[BACK]Return to imach.c CVS log [TXT] [DIR] Up to [Local Repository] / imach / src

Diff for /imach/src/imach.c between versions 1.291 and 1.302

version 1.291, 2019/05/09 13:44:18 version 1.302, 2020/02/22 21:00:05
Line 1 Line 1
 /* $Id$  /* $Id$
   $State$    $State$
   $Log$    $Log$
     Revision 1.302  2020/02/22 21:00:05  brouard
     *  (Module): imach.c Update mle=-3 (for computing Life expectancy
     and life table from the data without any state)
   
     Revision 1.301  2019/06/04 13:51:20  brouard
     Summary: Error in 'r'parameter file backcast yearsbproj instead of yearsfproj
   
     Revision 1.300  2019/05/22 19:09:45  brouard
     Summary: version 0.99r19 of May 2019
   
     Revision 1.299  2019/05/22 18:37:08  brouard
     Summary: Cleaned 0.99r19
   
     Revision 1.298  2019/05/22 18:19:56  brouard
     *** empty log message ***
   
     Revision 1.297  2019/05/22 17:56:10  brouard
     Summary: Fix bug by moving date2dmy and nhstepm which gaefin=-1
   
     Revision 1.296  2019/05/20 13:03:18  brouard
     Summary: Projection syntax simplified
   
   
     We can now start projections, forward or backward, from the mean date
     of inteviews up to or down to a number of years of projection:
     prevforecast=1 yearsfproj=15.3 mobil_average=0
     or
     prevforecast=1 starting-proj-date=1/1/2007 final-proj-date=12/31/2017 mobil_average=0
     or
     prevbackcast=1 yearsbproj=12.3 mobil_average=1
     or
     prevbackcast=1 starting-back-date=1/10/1999 final-back-date=1/1/1985 mobil_average=1
   
     Revision 1.295  2019/05/18 09:52:50  brouard
     Summary: doxygen tex bug
   
     Revision 1.294  2019/05/16 14:54:33  brouard
     Summary: There was some wrong lines added
   
     Revision 1.293  2019/05/09 15:17:34  brouard
     *** empty log message ***
   
     Revision 1.292  2019/05/09 14:17:20  brouard
     Summary: Some updates
   
   Revision 1.291  2019/05/09 13:44:18  brouard    Revision 1.291  2019/05/09 13:44:18  brouard
   Summary: Before ncovmax    Summary: Before ncovmax
   
Line 1085  typedef struct { Line 1130  typedef struct {
 /* $State$ */  /* $State$ */
 #include "version.h"  #include "version.h"
 char version[]=__IMACH_VERSION__;  char version[]=__IMACH_VERSION__;
 char copyright[]="April 2018,INED-EUROREVES-Institut de longevite-Japan Society for the Promotion of Science (Grant-in-Aid for Scientific Research 25293121), Intel Software 2015-2018";  char copyright[]="May 2019,INED-EUROREVES-Institut de longevite-Japan Society for the Promotion of Science (Grant-in-Aid for Scientific Research 25293121), Intel Software 2015-2020";
 char fullversion[]="$Revision$ $Date$";   char fullversion[]="$Revision$ $Date$"; 
 char strstart[80];  char strstart[80];
 char optionfilext[10], optionfilefiname[FILENAMELENGTH];  char optionfilext[10], optionfilefiname[FILENAMELENGTH];
Line 1111  int nqtveff=0; /**< ntqveff number of ef Line 1156  int nqtveff=0; /**< ntqveff number of ef
 int cptcov=0; /* Working variable */  int cptcov=0; /* Working variable */
 int nobs=10;  /* Number of observations in the data lastobs-firstobs */  int nobs=10;  /* Number of observations in the data lastobs-firstobs */
 int ncovcombmax=NCOVMAX; /* Maximum calculated number of covariate combination = pow(2, cptcoveff) */  int ncovcombmax=NCOVMAX; /* Maximum calculated number of covariate combination = pow(2, cptcoveff) */
 int npar=NPARMAX;  int npar=NPARMAX; /* Number of parameters (nlstate+ndeath-1)*nlstate*ncovmodel; */
 int nlstate=2; /* Number of live states */  int nlstate=2; /* Number of live states */
 int ndeath=1; /* Number of dead states */  int ndeath=1; /* Number of dead states */
 int ncovmodel=0, ncovcol=0;     /* Total number of covariables including constant a12*1 +b12*x ncovmodel=2 */  int ncovmodel=0, ncovcol=0;     /* Total number of covariables including constant a12*1 +b12*x ncovmodel=2 */
Line 1250  double **pmmij, ***probs; /* Global poin Line 1295  double **pmmij, ***probs; /* Global poin
 double ***mobaverage, ***mobaverages; /* New global variable */  double ***mobaverage, ***mobaverages; /* New global variable */
 double *ageexmed,*agecens;  double *ageexmed,*agecens;
 double dateintmean=0;  double dateintmean=0;
     double anprojd, mprojd, jprojd; /* For eventual projections */
     double anprojf, mprojf, jprojf;
   
     double anbackd, mbackd, jbackd; /* For eventual backprojections */
     double anbackf, mbackf, jbackf;
     double jintmean,mintmean,aintmean;  
 double *weight;  double *weight;
 int **s; /* Status */  int **s; /* Status */
 double *agedc;  double *agedc;
Line 2369  void powell(double p[], double **xi, int Line 2419  void powell(double p[], double **xi, int
     /* But p and xit have been updated at the end of linmin, *fret corresponds to new p, xit  */      /* But p and xit have been updated at the end of linmin, *fret corresponds to new p, xit  */
     /* New value of last point Pn is not computed, P(n-1) */      /* New value of last point Pn is not computed, P(n-1) */
       for(j=1;j<=n;j++) {        for(j=1;j<=n;j++) {
                                 if(flatdir[j] >0){          if(flatdir[j] >0){
                                         printf(" p(%d)=%lf flat=%d ",j,p[j],flatdir[j]);            printf(" p(%d)=%lf flat=%d ",j,p[j],flatdir[j]);
                                         fprintf(ficlog," p(%d)=%lf flat=%d ",j,p[j],flatdir[j]);            fprintf(ficlog," p(%d)=%lf flat=%d ",j,p[j],flatdir[j]);
                                 }          }
                                 /* printf("\n"); */          /* printf("\n"); */
                                 /* fprintf(ficlog,"\n"); */          /* fprintf(ficlog,"\n"); */
                         }        }
     /* if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret))) { /\* Did we reach enough precision? *\/ */      /* if (2.0*fabs(fp-(*fret)) <= ftol*(fabs(fp)+fabs(*fret))) { /\* Did we reach enough precision? *\/ */
     if (2.0*fabs(fp-(*fret)) <= ftol) { /* Did we reach enough precision? */      if (2.0*fabs(fp-(*fret)) <= ftol) { /* Did we reach enough precision? */
       /* We could compare with a chi^2. chisquare(0.95,ddl=1)=3.84 */        /* We could compare with a chi^2. chisquare(0.95,ddl=1)=3.84 */
Line 2963  double **pmij(double **ps, double *cov, Line 3013  double **pmij(double **ps, double *cov,
       ps[ii][ii]=1;        ps[ii][ii]=1;
     }      }
   }    }
     
     
   /* for(ii=1; ii<= nlstate+ndeath; ii++){ */    /* for(ii=1; ii<= nlstate+ndeath; ii++){ */
   /*   for(jj=1; jj<= nlstate+ndeath; jj++){ */    /*   for(jj=1; jj<= nlstate+ndeath; jj++){ */
   /*    printf(" pmij  ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */    /*    printf(" pmij  ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */
Line 2984  double **pmij(double **ps, double *cov, Line 3034  double **pmij(double **ps, double *cov,
 /* double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate,  double ***prevacurrent, double ***dnewm, double **doldm, double **dsavm, int ij ) */  /* double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate,  double ***prevacurrent, double ***dnewm, double **doldm, double **dsavm, int ij ) */
  double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate,  double ***prevacurrent, int ij )   double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate,  double ***prevacurrent, int ij )
 {  {
   /* Computes the backward probability at age agefin and covariate combination ij. In fact cov is already filled and x too.    /* Computes the backward probability at age agefin, cov[2], and covariate combination 'ij'. In fact cov is already filled and x too.
    * Call to pmij(cov and x), call to cross prevalence, sums and inverses, left multiply, and returns in **ps as well as **bmij.     * Call to pmij(cov and x), call to cross prevalence, sums and inverses, left multiply, and returns in **ps as well as **bmij.
    */     */
   int i, ii, j,k;    int i, ii, j,k;
Line 2992  double **pmij(double **ps, double *cov, Line 3042  double **pmij(double **ps, double *cov,
   double **out, **pmij();    double **out, **pmij();
   double sumnew=0.;    double sumnew=0.;
   double agefin;    double agefin;
   double k3=0.; /* constant of the w_x diagonal matrixe (in order for B to sum to 1 even for death state) */    double k3=0.; /* constant of the w_x diagonal matrix (in order for B to sum to 1 even for death state) */
   double **dnewm, **dsavm, **doldm;    double **dnewm, **dsavm, **doldm;
   double **bbmij;    double **bbmij;
       
Line 3011  double **pmij(double **ps, double *cov, Line 3061  double **pmij(double **ps, double *cov,
   /* outputs pmmij which is a stochastic matrix in row */    /* outputs pmmij which is a stochastic matrix in row */
   
   /* Diag(w_x) */    /* Diag(w_x) */
   /* Problem with prevacurrent which can be zero */    /* Rescaling the cross-sectional prevalence: Problem with prevacurrent which can be zero */
   sumnew=0.;    sumnew=0.;
   /*for (ii=1;ii<=nlstate+ndeath;ii++){*/    /*for (ii=1;ii<=nlstate+ndeath;ii++){*/
   for (ii=1;ii<=nlstate;ii++){ /* Only on live states */    for (ii=1;ii<=nlstate;ii++){ /* Only on live states */
     /* printf(" agefin=%d, ii=%d, ij=%d, prev=%f\n",(int)agefin,ii, ij, prevacurrent[(int)agefin][ii][ij]);  */      /* printf(" agefin=%d, ii=%d, ij=%d, prev=%f\n",(int)agefin,ii, ij, prevacurrent[(int)agefin][ii][ij]); */
     sumnew+=prevacurrent[(int)agefin][ii][ij];      sumnew+=prevacurrent[(int)agefin][ii][ij];
   }    }
   if(sumnew >0.01){  /* At least some value in the prevalence */    if(sumnew >0.01){  /* At least some value in the prevalence */
Line 3038  double **pmij(double **ps, double *cov, Line 3088  double **pmij(double **ps, double *cov,
   }    }
   /* End doldm, At the end doldm is diag[(w_i)] */    /* End doldm, At the end doldm is diag[(w_i)] */
       
   /* left Product of this diag matrix by pmmij=Px (dnewm=dsavm*doldm) */    /* Left product of this diag matrix by pmmij=Px (dnewm=dsavm*doldm): diag[(w_i)*Px */
   bbmij=matprod2(dnewm, doldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, pmmij); /* Bug Valgrind */    bbmij=matprod2(dnewm, doldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, pmmij); /* was a Bug Valgrind */
   
   /* Diag(Sum_i w^i_x p^ij_x */    /* Diag(Sum_i w^i_x p^ij_x, should be the prevalence at age x+stepm */
   /* w1 p11 + w2 p21 only on live states N1./N..*N11/N1. + N2./N..*N21/N2.=(N11+N21)/N..=N.1/N.. */    /* w1 p11 + w2 p21 only on live states N1./N..*N11/N1. + N2./N..*N21/N2.=(N11+N21)/N..=N.1/N.. */
   for (j=1;j<=nlstate+ndeath;j++){    for (j=1;j<=nlstate+ndeath;j++){
     sumnew=0.;      sumnew=0.;
Line 3059  double **pmij(double **ps, double *cov, Line 3109  double **pmij(double **ps, double *cov,
     } /*End ii */      } /*End ii */
   } /* End j, At the end dsavm is diag[1/(w_1p1i+w_2 p2i)] for ALL states even if the sum is only for live states */    } /* End j, At the end dsavm is diag[1/(w_1p1i+w_2 p2i)] for ALL states even if the sum is only for live states */
   
   ps=matprod2(ps, dnewm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, dsavm); /* Bug Valgrind */    ps=matprod2(ps, dnewm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, dsavm); /* was a Bug Valgrind */
   /* ps is now diag[w_i] * Px * diag [1/(w_1p1i+w_2 p2i)] */    /* ps is now diag[w_i] * Px * diag [1/(w_1p1i+w_2 p2i)] */
   /* end bmij */    /* end bmij */
   return ps; /*pointer is unchanged */    return ps; /*pointer is unchanged */
Line 3131  double **bpmij(double **ps, double *cov, Line 3181  double **bpmij(double **ps, double *cov,
       ps[ii][ii]=1;        ps[ii][ii]=1;
     }      }
   }    }
   /* Added for backcast */ /* Transposed matrix too */    /* Added for prevbcast */ /* Transposed matrix too */
   for(jj=1; jj<= nlstate+ndeath; jj++){    for(jj=1; jj<= nlstate+ndeath; jj++){
     s1=0.;      s1=0.;
     for(ii=1; ii<= nlstate+ndeath; ii++){      for(ii=1; ii<= nlstate+ndeath; ii++){
Line 3891  return -l; Line 3941  return -l;
   
   
 /*************** function likelione ***********/  /*************** function likelione ***********/
 void likelione(FILE *ficres,double p[], int npar, int nlstate, int *globpri, long *ipmx, double *sw, double *fretone, double (*funcone)(double []))  void likelione(FILE *ficres,double p[], int npar, int nlstate, int *globpri, long *ipmx, double *sw, double *fretone, double (*func)(double []))
 {  {
   /* This routine should help understanding what is done with     /* This routine should help understanding what is done with 
      the selection of individuals/waves and       the selection of individuals/waves and
Line 3915  void likelione(FILE *ficres,double p[], Line 3965  void likelione(FILE *ficres,double p[],
     fprintf(ficresilk," -2*gipw/gsw*weight*ll(total)\n");      fprintf(ficresilk," -2*gipw/gsw*weight*ll(total)\n");
   }    }
   
   *fretone=(*funcone)(p);    *fretone=(*func)(p);
   if(*globpri !=0){    if(*globpri !=0){
     fclose(ficresilk);      fclose(ficresilk);
     if (mle ==0)      if (mle ==0)
Line 4390  void pstamp(FILE *fichier) Line 4440  void pstamp(FILE *fichier)
   fprintf(fichier,"# %s.%s\n#IMaCh version %s, %s\n#%s\n# %s", optionfilefiname,optionfilext,version,copyright, fullversion, strstart);    fprintf(fichier,"# %s.%s\n#IMaCh version %s, %s\n#%s\n# %s", optionfilefiname,optionfilext,version,copyright, fullversion, strstart);
 }  }
   
   void date2dmy(double date,double *day, double *month, double *year){
     double yp=0., yp1=0., yp2=0.;
     
     yp1=modf(date,&yp);/* extracts integral of date in yp  and
                           fractional in yp1 */
     *year=yp;
     yp2=modf((yp1*12),&yp);
     *month=yp;
     yp1=modf((yp2*30.5),&yp);
     *day=yp;
     if(*day==0) *day=1;
     if(*month==0) *month=1;
   }
   
   
   
 /************ Frequencies ********************/  /************ Frequencies ********************/
Line 4964  Title=%s <br>Datafile=%s Firstpass=%d La Line 5028  Title=%s <br>Datafile=%s Firstpass=%d La
     }      }
   } /* end mle=-2 */    } /* end mle=-2 */
   dateintmean=dateintsum/k2cpt;     dateintmean=dateintsum/k2cpt; 
     date2dmy(dateintmean,&jintmean,&mintmean,&aintmean);
       
   fclose(ficresp);    fclose(ficresp);
   fclose(ficresphtm);    fclose(ficresphtm);
Line 5157  void prevalence(double ***probs, double Line 5222  void prevalence(double ***probs, double
   
 void  concatwav(int wav[], int **dh, int **bh,  int **mw, int **s, double *agedc, double **agev, int  firstpass, int lastpass, int imx, int nlstate, int stepm)  void  concatwav(int wav[], int **dh, int **bh,  int **mw, int **s, double *agedc, double **agev, int  firstpass, int lastpass, int imx, int nlstate, int stepm)
 {  {
   /* Concatenates waves: wav[i] is the number of effective (useful waves) of individual i.    /* Concatenates waves: wav[i] is the number of effective (useful waves in the sense that a non interview is useless) of individual i.
      Death is a valid wave (if date is known).       Death is a valid wave (if date is known).
      mw[mi][i] is the mi (mi=1 to wav[i])  effective wave of individual i       mw[mi][i] is the mi (mi=1 to wav[i])  effective wave of individual i
      dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective waves m=mw[mi][i]       dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective waves m=mw[mi][i]
      and mw[mi+1][i]. dh depends on stepm.       and mw[mi+1][i]. dh depends on stepm. s[m][i] exists for any wave from firstpass to lastpass
   */    */
   
   int i=0, mi=0, m=0, mli=0;    int i=0, mi=0, m=0, mli=0;
Line 5199  void  concatwav(int wav[], int **dh, int Line 5264  void  concatwav(int wav[], int **dh, int
 #else  #else
         if(s[m][i]==-1 && (int) andc[i] == 9999 && (int)anint[m][i] != 9999){          if(s[m][i]==-1 && (int) andc[i] == 9999 && (int)anint[m][i] != 9999){
           if(firsthree == 0){            if(firsthree == 0){
             printf("Information! Unknown status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood as 1-p%d%d .\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m, s[m][i], nlstate+ndeath);              printf("Information! Unknown status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood as 1-p_{%d%d} .\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m, s[m][i], nlstate+ndeath);
             firsthree=1;              firsthree=1;
           }            }
           fprintf(ficlog,"Information! Unknown status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood as 1-p%d%d .\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m, s[m][i], nlstate+ndeath);            fprintf(ficlog,"Information! Unknown status for individual %ld line=%d occurred at last wave %d at known date %d/%d. Please, check if your unknown date of death %d/%d means a live state %d at wave %d. This case(%d)/wave(%d) contributes to the likelihood as 1-p_{%d%d} .\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], (int) moisdc[i], (int) andc[i], s[m][i], m, i, m, s[m][i], nlstate+ndeath);
           mw[++mi][i]=m;            mw[++mi][i]=m;
           mli=m;            mli=m;
         }          }
Line 6006  void  concatwav(int wav[], int **dh, int Line 6071  void  concatwav(int wav[], int **dh, int
              prlim[i][i]=mobaverage[(int)age][i][ij];               prlim[i][i]=mobaverage[(int)age][i][ij];
          }           }
        }         }
        /**< Computes the shifted transition matrix \f$ {}{h}_p^{ij}_x\f$ at horizon h.         /**< Computes the shifted transition matrix \f$ {}{h}_p^{ij}x\f$ at horizon h.
         */                                */                      
        hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres);  /* Returns p3mat[i][j][h] for h=0 to nhstepm */         hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres);  /* Returns p3mat[i][j][h] for h=0 to nhstepm */
        /**< And for each alive state j, sums over i \f$ w^i_x {}{h}_p^{ij}_x\f$, which are the probability         /**< And for each alive state j, sums over i \f$ w^i_x {}{h}_p^{ij}x\f$, which are the probability
         * at horizon h in state j including mortality.          * at horizon h in state j including mortality.
         */          */
        for(j=1; j<= nlstate; j++){         for(j=1; j<= nlstate; j++){
Line 6799  To be simple, these graphs help to under Line 6864  To be simple, these graphs help to under
 void printinghtml(char fileresu[], char title[], char datafile[], int firstpass, \  void printinghtml(char fileresu[], char title[], char datafile[], int firstpass, \
                   int lastpass, int stepm, int weightopt, char model[],\                    int lastpass, int stepm, int weightopt, char model[],\
                   int imx,int jmin, int jmax, double jmeanint,char rfileres[],\                    int imx,int jmin, int jmax, double jmeanint,char rfileres[],\
                   int popforecast, int mobilav, int prevfcast, int mobilavproj, int backcast, int estepm , \                    int popforecast, int mobilav, int prevfcast, int mobilavproj, int prevbcast, int estepm , \
                   double jprev1, double mprev1,double anprev1, double dateprev1, double dateproj1, double dateback1, \                    double jprev1, double mprev1,double anprev1, double dateprev1, double dateprojd, double dateback1, \
                   double jprev2, double mprev2,double anprev2, double dateprev2, double dateproj2, double dateback2){                    double jprev2, double mprev2,double anprev2, double dateprev2, double dateprojf, double dateback2){
   int jj1, k1, i1, cpt, k4, nres;    int jj1, k1, i1, cpt, k4, nres;
   
    fprintf(fichtm,"<ul><li><a href='#firstorder'>Result files (first order: no variance)</a>\n \     fprintf(fichtm,"<ul><li><a href='#firstorder'>Result files (first order: no variance)</a>\n \
Line 6931  divided by h: <sub>h</sub>P<sub>ij</sub> Line 6996  divided by h: <sub>h</sub>P<sub>ij</sub>
 <img src=\"%s_%d-3-%d.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres);   <img src=\"%s_%d-3-%d.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres); 
      /* Survival functions (period) in state j */       /* Survival functions (period) in state j */
      for(cpt=1; cpt<=nlstate;cpt++){       for(cpt=1; cpt<=nlstate;cpt++){
        fprintf(fichtm,"<br>\n- Survival functions in state %d. Or probability to survive in state %d being in state (1 to %d) at different ages. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \         fprintf(fichtm,"<br>\n- Survival functions in state %d. And probability to be observed in state %d being in state (1 to %d) at different ages. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \
 <img src=\"%s_%d-%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres);  <img src=\"%s_%d-%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres);
      }       }
      /* State specific survival functions (period) */       /* State specific survival functions (period) */
      for(cpt=1; cpt<=nlstate;cpt++){       for(cpt=1; cpt<=nlstate;cpt++){
        fprintf(fichtm,"<br>\n- Survival functions from state %d in each live state and total.\         fprintf(fichtm,"<br>\n- Survival functions in state %d and in any other live state (total).\
  Or probability to survive in various states (1 to %d) being in state %d at different ages.     \   And probability to be observed in various states (up to %d) being in state %d at different ages.       \
  <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> <img src=\"%s_%d-%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);   <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> <img src=\"%s_%d-%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);
      }       }
      /* Period (forward stable) prevalence in each health state */       /* Period (forward stable) prevalence in each health state */
Line 6945  divided by h: <sub>h</sub>P<sub>ij</sub> Line 7010  divided by h: <sub>h</sub>P<sub>ij</sub>
        fprintf(fichtm,"<br>\n- Convergence to period (stable) prevalence in state %d. Or probability for a person being in state (1 to %d) at different ages, to be in state %d some years after. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \         fprintf(fichtm,"<br>\n- Convergence to period (stable) prevalence in state %d. Or probability for a person being in state (1 to %d) at different ages, to be in state %d some years after. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \
 <img src=\"%s_%d-%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"P_"),cpt,k1,nres,subdirf2(optionfilefiname,"P_"),cpt,k1,nres,subdirf2(optionfilefiname,"P_"),cpt,k1,nres);  <img src=\"%s_%d-%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"P_"),cpt,k1,nres,subdirf2(optionfilefiname,"P_"),cpt,k1,nres,subdirf2(optionfilefiname,"P_"),cpt,k1,nres);
      }       }
      if(backcast==1){       if(prevbcast==1){
        /* Backward prevalence in each health state */         /* Backward prevalence in each health state */
        for(cpt=1; cpt<=nlstate;cpt++){         for(cpt=1; cpt<=nlstate;cpt++){
          fprintf(fichtm,"<br>\n- Convergence to mixed (stable) back prevalence in state %d. Or probability for a person to be in state %d at a younger age, knowing that she/he was in state (1 to %d) at different older ages. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \           fprintf(fichtm,"<br>\n- Convergence to mixed (stable) back prevalence in state %d. Or probability for a person to be in state %d at a younger age, knowing that she/he was in state (1 to %d) at different older ages. <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \
Line 6956  divided by h: <sub>h</sub>P<sub>ij</sub> Line 7021  divided by h: <sub>h</sub>P<sub>ij</sub>
        /* Projection of prevalence up to period (forward stable) prevalence in each health state */         /* Projection of prevalence up to period (forward stable) prevalence in each health state */
        for(cpt=1; cpt<=nlstate;cpt++){         for(cpt=1; cpt<=nlstate;cpt++){
          fprintf(fichtm,"<br>\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), from year %.1f up to year %.1f tending to period (stable) forward prevalence in state %d. Or probability to be in state %d being in an observed weighted state (from 1 to %d). <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \           fprintf(fichtm,"<br>\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), from year %.1f up to year %.1f tending to period (stable) forward prevalence in state %d. Or probability to be in state %d being in an observed weighted state (from 1 to %d). <a href=\"%s_%d-%d-%d.svg\">%s_%d-%d-%d.svg</a><br> \
 <img src=\"%s_%d-%d-%d.svg\">", dateprev1, dateprev2, mobilavproj, dateproj1, dateproj2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);  <img src=\"%s_%d-%d-%d.svg\">", dateprev1, dateprev2, mobilavproj, dateprojd, dateprojf, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);
        }         }
      }       }
      if(backcast==1){       if(prevbcast==1){
       /* Back projection of prevalence up to stable (mixed) back-prevalence in each health state */        /* Back projection of prevalence up to stable (mixed) back-prevalence in each health state */
        for(cpt=1; cpt<=nlstate;cpt++){         for(cpt=1; cpt<=nlstate;cpt++){
          fprintf(fichtm,"<br>\n- Back projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), \           fprintf(fichtm,"<br>\n- Back projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), \
Line 7072  true period expectancies (those weighted Line 7137  true period expectancies (those weighted
 }  }
   
 /******************* Gnuplot file **************/  /******************* Gnuplot file **************/
 void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double bage, double fage , int prevfcast, int backcast, char pathc[], double p[], int offyear, int offbyear){  void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double bage, double fage , int prevfcast, int prevbcast, char pathc[], double p[], int offyear, int offbyear){
   
   char dirfileres[132],optfileres[132];    char dirfileres[132],optfileres[132];
   char gplotcondition[132], gplotlabel[132];    char gplotcondition[132], gplotlabel[132];
Line 7226  void printinggnuplot(char fileresu[], ch Line 7291  void printinggnuplot(char fileresu[], ch
           } /* end covariate */            } /* end covariate */
         } /* end if no covariate */          } /* end if no covariate */
   
         if(backcast==1){ /* We need to get the corresponding values of the covariates involved in this combination k1 */          if(prevbcast==1){ /* We need to get the corresponding values of the covariates involved in this combination k1 */
           /* fprintf(ficgp,",\"%s\" every :::%d::%d u 1:($%d) t\"Backward stable prevalence\" w l lt 3",subdirf2(fileresu,"PLB_"),k1-1,k1-1,1+cpt); */            /* fprintf(ficgp,",\"%s\" every :::%d::%d u 1:($%d) t\"Backward stable prevalence\" w l lt 3",subdirf2(fileresu,"PLB_"),k1-1,k1-1,1+cpt); */
           fprintf(ficgp,",\"%s\" u 1:((",subdirf2(fileresu,"PLB_")); /* Age is in 1, nres in 2 to be fixed */            fprintf(ficgp,",\"%s\" u 1:((",subdirf2(fileresu,"PLB_")); /* Age is in 1, nres in 2 to be fixed */
           if(cptcoveff ==0){            if(cptcoveff ==0){
Line 7253  void printinggnuplot(char fileresu[], ch Line 7318  void printinggnuplot(char fileresu[], ch
               }                }
             } /* end covariate */              } /* end covariate */
           } /* end if no covariate */            } /* end if no covariate */
           if(backcast == 1){            if(prevbcast == 1){
             fprintf(ficgp,", \"%s\" every :::%d::%d u 1:($2==%d ? $3:1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);              fprintf(ficgp,", \"%s\" every :::%d::%d u 1:($2==%d ? $3:1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);
             /* k1-1 error should be nres-1*/              /* k1-1 error should be nres-1*/
             for (i=1; i<= nlstate ; i ++) {              for (i=1; i<= nlstate ; i ++) {
Line 7272  void printinggnuplot(char fileresu[], ch Line 7337  void printinggnuplot(char fileresu[], ch
             }               } 
             fprintf(ficgp,"\" t\"\" w l lt 4");              fprintf(ficgp,"\" t\"\" w l lt 4");
           } /* end if backprojcast */            } /* end if backprojcast */
         } /* end if backcast */          } /* end if prevbcast */
         /* fprintf(ficgp,"\nset out ;unset label;\n"); */          /* fprintf(ficgp,"\nset out ;unset label;\n"); */
         fprintf(ficgp,"\nset out ;unset title;\n");          fprintf(ficgp,"\nset out ;unset title;\n");
       } /* nres */        } /* nres */
Line 7560  set ter svg size 640, 480\nunset log y\n Line 7625  set ter svg size 640, 480\nunset log y\n
       
       
 /* 7eme */  /* 7eme */
   if(backcast == 1){    if(prevbcast == 1){
     /* CV backward prevalence  for each covariate */      /* CV backward prevalence  for each covariate */
     for (k1=1; k1<= m ; k1 ++) /* For each covariate combination if any */      for (k1=1; k1<= m ; k1 ++) /* For each covariate combination if any */
     for(nres=1; nres <= nresult; nres++){ /* For each resultline */      for(nres=1; nres <= nresult; nres++){ /* For each resultline */
Line 7612  set ter svg size 640, 480\nunset log y\n Line 7677  set ter svg size 640, 480\nunset log y\n
         fprintf(ficgp,"\nset out; unset label;\n");          fprintf(ficgp,"\nset out; unset label;\n");
       } /* end cpt state*/         } /* end cpt state*/ 
     } /* end covariate */        } /* end covariate */  
   } /* End if backcast */    } /* End if prevbcast */
       
   /* 8eme */    /* 8eme */
   if(prevfcast==1){    if(prevfcast==1){
Line 7728  set ter svg size 640, 480\nunset log y\n Line 7793  set ter svg size 640, 480\nunset log y\n
     } /* end covariate */      } /* end covariate */
   } /* End if prevfcast */    } /* End if prevfcast */
       
   if(backcast==1){    if(prevbcast==1){
     /* Back projection from cross-sectional to stable (mixed) for each covariate */      /* Back projection from cross-sectional to stable (mixed) for each covariate */
           
     for (k1=1; k1<= m ; k1 ++) /* For each covariate combination if any */      for (k1=1; k1<= m ; k1 ++) /* For each covariate combination if any */
Line 7841  set ter svg size 640, 480\nunset log y\n Line 7906  set ter svg size 640, 480\nunset log y\n
         fprintf(ficgp,"\nset out; unset label;\n");          fprintf(ficgp,"\nset out; unset label;\n");
       } /* end cpt state*/        } /* end cpt state*/
     } /* end covariate */      } /* end covariate */
   } /* End if backcast */    } /* End if prevbcast */
       
       
   /* 9eme writing MLE parameters */    /* 9eme writing MLE parameters */
Line 8289  set ter svg size 640, 480\nunset log y\n Line 8354  set ter svg size 640, 480\nunset log y\n
  }/* End movingaverage */   }/* End movingaverage */
     
   
    
 /************** Forecasting ******************/  /************** Forecasting ******************/
  void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double ***prev, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){  /* void prevforecast(char fileres[], double dateintmean, double anprojd, double mprojd, double jprojd, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double ***prev, double bage, double fage, int firstpass, int lastpass, double anprojf, double p[], int cptcoveff)*/
   /* proj1, year, month, day of starting projection   void prevforecast(char fileres[], double dateintmean, double dateprojd, double dateprojf, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double ***prev, double bage, double fage, int firstpass, int lastpass, double p[], int cptcoveff){
     /* dateintemean, mean date of interviews
        dateprojd, year, month, day of starting projection 
        dateprojf date of end of projection;year of end of projection (same day and month as proj1).
      agemin, agemax range of age       agemin, agemax range of age
      dateprev1 dateprev2 range of dates during which prevalence is computed       dateprev1 dateprev2 range of dates during which prevalence is computed
      anproj2 year of en of projection (same day and month as proj1).  
   */    */
     /* double anprojd, mprojd, jprojd; */
     /* double anprojf, mprojf, jprojf; */
   int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1, k4, nres=0;    int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1, k4, nres=0;
   double agec; /* generic age */    double agec; /* generic age */
   double agelim, ppij, yp,yp1,yp2,jprojmean,mprojmean,anprojmean;    double agelim, ppij, yp,yp1,yp2;
   double *popeffectif,*popcount;    double *popeffectif,*popcount;
   double ***p3mat;    double ***p3mat;
   /* double ***mobaverage; */    /* double ***mobaverage; */
Line 8335  set ter svg size 640, 480\nunset log y\n Line 8405  set ter svg size 640, 480\nunset log y\n
   if(estepm > stepm){ /* Yes every two year */    if(estepm > stepm){ /* Yes every two year */
     stepsize=2;      stepsize=2;
   }    }
     hstepm=hstepm/stepm;
   
     
     /* yp1=modf(dateintmean,&yp);/\* extracts integral of datemean in yp  and */
     /*                              fractional in yp1 *\/ */
     /* aintmean=yp; */
     /* yp2=modf((yp1*12),&yp); */
     /* mintmean=yp; */
     /* yp1=modf((yp2*30.5),&yp); */
     /* jintmean=yp; */
     /* if(jintmean==0) jintmean=1; */
     /* if(mintmean==0) mintmean=1; */
   
   hstepm=hstepm/stepm;   
   yp1=modf(dateintmean,&yp);/* extracts integral of datemean in yp  and  
                                fractional in yp1 */  
   anprojmean=yp;  
   yp2=modf((yp1*12),&yp);  
   mprojmean=yp;  
   yp1=modf((yp2*30.5),&yp);  
   jprojmean=yp;  
   if(jprojmean==0) jprojmean=1;  
   if(mprojmean==0) jprojmean=1;  
   
     /* date2dmy(dateintmean,&jintmean,&mintmean,&aintmean); */
     /* date2dmy(dateprojd,&jprojd, &mprojd, &anprojd); */
     /* date2dmy(dateprojf,&jprojf, &mprojf, &anprojf); */
   i1=pow(2,cptcoveff);    i1=pow(2,cptcoveff);
   if (cptcovn < 1){i1=1;}    if (cptcovn < 1){i1=1;}
       
   fprintf(ficresf,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jprojmean,mprojmean,anprojmean,dateintmean,dateprev1,dateprev2);     fprintf(ficresf,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jintmean,mintmean,aintmean,dateintmean,dateprev1,dateprev2); 
       
   fprintf(ficresf,"#****** Routine prevforecast **\n");    fprintf(ficresf,"#****** Routine prevforecast **\n");
       
Line 8376  set ter svg size 640, 480\nunset log y\n Line 8451  set ter svg size 640, 480\nunset log y\n
         fprintf(ficresf," p%d%d",i,j);          fprintf(ficresf," p%d%d",i,j);
       fprintf(ficresf," wp.%d",j);        fprintf(ficresf," wp.%d",j);
     }      }
     for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) {      for (yearp=0; yearp<=(anprojf-anprojd);yearp +=stepsize) {
       fprintf(ficresf,"\n");        fprintf(ficresf,"\n");
       fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+yearp);           fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jprojd,mprojd,anprojd+yearp);   
       /* for (agec=fage; agec>=(ageminpar-1); agec--){  */        /* for (agec=fage; agec>=(ageminpar-1); agec--){  */
       for (agec=fage; agec>=(bage); agec--){         for (agec=fage; agec>=(bage); agec--){ 
         nhstepm=(int) rint((agelim-agec)*YEARM/stepm);           nhstepm=(int) rint((agelim-agec)*YEARM/stepm); 
Line 8396  set ter svg size 640, 480\nunset log y\n Line 8471  set ter svg size 640, 480\nunset log y\n
         fprintf(ficresf,"\n");          fprintf(ficresf,"\n");
         for(j=1;j<=cptcoveff;j++)           for(j=1;j<=cptcoveff;j++) 
           fprintf(ficresf,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);            fprintf(ficresf,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
         fprintf(ficresf,"%.f %.f ",anproj1+yearp,agec+h*hstepm/YEARM*stepm);          fprintf(ficresf,"%.f %.f ",anprojd+yearp,agec+h*hstepm/YEARM*stepm);
                   
         for(j=1; j<=nlstate+ndeath;j++) {          for(j=1; j<=nlstate+ndeath;j++) {
           ppij=0.;            ppij=0.;
Line 8424  set ter svg size 640, 480\nunset log y\n Line 8499  set ter svg size 640, 480\nunset log y\n
 }  }
   
 /************** Back Forecasting ******************/  /************** Back Forecasting ******************/
  void prevbackforecast(char fileres[], double ***prevacurrent, double anback1, double mback1, double jback1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anback2, double p[], int cptcoveff){   /* void prevbackforecast(char fileres[], double ***prevacurrent, double anback1, double mback1, double jback1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anback2, double p[], int cptcoveff){ */
   /* back1, year, month, day of starting backection   void prevbackforecast(char fileres[], double ***prevacurrent, double dateintmean, double dateprojd, double dateprojf, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double p[], int cptcoveff){
     /* back1, year, month, day of starting backprojection
      agemin, agemax range of age       agemin, agemax range of age
      dateprev1 dateprev2 range of dates during which prevalence is computed       dateprev1 dateprev2 range of dates during which prevalence is computed
      anback2 year of end of backprojection (same day and month as back1).       anback2 year of end of backprojection (same day and month as back1).
Line 8433  set ter svg size 640, 480\nunset log y\n Line 8509  set ter svg size 640, 480\nunset log y\n
   */    */
   int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1, k4, nres=0;    int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1, k4, nres=0;
   double agec; /* generic age */    double agec; /* generic age */
   double agelim, ppij, ppi, yp,yp1,yp2,jprojmean,mprojmean,anprojmean;    double agelim, ppij, ppi, yp,yp1,yp2; /* ,jintmean,mintmean,aintmean;*/
   double *popeffectif,*popcount;    double *popeffectif,*popcount;
   double ***p3mat;    double ***p3mat;
   /* double ***mobaverage; */    /* double ***mobaverage; */
Line 8476  set ter svg size 640, 480\nunset log y\n Line 8552  set ter svg size 640, 480\nunset log y\n
   }    }
       
   hstepm=hstepm/stepm;    hstepm=hstepm/stepm;
   yp1=modf(dateintmean,&yp);/* extracts integral of datemean in yp  and    /* yp1=modf(dateintmean,&yp);/\* extracts integral of datemean in yp  and */
                                fractional in yp1 */    /*                              fractional in yp1 *\/ */
   anprojmean=yp;    /* aintmean=yp; */
   yp2=modf((yp1*12),&yp);    /* yp2=modf((yp1*12),&yp); */
   mprojmean=yp;    /* mintmean=yp; */
   yp1=modf((yp2*30.5),&yp);    /* yp1=modf((yp2*30.5),&yp); */
   jprojmean=yp;    /* jintmean=yp; */
   if(jprojmean==0) jprojmean=1;    /* if(jintmean==0) jintmean=1; */
   if(mprojmean==0) jprojmean=1;    /* if(mintmean==0) jintmean=1; */
       
   i1=pow(2,cptcoveff);    i1=pow(2,cptcoveff);
   if (cptcovn < 1){i1=1;}    if (cptcovn < 1){i1=1;}
       
   fprintf(ficresfb,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jprojmean,mprojmean,anprojmean,dateintmean,dateprev1,dateprev2);    fprintf(ficresfb,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jintmean,mintmean,aintmean,dateintmean,dateprev1,dateprev2);
   printf("# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jprojmean,mprojmean,anprojmean,dateintmean,dateprev1,dateprev2);    printf("# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jintmean,mintmean,aintmean,dateintmean,dateprev1,dateprev2);
       
   fprintf(ficresfb,"#****** Routine prevbackforecast **\n");    fprintf(ficresfb,"#****** Routine prevbackforecast **\n");
       
Line 8515  set ter svg size 640, 480\nunset log y\n Line 8591  set ter svg size 640, 480\nunset log y\n
         fprintf(ficresfb," b%d%d",i,j);          fprintf(ficresfb," b%d%d",i,j);
       fprintf(ficresfb," b.%d",j);        fprintf(ficresfb," b.%d",j);
     }      }
     for (yearp=0; yearp>=(anback2-anback1);yearp -=stepsize) {      for (yearp=0; yearp>=(anbackf-anbackd);yearp -=stepsize) {
       /* for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) {  */        /* for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) {  */
       fprintf(ficresfb,"\n");        fprintf(ficresfb,"\n");
       fprintf(ficresfb,"\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp);        fprintf(ficresfb,"\n# Back Forecasting at date %.lf/%.lf/%.lf ",jbackd,mbackd,anbackd+yearp);
       /* printf("\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp); */        /* printf("\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp); */
       /* for (agec=bage; agec<=agemax-1; agec++){  /\* testing *\/ */        /* for (agec=bage; agec<=agemax-1; agec++){  /\* testing *\/ */
       for (agec=bage; agec<=fage; agec++){  /* testing */        for (agec=bage; agec<=fage; agec++){  /* testing */
Line 8541  set ter svg size 640, 480\nunset log y\n Line 8617  set ter svg size 640, 480\nunset log y\n
         fprintf(ficresfb,"\n");          fprintf(ficresfb,"\n");
         for(j=1;j<=cptcoveff;j++)          for(j=1;j<=cptcoveff;j++)
           fprintf(ficresfb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);            fprintf(ficresfb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
         fprintf(ficresfb,"%.f %.f ",anback1+yearp,agec-h*hstepm/YEARM*stepm);          fprintf(ficresfb,"%.f %.f ",anbackd+yearp,agec-h*hstepm/YEARM*stepm);
         for(i=1; i<=nlstate+ndeath;i++) {          for(i=1; i<=nlstate+ndeath;i++) {
           ppij=0.;ppi=0.;            ppij=0.;ppi=0.;
           for(j=1; j<=nlstate;j++) {            for(j=1; j<=nlstate;j++) {
Line 8989  void prwizard(int ncovmodel, int nlstate Line 9065  void prwizard(int ncovmodel, int nlstate
 /******************* Gompertz Likelihood ******************************/  /******************* Gompertz Likelihood ******************************/
 double gompertz(double x[])  double gompertz(double x[])
 {   { 
   double A,B,L=0.0,sump=0.,num=0.;    double A=0.0,B=0.,L=0.0,sump=0.,num=0.;
   int i,n=0; /* n is the size of the sample */    int i,n=0; /* n is the size of the sample */
   
   for (i=1;i<=imx ; i++) {    for (i=1;i<=imx ; i++) {
Line 8997  double gompertz(double x[]) Line 9073  double gompertz(double x[])
     /*    sump=sump+1;*/      /*    sump=sump+1;*/
     num=num+1;      num=num+1;
   }    }
      L=0.0;
      /* agegomp=AGEGOMP; */
   /* for (i=0; i<=imx; i++)     /* for (i=0; i<=imx; i++) 
      if (wav[i]>0) printf("i=%d ageex=%lf agecens=%lf agedc=%lf cens=%d %d\n" ,i,ageexmed[i],agecens[i],agedc[i],cens[i],wav[i]);*/       if (wav[i]>0) printf("i=%d ageex=%lf agecens=%lf agedc=%lf cens=%d %d\n" ,i,ageexmed[i],agecens[i],agedc[i],cens[i],wav[i]);*/
   
   for (i=1;i<=imx ; i++)    for (i=1;i<=imx ; i++) {
     {      /* mu(a)=mu(agecomp)*exp(teta*(age-agegomp))
       if (cens[i] == 1 && wav[i]>1)         mu(a)=x[1]*exp(x[2]*(age-agegomp)); x[1] and x[2] are per year.
         A=-x[1]/(x[2])*(exp(x[2]*(agecens[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)));       * L= Product mu(agedeces)exp(-\int_ageexam^agedc mu(u) du ) for a death between agedc (in month) 
              *   and agedc +1 month, cens[i]=0: log(x[1]/YEARM)
       if (cens[i] == 0 && wav[i]>1)       * +
        * exp(-\int_ageexam^agecens mu(u) du ) when censored, cens[i]=1
        */
        if (wav[i] > 1 || agedc[i] < AGESUP) {
          if (cens[i] == 1){
            A=-x[1]/(x[2])*(exp(x[2]*(agecens[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)));
          } else if (cens[i] == 0){
         A=-x[1]/(x[2])*(exp(x[2]*(agedc[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)))          A=-x[1]/(x[2])*(exp(x[2]*(agedc[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)))
              +log(x[1]/YEARM)+x[2]*(agedc[i]-agegomp)+log(YEARM);              +log(x[1]/YEARM) +x[2]*(agedc[i]-agegomp)+log(YEARM);
               } else
            printf("Gompertz cens[%d] neither 1 nor 0\n",i);
       /*if (wav[i] > 1 && agecens[i] > 15) {*/ /* ??? */        /*if (wav[i] > 1 && agecens[i] > 15) {*/ /* ??? */
       if (wav[i] > 1 ) { /* ??? */         L=L+A*weight[i];
         L=L+A*weight[i];  
         /*      printf("\ni=%d A=%f L=%lf x[1]=%lf x[2]=%lf ageex=%lf agecens=%lf cens=%d agedc=%lf weight=%lf\n",i,A,L,x[1],x[2],ageexmed[i]*12,agecens[i]*12,cens[i],agedc[i]*12,weight[i]);*/          /*      printf("\ni=%d A=%f L=%lf x[1]=%lf x[2]=%lf ageex=%lf agecens=%lf cens=%d agedc=%lf weight=%lf\n",i,A,L,x[1],x[2],ageexmed[i]*12,agecens[i]*12,cens[i],agedc[i]*12,weight[i]);*/
       }       }
     }    }
   
  /*printf("x1=%2.9f x2=%2.9f x3=%2.9f L=%f\n",x[1],x[2],x[3],L);*/    /*printf("x1=%2.9f x2=%2.9f x3=%2.9f L=%f\n",x[1],x[2],x[3],L);*/
     
   return -2*L*num/sump;    return -2*L*num/sump;
 }  }
Line 9027  double gompertz(double x[]) Line 9109  double gompertz(double x[])
 /******************* Gompertz_f Likelihood ******************************/  /******************* Gompertz_f Likelihood ******************************/
 double gompertz_f(const gsl_vector *v, void *params)  double gompertz_f(const gsl_vector *v, void *params)
 {   { 
   double A,B,LL=0.0,sump=0.,num=0.;    double A=0.,B=0.,LL=0.0,sump=0.,num=0.;
   double *x= (double *) v->data;    double *x= (double *) v->data;
   int i,n=0; /* n is the size of the sample */    int i,n=0; /* n is the size of the sample */
   
Line 9120  int readdata(char datafile[], int firsto Line 9202  int readdata(char datafile[], int firsto
   int i=0, j=0, n=0, iv=0, v;    int i=0, j=0, n=0, iv=0, v;
   int lstra;    int lstra;
   int linei, month, year,iout;    int linei, month, year,iout;
     int noffset=0; /* This is the offset if BOM data file */
   char line[MAXLINE], linetmp[MAXLINE];    char line[MAXLINE], linetmp[MAXLINE];
   char stra[MAXLINE], strb[MAXLINE];    char stra[MAXLINE], strb[MAXLINE];
   char *stratrunc;    char *stratrunc;
Line 9153  int readdata(char datafile[], int firsto Line 9236  int readdata(char datafile[], int firsto
     fprintf(ficlog,"Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(ficlog);return 1;      fprintf(ficlog,"Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(ficlog);return 1;
   }    }
   
   i=1;      /* Is it a BOM UTF-8 Windows file? */
     /* First data line */
   linei=0;    linei=0;
     while(fgets(line, MAXLINE, fic)) {
       noffset=0;
       if( line[0] == (char)0xEF && line[1] == (char)0xBB) /* EF BB BF */
       {
         noffset=noffset+3;
         printf("# Data file '%s'  is an UTF8 BOM file, please convert to UTF8 or ascii file and rerun.\n",datafile);fflush(stdout);
         fprintf(ficlog,"# Data file '%s'  is an UTF8 BOM file, please convert to UTF8 or ascii file and rerun.\n",datafile);
         fflush(ficlog); return 1;
       }
       /*    else if( line[0] == (char)0xFE && line[1] == (char)0xFF)*/
       else if( line[0] == (char)0xFF && line[1] == (char)0xFE)
       {
         noffset=noffset+2;
         printf("# Data file '%s'  is a huge UTF16BE BOM file, please convert to UTF8 or ascii file (for example with dos2unix) and rerun.\n",datafile);fflush(stdout);
         fprintf(ficlog,"# Data file '%s'  is a huge UTF16BE BOM file, please convert to UTF8 or ascii file (for example with dos2unix) and rerun.\n",datafile);
         fflush(ficlog); return 1;
       }
       else if( line[0] == 0 && line[1] == 0)
       {
         if( line[2] == (char)0xFE && line[3] == (char)0xFF){
           noffset=noffset+4;
           printf("# Data file '%s'  is a huge UTF16BE BOM file, please convert to UTF8 or ascii file (for example with dos2unix) and rerun.\n",datafile);fflush(stdout);
           fprintf(ficlog,"# Data file '%s'  is a huge UTF16BE BOM file, please convert to UTF8 or ascii file (for example with dos2unix) and rerun.\n",datafile);
           fflush(ficlog); return 1;
         }
       } else{
         ;/*printf(" Not a BOM file\n");*/
       }
           /* If line starts with a # it is a comment */
       if (line[noffset] == '#') {
         linei=linei+1;
         break;
       }else{
         break;
       }
     }
     fclose(fic);
     if((fic=fopen(datafile,"r"))==NULL)    {
       printf("Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(stdout);
       fprintf(ficlog,"Problem while opening datafile: %s with errno='%s'\n", datafile,strerror(errno));fflush(ficlog);return 1;
     }
     /* Not a Bom file */
     
     i=1;
   while ((fgets(line, MAXLINE, fic) != NULL) &&((i >= firstobs) && (i <=lastobs))) {    while ((fgets(line, MAXLINE, fic) != NULL) &&((i >= firstobs) && (i <=lastobs))) {
     linei=linei+1;      linei=linei+1;
     for(j=strlen(line); j>=0;j--){  /* Untabifies line */      for(j=strlen(line); j>=0;j--){  /* Untabifies line */
Line 9275  int readdata(char datafile[], int firsto Line 9403  int readdata(char datafile[], int firsto
         return 1;          return 1;
       }        }
       anint[j][i]= (double) year;         anint[j][i]= (double) year; 
       mint[j][i]= (double)month;         mint[j][i]= (double)month;
         /* if( (int)anint[j][i]+ (int)(mint[j][i])/12. < (int) (moisnais[i]/12.+annais[i])){ */
         /*        printf("Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, mint[j][i],anint[j][i], moisnais[i],annais[i]); */
         /*        fprintf(ficlog,"Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, mint[j][i],anint[j][i], moisnais[i],annais[i]); */
         /* } */
       strcpy(line,stra);        strcpy(line,stra);
     } /* End loop on waves */      } /* End loop on waves */
           
Line 9314  int readdata(char datafile[], int firsto Line 9446  int readdata(char datafile[], int firsto
               
     }      }
     annais[i]=(double)(year);      annais[i]=(double)(year);
     moisnais[i]=(double)(month);       moisnais[i]=(double)(month);
       for (j=1;j<=maxwav;j++){
         if( (int)anint[j][i]+ (int)(mint[j][i])/12. < (int) (moisnais[i]/12.+annais[i])){
           printf("Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, (int)mint[j][i],(int)anint[j][i], j,(int)moisnais[i],(int)annais[i]);
           fprintf(ficlog,"Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, (int)mint[j][i],(int)anint[j][i], j, (int)moisnais[i],(int)annais[i]);
         }
       }
   
     strcpy(line,stra);      strcpy(line,stra);
           
     /* Sample weight */      /* Sample weight */
Line 10199  BOOL IsWow64() Line 10338  BOOL IsWow64()
 #endif  #endif
   
 void syscompilerinfo(int logged)  void syscompilerinfo(int logged)
  {  {
    /* #include "syscompilerinfo.h"*/  #include <stdint.h>
   
     /* #include "syscompilerinfo.h"*/
    /* command line Intel compiler 32bit windows, XP compatible:*/     /* command line Intel compiler 32bit windows, XP compatible:*/
    /* /GS /W3 /Gy     /* /GS /W3 /Gy
       /Zc:wchar_t /Zi /O2 /Fd"Release\vc120.pdb" /D "WIN32" /D "NDEBUG" /D        /Zc:wchar_t /Zi /O2 /Fd"Release\vc120.pdb" /D "WIN32" /D "NDEBUG" /D
Line 10235  void syscompilerinfo(int logged) Line 10376  void syscompilerinfo(int logged)
       /ManifestFile:"Release\IMaCh.exe.intermediate.manifest" /OPT:ICF        /ManifestFile:"Release\IMaCh.exe.intermediate.manifest" /OPT:ICF
       /NOLOGO /TLBID:1        /NOLOGO /TLBID:1
    */     */
   
   
 #if defined __INTEL_COMPILER  #if defined __INTEL_COMPILER
 #if defined(__GNUC__)  #if defined(__GNUC__)
         struct utsname sysInfo;  /* For Intel on Linux and OS/X */          struct utsname sysInfo;  /* For Intel on Linux and OS/X */
Line 10251  void syscompilerinfo(int logged) Line 10394  void syscompilerinfo(int logged)
    }     }
 #endif  #endif
   
 #include <stdint.h>  
   
    printf("Compiled with:");if(logged)fprintf(ficlog,"Compiled with:");     printf("Compiled with:");if(logged)fprintf(ficlog,"Compiled with:");
 #if defined(__clang__)  #if defined(__clang__)
    printf(" Clang/LLVM");if(logged)fprintf(ficlog," Clang/LLVM");       /* Clang/LLVM. ---------------------------------------------- */     printf(" Clang/LLVM");if(logged)fprintf(ficlog," Clang/LLVM");       /* Clang/LLVM. ---------------------------------------------- */
Line 10689  int hPijx(double *p, int bage, int fage) Line 10830  int hPijx(double *p, int bage, int fage)
       /* for (agedeb=fage; agedeb>=bage; agedeb--){ /\* If stepm=6 months *\/ */        /* for (agedeb=fage; agedeb>=bage; agedeb--){ /\* If stepm=6 months *\/ */
       for (agedeb=bage; agedeb<=fage; agedeb++){ /* If stepm=6 months and estepm=24 (2 years) */        for (agedeb=bage; agedeb<=fage; agedeb++){ /* If stepm=6 months and estepm=24 (2 years) */
         /* nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); /\* Typically 20 years = 20*12/6=40 *\/ */          /* nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); /\* Typically 20 years = 20*12/6=40 *\/ */
         nhstepm=(int) rint((agedeb-ageminl)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */          nhstepm=(int) rint((agedeb-ageminl)*YEARM/stepm+0.1)-1; /* Typically 20 years = 20*12/6=40 or 55*12/24=27.5-1.1=>27 */
         nhstepm = nhstepm/hstepm; /* Typically 40/4=10, because estepm=24 stepm=6 => hstepm=24/6=4 */          nhstepm = nhstepm/hstepm; /* Typically 40/4=10, because estepm=24 stepm=6 => hstepm=24/6=4 or 28*/
                   
         /*        nhstepm=nhstepm*YEARM; aff par mois*/          /*        nhstepm=nhstepm*YEARM; aff par mois*/
                   
Line 10782  int main(int argc, char *argv[]) Line 10923  int main(int argc, char *argv[])
   
   int *tab;     int *tab; 
   int mobilavproj=0 , prevfcast=0 ; /* moving average of prev, If prevfcast=1 prevalence projection */    int mobilavproj=0 , prevfcast=0 ; /* moving average of prev, If prevfcast=1 prevalence projection */
   int backcast=0;    /* double anprojd, mprojd, jprojd; /\* For eventual projections *\/ */
     /* double anprojf, mprojf, jprojf; */
     /* double jintmean,mintmean,aintmean;   */
     int prvforecast = 0; /* Might be 1 (date of beginning of projection is a choice or 2 is the dateintmean */
     int prvbackcast = 0; /* Might be 1 (date of beginning of projection is a choice or 2 is the dateintmean */
     double yrfproj= 10.0; /* Number of years of forward projections */
     double yrbproj= 10.0; /* Number of years of backward projections */
     int prevbcast=0; /* defined as global for mlikeli and mle, replacing backcast */
   int mobilav=0,popforecast=0;    int mobilav=0,popforecast=0;
   int hstepm=0, nhstepm=0;    int hstepm=0, nhstepm=0;
   int agemortsup;    int agemortsup;
Line 10807  int main(int argc, char *argv[]) Line 10955  int main(int argc, char *argv[])
   double *epj, vepp;    double *epj, vepp;
   
   double dateprev1, dateprev2;    double dateprev1, dateprev2;
   double jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000, dateproj1=0, dateproj2=0;    double jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000, dateproj1=0, dateproj2=0, dateprojd=0, dateprojf=0;
   double jback1=1,mback1=1,anback1=2000,jback2=1,mback2=1,anback2=2000, dateback1=0, dateback2=0;    double jback1=1,mback1=1,anback1=2000,jback2=1,mback2=1,anback2=2000, dateback1=0, dateback2=0, datebackd=0, datebackf=0;
   
   
   double **ximort;    double **ximort;
   char *alph[]={"a","a","b","c","d","e"}, str[4]="1234";    char *alph[]={"a","a","b","c","d","e"}, str[4]="1234";
Line 11003  int main(int argc, char *argv[]) Line 11152  int main(int argc, char *argv[])
       noffset=noffset+3;        noffset=noffset+3;
       printf("# File is an UTF8 Bom.\n"); // 0xBF        printf("# File is an UTF8 Bom.\n"); // 0xBF
     }      }
     else if( line[0] == (char)0xFE && line[1] == (char)0xFF)  /*    else if( line[0] == (char)0xFE && line[1] == (char)0xFF)*/
       else if( line[0] == (char)0xFF && line[1] == (char)0xFE)
     {      {
       noffset=noffset+2;        noffset=noffset+2;
       printf("# File is an UTF16BE BOM file\n");        printf("# File is an UTF16BE BOM file\n");
Line 11091  int main(int argc, char *argv[]) Line 11241  int main(int argc, char *argv[])
   }    }
   if((num_filled=sscanf(line,"model=1+age%[^.\n]", model)) !=EOF){    if((num_filled=sscanf(line,"model=1+age%[^.\n]", model)) !=EOF){
     if (num_filled != 1){      if (num_filled != 1){
       printf("ERROR %d: Model should be at minimum 'model=1+age' %s\n",num_filled, line);        printf("ERROR %d: Model should be at minimum 'model=1+age+' instead of '%s'\n",num_filled, line);
       fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age' %s\n",num_filled, line);        fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age+' instead of '%s'\n",num_filled, line);
       model[0]='\0';        model[0]='\0';
       goto end;        goto end;
     }      }
Line 11207  int main(int argc, char *argv[]) Line 11357  int main(int argc, char *argv[])
       for(jj=1; jj <=nlstate+ndeath; jj++){        for(jj=1; jj <=nlstate+ndeath; jj++){
         if(jj==i) continue;          if(jj==i) continue;
         j++;          j++;
           while((c=getc(ficpar))=='#' && c!= EOF){
             ungetc(c,ficpar);
             fgets(line, MAXLINE, ficpar);
             numlinepar++;
             fputs(line,stdout);
             fputs(line,ficparo);
             fputs(line,ficlog);
           }
           ungetc(c,ficpar);
         fscanf(ficpar,"%1d%1d",&i1,&j1);          fscanf(ficpar,"%1d%1d",&i1,&j1);
         if ((i1 != i) || (j1 != jj)){          if ((i1 != i) || (j1 != jj)){
           printf("Error in line parameters number %d, %1d%1d instead of %1d%1d \n \            printf("Error in line parameters number %d, %1d%1d instead of %1d%1d \n \
Line 11769  Interval (in months) between two waves: Line 11928  Interval (in months) between two waves:
         ximort[i][j]=(i == j ? 1.0 : 0.0);          ximort[i][j]=(i == j ? 1.0 : 0.0);
     }      }
           
     /*p[1]=0.0268; p[NDIM]=0.083;*/      p[1]=0.0268; p[NDIM]=0.083;
     /*printf("%lf %lf", p[1], p[2]);*/      /* printf("%lf %lf", p[1], p[2]); */
           
           
 #ifdef GSL  #ifdef GSL
Line 11896  Interval (in months) between two waves: Line 12055  Interval (in months) between two waves:
       printf("%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i]));        printf("%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i]));
       fprintf(ficlog,"%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i]));        fprintf(ficlog,"%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i]));
     }      }
     lsurv=vector(1,AGESUP);      lsurv=vector(agegomp,AGESUP);
     lpop=vector(1,AGESUP);      lpop=vector(agegomp,AGESUP);
     tpop=vector(1,AGESUP);      tpop=vector(agegomp,AGESUP);
     lsurv[agegomp]=100000;      lsurv[agegomp]=100000;
           
     for (k=agegomp;k<=AGESUP;k++) {      for (k=agegomp;k<=AGESUP;k++) {
Line 11945  Please run with mle=-1 to get a correct Line 12104  Please run with mle=-1 to get a correct
                      stepm, weightopt,\                       stepm, weightopt,\
                      model,imx,p,matcov,agemortsup);                       model,imx,p,matcov,agemortsup);
           
     free_vector(lsurv,1,AGESUP);      free_vector(lsurv,agegomp,AGESUP);
     free_vector(lpop,1,AGESUP);      free_vector(lpop,agegomp,AGESUP);
     free_vector(tpop,1,AGESUP);      free_vector(tpop,agegomp,AGESUP);
     free_matrix(ximort,1,NDIM,1,NDIM);      free_matrix(ximort,1,NDIM,1,NDIM);
     free_ivector(dcwave,firstobs,lastobs);      free_ivector(dcwave,firstobs,lastobs);
     free_vector(agecens,firstobs,lastobs);      free_vector(agecens,firstobs,lastobs);
Line 12148  Please run with mle=-1 to get a correct Line 12307  Please run with mle=-1 to get a correct
         fputs(line,stdout);          fputs(line,stdout);
         fputs(line,ficparo);          fputs(line,ficparo);
         fputs(line,ficlog);          fputs(line,ficlog);
           fputs(line,ficres);
         continue;          continue;
       }else        }else
         break;          break;
Line 12193  Please run with mle=-1 to get a correct Line 12353  Please run with mle=-1 to get a correct
         fputs(line,stdout);          fputs(line,stdout);
         fputs(line,ficparo);          fputs(line,ficparo);
         fputs(line,ficlog);          fputs(line,ficlog);
           fputs(line,ficres);
         continue;          continue;
       }else        }else
         break;          break;
Line 12218  Please run with mle=-1 to get a correct Line 12379  Please run with mle=-1 to get a correct
         fputs(line,stdout);          fputs(line,stdout);
         fputs(line,ficparo);          fputs(line,ficparo);
         fputs(line,ficlog);          fputs(line,ficlog);
           fputs(line,ficres);
         continue;          continue;
       }else        }else
         break;          break;
Line 12251  Please run with mle=-1 to get a correct Line 12413  Please run with mle=-1 to get a correct
         fputs(line,stdout);          fputs(line,stdout);
         fputs(line,ficparo);          fputs(line,ficparo);
         fputs(line,ficlog);          fputs(line,ficlog);
           fputs(line,ficres);
         continue;          continue;
       }else if(sscanf(line,"prevforecast=%[^\n]\n",modeltemp))        }else if(sscanf(line,"prevforecast=%[^\n]\n",modeltemp))
         parameterline=11;          parameterline=11;
       else if(sscanf(line,"backcast=%[^\n]\n",modeltemp))        else if(sscanf(line,"prevbackcast=%[^\n]\n",modeltemp))
         parameterline=12;          parameterline=12;
       else if(sscanf(line,"result:%[^\n]\n",modeltemp))        else if(sscanf(line,"result:%[^\n]\n",modeltemp))
         parameterline=13;          parameterline=13;
Line 12263  Please run with mle=-1 to get a correct Line 12426  Please run with mle=-1 to get a correct
       }        }
       switch (parameterline){         switch (parameterline){ 
       case 11:        case 11:
         if((num_filled=sscanf(line,"prevforecast=%d starting-proj-date=%lf/%lf/%lf final-proj-date=%lf/%lf/%lf mobil_average=%d\n",&prevfcast,&jproj1,&mproj1,&anproj1,&jproj2,&mproj2,&anproj2,&mobilavproj)) !=EOF){          if((num_filled=sscanf(line,"prevforecast=%d starting-proj-date=%lf/%lf/%lf final-proj-date=%lf/%lf/%lf mobil_average=%d\n",&prevfcast,&jproj1,&mproj1,&anproj1,&jproj2,&mproj2,&anproj2,&mobilavproj)) !=EOF && (num_filled == 8)){
           if (num_filled != 8) {                    fprintf(ficparo,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
             printf("Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mobil_average=0\n, your line=%s . Probably you are running an older format.\n",num_filled,line);  
             fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mov_average=0\n, your line=%s . Probably you are running an older format.\n",num_filled,line);  
             goto end;  
           }  
           fprintf(ficparo,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);  
           printf("prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);            printf("prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
           fprintf(ficlog,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);            fprintf(ficlog,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
           fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);            fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
           /* day and month of proj2 are not used but only year anproj2.*/            /* day and month of proj2 are not used but only year anproj2.*/
           dateproj1=anproj1+(mproj1-1)/12.+(jproj1-1)/365.;            dateproj1=anproj1+(mproj1-1)/12.+(jproj1-1)/365.;
           dateproj2=anproj2+(mproj2-1)/12.+(jproj2-1)/365.;            dateproj2=anproj2+(mproj2-1)/12.+(jproj2-1)/365.;
             prvforecast = 1;
           } 
           else if((num_filled=sscanf(line,"prevforecast=%d yearsfproj=%lf mobil_average=%d\n",&prevfcast,&yrfproj,&mobilavproj)) !=EOF){/* && (num_filled == 3))*/
             printf("prevforecast=%d yearsfproj=%lf.2 mobil_average=%d\n",prevfcast,yrfproj,mobilavproj);
             fprintf(ficlog,"prevforecast=%d yearsfproj=%lf.2 mobil_average=%d\n",prevfcast,yrfproj,mobilavproj);
             fprintf(ficres,"prevforecast=%d yearsfproj=%lf.2 mobil_average=%d\n",prevfcast,yrfproj,mobilavproj);
             prvforecast = 2;
           }
           else {
             printf("Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevforecast=1 yearsfproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line);
             fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevforecast=1 yearproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line);
             goto end;
         }          }
         break;          break;
       case 12:        case 12:
         /*fscanf(ficpar,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj);*/          if((num_filled=sscanf(line,"prevbackcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&prevbcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj)) !=EOF && (num_filled == 8)){
         if((num_filled=sscanf(line,"backcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&backcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj)) !=EOF){            fprintf(ficparo,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
           if (num_filled != 8) {            printf("prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
             printf("Error: Not 8 (data)parameters in line but %d, for example:backcast=1 starting-back-date=1/1/1990 final-back-date=1/1/1970 mobil_average=1\n, your line=%s . Probably you are running an older format.\n",num_filled,line);            fprintf(ficlog,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
             fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:backcast=1 starting-back-date=1/1/1990 final-back-date=1/1/1970 mobil_average=1\n, your line=%s . Probably you are running an older format.\n",num_filled,line);            fprintf(ficres,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
             goto end;            /* day and month of back2 are not used but only year anback2.*/
           }  
           printf("backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);  
           fprintf(ficparo,"backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);  
           fprintf(ficlog,"backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);  
           fprintf(ficres,"backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);  
           /* day and month of proj2 are not used but only year anproj2.*/  
           dateback1=anback1+(mback1-1)/12.+(jback1-1)/365.;            dateback1=anback1+(mback1-1)/12.+(jback1-1)/365.;
           dateback2=anback2+(mback2-1)/12.+(jback2-1)/365.;            dateback2=anback2+(mback2-1)/12.+(jback2-1)/365.;
             prvbackcast = 1;
           } 
           else if((num_filled=sscanf(line,"prevbackcast=%d yearsbproj=%lf mobil_average=%d\n",&prevbcast,&yrbproj,&mobilavproj)) ==3){/* && (num_filled == 3))*/
             printf("prevbackcast=%d yearsbproj=%lf.2 mobil_average=%d\n",prevbcast,yrbproj,mobilavproj);
             fprintf(ficlog,"prevbackcast=%d yearsbproj=%lf.2 mobil_average=%d\n",prevbcast,yrbproj,mobilavproj);
             fprintf(ficres,"prevbackcast=%d yearsbproj=%lf.2 mobil_average=%d\n",prevbcast,yrbproj,mobilavproj);
             prvbackcast = 2;
           }
           else {
             printf("Error: Not 8 (data)parameters in line but %d, for example:prevbackcast=1 starting-back-date=1/1/1990 final-back-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevbackcast=1 yearsbproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line);
             fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:prevbackcast=1 starting-back-date=1/1/1990 final-back-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevbackcast=1 yearbproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line);
             goto end;
         }          }
         break;          break;
       case 13:        case 13:
Line 12345  This is probably because your parameter Line 12520  This is probably because your parameter
 Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar);  Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar);
     }else{      }else{
       /* printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p, (int)anproj1-(int)agemin, (int)anback1-(int)agemax+1); */        /* printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p, (int)anproj1-(int)agemin, (int)anback1-(int)agemax+1); */
       printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,bage, fage, prevfcast, backcast, pathc,p, (int)anproj1-bage, (int)anback1-fage);        /* It seems that anprojd which is computed from the mean year at interview which is known yet because of freqsummary */
         /* date2dmy(dateintmean,&jintmean,&mintmean,&aintmean); */ /* Done in freqsummary */
         if(prvforecast==1){
           dateprojd=(jproj1+12*mproj1+365*anproj1)/365;
           jprojd=jproj1;
           mprojd=mproj1;
           anprojd=anproj1;
           dateprojf=(jproj2+12*mproj2+365*anproj2)/365;
           jprojf=jproj2;
           mprojf=mproj2;
           anprojf=anproj2;
         } else if(prvforecast == 2){
           dateprojd=dateintmean;
           date2dmy(dateprojd,&jprojd, &mprojd, &anprojd);
           dateprojf=dateintmean+yrfproj;
           date2dmy(dateprojf,&jprojf, &mprojf, &anprojf);
         }
         if(prvbackcast==1){
           datebackd=(jback1+12*mback1+365*anback1)/365;
           jbackd=jback1;
           mbackd=mback1;
           anbackd=anback1;
           datebackf=(jback2+12*mback2+365*anback2)/365;
           jbackf=jback2;
           mbackf=mback2;
           anbackf=anback2;
         } else if(prvbackcast == 2){
           datebackd=dateintmean;
           date2dmy(datebackd,&jbackd, &mbackd, &anbackd);
           datebackf=dateintmean-yrbproj;
           date2dmy(datebackf,&jbackf, &mbackf, &anbackf);
         }
         
         printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,bage, fage, prevfcast, prevbcast, pathc,p, (int)anprojd-bage, (int)anbackd-fage);
     }      }
     printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt, \      printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt, \
                  model,imx,jmin,jmax,jmean,rfileres,popforecast,mobilav,prevfcast,mobilavproj,backcast, estepm, \                   model,imx,jmin,jmax,jmean,rfileres,popforecast,mobilav,prevfcast,mobilavproj,prevbcast, estepm, \
                  jprev1,mprev1,anprev1,dateprev1, dateproj1, dateback1,jprev2,mprev2,anprev2,dateprev2,dateproj2, dateback2);                   jprev1,mprev1,anprev1,dateprev1, dateprojd, datebackd,jprev2,mprev2,anprev2,dateprev2,dateprojf, datebackf);
                                   
     /*------------ free_vector  -------------*/      /*------------ free_vector  -------------*/
     /*  chdir(path); */      /*  chdir(path); */
Line 12422  Please run with mle=-1 to get a correct Line 12630  Please run with mle=-1 to get a correct
     }/* end if moving average */      }/* end if moving average */
           
     /*---------- Forecasting ------------------*/      /*---------- Forecasting ------------------*/
     if(prevfcast==1){      if(prevfcast==1){ 
       /*    if(stepm ==1){*/        /*   /\*    if(stepm ==1){*\/ */
       prevforecast(fileresu, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, mobaverage, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff);        /*   /\*  anproj1, mproj1, jproj1 either read explicitly or yrfproj *\/ */
         /*This done previously after freqsummary.*/
         /*   dateprojd=(jproj1+12*mproj1+365*anproj1)/365; */
         /*   dateprojf=(jproj2+12*mproj2+365*anproj2)/365; */
         
         /* } else if (prvforecast==2){ */
         /*   /\*    if(stepm ==1){*\/ */
         /*   /\*  anproj1, mproj1, jproj1 either read explicitly or yrfproj *\/ */
         /* } */
         /*prevforecast(fileresu, dateintmean, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, mobaverage, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff);*/
         prevforecast(fileresu,dateintmean, dateprojd, dateprojf, agemin, agemax, dateprev1, dateprev2, mobilavproj, mobaverage, bage, fage, firstpass, lastpass, p, cptcoveff);
     }      }
   
     /* Backcasting */      /* Prevbcasting */
     if(backcast==1){      if(prevbcast==1){
       ddnewms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);                ddnewms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);        
       ddoldms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);                ddoldms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);        
       ddsavms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);        ddsavms=matrix(1,nlstate+ndeath,1,nlstate+ndeath);
Line 12443  Please run with mle=-1 to get a correct Line 12661  Please run with mle=-1 to get a correct
       hBijx(p, bage, fage, mobaverage);        hBijx(p, bage, fage, mobaverage);
       fclose(ficrespijb);        fclose(ficrespijb);
   
       prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2,        /* /\* prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, *\/ */
                        mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff);        /* /\*                   mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); *\/ */
         /* prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, */
         /*                       mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); */
         prevbackforecast(fileresu, mobaverage, dateintmean, dateprojd, dateprojf, agemin, agemax, dateprev1, dateprev2,
                          mobilavproj, bage, fage, firstpass, lastpass, p, cptcoveff);
   
         
       varbprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, bprlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff);        varbprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, bprlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff);
   
               
Line 12452  Please run with mle=-1 to get a correct Line 12676  Please run with mle=-1 to get a correct
       free_matrix(ddnewms, 1, nlstate+ndeath, 1, nlstate+ndeath);        free_matrix(ddnewms, 1, nlstate+ndeath, 1, nlstate+ndeath);
       free_matrix(ddsavms, 1, nlstate+ndeath, 1, nlstate+ndeath);        free_matrix(ddsavms, 1, nlstate+ndeath, 1, nlstate+ndeath);
       free_matrix(ddoldms, 1, nlstate+ndeath, 1, nlstate+ndeath);        free_matrix(ddoldms, 1, nlstate+ndeath, 1, nlstate+ndeath);
     }    /* end  Backcasting */      }    /* end  Prevbcasting */
     
     
     /* ------ Other prevalence ratios------------ */      /* ------ Other prevalence ratios------------ */
Line 12821  Please run with mle=-1 to get a correct Line 13045  Please run with mle=-1 to get a correct
       
   sprintf(plotcmd,"%s %s",pplotcmd, optionfilegnuplot);    sprintf(plotcmd,"%s %s",pplotcmd, optionfilegnuplot);
   printf("Starting graphs with: '%s'\n",plotcmd);fflush(stdout);    printf("Starting graphs with: '%s'\n",plotcmd);fflush(stdout);
     strcpy(pplotcmd,plotcmd);
       
   if((outcmd=system(plotcmd)) != 0){    if((outcmd=system(plotcmd)) != 0){
     printf("gnuplot command might not be in your path: '%s', err=%d\n", plotcmd, outcmd);      printf("Error in gnuplot, command might not be in your path: '%s', err=%d\n", plotcmd, outcmd);
     printf("\n Trying if gnuplot resides on the same directory that IMaCh\n");      printf("\n Trying if gnuplot resides on the same directory that IMaCh\n");
     sprintf(plotcmd,"%sgnuplot %s", pathimach, optionfilegnuplot);      sprintf(plotcmd,"%sgnuplot %s", pathimach, optionfilegnuplot);
     if((outcmd=system(plotcmd)) != 0)      if((outcmd=system(plotcmd)) != 0){
       printf("\n Still a problem with gnuplot command %s, err=%d\n", plotcmd, outcmd);        printf("\n Still a problem with gnuplot command %s, err=%d\n", plotcmd, outcmd);
         strcpy(plotcmd,pplotcmd);
       }
   }    }
   printf(" Successful, please wait...");    printf(" Successful, please wait...");
   while (z[0] != 'q') {    while (z[0] != 'q') {
Removed from v.1.291  
changed lines
  Added in v.1.302

FreeBSD-CVSweb <freebsd-cvsweb@FreeBSD.org>