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Diff for /imach/src/imach.c between versions 1.207 and 1.208

version 1.207, 2015/10/27 17:36:57 version 1.208, 2015/11/17 14:31:57
Line 1 Line 1
 /* $Id$  /* $Id$
   $State$    $State$
   $Log$    $Log$
     Revision 1.208  2015/11/17 14:31:57  brouard
     Summary: temporary
   
   Revision 1.207  2015/10/27 17:36:57  brouard    Revision 1.207  2015/10/27 17:36:57  brouard
   *** empty log message ***    *** empty log message ***
   
Line 1989  double **prevalim(double **prlim, int nl Line 1992  double **prevalim(double **prlim, int nl
   /* double **matprod2(); */ /* test */    /* double **matprod2(); */ /* test */
   double **out, cov[NCOVMAX+1], **pmij();    double **out, cov[NCOVMAX+1], **pmij();
   double **newm;    double **newm;
   double agefin, delaymax=100 ; /* Max number of years to converge */    double agefin, delaymax=100. ; /* 100 Max number of years to converge */
   int ncvloop=0;    int ncvloop=0;
       
   for (ii=1;ii<=nlstate+ndeath;ii++)    for (ii=1;ii<=nlstate+ndeath;ii++)
Line 2039  double **prevalim(double **prlim, int nl Line 2042  double **prevalim(double **prlim, int nl
         prlim[i][j]= newm[i][j]/(1-sumnew);          prlim[i][j]= newm[i][j]/(1-sumnew);
         max=FMAX(max,prlim[i][j]);          max=FMAX(max,prlim[i][j]);
         min=FMIN(min,prlim[i][j]);          min=FMIN(min,prlim[i][j]);
         printf(" age= %d prevalim i=%d, j=%d, prmlim[%d][%d]=%f, agefin=%d max=%f min=%f\n", (int)age, i, j, i, j, prlim[i][j],(int)agefin, max, min);          /* printf(" age= %d prevalim i=%d, j=%d, prmlim[%d][%d]=%f, agefin=%d max=%f min=%f\n", (int)age, i, j, i, j, prlim[i][j],(int)agefin, max, min); */
       }        }
       maxmin=(max-min)/(max+min)*2;        maxmin=(max-min)/(max+min)*2;
       maxmax=FMAX(maxmax,maxmin);        maxmax=FMAX(maxmax,maxmin);
         /* for(i=1; i<=nlstate; i++) { */
         /*        sumnew=0.; */
         /*        sumnew+=prlim[i][j]; */
         /* } */
         /* prmimj = sumnew/(float)nlstate; /\* Means of various prevalence limits. */
     } /* j loop */      } /* j loop */
     *ncvyear= (int)age- (int)agefin;      *ncvyear= (int)age- (int)agefin;
     printf("maxmax=%lf maxmin=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, maxmin, ncvloop, (int)age, (int)agefin, *ncvyear);      /* printf("maxmax=%lf maxmin=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, maxmin, ncvloop, (int)age, (int)agefin, *ncvyear); */
     if(maxmax < ftolpl){      if(maxmax < ftolpl){
       /* printf("maxmax=%lf maxmin=%lf ncvloop=%ld, age=%d, agefin=%d ncvyear=%d \n", maxmax, maxmin, ncvloop, (int)age, (int)agefin, *ncvyear); */        /* printf("maxmax=%lf maxmin=%lf ncvloop=%ld, age=%d, agefin=%d ncvyear=%d \n", maxmax, maxmin, ncvloop, (int)age, (int)agefin, *ncvyear); */
       return prlim;        return prlim;
     }      }
   } /* age loop */    } /* age loop */
   printf("Warning: the stable prevalence at age %d did not converge with the required precision %g > ftolpl=%g. \n\      /* After some age loop it doesn't converge */
 Earliest age to start was %d-%d=%d, ncvloop=%d, ncvyear=%d\n", (int)age, maxmax, ftolpl, (int)age, (int)delaymax, (int)agefin, ncvloop, *ncvyear);    printf("Warning: the stable prevalence at age %d did not converge with the required precision %g > ftolpl=%g within %.0f years. \n\
 /* Try to lower 'ftol', for example from 1.e-8 to 6.e-9.\n", ftolpl, (int)age, (int)delaymax, (int)agefin, ncvloop, (int)age-(int)agefin); */  Earliest age to start was %d-%d=%d, ncvloop=%d, ncvyear=%d\n", (int)age, maxmax, ftolpl, delaymax, (int)age, (int)delaymax, (int)agefin, ncvloop, *ncvyear);
     /* printf(" age= %d newm\n",(int)age); */
     /* for(i=1; i<=nlstate+ndeath; i++) { */
     /*   for(j=1;j<=nlstate+ndeath;j++){ */
     /*     printf(" %lf", newm[i][j]); */
     /*   } */
     /*   printf("\n"); */
     /* } */
     /* printf("\n"); */
     /* printf("prlim\n"); */
     /* for(i=1; i<=nlstate; i++) { */
     /*   sumnew=0; */
     /*   for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; */
     /*   for(j=1;j<=nlstate;j++){ */
     /*     prlim[i][j]= newm[i][j]/(1-sumnew); */
     /*     printf(" %lf", prlim[i][j]); */
     /*   } */
     /*   printf("\n"); */
     /* } */
     /* printf("\n"); */
     
     /* Try to lower 'ftol', for example from 1.e-8 to 6.e-9.\n", ftolpl, (int)age, (int)delaymax, (int)agefin, ncvloop, (int)age-(int)agefin); */
   return prlim; /* should not reach here */    return prlim; /* should not reach here */
 }  }
   
Line 2686  void likelione(FILE *ficres,double p[], Line 2715  void likelione(FILE *ficres,double p[],
       fprintf(fichtm,"\n<br>File of contributions to the likelihood computed with optimized parameters mle = %d.",mle);        fprintf(fichtm,"\n<br>File of contributions to the likelihood computed with optimized parameters mle = %d.",mle);
     fprintf(fichtm," You should at least run with mle >= 1 to get starting values corresponding to the optimized parameters in order to visualize the real contribution of each individual/wave: <a href=\"%s\">%s</a><br>\n",subdirf(fileresilk),subdirf(fileresilk));      fprintf(fichtm," You should at least run with mle >= 1 to get starting values corresponding to the optimized parameters in order to visualize the real contribution of each individual/wave: <a href=\"%s\">%s</a><br>\n",subdirf(fileresilk),subdirf(fileresilk));
           
     fprintf(fichtm,"<br>- The function drawn is -2Log(L) in Log scale: by state of origin <a href=\"%s-ori.png\">%s-ori.png</a><br> \  
 <img src=\"%s-ori.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"));  
     fprintf(fichtm,"<br>- and by state of destination <a href=\"%s-dest.png\">%s-dest.png</a><br> \  
 <img src=\"%s-dest.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"));  
     fflush(fichtm);  
               
     for (k=1; k<= nlstate ; k++) {      for (k=1; k<= nlstate ; k++) {
       fprintf(fichtm,"<br>- Probability p%dj by origin %d and destination j <a href=\"%s-p%dj.png\">%s-p%dj.png</a><br> \        fprintf(fichtm,"<br>- Probability p%dj by origin %d and destination j <a href=\"%s-p%dj.png\">%s-p%dj.png</a><br> \
 <img src=\"%s-p%dj.png\">",k,k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k);  <img src=\"%s-p%dj.png\">",k,k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k);
     }      }
       fprintf(fichtm,"<br>- The function drawn is -2Log(L) in Log scale: by state of origin <a href=\"%s-ori.png\">%s-ori.png</a><br> \
   <img src=\"%s-ori.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"));
       fprintf(fichtm,"<br>- and by state of destination <a href=\"%s-dest.png\">%s-dest.png</a><br> \
   <img src=\"%s-dest.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"));
       fflush(fichtm);
   }    }
   return;    return;
 }  }
Line 2960  double hessij( double x[], double **hess Line 2989  double hessij( double x[], double **hess
   double p2[MAXPARM+1];    double p2[MAXPARM+1];
   int k, kmax=1;    int k, kmax=1;
   double v1, v2, cv12, lc1, lc2;    double v1, v2, cv12, lc1, lc2;
   
     int firstime=0;
       
   fx=func(x);    fx=func(x);
   for (k=1; k<=kmax; k=k+10) {    for (k=1; k<=kmax; k=k+10) {
Line 2981  double hessij( double x[], double **hess Line 3012  double hessij( double x[], double **hess
     k4=func(p2)-fx;      k4=func(p2)-fx;
     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 */
     if(k1*k2*k3*k4 <0.){      if(k1*k2*k3*k4 <0.){
         firstime=1;
       kmax=kmax+10;        kmax=kmax+10;
       if(kmax >=10){      }
       if(kmax >=10 || firstime ==1){
       printf("Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol);        printf("Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol);
       fprintf(ficlog,"Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol);        fprintf(ficlog,"Warning: directions %d-%d, you are not estimating the Hessian at the exact maximum likelihood; increase ftol=%.2e\n",thetai,thetaj, ftol);
       printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e  res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);        printf("%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e  res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);
       fprintf(ficlog,"%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e  res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);        fprintf(ficlog,"%d %d k=%d, k1=%.12e k2=%.12e k3=%.12e k4=%.12e delti*k=%.12e deltj*k=%.12e, xi-de*k=%.12e xj-de*k=%.12e  res=%.12e k1234=%.12e,k1-2=%.12e,k3-4=%.12e\n",thetai,thetaj,k,k1,k2,k3,k4,delti[thetai]/k,delti[thetaj]/k,x[thetai]-delti[thetai]/k,x[thetaj]-delti[thetaj]/k, res,k1-k2-k3+k4,k1-k2,k3-k4);
       }  
     }      }
 #ifdef DEBUGHESSIJ  #ifdef DEBUGHESSIJ
     v1=hess[thetai][thetai];      v1=hess[thetai][thetai];
Line 4047  void cvevsij(double ***eij, double x[], Line 4079  void cvevsij(double ***eij, double x[],
     fprintf(ficlog,"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);    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(ficlog,"Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev);
   pstamp(ficresprobmorprev);    pstamp(ficresprobmorprev);
   fprintf(ficresprobmorprev,"# probabilities of dying before estepm=%d months for people of exact age and weighted probabilities w1*p1j+w2*p2j+... stand dev in()\n",estepm);    fprintf(ficresprobmorprev,"# probabilities of dying before estepm=%d months for people of exact age and weighted probabilities w1*p1j+w2*p2j+... stand dev in()\n",estepm);
Line 4058  void cvevsij(double ***eij, double x[], Line 4089  void cvevsij(double ***eij, double x[],
       fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j);        fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j);
   }      }  
   fprintf(ficresprobmorprev,"\n");    fprintf(ficresprobmorprev,"\n");
     
   fprintf(ficgp,"\n# Routine varevsij");    fprintf(ficgp,"\n# Routine varevsij");
   fprintf(ficgp,"\nunset title \n");    fprintf(ficgp,"\nunset title \n");
 /* fprintf(fichtm, "#Local time at start: %s", strstart);*/  /* fprintf(fichtm, "#Local time at start: %s", strstart);*/
Line 4095  void cvevsij(double ***eij, double x[], Line 4127  void cvevsij(double ***eij, double x[],
   /* For example we decided to compute the life expectancy with the smallest unit */    /* 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.     /* 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        nhstepm is the number of hstepm from age to agelim 
      nstepm is the number of stepm from age to agelin.        nstepm is the number of stepm from age to agelim. 
      Look at function hpijx to understand why (it is linked to memory size questions) */       Look at function hpijx to understand why (it is linked to memory size questions) 
   /* We decided (b) to get a life expectancy respecting the most precise curvature of the       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       survival function given by stepm (the optimization length). Unfortunately it
      means that if the survival funtion is printed every two years of age and if       means that if the survival funtion is printed every two years of age and if
      you sum them up and add 1 year (area under the trapezoids) you won't get the same        you sum them up and add 1 year (area under the trapezoids) you won't get the same 
Line 4313  void cvevsij(double ***eij, double x[], Line 4345  void cvevsij(double ***eij, double x[],
   double *xp;    double *xp;
   double *gp, *gm;    double *gp, *gm;
   double **gradg, **trgradg;    double **gradg, **trgradg;
     double **mgm, **mgp;
   double age,agelim;    double age,agelim;
   int theta;    int theta;
       
Line 4334  void cvevsij(double ***eij, double x[], Line 4367  void cvevsij(double ***eij, double x[],
     nhstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */       nhstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ 
     if (stepm >= YEARM) hstepm=1;      if (stepm >= YEARM) hstepm=1;
     nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */      nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */
       p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
     gradg=matrix(1,npar,1,nlstate);      gradg=matrix(1,npar,1,nlstate);
       mgp=matrix(1,npar,1,nlstate);
       mgm=matrix(1,npar,1,nlstate);
     gp=vector(1,nlstate);      gp=vector(1,nlstate);
     gm=vector(1,nlstate);      gm=vector(1,nlstate);
   
Line 4342  void cvevsij(double ***eij, double x[], Line 4378  void cvevsij(double ***eij, double x[],
       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); /* Missing or not useful because 1 year */ 
       prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij);        prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij);
       for(i=1;i<=nlstate;i++)        for(i=1;i<=nlstate;i++){
         gp[i] = prlim[i][i];          gp[i] = prlim[i][i];
               mgp[theta][i] = prlim[i][i];
         }
       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);
       prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij);        prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij);
       for(i=1;i<=nlstate;i++)        for(i=1;i<=nlstate;i++){
         gm[i] = prlim[i][i];          gm[i] = prlim[i][i];
           mgm[theta][i] = prlim[i][i];
         }
       for(i=1;i<=nlstate;i++)        for(i=1;i<=nlstate;i++)
         gradg[theta][i]= (gp[i]-gm[i])/2./delti[theta];          gradg[theta][i]= (gp[i]-gm[i])/2./delti[theta];
     } /* End theta */      } /* End theta */
Line 4361  void cvevsij(double ***eij, double x[], Line 4400  void cvevsij(double ***eij, double x[],
     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[j][theta]=gradg[theta][j];          trgradg[j][theta]=gradg[theta][j];
       if((int)age==68 ||(int)age== 69 ){
         printf("\nmgm mgp %d ",(int)age);
         for(j=1; j<=nlstate;j++){
           printf("%d ",j);
           for(theta=1; theta <=npar; theta++)
             printf("%d %lf %lf",theta,mgm[theta][j],mgp[theta][j]);
           printf("\n ");
         }
       }
       if((int)age==68 ||(int)age== 69 ){
         printf("\n gradg %d ",(int)age);
         for(j=1; j<=nlstate;j++){
           printf("%d ",j);
           for(theta=1; theta <=npar; theta++)
             printf("%d %lf ",theta,gradg[theta][j]);
           printf("\n ");
         }
       }
   
     for(i=1;i<=nlstate;i++)      for(i=1;i<=nlstate;i++)
       varpl[i][(int)age] =0.;        varpl[i][(int)age] =0.;
     if((int)age==67 ||(int)age== 66 ){      if((int)age==68 ||(int)age== 69 ){
     matprod2(dnewm,trgradg,1,nlstate,1,npar,1,npar,matcov);      matprod2(dnewm,trgradg,1,nlstate,1,npar,1,npar,matcov);
     matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg);      matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg);
     }else{      }else{
Line 4380  void cvevsij(double ***eij, double x[], Line 4437  void cvevsij(double ***eij, double x[],
     fprintf(ficresvpl,"\n");      fprintf(ficresvpl,"\n");
     free_vector(gp,1,nlstate);      free_vector(gp,1,nlstate);
     free_vector(gm,1,nlstate);      free_vector(gm,1,nlstate);
       free_matrix(mgm,1,npar,1,nlstate);
       free_matrix(mgp,1,npar,1,nlstate);
     free_matrix(gradg,1,npar,1,nlstate);      free_matrix(gradg,1,npar,1,nlstate);
     free_matrix(trgradg,1,nlstate,1,npar);      free_matrix(trgradg,1,nlstate,1,npar);
   } /* End age */    } /* End age */
Line 4791  divided by h: hPij/h : <a href=\"%s_%d-3 Line 4850  divided by h: hPij/h : <a href=\"%s_%d-3
      }       }
      /* 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 any different live states and total.\         fprintf(fichtm,"<br>\n- Survival functions from state %d in each live state and total.\
  Or probability to survive in various states (1 to %d) being in state %d at different ages.\   Or probability to survive in various states (1 to %d) being in state %d at different ages.\
  <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> <img src=\"%s_%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1);   <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> <img src=\"%s_%d-%d.svg\">", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1,subdirf2(optionfilefiname,"LIJT_"),cpt,jj1);
      }       }
Line 8042  Please run with mle=-1 to get a correct Line 8101  Please run with mle=-1 to get a correct
       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);        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' ...", filerese);fflush(stdout);
     fprintf(ficlog,"Computing Health Expectancies: result on file '%s' \n", filerese);      fprintf(ficlog,"Computing Health Expectancies: result on file '%s' ...", filerese);fflush(ficlog);
     /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){      /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){
       for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/        for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/
                       
Line 8062  Please run with mle=-1 to get a correct Line 8121  Please run with mle=-1 to get a correct
       /*}*/        /*}*/
     }      }
     fclose(ficreseij);      fclose(ficreseij);
       printf("done evsij\n");fflush(stdout);
       fprintf(ficlog,"done evsij\n");fflush(ficlog);
   
     /*---------- Health expectancies and variances ------------*/      /*---------- Health expectancies and variances ------------*/
   
Line 8073  Please run with mle=-1 to get a correct Line 8133  Please run with mle=-1 to get a correct
       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;        fprintf(ficlog,"Problem with total LE resultfile: %s\n", filerest);goto end;
     }      }
     printf("Computing Total Life expectancies with their standard errors: file '%s' \n", filerest);       printf("Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(stdout);
     fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' \n", filerest);       fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(ficlog);
   
   
     strcpy(fileresstde,"STDE_");      strcpy(fileresstde,"STDE_");
Line 8083  Please run with mle=-1 to get a correct Line 8143  Please run with mle=-1 to get a correct
       printf("Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0);        printf("Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0);
       fprintf(ficlog,"Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0);        fprintf(ficlog,"Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0);
     }      }
     printf("Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde);      printf("  Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde);
     fprintf(ficlog,"Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde);      fprintf(ficlog,"  Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde);
   
     strcpy(filerescve,"CVE_");      strcpy(filerescve,"CVE_");
     strcat(filerescve,fileresu);      strcat(filerescve,fileresu);
Line 8092  Please run with mle=-1 to get a correct Line 8152  Please run with mle=-1 to get a correct
       printf("Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0);        printf("Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0);
       fprintf(ficlog,"Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0);        fprintf(ficlog,"Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0);
     }      }
     printf("Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve);      printf("    Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve);
     fprintf(ficlog,"Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve);      fprintf(ficlog,"    Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve);
   
     strcpy(fileresv,"V_");      strcpy(fileresv,"V_");
     strcat(fileresv,fileresu);      strcat(fileresv,fileresu);
Line 8101  Please run with mle=-1 to get a correct Line 8161  Please run with mle=-1 to get a correct
       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);        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' ... ", fileresv);fflush(stdout);
     fprintf(ficlog,"Computing Variance-covariance of DFLEs: file '%s' \n", fileresv);      fprintf(ficlog,"      Computing Variance-covariance of DFLEs: file '%s' ... ", fileresv);fflush(ficlog);
   
     /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){      /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){
       for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/        for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/
                       
     for (k=1; k <= (int) pow(2,cptcoveff); k++){      for (k=1; k <= (int) pow(2,cptcoveff); k++){
         fprintf(ficrest,"\n#****** ");        fprintf(ficrest,"\n#****** ");
         for(j=1;j<=cptcoveff;j++)         for(j=1;j<=cptcoveff;j++) 
           fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);          fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
         fprintf(ficrest,"******\n");        fprintf(ficrest,"******\n");
         
         fprintf(ficresstdeij,"\n#****** ");        fprintf(ficresstdeij,"\n#****** ");
         fprintf(ficrescveij,"\n#****** ");        fprintf(ficrescveij,"\n#****** ");
         for(j=1;j<=cptcoveff;j++) {        for(j=1;j<=cptcoveff;j++) {
           fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);          fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
           fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);          fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
         }        }
         fprintf(ficresstdeij,"******\n");        fprintf(ficresstdeij,"******\n");
         fprintf(ficrescveij,"******\n");        fprintf(ficrescveij,"******\n");
         
         fprintf(ficresvij,"\n#****** ");        fprintf(ficresvij,"\n#****** ");
         for(j=1;j<=cptcoveff;j++)         for(j=1;j<=cptcoveff;j++) 
           fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);          fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
         fprintf(ficresvij,"******\n");        fprintf(ficresvij,"******\n");
         
         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;
         cvevsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, delti, matcov, strstart);          printf(" cvevsij %d, ",k);
         /*        fprintf(ficlog, " cvevsij %d, ",k);
          */        cvevsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, delti, matcov, strstart);
         /* goto endfree; */        printf(" end cvevsij \n ");
          fprintf(ficlog, " end cvevsij \n ");
         vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);        
         pstamp(ficrest);        /*
          */
         /* goto endfree; */
         for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/        
           oldm=oldms;savm=savms; /* ZZ Segmentation fault */        vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage);
           cptcod= 0; /* To be deleted */        pstamp(ficrest);
           varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, ncvyear, k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart); /* cptcod not initialized Intel */        
           fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each health state\n#  (weighted average of eij where weights are ");        
           if(vpopbased==1)        for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/
             fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d)\n",mobilav);          oldm=oldms;savm=savms; /* ZZ Segmentation fault */
           else          cptcod= 0; /* To be deleted */
             fprintf(ficrest,"the age specific period (stable) prevalences in each health state \n");          printf("varevsij %d \n",vpopbased);
           fprintf(ficrest,"# Age popbased mobilav e.. (std) ");          fprintf(ficlog, "varevsij %d \n",vpopbased);
           for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i);          varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, ncvyear, k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart); /* cptcod not initialized Intel */
           fprintf(ficrest,"\n");          fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each health state\n#  (weighted average of eij where weights are ");
           /* printf("Which p?\n"); for(i=1;i<=npar;i++)printf("p[i=%d]=%lf,",i,p[i]);printf("\n"); */          if(vpopbased==1)
           epj=vector(1,nlstate+1);            fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d)\n",mobilav);
           for(age=bage; age <=fage ;age++){          else
             prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, ncvyear, k); /*ZZ Is it the correct prevalim */            fprintf(ficrest,"the age specific period (stable) prevalences in each health state \n");
             if (vpopbased==1) {          fprintf(ficrest,"# Age popbased mobilav e.. (std) ");
               if(mobilav ==0){          for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i);
                 for(i=1; i<=nlstate;i++)          fprintf(ficrest,"\n");
                   prlim[i][i]=probs[(int)age][i][k];          /* printf("Which p?\n"); for(i=1;i<=npar;i++)printf("p[i=%d]=%lf,",i,p[i]);printf("\n"); */
               }else{ /* mobilav */           epj=vector(1,nlstate+1);
                 for(i=1; i<=nlstate;i++)          printf("Computing age specific period (stable) prevalences in each health state \n");
                   prlim[i][i]=mobaverage[(int)age][i][k];          fprintf(ficlog,"Computing age specific period (stable) prevalences in each health state \n");
               }          for(age=bage; age <=fage ;age++){
             }            prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, ncvyear, k); /*ZZ Is it the correct prevalim */
                     if (vpopbased==1) {
             fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav);              if(mobilav ==0){
             /* fprintf(ficrest," %4.0f %d %d %d %d",age, vpopbased, mobilav,Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ /* to be done */                for(i=1; i<=nlstate;i++)
             /* printf(" age %4.0f ",age); */                  prlim[i][i]=probs[(int)age][i][k];
             for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){              }else{ /* mobilav */ 
               for(i=1, epj[j]=0.;i <=nlstate;i++) {                for(i=1; i<=nlstate;i++)
                 epj[j] += prlim[i][i]*eij[i][j][(int)age];                  prlim[i][i]=mobaverage[(int)age][i][k];
                 /*ZZZ  printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/  
                 /* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]); */  
               }  
               epj[nlstate+1] +=epj[j];  
             }              }
             /* printf(" age %4.0f \n",age); */            }
             
             for(i=1, vepp=0.;i <=nlstate;i++)            fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav);
               for(j=1;j <=nlstate;j++)            /* fprintf(ficrest," %4.0f %d %d %d %d",age, vpopbased, mobilav,Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ /* to be done */
                 vepp += vareij[i][j][(int)age];            /* printf(" age %4.0f ",age); */
             fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp));            for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){
             for(j=1;j <=nlstate;j++){              for(i=1, epj[j]=0.;i <=nlstate;i++) {
               fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age]));                epj[j] += prlim[i][i]*eij[i][j][(int)age];
                 /*ZZZ  printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/
                 /* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]); */
             }              }
             fprintf(ficrest,"\n");              epj[nlstate+1] +=epj[j];
             }
             /* printf(" age %4.0f \n",age); */
             
             for(i=1, vepp=0.;i <=nlstate;i++)
               for(j=1;j <=nlstate;j++)
                 vepp += vareij[i][j][(int)age];
             fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp));
             for(j=1;j <=nlstate;j++){
               fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age]));
           }            }
             fprintf(ficrest,"\n");
         }          }
         free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage);        } /* End vpopbased */
         free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage);        free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage);
         free_vector(epj,1,nlstate+1);        free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage);
         free_vector(epj,1,nlstate+1);
         printf("done \n");fflush(stdout);
         fprintf(ficlog,"done\n");fflush(ficlog);
         
       /*}*/        /*}*/
     }      } /* End k */
     free_vector(weight,1,n);      free_vector(weight,1,n);
     free_imatrix(Tvard,1,NCOVMAX,1,2);      free_imatrix(Tvard,1,NCOVMAX,1,2);
     free_imatrix(s,1,maxwav+1,1,n);      free_imatrix(s,1,maxwav+1,1,n);
Line 8203  Please run with mle=-1 to get a correct Line 8275  Please run with mle=-1 to get a correct
     fclose(ficrescveij);      fclose(ficrescveij);
     fclose(ficresvij);      fclose(ficresvij);
     fclose(ficrest);      fclose(ficrest);
       printf("done Health expectancies\n");fflush(stdout);
       fprintf(ficlog,"done Health expectancies\n");fflush(ficlog);
     fclose(ficpar);      fclose(ficpar);
       
     /*------- Variance of period (stable) prevalence------*/         /*------- Variance of period (stable) prevalence------*/   
Line 8213  Please run with mle=-1 to get a correct Line 8287  Please run with mle=-1 to get a correct
       printf("Problem with variance of period (stable) prevalence  resultfile: %s\n", fileresvpl);        printf("Problem with variance of period (stable) prevalence  resultfile: %s\n", fileresvpl);
       exit(0);        exit(0);
     }      }
     printf("Computing Variance-covariance of period (stable) prevalence: file '%s' \n", fileresvpl);      printf("Computing Variance-covariance of period (stable) prevalence: file '%s' ...", fileresvpl);fflush(stdout);
       fprintf(ficlog, "Computing Variance-covariance of period (stable) prevalence: file '%s' ...", fileresvpl);fflush(ficlog);
   
     /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){      /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){
       for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/        for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/
Line 8232  Please run with mle=-1 to get a correct Line 8307  Please run with mle=-1 to get a correct
     }      }
   
     fclose(ficresvpl);      fclose(ficresvpl);
       printf("done variance-covariance of period prevalence\n");fflush(stdout);
       fprintf(ficlog,"done variance-covariance of period prevalence\n");fflush(ficlog);
   
     /*---------- End : free ----------------*/      /*---------- End : free ----------------*/
     if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);      if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX);
Removed from v.1.207  
changed lines
  Added in v.1.208

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