
k=0;
|
| |
for(i=1; i<=(nlstate); i++){
|
| |
for(j=1; j<=(nlstate+ndeath);j++){
|
| |
k=k+1;
|
| |
gm[k]=pmmij[i][j];
|
| |
}
|
| |
}
|
| |
|
| |
for(i=1; i<= (nlstate)*(nlstate+ndeath); i++)
|
| |
gradg[theta][i]=(gp[i]-gm[i])/2./delti[theta];
|
| |
}
|
| |
|
| |
for(j=1; j<=(nlstate)*(nlstate+ndeath);j++)
|
| |
for(theta=1; theta <=npar; theta++)
|
| |
trgradg[j][theta]=gradg[theta][j];
|
| |
|
| |
matprod2(dnewm,trgradg,1,(nlstate)*(nlstate+ndeath),1,npar,1,npar,matcov);
|
| |
matprod2(doldm,dnewm,1,(nlstate)*(nlstate+ndeath),1,npar,1,(nlstate)*(nlstate+ndeath),gradg);
|
| |
|
| |
pmij(pmmij,cov,ncovmodel,x,nlstate);
|
| |
|
| |
k=0;
|
| |
for(i=1; i<=(nlstate); i++){
|
| |
for(j=1; j<=(nlstate+ndeath);j++){
|
| |
k=k+1;
|
| |
mu[k][(int) age]=pmmij[i][j];
|
| |
}
|
| |
}
|
| |
for(i=1;i<=(nlstate)*(nlstate+ndeath);i++)
|
| |
for(j=1;j<=(nlstate)*(nlstate+ndeath);j++)
|
| |
varpij[i][j][(int)age] = doldm[i][j];
|
| |
|
| |
/*printf("\n%d ",(int)age);
|
| |
for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){
|
| |
printf("%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i]));
|
| |
fprintf(ficlog,"%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i]));
|
| |
}*/
|
| |
|
| |
fprintf(ficresprob,"\n%d ",(int)age);
|
| |
fprintf(ficresprobcov,"\n%d ",(int)age);
|
| |
fprintf(ficresprobcor,"\n%d ",(int)age);
|
| |
|
| |
for (i=1; i<=(nlstate)*(nlstate+ndeath);i++)
|
| |
fprintf(ficresprob,"%11.3e (%11.3e) ",mu[i][(int) age],sqrt(varpij[i][i][(int)age]));
|
| |
for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){
|
| |
fprintf(ficresprobcov,"%11.3e ",mu[i][(int) age]);
|
| |
fprintf(ficresprobcor,"%11.3e ",mu[i][(int) age]);
|
| |
}
|
| |
i=0;
|
| |
for (k=1; k<=(nlstate);k++){
|
| |
for (l=1; l<=(nlstate+ndeath);l++){
|
| |
i=i++;
|
| |
fprintf(ficresprobcov,"\n%d %d-%d",(int)age,k,l);
|
| |
fprintf(ficresprobcor,"\n%d %d-%d",(int)age,k,l);
|
| |
for (j=1; j<=i;j++){
|
| |
fprintf(ficresprobcov," %11.3e",varpij[i][j][(int)age]);
|
| |
fprintf(ficresprobcor," %11.3e",varpij[i][j][(int) age]/sqrt(varpij[i][i][(int) age])/sqrt(varpij[j][j][(int)age]));
|
| |
}
|
| |
}
|
| |
}/* end of loop for state */
|
| |
} /* end of loop for age */
|
| |
|
| |
/* Confidence intervalle of pij */
|
| |
/*
|
| |
fprintf(ficgp,"\nset noparametric;unset label");
|
| |
fprintf(ficgp,"\nset log y;unset log x; set xlabel \"Age\";set ylabel \"probability (year-1)\"");
|
| |
fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65");
|
| |
fprintf(fichtm,"\n<br>Probability with confidence intervals expressed in year<sup>-1</sup> :<a href=\"pijgr%s.png\">pijgr%s.png</A>, ",optionfilefiname,optionfilefiname);
|
| |
fprintf(fichtm,"\n<br><img src=\"pijgr%s.png\"> ",optionfilefiname);
|
| |
fprintf(ficgp,"\nset out \"pijgr%s.png\"",optionfilefiname);
|
| |
fprintf(ficgp,"\nplot \"%s\" every :::%d::%d u 1:2 \"\%%lf",k1,k2,xfilevarprob);
|
| |
*/
|
| |
|
| |
/* Drawing ellipsoids of confidence of two variables p(k1-l1,k2-l2)*/
|
| |
first1=1;
|
| |
for (k1=1; k1<=(nlstate);k1++){
|
| |
for (l1=1; l1<=(nlstate+ndeath);l1++){
|
| |
if(l1==k1) continue;
|
| |
i=(k1-1)*(nlstate+ndeath)+l1;
|
| |
for (k2=1; k2<=(nlstate);k2++){
|
| |
for (l2=1; l2<=(nlstate+ndeath);l2++){
|
| |
if(l2==k2) continue;
|
| |
j=(k2-1)*(nlstate+ndeath)+l2;
|
| |
if(j<=i) continue;
|
| |
for (age=bage; age<=fage; age ++){
|
| |
if ((int)age %5==0){
|
| |
v1=varpij[i][i][(int)age]/stepm*YEARM/stepm*YEARM;
|
| |
v2=varpij[j][j][(int)age]/stepm*YEARM/stepm*YEARM;
|
| |
cv12=varpij[i][j][(int)age]/stepm*YEARM/stepm*YEARM;
|
| |
mu1=mu[i][(int) age]/stepm*YEARM ;
|
| |
mu2=mu[j][(int) age]/stepm*YEARM;
|
| |
/* Computing eigen value of matrix of covariance */
|
| |
lc1=(v1+v2)+sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12));
|
| |
lc2=(v1+v2)-sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12));
|
| |
if(first1==1){
|
| |
first1=0;
|
| |
printf("Var %.4e %.4e cov %.4e Eigen %.3e %.3e\nOthers in log...\n",v1,v2,cv12,lc1,lc2);
|
| |
}
|
| |
fprintf(ficlog,"Var %.4e %.4e cov %.4e Eigen %.3e %.3e\n",v1,v2,cv12,lc1,lc2);
|
| |
/* Eigen vectors */
|
| |
v11=(1./sqrt(1+(v1-lc1)*(v1-lc1)/cv12/cv12));
|
| |
v21=sqrt(1.-v11*v11);
|
| |
v12=-v21;
|
| |
v22=v11;
|
| |
/*printf(fignu*/
|
| |
/* mu1+ v11*lc1*cost + v12*lc2*sin(t) */
|
| |
/* mu2+ v21*lc1*cost + v21*lc2*sin(t) */
|
| |
if(first==1){
|
| |
first=0;
|
| |
fprintf(ficgp,"\nset parametric;set nolabel");
|
| |
fprintf(ficgp,"\nset log y;set log x; set xlabel \"p%1d%1d (year-1)\";set ylabel \"p%1d%1d (year-1)\"",k2,l2,k1,l1);
|
| |
fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65");
|
| |
fprintf(fichtm,"\n<br>Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year<sup>-1</sup> :<a href=\"varpijgr%s%d%1d%1d-%1d%1d.png\">varpijgr%s%d%1d%1d-%1d%1d.png</A>, ",k2,l2,k1,l1,optionfilefiname, j1,k2,l2,k1,l1,optionfilefiname, j1,k2,l2,k1,l1);
|
| |
fprintf(fichtm,"\n<br><img src=\"varpijgr%s%d%1d%1d-%1d%1d.png\"> ",optionfilefiname, j1,k2,l2,k1,l1);
|
| |
fprintf(ficgp,"\nset out \"varpijgr%s%d%1d%1d-%1d%1d.png\"",optionfilefiname, j1,k2,l2,k1,l1);
|
| |
fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu2,mu1);
|
| |
fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k2,l2,k1,l1);
|
| |
/* fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(-%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) t \"%d\"",\
|
| |
mu2,std,v21,sqrt(lc1),v21,sqrt(lc2), \
|
| |
mu1,std,v11,sqrt(lc1),v12,sqrt(lc2),(int) age);
|
| |
*/
|
| |
fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(-%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\
|
| |
mu2,std,v21,sqrt(lc1),v21,sqrt(lc2), \
|
| |
mu1,std,v11,sqrt(lc1),v12,sqrt(lc2));
|
| |
}else{
|
| |
first=0;
|
| |
fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k2,l2,k1,l1);
|
| |
fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu2,mu1);
|
| |
/*
|
| |
fprintf(ficgp,"\nreplot %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(-%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) t \"%d\"",\
|
| |
mu2,std,v21,sqrt(lc1),v21,sqrt(lc2), \
|
| |
mu1,std,v11,sqrt(lc1),v12,sqrt(lc2),(int) age);
|
| |
*/
|
| |
fprintf(ficgp,"\nreplot %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(-%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\
|
| |
mu2,std,v21,sqrt(lc1),v21,sqrt(lc2), \
|
| |
mu1,std,v11,sqrt(lc1),v12,sqrt(lc2));
|
| |
}/* if first */
|
| |
} /* age mod 5 */
|
| |
} /* end loop age */
|
| |
fprintf(ficgp,"\nset out \"varpijgr%s%d%1d%1d-%1d%1d.png\";replot;",optionfilefiname, j1,k2,l2,k1,l1);
|
| |
first=1;
|
| |
} /*l12 */
|
| |
} /* k12 */
|
| |
} /*l1 */
|
| |
}/* k1 */
|
| |
} /* loop covariates */
|
| |
free_ma3x(varpij,1,nlstate,1,nlstate+ndeath,(int) bage, (int)fage);
|
| |
free_vector(gp,1,(nlstate+ndeath)*(nlstate+ndeath));
|
| |
free_vector(gm,1,(nlstate+ndeath)*(nlstate+ndeath));
|
| |
free_matrix(mu,1,(nlstate+ndeath)*(nlstate+ndeath),(int) bage, (int)fage);
|
| |
free_matrix(trgradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar);
|
| |
free_matrix(gradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar);
|
| |
}
|
| |
free_vector(xp,1,npar);
|
| |
fclose(ficresprob);
|
| |
fclose(ficresprobcov);
|
| |
fclose(ficresprobcor);
|
| |
fclose(ficgp);
|
| |
fclose(fichtm);
|
| |
}
|
| |
|
| |
|
| |
/******************* Printing html file ***********/
|
| |
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 rfileres[],\
|
| |
int popforecast, int estepm ,\
|
| |
double jprev1, double mprev1,double anprev1, \
|
| |
double jprev2, double mprev2,double anprev2){
|
| |
int jj1, k1, i1, cpt;
|
| |
/*char optionfilehtm[FILENAMELENGTH];*/
|
| |
if((fichtm=fopen(optionfilehtm,"a"))==NULL) {
|
| |
printf("Problem with %s \n",optionfilehtm), exit(0);
|
| |
fprintf(ficlog,"Problem with %s \n",optionfilehtm), exit(0);
|
| |
}
|
| |
|
| |
fprintf(fichtm,"<ul><li><h4>Result files (first order: no variance)</h4>\n
|
| |
- Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"p%s\">p%s</a> <br>\n
|
| |
- Estimated transition probabilities over %d (stepm) months: <a href=\"pij%s\">pij%s</a><br>\n
|
| |
- Stable prevalence in each health state: <a href=\"pl%s\">pl%s</a> <br>\n
|
| |
- Life expectancies by age and initial health status (estepm=%2d months):
|
| |
<a href=\"e%s\">e%s</a> <br>\n</li>", \
|
| |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,fileres,fileres,stepm,fileres,fileres,fileres,fileres,estepm,fileres,fileres);
|
| |
|
| |
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>");
|
| |
|
| |
m=cptcoveff;
|
| |
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\">");
|
| |
}
|
| |
/* Pij */
|
| |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i %d (stepm) months before: pe%s%d1.png<br>
|
| |
<img src=\"pe%s%d1.png\">",stepm,strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1);
|
| |
/* Quasi-incidences */
|
| |
fprintf(fichtm,"<br>- Pij or Conditional probabilities to be observed in state j being in state i %d (stepm) months before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too: pe%s%d2.png<br>
|
| |
<img src=\"pe%s%d2.png\">",stepm,strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1);
|
| |
/* Stable prevalence in each health state */
|
| |
for(cpt=1; cpt<nlstate;cpt++){
|
| |
fprintf(fichtm,"<br>- Stable prevalence in each health state : p%s%d%d.png<br>
|
| |
<img src=\"p%s%d%d.png\">",strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1);
|
| |
}
|
| |
for(cpt=1; cpt<=nlstate;cpt++) {
|
| |
fprintf(fichtm,"\n<br>- Health life expectancies by age and initial health state (%d): exp%s%d%d.png <br>
|
| |
<img src=\"exp%s%d%d.png\">",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.png<br>
|
| |
<img src=\"e%s%d.png\">",strtok(optionfile, "."),jj1,strtok(optionfile, "."),jj1);
|
| |
} /* end i1 */
|
| |
}/* End k1 */
|
| |
fprintf(fichtm,"</ul>");
|
| |
|
| |
|
| |
fprintf(fichtm,"\n<br><li><h4> Result files (second order: variances)</h4>\n
|
| |
- Parameter file with estimated parameters and covariance matrix: <a href=\"%s\">%s</a> <br>\n
|
| |
- Variance of one-step probabilities: <a href=\"prob%s\">prob%s</a> <br>\n
|
| |
- Variance-covariance of one-step probabilities: <a href=\"probcov%s\">probcov%s</a> <br>\n
|
| |
- Correlation matrix of one-step probabilities: <a href=\"probcor%s\">probcor%s</a> <br>\n
|
| |
- Variances and covariances of life expectancies by age and initial health status (estepm=%d months): <a href=\"v%s\">v%s</a><br>\n
|
| |
- Health expectancies with their variances (no covariance): <a href=\"t%s\">t%s</a> <br>\n
|
| |
- Standard deviation of stable prevalences: <a href=\"vpl%s\">vpl%s</a> <br>\n",rfileres,rfileres,fileres,fileres,fileres,fileres,fileres,fileres, estepm, fileres,fileres,fileres,fileres,fileres,fileres);
|
| |
|
| |
if(popforecast==1) fprintf(fichtm,"\n
|
| |
- Prevalences forecasting: <a href=\"f%s\">f%s</a> <br>\n
|
| |
- Population forecasting (if popforecast=1): <a href=\"pop%s\">pop%s</a> <br>\n
|
| |
<br>",fileres,fileres,fileres,fileres);
|
| |
else
|
| |
fprintf(fichtm,"\n No population forecast: popforecast = %d (instead of 1) or stepm = %d (instead of 1) or model=%s (instead of .)<br><br></li>\n",popforecast, stepm, model);
|
| |
fprintf(fichtm," <ul><li><b>Graphs</b></li><p>");
|
| |
|
| |
m=cptcoveff;
|
| |
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\">");
|
| |
}
|
| |
for(cpt=1; cpt<=nlstate;cpt++) {
|
| |
fprintf(fichtm,"<br>- Observed and stationary prevalence (with confident
|
| |
interval) in state (%d): v%s%d%d.png <br>
|
| |
<img src=\"v%s%d%d.png\">",cpt,strtok(optionfile, "."),cpt,jj1,strtok(optionfile, "."),cpt,jj1);
|
| |
}
|
| |
} /* end i1 */
|
| |
}/* End k1 */
|
| |
fprintf(fichtm,"</ul>");
|
| |
fclose(fichtm);
|
| |
}
|
| |
|
| |
/******************* Gnuplot file **************/
|
| |
void printinggnuplot(char fileres[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){
|
| |
|
| |
int m,cpt,k1,i,k,j,jk,k2,k3,ij,l;
|
| |
int ng;
|
| |
if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) {
|
| |
printf("Problem with file %s",optionfilegnuplot);
|
| |
fprintf(ficlog,"Problem with file %s",optionfilegnuplot);
|
| |
}
|
|
|
|
|
|
#ifdef windows
|
| /***********************************************/
|
fprintf(ficgp,"cd \"%s\" \n",pathc);
|
| /**************** Main Program *****************/
|
#endif
|
| /***********************************************/
|
m=pow(2,cptcoveff);
|
|
|
|
| /*int main(int argc, char *argv[])*/
|
/* 1eme*/
|
| int main()
|
for (cpt=1; cpt<= nlstate ; cpt ++) {
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
| |
|
| |
#ifdef windows
|
| |
fprintf(ficgp,"\nset out \"v%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1);
|
| |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"vpl%s\" every :::%d::%d u 1:2 \"\%%lf",ageminpar,fage,fileres,k1-1,k1-1);
|
| |
#endif
|
| |
#ifdef unix
|
| |
fprintf(ficgp,"\nset out \"v%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1);
|
| |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nplot [%.f:%.f] \"vpl%s\" u 1:2 \"\%%lf",ageminpar,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 png small\nset size 0.65,0.65\n");
|
| |
#endif
|
| |
}
|
| |
}
|
| |
/*2 eme*/
|
| |
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
| |
fprintf(ficgp,"\nset out \"e%s%d.png\" \n",strtok(optionfile, "."),k1);
|
| |
fprintf(ficgp,"set ylabel \"Years\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] ",ageminpar,fage);
|
| |
|
| |
for (i=1; i<= nlstate+1 ; i ++) {
|
| |
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+$3*2) \"\%%lf",fileres,k1-1,k1-1);
|
| |
for (j=1; j<= nlstate+1 ; j ++) {
|
| |
if (j==i) fprintf(ficgp," \%%lf (\%%lf)");
|
| |
else fprintf(ficgp," \%%*lf (\%%*lf)");
|
| |
}
|
| |
if (i== (nlstate+1)) fprintf(ficgp,"\" t\"\" w l 0");
|
| |
else fprintf(ficgp,"\" t\"\" w l 0,");
|
| |
}
|
| |
}
|
| |
|
| |
/*3eme*/
|
| |
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
| |
for (cpt=1; cpt<= nlstate ; cpt ++) {
|
| |
k=2+nlstate*(2*cpt-2);
|
| |
fprintf(ficgp,"\nset out \"exp%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1);
|
| |
fprintf(ficgp,"set ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"e%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",ageminpar,fage,fileres,k1-1,k1-1,k,cpt);
|
| |
/*fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:($%d-2*$%d) \"\%%lf ",fileres,k1-1,k1-1,k,k+1);
|
| |
for (i=1; i<= nlstate*2 ; i ++) fprintf(ficgp,"\%%lf (\%%lf) ");
|
| |
fprintf(ficgp,"\" t \"e%d1\" w l",cpt);
|
| |
fprintf(ficgp,",\"e%s\" every :::%d::%d u 1:($%d+2*$%d) \"\%%lf ",fileres,k1-1,k1-1,k,k+1);
|
| |
for (i=1; i<= nlstate*2 ; i ++) fprintf(ficgp,"\%%lf (\%%lf) ");
|
| |
fprintf(ficgp,"\" t \"e%d1\" w l",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+2*i,cpt,i+1);
|
| |
|
| |
}
|
| |
}
|
| |
}
|
| |
|
| |
/* CV preval stat */
|
| |
for (k1=1; k1<= m ; k1 ++) {
|
| |
for (cpt=1; cpt<nlstate ; cpt ++) {
|
| |
k=3;
|
| |
fprintf(ficgp,"\nset out \"p%s%d%d.png\" \n",strtok(optionfile, "."),cpt,k1);
|
| |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter png small\nset size 0.65,0.65\nplot [%.f:%.f] \"pij%s\" u ($1==%d ? ($3):1/0):($%d/($%d",ageminpar,agemaxpar,fileres,k1,k+cpt+1,k+1);
|
| |
|
| |
for (i=1; i< nlstate ; i ++)
|
| |
fprintf(ficgp,"+$%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);
|
| |
}
|
| |
}
|
| |
|
| |
/* 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(ng=1; ng<=2;ng++){ /* Number of graphics: first is probabilities second is incidence per year*/
|
| |
for(jk=1; jk <=m; jk++) {
|
| |
fprintf(ficgp,"\nset out \"pe%s%d%d.png\" \n",strtok(optionfile, "."),jk,ng);
|
| |
if (ng==2)
|
| |
fprintf(ficgp,"\nset ylabel \"Quasi-incidence per year\"\n");
|
| |
else
|
| |
fprintf(ficgp,"\nset title \"Probability\"\n");
|
| |
fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65\nset log y\nplot [%.f:%.f] ",ageminpar,agemaxpar);
|
| |
i=1;
|
| |
for(k2=1; k2<=nlstate; k2++) {
|
| |
k3=i;
|
| |
for(k=1; k<=(nlstate+ndeath); k++) {
|
| |
if (k != k2){
|
| |
if(ng==2)
|
| |
fprintf(ficgp," %f*exp(p%d+p%d*x",YEARM/stepm,i,i+1);
|
| |
else
|
| |
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;
|
| |
}
|
| |
} /* end k */
|
| |
} /* end k2 */
|
| |
} /* end jk */
|
| |
} /* end ng */
|
| |
fclose(ficgp);
|
| |
} /* end gnuplot */
|
| |
|
| |
|
| |
/*************** Moving average **************/
|
| |
void movingaverage(double agedeb, double fage,double ageminpar, double ***mobaverage){
|
| |
|
| |
int i, cpt, cptcod;
|
| |
for (agedeb=ageminpar; agedeb<=fage; agedeb++)
|
| |
for (i=1; i<=nlstate;i++)
|
| |
for (cptcod=1;cptcod<=ncodemax[cptcov];cptcod++)
|
| |
mobaverage[(int)agedeb][i][cptcod]=0.;
|
| |
|
| |
for (agedeb=ageminpar+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 ageminpar, 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(ageminpar, 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);
|
| |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", fileresf);
|
| |
}
|
| |
printf("Computing forecasting: result on file '%s' \n", fileresf);
|
| |
fprintf(ficlog,"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, ageminpar, 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>=(ageminpar-((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 %.f ",anproj1+cpt,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 ageminpar, 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(ageminpar, 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);
|
| |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", filerespop);
|
| |
}
|
| |
printf("Computing forecasting: result on file '%s' \n", filerespop);
|
| |
fprintf(ficlog,"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, ageminpar, 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);
|
| |
fprintf(ficlog,"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>=(ageminpar-((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>=(ageminpar-((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, aaa, cptcod;
|
int i,j, k, n=MAXN,iter,m,size,cptcode, cptcod;
|
| double agedeb, agefin,hf;
|
double agedeb, agefin,hf;
|
| double agemin=1.e20, agemax=-1.e20;
|
double ageminpar=1.e20,agemin=1.e20, agemaxpar=-1.e20, agemax=-1.e20;
|
|
|
|
| double fret;
|
double fret;
|
| double **xi,tmp,delta;
|
double **xi,tmp,delta;
|
|
Line 1641 int main()
|
Line 3055 int main()
|
| double ***p3mat;
|
double ***p3mat;
|
| int *indx;
|
int *indx;
|
| char line[MAXLINE], linepar[MAXLINE];
|
char line[MAXLINE], linepar[MAXLINE];
|
| char title[MAXLINE];
|
char path[80],pathc[80],pathcd[80],pathtot[80],model[80];
|
| char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH];
|
|
| char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH];
|
|
| char filerest[FILENAMELENGTH];
|
|
| char fileregp[FILENAMELENGTH];
|
|
| char path[80],pathc[80],pathcd[80],pathtot[80],model[20];
|
|
| int firstobs=1, lastobs=10;
|
int firstobs=1, lastobs=10;
|
| int sdeb, sfin; /* Status at beginning and end */
|
int sdeb, sfin; /* Status at beginning and end */
|
| int c, h , cpt,l;
|
int c, h , cpt,l;
|
| int ju,jl, mi;
|
int ju,jl, mi;
|
| int i1,j1, k1,k2,k3,jk,aa,bb, stepsize, ij;
|
int i1,j1, k1,k2,k3,jk,aa,bb, stepsize, ij;
|
| int jnais,jdc,jint4,jint1,jint2,jint3,**outcome,**adl,*tab;
|
int jnais,jdc,jint4,jint1,jint2,jint3,**outcome,**adl,*tab;
|
|
|
int mobilav=0,popforecast=0;
|
| int hstepm, nhstepm;
|
int hstepm, nhstepm;
|
| |
double jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,jpyram, mpyram,anpyram,jpyram1, mpyram1,anpyram1, calagedate;
|
| |
|
| double bage, fage, age, agelim, agebase;
|
double bage, fage, age, agelim, agebase;
|
| double ftolpl=FTOL;
|
double ftolpl=FTOL;
|
| double **prlim;
|
double **prlim;
|
|
Line 1667 int main()
|
Line 3078 int main()
|
| double ***eij, ***vareij;
|
double ***eij, ***vareij;
|
| double **varpl; /* Variances of prevalence limits by age */
|
double **varpl; /* Variances of prevalence limits by age */
|
| double *epj, vepp;
|
double *epj, vepp;
|
| char version[80]="Imach version 62c, May 1999, INED-EUROREVES ";
|
double kk1, kk2;
|
| |
double dateprev1, dateprev2,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2;
|
| |
|
| |
|
| char *alph[]={"a","a","b","c","d","e"}, str[4];
|
char *alph[]={"a","a","b","c","d","e"}, str[4];
|
|
|
|
| |
|
| char z[1]="c", occ;
|
char z[1]="c", occ;
|
| #include <sys/time.h>
|
#include <sys/time.h>
|
| #include <time.h>
|
#include <time.h>
|
| char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80];
|
char stra[80], strb[80], strc[80], strd[80],stre[80],modelsav[80];
|
| |
|
| /* long total_usecs;
|
/* long total_usecs;
|
| struct timeval start_time, end_time;
|
struct timeval start_time, end_time;
|
|
|
|
| gettimeofday(&start_time, (struct timezone*)0); */ /* at first time */
|
gettimeofday(&start_time, (struct timezone*)0); */ /* at first time */
|
|
|
|
|
|
|
| printf("\nIMACH, Version 0.64a");
|
|
| printf("\nEnter the parameter file name: ");
|
|
|
|
|
| #ifdef windows
|
|
| scanf("%s",pathtot);
|
|
| getcwd(pathcd, size);
|
getcwd(pathcd, size);
|
| |
|
| |
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);
|
/*cygwin_split_path(pathtot,path,optionfile);
|
| printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/
|
printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/
|
| /* cutv(path,optionfile,pathtot,'\\');*/
|
/* cutv(path,optionfile,pathtot,'\\');*/
|
|
|
|
| split(pathtot, path,optionfile);
|
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);
|
chdir(path);
|
| replace(pathc,path);
|
replace(pathc,path);
|
| #endif
|
|
| #ifdef unix
|
|
| scanf("%s",optionfile);
|
|
| #endif
|
|
|
|
|
| /*-------- arguments in the command line --------*/
|
/*-------- arguments in the command line --------*/
|
|
|
|
| |
/* Log file */
|
| |
strcat(filelog, optionfilefiname);
|
| |
strcat(filelog,".log"); /* */
|
| |
if((ficlog=fopen(filelog,"w"))==NULL) {
|
| |
printf("Problem with logfile %s\n",filelog);
|
| |
goto end;
|
| |
}
|
| |
fprintf(ficlog,"Log filename:%s\n",filelog);
|
| |
fprintf(ficlog,"\n%s",version);
|
| |
fprintf(ficlog,"\nEnter the parameter file name: ");
|
| |
fprintf(ficlog,"pathtot=%s, path=%s, optionfile=%s optionfilext=%s optionfilefiname=%s\n",pathtot,path,optionfile,optionfilext,optionfilefiname);
|
| |
fflush(ficlog);
|
| |
|
| |
/* */
|
| strcpy(fileres,"r");
|
strcpy(fileres,"r");
|
| strcat(fileres, optionfile);
|
strcat(fileres, optionfilefiname);
|
| |
strcat(fileres,".txt"); /* Other files have txt extension */
|
|
|
|
| /*---------arguments file --------*/
|
/*---------arguments file --------*/
|
|
|
|
| if((ficpar=fopen(optionfile,"r"))==NULL) {
|
if((ficpar=fopen(optionfile,"r"))==NULL) {
|
| printf("Problem with optionfile %s\n",optionfile);
|
printf("Problem with optionfile %s\n",optionfile);
|
| |
fprintf(ficlog,"Problem with optionfile %s\n",optionfile);
|
| goto end;
|
goto end;
|
| }
|
}
|
|
|
|
| strcpy(filereso,"o");
|
strcpy(filereso,"o");
|
| strcat(filereso,fileres);
|
strcat(filereso,fileres);
|
| if((ficparo=fopen(filereso,"w"))==NULL) {
|
if((ficparo=fopen(filereso,"w"))==NULL) {
|
| printf("Problem with Output resultfile: %s\n", filereso);goto end;
|
printf("Problem with Output resultfile: %s\n", filereso);
|
| |
fprintf(ficlog,"Problem with Output resultfile: %s\n", filereso);
|
| |
goto end;
|
| }
|
}
|
|
|
|
| /* Reads comments: lines beginning with '#' */
|
/* Reads comments: lines beginning with '#' */
|
|
Line 1725 split(pathtot, path,optionfile);
|
Line 3159 split(pathtot, path,optionfile);
|
| }
|
}
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
|
|
|
| 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);
|
fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d model=%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 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);
|
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 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(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){
|
| covar=matrix(0,NCOVMAX,1,n);
|
ungetc(c,ficpar);
|
| if (strlen(model)<=1) cptcovn=0;
|
fgets(line, MAXLINE, ficpar);
|
| else {
|
puts(line);
|
| j=0;
|
fputs(line,ficparo);
|
| j=nbocc(model,'+');
|
|
| cptcovn=j+1;
|
|
| }
|
}
|
| |
ungetc(c,ficpar);
|
| |
|
| |
|
| |
covar=matrix(0,NCOVMAX,1,n);
|
| |
cptcovn=0;
|
| |
if (strlen(model)>1) cptcovn=nbocc(model,'+')+1;
|
|
|
|
| ncovmodel=2+cptcovn;
|
ncovmodel=2+cptcovn;
|
| nvar=ncovmodel-1; /* Suppressing age as a basic covariate */
|
nvar=ncovmodel-1; /* Suppressing age as a basic covariate */
|
|
Line 1755 split(pathtot, path,optionfile);
|
Line 3193 split(pathtot, path,optionfile);
|
| for(j=1; j <=nlstate+ndeath-1; j++){
|
for(j=1; j <=nlstate+ndeath-1; j++){
|
| fscanf(ficpar,"%1d%1d",&i1,&j1);
|
fscanf(ficpar,"%1d%1d",&i1,&j1);
|
| fprintf(ficparo,"%1d%1d",i1,j1);
|
fprintf(ficparo,"%1d%1d",i1,j1);
|
| printf("%1d%1d",i,j);
|
if(mle==1)
|
| |
printf("%1d%1d",i,j);
|
| |
fprintf(ficlog,"%1d%1d",i,j);
|
| for(k=1; k<=ncovmodel;k++){
|
for(k=1; k<=ncovmodel;k++){
|
| fscanf(ficpar," %lf",¶m[i][j][k]);
|
fscanf(ficpar," %lf",¶m[i][j][k]);
|
| printf(" %lf",param[i][j][k]);
|
if(mle==1){
|
| |
printf(" %lf",param[i][j][k]);
|
| |
fprintf(ficlog," %lf",param[i][j][k]);
|
| |
}
|
| |
else
|
| |
fprintf(ficlog," %lf",param[i][j][k]);
|
| fprintf(ficparo," %lf",param[i][j][k]);
|
fprintf(ficparo," %lf",param[i][j][k]);
|
| }
|
}
|
| fscanf(ficpar,"\n");
|
fscanf(ficpar,"\n");
|
| printf("\n");
|
if(mle==1)
|
| |
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| fprintf(ficparo,"\n");
|
fprintf(ficparo,"\n");
|
| }
|
}
|
|
|
|
| npar= (nlstate+ndeath-1)*nlstate*ncovmodel;
|
npar= (nlstate+ndeath-1)*nlstate*ncovmodel;
|
| |
|
| p=param[1][1];
|
p=param[1][1];
|
|
|
|
| /* Reads comments: lines beginning with '#' */
|
/* Reads comments: lines beginning with '#' */
|
|
Line 1809 split(pathtot, path,optionfile);
|
Line 3257 split(pathtot, path,optionfile);
|
| matcov=matrix(1,npar,1,npar);
|
matcov=matrix(1,npar,1,npar);
|
| for(i=1; i <=npar; i++){
|
for(i=1; i <=npar; i++){
|
| fscanf(ficpar,"%s",&str);
|
fscanf(ficpar,"%s",&str);
|
| printf("%s",str);
|
if(mle==1)
|
| |
printf("%s",str);
|
| |
fprintf(ficlog,"%s",str);
|
| fprintf(ficparo,"%s",str);
|
fprintf(ficparo,"%s",str);
|
| for(j=1; j <=i; j++){
|
for(j=1; j <=i; j++){
|
| fscanf(ficpar," %le",&matcov[i][j]);
|
fscanf(ficpar," %le",&matcov[i][j]);
|
| printf(" %.5le",matcov[i][j]);
|
if(mle==1){
|
| |
printf(" %.5le",matcov[i][j]);
|
| |
fprintf(ficlog," %.5le",matcov[i][j]);
|
| |
}
|
| |
else
|
| |
fprintf(ficlog," %.5le",matcov[i][j]);
|
| fprintf(ficparo," %.5le",matcov[i][j]);
|
fprintf(ficparo," %.5le",matcov[i][j]);
|
| }
|
}
|
| fscanf(ficpar,"\n");
|
fscanf(ficpar,"\n");
|
| printf("\n");
|
if(mle==1)
|
| |
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| fprintf(ficparo,"\n");
|
fprintf(ficparo,"\n");
|
| }
|
}
|
| for(i=1; i <=npar; i++)
|
for(i=1; i <=npar; i++)
|
| for(j=i+1;j<=npar;j++)
|
for(j=i+1;j<=npar;j++)
|
| matcov[i][j]=matcov[j][i];
|
matcov[i][j]=matcov[j][i];
|
|
|
|
| printf("\n");
|
if(mle==1)
|
| |
printf("\n");
|
| |
fprintf(ficlog,"\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(ficlog,"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;
|
| |
fprintf(ficlog,"Problem with datafile: %s\n", datafile);goto end;
|
| }
|
}
|
|
|
|
| n= lastobs;
|
n= lastobs;
|
|
Line 1856 split(pathtot, path,optionfile);
|
Line 3322 split(pathtot, path,optionfile);
|
| tab=ivector(1,NCOVMAX);
|
tab=ivector(1,NCOVMAX);
|
| ncodemax=ivector(1,8);
|
ncodemax=ivector(1,8);
|
|
|
|
| i=1;
|
i=1;
|
| while (fgets(line, MAXLINE, fic) != NULL) {
|
while (fgets(line, MAXLINE, fic) != NULL) {
|
| if ((i >= firstobs) && (i <=lastobs)) {
|
if ((i >= firstobs) && (i <=lastobs)) {
|
|
|
|
|
Line 1874 split(pathtot, path,optionfile);
|
Line 3340 split(pathtot, path,optionfile);
|
| 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);
|
|
|
|
| /*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]));*/
|
/*if((s[2][i]==2) && (s[3][i]==-1)&&(s[4][i]==9)){
|
| |
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])); ij=ij+1;}*/
|
|
|
|
| i=i+1;
|
i=i+1;
|
| }
|
}
|
| }
|
}
|
|
|
/* printf("ii=%d", ij);
|
| /*scanf("%d",i);*/
|
scanf("%d",i);*/
|
| imx=i-1; /* Number of individuals */
|
imx=i-1; /* Number of individuals */
|
|
|
|
| |
/* for (i=1; i<=imx; i++){
|
| |
if ((s[1][i]==3) && (s[2][i]==2)) s[2][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;
|
| |
}*/
|
| |
/* for (i=1; i<=imx; i++){
|
| |
if (s[4][i]==9) s[4][i]=-1;
|
| |
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); /* stores the number n of the covariates in Vm+Vn at 1 and m at 2 */
|
| Tprod=ivector(1,15);
|
Tprod=ivector(1,15);
|
| Tvaraff=ivector(1,15);
|
Tvaraff=ivector(1,15);
|
| Tvard=imatrix(1,15,1,2);
|
Tvard=imatrix(1,15,1,2);
|
|
Line 1903 split(pathtot, path,optionfile);
|
Line 3380 split(pathtot, path,optionfile);
|
| cptcovprod=j1;
|
cptcovprod=j1;
|
|
|
|
| strcpy(modelsav,model);
|
strcpy(modelsav,model);
|
| if (j==0) {
|
if ((strcmp(model,"age")==0) || (strcmp(model,"age*age")==0)){
|
| if (j1==0){
|
printf("Error. Non available option model=%s ",model);
|
| cutv(stra,strb,modelsav,'V');
|
fprintf(ficlog,"Error. Non available option model=%s ",model);
|
| Tvar[1]=atoi(strb);
|
goto end;
|
| }
|
}
|
| else if (j1==1) {
|
|
| cutv(stra,strb,modelsav,'*');
|
for(i=(j+1); i>=1;i--){
|
| Tage[1]=1; cptcovage++;
|
cutv(stra,strb,modelsav,'+'); /* keeps in strb after the last + */
|
| if (strcmp(stra,"age")==0) {
|
if (nbocc(modelsav,'+')==0) strcpy(strb,modelsav); /* and analyze it */
|
| |
/* printf("i=%d a=%s b=%s sav=%s\n",i, stra,strb,modelsav);*/
|
| |
/*scanf("%d",i);*/
|
| |
if (strchr(strb,'*')) { /* Model includes a product */
|
| |
cutv(strd,strc,strb,'*'); /* strd*strc Vm*Vn (if not *age)*/
|
| |
if (strcmp(strc,"age")==0) { /* Vn*age */
|
| cptcovprod--;
|
cptcovprod--;
|
| cutv(strd,strc,strb,'V');
|
cutv(strb,stre,strd,'V');
|
| Tvar[1]=atoi(strc);
|
Tvar[i]=atoi(stre); /* computes n in Vn and stores in Tvar*/
|
| |
cptcovage++;
|
| |
Tage[cptcovage]=i;
|
| |
/*printf("stre=%s ", stre);*/
|
| }
|
}
|
| else if (strcmp(strb,"age")==0) {
|
else if (strcmp(strd,"age")==0) { /* or age*Vn */
|
| cptcovprod--;
|
cptcovprod--;
|
| cutv(strd,strc,stra,'V');
|
cutv(strb,stre,strc,'V');
|
| Tvar[1]=atoi(strc);
|
Tvar[i]=atoi(stre);
|
| |
cptcovage++;
|
| |
Tage[cptcovage]=i;
|
| }
|
}
|
| else {
|
else { /* Age is not in the model */
|
| cutv(strd,strc,strb,'V');
|
cutv(strb,stre,strc,'V'); /* strc= Vn, stre is n*/
|
| cutv(stre,strd,stra,'V');
|
Tvar[i]=ncovcol+k1;
|
| Tvar[1]=ncov+1;
|
cutv(strb,strc,strd,'V'); /* strd was Vm, strc is m */
|
| |
Tprod[k1]=i;
|
| |
Tvard[k1][1]=atoi(strc); /* m*/
|
| |
Tvard[k1][2]=atoi(stre); /* n */
|
| |
Tvar[cptcovn+k2]=Tvard[k1][1];
|
| |
Tvar[cptcovn+k2+1]=Tvard[k1][2];
|
| for (k=1; k<=lastobs;k++)
|
for (k=1; k<=lastobs;k++)
|
| covar[ncov+1][k]=covar[atoi(strc)][k]*covar[atoi(strd)][k];
|
covar[ncovcol+k1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k];
|
| |
k1++;
|
| |
k2=k2+2;
|
| }
|
}
|
| /*printf("%s %s %s\n", stra,strb,modelsav);
|
}
|
| printf("%d ",Tvar[1]);
|
else { /* no more sum */
|
| scanf("%d",i);*/
|
/*printf("d=%s c=%s b=%s\n", strd,strc,strb);*/
|
| }
|
/* scanf("%d",i);*/
|
| }
|
cutv(strd,strc,strb,'V');
|
| else {
|
Tvar[i]=atoi(strc);
|
| for(i=j; i>=1;i--){
|
}
|
| cutv(stra,strb,modelsav,'+');
|
strcpy(modelsav,stra);
|
| /*printf("%s %s %s\n", stra,strb,modelsav);
|
/*printf("a=%s b=%s sav=%s\n", stra,strb,modelsav);
|
| scanf("%d",i);*/
|
scanf("%d",i);*/
|
| if (strchr(strb,'*')) {
|
} /* end of loop + */
|
| cutv(strd,strc,strb,'*');
|
} /* end model */
|
| if (strcmp(strc,"age")==0) {
|
|
| cptcovprod--;
|
/* printf("tvar1=%d tvar2=%d tvar3=%d cptcovage=%d Tage=%d",Tvar[1],Tvar[2],Tvar[3],cptcovage,Tage[1]);
|
| cutv(strb,stre,strd,'V');
|
printf("cptcovprod=%d ", cptcovprod);
|
| Tvar[i+1]=atoi(stre);
|
fprintf(ficlog,"cptcovprod=%d ", cptcovprod);
|
| cptcovage++;
|
scanf("%d ",i);*/
|
| Tage[cptcovage]=i+1;
|
|
| printf("stre=%s ", stre);
|
|
| }
|
|
| else if (strcmp(strd,"age")==0) {
|
|
| cptcovprod--;
|
|
| cutv(strb,stre,strc,'V');
|
|
| Tvar[i+1]=atoi(stre);
|
|
| cptcovage++;
|
|
| Tage[cptcovage]=i+1;
|
|
| }
|
|
| else {
|
|
| cutv(strb,stre,strc,'V');
|
|
| Tvar[i+1]=ncov+k1;
|
|
| cutv(strb,strc,strd,'V');
|
|
| Tprod[k1]=i+1;
|
|
| Tvard[k1][1]=atoi(strc);
|
|
| Tvard[k1][2]=atoi(stre);
|
|
| Tvar[cptcovn+k2]=Tvard[k1][1];
|
|
| Tvar[cptcovn+k2+1]=Tvard[k1][2];
|
|
| for (k=1; k<=lastobs;k++)
|
|
| covar[ncov+k1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k];
|
|
| k1++;
|
|
| k2=k2+2;
|
|
| }
|
|
| }
|
|
| else {
|
|
| cutv(strd,strc,strb,'V');
|
|
| /* printf("%s %s %s", strd,strc,strb);*/
|
|
| Tvar[i+1]=atoi(strc);
|
|
| }
|
|
| strcpy(modelsav,stra);
|
|
| }
|
|
| cutv(strd,strc,stra,'V');
|
|
| Tvar[1]=atoi(strc);
|
|
| }
|
|
| }
|
|
| /* for (i=1; i<=5; i++)
|
|
| printf("i=%d %d ",i,Tvar[i]);*/
|
|
| /* printf("tvar=%d %d cptcovage=%d %d",Tvar[1],Tvar[2],cptcovage,Tage[1]);*/
|
|
| /*printf("cptcovprod=%d ", cptcovprod);*/
|
|
| /* scanf("%d ",i);*/
|
|
| fclose(fic);
|
fclose(fic);
|
|
|
|
| /* if(mle==1){*/
|
/* if(mle==1){*/
|
|
Line 1994 scanf("%d",i);*/
|
Line 3447 scanf("%d",i);*/
|
| }
|
}
|
| /*-calculation of age at interview from date of interview and age at death -*/
|
/*-calculation of age at interview from date of interview and age at death -*/
|
| agev=matrix(1,maxwav,1,imx);
|
agev=matrix(1,maxwav,1,imx);
|
|
|
|
| |
for (i=1; i<=imx; i++) {
|
| |
for(m=2; (m<= maxwav); m++) {
|
| |
if ((mint[m][i]== 99) && (s[m][i] <= nlstate)){
|
| |
anint[m][i]=9999;
|
| |
s[m][i]=-1;
|
| |
}
|
| |
if(moisdc[i]==99 && andc[i]==9999 & s[m][i]>nlstate) s[m][i]=-1;
|
| |
}
|
| |
}
|
| |
|
| for (i=1; i<=imx; i++) {
|
for (i=1; i<=imx; i++) {
|
| agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]);
|
agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]);
|
| for(m=1; (m<= maxwav); m++){
|
for(m=1; (m<= maxwav); m++){
|
| if(s[m][i] >0){
|
if(s[m][i] >0){
|
| if (s[m][i] == nlstate+1) {
|
if (s[m][i] >= nlstate+1) {
|
| if(agedc[i]>0)
|
if(agedc[i]>0)
|
| if(moisdc[i]!=99 && andc[i]!=9999)
|
if(moisdc[i]!=99 && andc[i]!=9999)
|
| agev[m][i]=agedc[i];
|
agev[m][i]=agedc[i];
|
| else{
|
/*if(moisdc[i]==99 && andc[i]==9999) s[m][i]=-1;*/
|
| |
else {
|
| |
if (andc[i]!=9999){
|
| printf("Warning negative age at death: %d line:%d\n",num[i],i);
|
printf("Warning negative age at death: %d line:%d\n",num[i],i);
|
| |
fprintf(ficlog,"Warning negative age at death: %d line:%d\n",num[i],i);
|
| agev[m][i]=-1;
|
agev[m][i]=-1;
|
| |
}
|
| }
|
}
|
| }
|
}
|
| else if(s[m][i] !=9){ /* Should no more exist */
|
else if(s[m][i] !=9){ /* Should no more exist */
|
|
Line 2036 scanf("%d",i);*/
|
Line 3503 scanf("%d",i);*/
|
| for (i=1; i<=imx; i++) {
|
for (i=1; i<=imx; i++) {
|
| for(m=1; (m<= maxwav); m++){
|
for(m=1; (m<= maxwav); m++){
|
| if (s[m][i] > (nlstate+ndeath)) {
|
if (s[m][i] > (nlstate+ndeath)) {
|
| printf("Error: Wrong value in nlstate or ndeath\n");
|
printf("Error: on wave %d of individual %d status %d > (nlstate+ndeath)=(%d+%d)=%d\n",m,i,s[m][i],nlstate, ndeath, nlstate+ndeath);
|
| |
fprintf(ficlog,"Error: on wave %d of individual %d status %d > (nlstate+ndeath)=(%d+%d)=%d\n",m,i,s[m][i],nlstate, ndeath, nlstate+ndeath);
|
| goto end;
|
goto end;
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
|
|
|
| printf("Total number of individuals= %d, Agemin = %.2f, Agemax= %.2f\n\n", imx, agemin, agemax);
|
printf("Total number of individuals= %d, Agemin = %.2f, Agemax= %.2f\n\n", imx, agemin, agemax);
|
| |
fprintf(ficlog,"Total number of individuals= %d, Agemin = %.2f, Agemax= %.2f\n\n", imx, agemin, agemax);
|
|
|
|
| free_vector(severity,1,maxwav);
|
free_vector(severity,1,maxwav);
|
| 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 2063 printf("Total number of individuals= %d,
|
Line 3532 printf("Total number of individuals= %d,
|
|
|
|
|
|
|
| Tcode=ivector(1,100);
|
Tcode=ivector(1,100);
|
| nbcode=imatrix(1,nvar,1,8);
|
nbcode=imatrix(0,NCOVMAX,0,NCOVMAX);
|
| ncodemax[1]=1;
|
ncodemax[1]=1;
|
| if (cptcovn > 0) tricode(Tvar,nbcode,imx);
|
if (cptcovn > 0) tricode(Tvar,nbcode,imx);
|
|
|
|
|
Line 2076 printf("Total number of individuals= %d,
|
Line 3545 printf("Total number of individuals= %d,
|
| for(j=1; j <= ncodemax[k]; j++){
|
for(j=1; j <= ncodemax[k]; j++){
|
| for(cpt=1; cpt <=(m/pow(2,cptcoveff+1-k)); cpt++){
|
for(cpt=1; cpt <=(m/pow(2,cptcoveff+1-k)); cpt++){
|
| h++;
|
h++;
|
| if (h>m) h=1;codtab[h][k]=j;
|
if (h>m) h=1;codtab[h][k]=j;codtab[h][Tvar[k]]=j;
|
| |
/* printf("h=%d k=%d j=%d codtab[h][k]=%d tvar[k]=%d \n",h, k,j,codtab[h][k],Tvar[k]);*/
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
|
|
/* printf("codtab[1][2]=%d codtab[2][2]=%d",codtab[1][2],codtab[2][2]);
|
|
|
codtab[1][2]=1;codtab[2][2]=2; */
|
| /*for(i=1; i <=m ;i++){
|
/* for(i=1; i <=m ;i++){
|
| for(k=1; k <=cptcovn; k++){
|
for(k=1; k <=cptcovn; k++){
|
| printf("i=%d k=%d %d %d",i,k,codtab[i][k], cptcoveff);
|
printf("i=%d k=%d %d %d ",i,k,codtab[i][k], cptcoveff);
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| }
|
}
|
| scanf("%d",i);*/
|
scanf("%d",i);*/
|
|
|
|
| /* 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 */
|
| savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
| oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
|
|
|
| /* For Powell, parameters are in a vector p[] starting at p[1]
|
/* For Powell, parameters are in a vector p[] starting at p[1]
|
| so we point p on param[1][1] so that p[1] maps on param[1][1][1] */
|
so we point p on param[1][1] so that p[1] maps on param[1][1][1] */
|
| p=param[1][1]; /* *(*(*(param +1)+1)+0) */
|
p=param[1][1]; /* *(*(*(param +1)+1)+0) */
|
|
Line 2110 printf("Total number of individuals= %d,
|
Line 3581 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");
|
| |
fprintf(ficlog,"# 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)
|
| {
|
{
|
| printf("%d%d ",i,k);
|
printf("%d%d ",i,k);
|
| |
fprintf(ficlog,"%d%d ",i,k);
|
| fprintf(ficres,"%1d%1d ",i,k);
|
fprintf(ficres,"%1d%1d ",i,k);
|
| for(j=1; j <=ncovmodel; j++){
|
for(j=1; j <=ncovmodel; j++){
|
| printf("%f ",p[jk]);
|
printf("%f ",p[jk]);
|
| |
fprintf(ficlog,"%f ",p[jk]);
|
| fprintf(ficres,"%f ",p[jk]);
|
fprintf(ficres,"%f ",p[jk]);
|
| jk++;
|
jk++;
|
| }
|
}
|
| printf("\n");
|
printf("\n");
|
| |
fprintf(ficlog,"\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");
|
|
| printf("# Scales\n");
|
|
| for(i=1,jk=1; i <=nlstate; i++){
|
|
| for(j=1; j <=nlstate+ndeath; j++){
|
|
| if (j!=i) {
|
|
| fprintf(ficres,"%1d%1d",i,j);
|
|
| printf("%1d%1d",i,j);
|
|
| for(k=1; k<=ncovmodel;k++){
|
|
| printf(" %.5e",delti[jk]);
|
|
| fprintf(ficres," %.5e",delti[jk]);
|
|
| jk++;
|
|
| }
|
|
| printf("\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);
|
|
| }
|
}
|
| }
|
fprintf(ficres,"# Scales (for hessian or gradient estimation)\n");
|
| /*2 eme*/
|
printf("# Scales (for hessian or gradient estimation)\n");
|
|
|
fprintf(ficlog,"# Scales (for hessian or gradient estimation)\n");
|
| 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(i=1,jk=1; i <=nlstate; i++){
|
| for(k=1; k <=(nlstate+ndeath); k++){
|
for(j=1; j <=nlstate+ndeath; j++){
|
| if (k != i) {
|
if (j!=i) {
|
| for(j=1; j <=ncovmodel; j++){
|
fprintf(ficres,"%1d%1d",i,j);
|
| /*fprintf(ficgp,"%s%1d%1d=%f ",alph[j],i,k,p[jk]);*/
|
printf("%1d%1d",i,j);
|
| /*fprintf(ficgp,"%s",alph[1]);*/
|
fprintf(ficlog,"%1d%1d",i,j);
|
| fprintf(ficgp,"p%d=%f ",jk,p[jk]);
|
for(k=1; k<=ncovmodel;k++){
|
| jk++;
|
printf(" %.5e",delti[jk]);
|
| fprintf(ficgp,"\n");
|
fprintf(ficlog," %.5e",delti[jk]);
|
| }
|
fprintf(ficres," %.5e",delti[jk]);
|
| }
|
jk++;
|
| }
|
}
|
| }
|
printf("\n");
|
|
|
fprintf(ficlog,"\n");
|
| for(jk=1; jk <=m; jk++) {
|
fprintf(ficres,"\n");
|
| fprintf(ficgp,"\nset ter gif small size 400,300\nset log y\nplot [%.f:%.f] ",agemin,agemax);
|
|
| 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);
|
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");
|
| |
if(mle==1)
|
| |
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");
|
| |
fprintf(ficlog,"# 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);
|
| |
if(mle==1)
|
| |
printf("%3d",i);
|
| |
fprintf(ficlog,"%3d",i);
|
| |
for(j=1; j<=i;j++){
|
| |
fprintf(ficres," %.5e",matcov[i][j]);
|
| |
if(mle==1)
|
| |
printf(" %.5e",matcov[i][j]);
|
| |
fprintf(ficlog," %.5e",matcov[i][j]);
|
| |
}
|
| |
fprintf(ficres,"\n");
|
| |
if(mle==1)
|
| |
printf("\n");
|
| |
fprintf(ficlog,"\n");
|
| |
k++;
|
| |
}
|
|
|
|
| chdir(path);
|
while((c=getc(ficpar))=='#' && c!= EOF){
|
| free_matrix(agev,1,maxwav,1,imx);
|
ungetc(c,ficpar);
|
| free_ivector(wav,1,imx);
|
fgets(line, MAXLINE, ficpar);
|
| free_imatrix(dh,1,lastpass-firstpass+1,1,imx);
|
puts(line);
|
| free_imatrix(mw,1,lastpass-firstpass+1,1,imx);
|
fputs(line,ficparo);
|
|
|
}
|
| free_imatrix(s,1,maxwav+1,1,n);
|
ungetc(c,ficpar);
|
|
|
estepm=0;
|
|
|
fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm);
|
| free_ivector(num,1,n);
|
if (estepm==0 || estepm < stepm) estepm=stepm;
|
| free_vector(agedc,1,n);
|
if (fage <= 2) {
|
| free_vector(weight,1,n);
|
bage = ageminpar;
|
| /*free_matrix(covar,1,NCOVMAX,1,n);*/
|
fage = agemaxpar;
|
| fclose(ficparo);
|
}
|
| fclose(ficres);
|
|
| /* }*/
|
|
|
|
|
| /*________fin mle=1_________*/
|
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 estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm);
|
| |
fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm);
|
| |
|
| |
while((c=getc(ficpar))=='#' && c!= EOF){
|
| |
ungetc(c,ficpar);
|
| |
fgets(line, MAXLINE, ficpar);
|
| |
puts(line);
|
| |
fputs(line,ficparo);
|
| |
}
|
| |
ungetc(c,ficpar);
|
| |
|
| |
fscanf(ficpar,"begin-prev-date=%lf/%lf/%lf end-prev-date=%lf/%lf/%lf\n",&jprev1, &mprev1,&anprev1,&jprev2, &mprev2,&anprev2);
|
| |
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){
|
| |
ungetc(c,ficpar);
|
| |
fgets(line, MAXLINE, ficpar);
|
| |
puts(line);
|
| |
fputs(line,ficparo);
|
| |
}
|
| |
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);
|
|
|
|
| /* No more information from the sample is required now */
|
|
| /* Reads comments: lines beginning with '#' */
|
|
| 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 2386 chdir(path);
|
Line 3715 chdir(path);
|
| fputs(line,ficparo);
|
fputs(line,ficparo);
|
| }
|
}
|
| ungetc(c,ficpar);
|
ungetc(c,ficpar);
|
|
|
|
| fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf\n",&agemin,&agemax, &bage, &fage);
|
|
| printf("agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemax, bage, fage);
|
|
| fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f\n",agemin,agemax,bage,fage);
|
|
| /*--------- index.htm --------*/
|
|
|
|
|
| if((fichtm=fopen("index.htm","w"))==NULL) {
|
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);
|
| printf("Problem with index.htm \n");goto end;
|
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);
|
| |
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);
|
| |
|
| |
|
| |
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> Imach, Version 0.64a<hr> <li>Outputs files<br><br>\n
|
fscanf(ficpar,"popforecast=%d popfile=%s popfiledate=%lf/%lf/%lf last-popfiledate=%lf/%lf/%lf\n",&popforecast,popfile,&jpyram,&mpyram,&anpyram,&jpyram1,&mpyram1,&anpyram1);
|
| - Observed prevalence in each state: <a href=\"p%s\">p%s</a> <br>\n
|
fprintf(ficparo,"popforecast=%d popfile=%s popfiledate=%.lf/%.lf/%.lf last-popfiledate=%.lf/%.lf/%.lf\n",popforecast,popfile,jpyram,mpyram,anpyram,jpyram1,mpyram1,anpyram1);
|
| - Estimated parameters and the covariance matrix: <a href=\"%s\">%s</a> <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);
|
| - 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><br>",fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres,fileres);
|
|
|
|
|
| fprintf(fichtm," <li>Graphs</li>\n<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;}
|
strcpy(optionfilegnuplot,optionfilefiname);
|
| |
strcat(optionfilegnuplot,".gp");
|
| |
if((ficgp=fopen(optionfilegnuplot,"w"))==NULL) {
|
| |
printf("Problem with file %s",optionfilegnuplot);
|
| |
}
|
| |
fclose(ficgp);
|
| |
printinggnuplot(fileres, ageminpar,agemaxpar,fage, pathc,p);
|
| |
/*--------- index.htm --------*/
|
| |
|
| |
strcpy(optionfilehtm,optionfile);
|
| |
strcat(optionfilehtm,".htm");
|
| |
if((fichtm=fopen(optionfilehtm,"w"))==NULL) {
|
| |
printf("Problem with %s \n",optionfilehtm), exit(0);
|
| |
}
|
| |
|
| |
fprintf(fichtm,"<body> <font size=\"2\">%s </font> <hr size=\"2\" color=\"#EC5E5E\"> \n
|
| |
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s<br>\n
|
| |
\n
|
| |
Total number of observations=%d <br>\n
|
| |
Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf<br>\n
|
| |
<hr size=\"2\" color=\"#EC5E5E\">
|
| |
<ul><li><h4>Parameter files</h4>\n
|
| |
- Copy of the parameter file: <a href=\"o%s\">o%s</a><br>\n
|
| |
- Log file of the run: <a href=\"%s\">%s</a><br>\n
|
| |
- Gnuplot file name: <a href=\"%s\">%s</a></ul>\n",version,title,datafile,firstpass,lastpass,stepm, weightopt,model,imx,jmin,jmax,jmean,fileres,fileres,filelog,filelog,optionfilegnuplot,optionfilegnuplot);
|
| |
fclose(fichtm);
|
| |
|
| |
printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,model,imx,jmin,jmax,jmean,rfileres,popforecast,estepm,jprev1,mprev1,anprev1,jprev2,mprev2,anprev2);
|
| |
|
| |
/*------------ 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;
|
|
| for(k1=1; k1<=m;k1++){
|
|
| for(i1=1; i1<=ncodemax[k1];i1++){
|
|
| j1++;
|
|
| if (cptcovn > 0) {
|
|
| fprintf(fichtm,"<hr>************ 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>");
|
|
| }
|
|
| 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);
|
|
|
|
|
| /*--------------- Prevalence limit --------------*/
|
/*--------------- Prevalence limit --------------*/
|
|
|
|
|
Line 2451 fclose(fichtm);
|
Line 3784 fclose(fichtm);
|
| strcat(filerespl,fileres);
|
strcat(filerespl,fileres);
|
| if((ficrespl=fopen(filerespl,"w"))==NULL) {
|
if((ficrespl=fopen(filerespl,"w"))==NULL) {
|
| printf("Problem with Prev limit resultfile: %s\n", filerespl);goto end;
|
printf("Problem with Prev limit resultfile: %s\n", filerespl);goto end;
|
| |
fprintf(ficlog,"Problem with Prev limit resultfile: %s\n", filerespl);goto end;
|
| }
|
}
|
| printf("Computing prevalence limit: result on file '%s' \n", filerespl);
|
printf("Computing prevalence limit: result on file '%s' \n", filerespl);
|
| |
fprintf(ficlog,"Computing prevalence limit: result on file '%s' \n", filerespl);
|
| fprintf(ficrespl,"#Prevalence limit\n");
|
fprintf(ficrespl,"#Prevalence limit\n");
|
| fprintf(ficrespl,"#Age ");
|
fprintf(ficrespl,"#Age ");
|
| for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i);
|
for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i);
|
|
Line 2465 fclose(fichtm);
|
Line 3800 fclose(fichtm);
|
| savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
|
| oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */
|
| k=0;
|
k=0;
|
| agebase=agemin;
|
agebase=ageminpar;
|
| 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 2476 fclose(fichtm);
|
Line 3811 fclose(fichtm);
|
| k=k+1;
|
k=k+1;
|
| /*printf("cptcov=%d cptcod=%d codtab=%d nbcode=%d\n",cptcov, cptcod,Tcode[cptcode],codtab[cptcod][cptcov]);*/
|
/*printf("cptcov=%d cptcod=%d codtab=%d nbcode=%d\n",cptcov, cptcod,Tcode[cptcode],codtab[cptcod][cptcov]);*/
|
| fprintf(ficrespl,"\n#******");
|
fprintf(ficrespl,"\n#******");
|
| for(j=1;j<=cptcoveff;j++)
|
printf("\n#******");
|
| |
fprintf(ficlog,"\n#******");
|
| |
for(j=1;j<=cptcoveff;j++) {
|
| fprintf(ficrespl," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
fprintf(ficrespl," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| |
printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| |
fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| |
}
|
| fprintf(ficrespl,"******\n");
|
fprintf(ficrespl,"******\n");
|
| |
printf("******\n");
|
| |
fprintf(ficlog,"******\n");
|
|
|
|
| for (age=agebase; age<=agelim; age++){
|
for (age=agebase; age<=agelim; age++){
|
| prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k);
|
prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k);
|
|
Line 2490 fclose(fichtm);
|
Line 3832 fclose(fichtm);
|
| }
|
}
|
| }
|
}
|
| fclose(ficrespl);
|
fclose(ficrespl);
|
| |
|
| /*------------- h Pij x at various ages ------------*/
|
/*------------- h Pij x at various ages ------------*/
|
|
|
|
| strcpy(filerespij,"pij"); strcat(filerespij,fileres);
|
strcpy(filerespij,"pij"); strcat(filerespij,fileres);
|
| if((ficrespij=fopen(filerespij,"w"))==NULL) {
|
if((ficrespij=fopen(filerespij,"w"))==NULL) {
|
| printf("Problem with Pij resultfile: %s\n", filerespij);goto end;
|
printf("Problem with Pij resultfile: %s\n", filerespij);goto end;
|
| |
fprintf(ficlog,"Problem with Pij resultfile: %s\n", filerespij);goto end;
|
| }
|
}
|
| printf("Computing pij: result on file '%s' \n", filerespij);
|
printf("Computing pij: result on file '%s' \n", filerespij);
|
| |
fprintf(ficlog,"Computing pij: result on file '%s' \n", filerespij);
|
|
|
|
| stepsize=(int) (stepm+YEARM-1)/YEARM;
|
stepsize=(int) (stepm+YEARM-1)/YEARM;
|
| if (stepm<=24) stepsize=2;
|
/*if (stepm<=24) stepsize=2;*/
|
|
|
|
| agelim=AGESUP;
|
agelim=AGESUP;
|
| hstepm=stepsize*YEARM; /* Every year of age */
|
hstepm=stepsize*YEARM; /* Every year of age */
|
| hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */
|
hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */
|
|
|
|
| |
/* hstepm=1; aff par mois*/
|
| |
|
| 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++){
|
|
Line 2517 fclose(fichtm);
|
Line 3864 fclose(fichtm);
|
| for (agedeb=fage; agedeb>=bage; agedeb--){ /* If stepm=6 months */
|
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=(int) rint((agelim-agedeb)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */
|
| nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */
|
nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */
|
| |
|
| |
/* nhstepm=nhstepm*YEARM; aff par mois*/
|
| |
|
| p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| oldm=oldms;savm=savms;
|
oldm=oldms;savm=savms;
|
| hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
hpxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k);
|
|
Line 2525 fclose(fichtm);
|
Line 3875 fclose(fichtm);
|
| for(j=1; j<=nlstate+ndeath;j++)
|
for(j=1; j<=nlstate+ndeath;j++)
|
| fprintf(ficrespij," %1d-%1d",i,j);
|
fprintf(ficrespij," %1d-%1d",i,j);
|
| fprintf(ficrespij,"\n");
|
fprintf(ficrespij,"\n");
|
| for (h=0; h<=nhstepm; h++){
|
for (h=0; h<=nhstepm; h++){
|
| fprintf(ficrespij,"%d %.0f %.0f",k,agedeb, agedeb+ h*hstepm/YEARM*stepm );
|
fprintf(ficrespij,"%d %f %f",k,agedeb, agedeb+ h*hstepm/YEARM*stepm );
|
| for(i=1; i<=nlstate;i++)
|
for(i=1; i<=nlstate;i++)
|
| for(j=1; j<=nlstate+ndeath;j++)
|
for(j=1; j<=nlstate+ndeath;j++)
|
| fprintf(ficrespij," %.5f", p3mat[i][j][h]);
|
fprintf(ficrespij," %.5f", p3mat[i][j][h]);
|
| fprintf(ficrespij,"\n");
|
fprintf(ficrespij,"\n");
|
| }
|
}
|
| free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
|
| fprintf(ficrespij,"\n");
|
fprintf(ficrespij,"\n");
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
|
|
|
| |
varprob(optionfilefiname, matcov, p, delti, nlstate, (int) bage, (int) fage,k,Tvar,nbcode, ncodemax);
|
| |
|
| fclose(ficrespij);
|
fclose(ficrespij);
|
|
|
|
| |
|
| |
/*---------- Forecasting ------------------*/
|
| |
if((stepm == 1) && (strcmp(model,".")==0)){
|
| |
prevforecast(fileres, anproj1,mproj1,jproj1, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anproj2,p, i1);
|
| |
if (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);
|
| |
}
|
| |
else{
|
| |
erreur=108;
|
| |
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);
|
| |
fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model);
|
| |
}
|
| |
|
| |
|
| /*---------- Health expectancies and variances ------------*/
|
/*---------- Health expectancies and variances ------------*/
|
|
|
|
| strcpy(filerest,"t");
|
strcpy(filerest,"t");
|
| strcat(filerest,fileres);
|
strcat(filerest,fileres);
|
| if((ficrest=fopen(filerest,"w"))==NULL) {
|
if((ficrest=fopen(filerest,"w"))==NULL) {
|
| printf("Problem with total LE resultfile: %s\n", filerest);goto end;
|
printf("Problem with total LE resultfile: %s\n", filerest);goto end;
|
| |
fprintf(ficlog,"Problem with total LE resultfile: %s\n", filerest);goto end;
|
| }
|
}
|
| printf("Computing Total LEs with variances: file '%s' \n", filerest);
|
printf("Computing Total LEs with variances: file '%s' \n", filerest);
|
| |
fprintf(ficlog,"Computing Total LEs with variances: file '%s' \n", filerest);
|
|
|
|
|
|
|
| strcpy(filerese,"e");
|
strcpy(filerese,"e");
|
| strcat(filerese,fileres);
|
strcat(filerese,fileres);
|
| if((ficreseij=fopen(filerese,"w"))==NULL) {
|
if((ficreseij=fopen(filerese,"w"))==NULL) {
|
| printf("Problem with Health Exp. resultfile: %s\n", filerese); exit(0);
|
printf("Problem with Health Exp. resultfile: %s\n", filerese); exit(0);
|
| |
fprintf(ficlog,"Problem with Health Exp. resultfile: %s\n", filerese); exit(0);
|
| }
|
}
|
| printf("Computing Health Expectancies: result on file '%s' \n", filerese);
|
printf("Computing Health Expectancies: result on file '%s' \n", filerese);
|
| |
fprintf(ficlog,"Computing Health Expectancies: result on file '%s' \n", filerese);
|
|
|
|
| strcpy(fileresv,"v");
|
strcpy(fileresv,"v");
|
| strcat(fileresv,fileres);
|
strcat(fileresv,fileres);
|
| if((ficresvij=fopen(fileresv,"w"))==NULL) {
|
if((ficresvij=fopen(fileresv,"w"))==NULL) {
|
| printf("Problem with variance resultfile: %s\n", fileresv);exit(0);
|
printf("Problem with variance resultfile: %s\n", fileresv);exit(0);
|
| |
fprintf(ficlog,"Problem with variance resultfile: %s\n", fileresv);exit(0);
|
| }
|
}
|
| printf("Computing Variance-covariance of DFLEs: file '%s' \n", fileresv);
|
printf("Computing Variance-covariance of DFLEs: file '%s' \n", fileresv);
|
| |
fprintf(ficlog,"Computing Variance-covariance of DFLEs: file '%s' \n", fileresv);
|
| |
calagedate=-1;
|
| |
prevalence(ageminpar, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax,mint,anint,dateprev1,dateprev2, calagedate);
|
|
|
|
| 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(ficrest,"\n#****** ");
|
fprintf(ficrest,"\n#****** ");
|
| for(j=1;j<=cptcoveff;j++)
|
for(j=1;j<=cptcoveff;j++)
|
| fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
|
Line 2575 fclose(fichtm);
|
Line 3948 fclose(fichtm);
|
|
|
|
| fprintf(ficreseij,"\n#****** ");
|
fprintf(ficreseij,"\n#****** ");
|
| for(j=1;j<=cptcoveff;j++)
|
for(j=1;j<=cptcoveff;j++)
|
| fprintf(ficreseij,"V%d=%d ",j,nbcode[j][codtab[k][j]]);
|
fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| fprintf(ficreseij,"******\n");
|
fprintf(ficreseij,"******\n");
|
|
|
|
| fprintf(ficresvij,"\n#****** ");
|
fprintf(ficresvij,"\n#****** ");
|
| for(j=1;j<=cptcoveff;j++)
|
for(j=1;j<=cptcoveff;j++)
|
| fprintf(ficresvij,"V%d=%d ",j,nbcode[j][codtab[k][j]]);
|
fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]);
|
| fprintf(ficresvij,"******\n");
|
fprintf(ficresvij,"******\n");
|
|
|
|
| eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);
|
eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);
|
| oldm=oldms;savm=savms;
|
oldm=oldms;savm=savms;
|
| 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, estepm, delti, matcov);
|
| |
|
| 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(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k, estepm, cptcov,cptcod,0);
|
|
|
if(popbased==1){
|
| |
varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k, estepm, cptcov,cptcod,popbased);
|
| |
}
|
| |
|
| |
|
| 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);
|
| fprintf(ficrest," %.0f",age);
|
if (popbased==1) {
|
| |
for(i=1; i<=nlstate;i++)
|
| |
prlim[i][i]=probs[(int)age][i][k];
|
| |
}
|
| |
|
| |
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];
|
| |
/* printf("%lf %lf ", 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," %7.3f (%7.3f)", 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," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age]));
|
| }
|
}
|
| fprintf(ficrest,"\n");
|
fprintf(ficrest,"\n");
|
| }
|
}
|
| }
|
}
|
| }
|
}
|
|
|
free_matrix(mint,1,maxwav,1,n);
|
| fclose(ficreseij);
|
free_matrix(anint,1,maxwav,1,n); free_imatrix(s,1,maxwav+1,1,n);
|
| fclose(ficresvij);
|
free_vector(weight,1,n);
|
| |
fclose(ficreseij);
|
| |
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 2635 strcpy(fileresvpl,"vpl");
|
Line 4019 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 2663 strcpy(fileresvpl,"vpl");
|
Line 4047 strcpy(fileresvpl,"vpl");
|
| free_matrix(oldms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
free_matrix(oldms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
| free_matrix(newms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
free_matrix(newms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
| free_matrix(savms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
free_matrix(savms, 1,nlstate+ndeath,1,nlstate+ndeath);
|
|
|
|
| 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");
|
fprintf(fichtm,"\n</body>");
|
| |
fclose(fichtm);
|
| |
fclose(ficgp);
|
| |
|
| |
|
| |
if(erreur >0){
|
| |
printf("End of Imach with error or warning %d\n",erreur);
|
| |
fprintf(ficlog,"End of Imach with error or warning %d\n",erreur);
|
| |
}else{
|
| |
printf("End of Imach\n");
|
| |
fprintf(ficlog,"End of Imach\n");
|
| |
}
|
| |
printf("See log file on %s\n",filelog);
|
| |
fclose(ficlog);
|
| /* 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);*/
|
| /*printf("Total time was %d uSec.\n", total_usecs);*/
|
/*printf("Total time was %d uSec.\n", total_usecs);*/
|
| /*------ End -----------*/
|
/*------ End -----------*/
|
|
|
|
| |
|
| end:
|
end:
|
| #ifdef windows
|
#ifdef windows
|
| chdir(pathcd);
|
/* chdir(pathcd);*/
|
| #endif
|
#endif
|
| system("wgnuplot graph.plt");
|
/*system("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, g to graph again, 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");
|
| else if (z[0] == 'e') {
|
else if (z[0] == 'e') system(optionfilehtm);
|
| chdir(path);
|
else if (z[0] == 'g') system(plotcmd);
|
| system("index.htm");
|
|
| }
|
|
| else if (z[0] == 'q') exit(0);
|
else if (z[0] == 'q') exit(0);
|
| }
|
}
|
| #endif
|
#endif
|
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