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Diff for /imach/src/imach.c between versions 1.107 and 1.110

version 1.107, 2006/01/19 16:20:37 version 1.110, 2006/01/25 00:51:50
Line 1 Line 1
 /* $Id$  /* $Id$
   $State$    $State$
   $Log$    $Log$
     Revision 1.110  2006/01/25 00:51:50  brouard
     (Module): Lots of cleaning and bugs added (Gompertz)
   
     Revision 1.109  2006/01/24 19:37:15  brouard
     (Module): Comments (lines starting with a #) are allowed in data.
   
     Revision 1.108  2006/01/19 18:05:42  lievre
     Gnuplot problem appeared...
     To be fixed
   
   Revision 1.107  2006/01/19 16:20:37  brouard    Revision 1.107  2006/01/19 16:20:37  brouard
   Test existence of gnuplot in imach path    Test existence of gnuplot in imach path
   
Line 230 Line 240
 #include <string.h>  #include <string.h>
 #include <unistd.h>  #include <unistd.h>
   
   #include <limits.h>
 #include <sys/types.h>  #include <sys/types.h>
 #include <sys/stat.h>  #include <sys/stat.h>
 #include <errno.h>  #include <errno.h>
Line 243  extern int errno; Line 254  extern int errno;
 /* #define _(String) gettext (String) */  /* #define _(String) gettext (String) */
   
 #define MAXLINE 256  #define MAXLINE 256
   
 #define GNUPLOTPROGRAM "gnuplot"  #define GNUPLOTPROGRAM "gnuplot"
 /*#define GNUPLOTPROGRAM "..\\gp37mgw\\wgnuplot"*/  /*#define GNUPLOTPROGRAM "..\\gp37mgw\\wgnuplot"*/
 #define FILENAMELENGTH 132  #define FILENAMELENGTH 132
 /*#define DEBUG*/  
 /*#define windows*/  
 #define GLOCK_ERROR_NOPATH              -1      /* empty path */  #define GLOCK_ERROR_NOPATH              -1      /* empty path */
 #define GLOCK_ERROR_GETCWD              -2      /* cannot get cwd */  #define GLOCK_ERROR_GETCWD              -2      /* cannot get cwd */
   
Line 290  int popbased=0; Line 301  int popbased=0;
 int *wav; /* Number of waves for this individuual 0 is possible */  int *wav; /* Number of waves for this individuual 0 is possible */
 int maxwav; /* Maxim number of waves */  int maxwav; /* Maxim number of waves */
 int jmin, jmax; /* min, max spacing between 2 waves */  int jmin, jmax; /* min, max spacing between 2 waves */
   int ijmin, ijmax; /* Individuals having jmin and jmax */ 
 int gipmx, gsw; /* Global variables on the number of contributions   int gipmx, gsw; /* Global variables on the number of contributions 
                    to the likelihood and the sum of weights (done by funcone)*/                     to the likelihood and the sum of weights (done by funcone)*/
 int mle, weightopt;  int mle, weightopt;
Line 342  long time_value; Line 354  long time_value;
 extern long time();  extern long time();
 char strcurr[80], strfor[80];  char strcurr[80], strfor[80];
   
   char *endptr;
   long lval;
   
 #define NR_END 1  #define NR_END 1
 #define FREE_ARG char*  #define FREE_ARG char*
 #define FTOL 1.0e-10  #define FTOL 1.0e-10
Line 2217  void  concatwav(int wav[], int **dh, int Line 2232  void  concatwav(int wav[], int **dh, int
               fprintf(ficlog,"   We assumed that the date of interview was correct (and not the date of death) and postponed the death %d month(s) (one stepm) after the interview. You MUST fix the contradiction between dates.\n",stepm);                fprintf(ficlog,"   We assumed that the date of interview was correct (and not the date of death) and postponed the death %d month(s) (one stepm) after the interview. You MUST fix the contradiction between dates.\n",stepm);
             }              }
             k=k+1;              k=k+1;
             if (j >= jmax) jmax=j;              if (j >= jmax){
             if (j <= jmin) jmin=j;                jmax=j;
                 ijmax=i;
               }
               if (j <= jmin){
                 jmin=j;
                 ijmin=i;
               }
             sum=sum+j;              sum=sum+j;
             /*if (j<0) printf("j=%d num=%d \n",j,i);*/              /*if (j<0) printf("j=%d num=%d \n",j,i);*/
             /*    printf("%d %d %d %d\n", s[mw[mi][i]][i] ,s[mw[mi+1][i]][i],j,i);*/              /*    printf("%d %d %d %d\n", s[mw[mi][i]][i] ,s[mw[mi+1][i]][i],j,i);*/
Line 2229  void  concatwav(int wav[], int **dh, int Line 2250  void  concatwav(int wav[], int **dh, int
 /*        if (j<0) printf("%d %lf %lf %d %d %d\n", i,agev[mw[mi+1][i]][i], agev[mw[mi][i]][i],j,s[mw[mi][i]][i] ,s[mw[mi+1][i]][i]); */  /*        if (j<0) printf("%d %lf %lf %d %d %d\n", i,agev[mw[mi+1][i]][i], agev[mw[mi][i]][i],j,s[mw[mi][i]][i] ,s[mw[mi+1][i]][i]); */
   
           k=k+1;            k=k+1;
           if (j >= jmax) jmax=j;            if (j >= jmax) {
           else if (j <= jmin)jmin=j;              jmax=j;
               ijmax=i;
             }
             else if (j <= jmin){
               jmin=j;
               ijmin=i;
             }
           /*        if (j<10) printf("j=%d jmin=%d num=%d ",j,jmin,i); */            /*        if (j<10) printf("j=%d jmin=%d num=%d ",j,jmin,i); */
           /*printf("%d %lf %d %d %d\n", i,agev[mw[mi][i]][i],j,s[mw[mi][i]][i] ,s[mw[mi+1][i]][i]);*/            /*printf("%d %lf %d %d %d\n", i,agev[mw[mi][i]][i],j,s[mw[mi][i]][i] ,s[mw[mi+1][i]][i]);*/
           if(j<0){            if(j<0){
Line 2273  void  concatwav(int wav[], int **dh, int Line 2300  void  concatwav(int wav[], int **dh, int
     } /* end wave */      } /* end wave */
   }    }
   jmean=sum/k;    jmean=sum/k;
   printf("Delay (in months) between two waves Min=%d Max=%d Mean=%f\n\n ",jmin, jmax,jmean);    printf("Delay (in months) between two waves Min=%d (for indiviudal %ld) Max=%d (%ld) Mean=%f\n\n ",jmin, num[ijmin], jmax, num[ijmax], jmean);
   fprintf(ficlog,"Delay (in months) between two waves Min=%d Max=%d Mean=%f\n\n ",jmin, jmax,jmean);    fprintf(ficlog,"Delay (in months) between two waves Min=%d (for indiviudal %ld) Max=%d (%ld) Mean=%f\n\n ",jmin, ijmin, jmax, ijmax, jmean);
  }   }
   
 /*********** Tricode ****************************/  /*********** Tricode ****************************/
Line 3985  double gompertz(double x[]) Line 4012  double gompertz(double x[])
 {   { 
   double A,B,L=0.0,sump=0.,num=0.;    double A,B,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=0;i<=imx-1 ; i++) {    for (i=0;i<=imx-1 ; i++) {
     sump=sump+weight[i];      sump=sump+weight[i];
     /*    sump=sump+1;*/      /*    sump=sump+1;*/
Line 3997  double gompertz(double x[]) Line 4025  double gompertz(double x[])
   
   for (i=1;i<=imx ; i++)    for (i=1;i<=imx ; i++)
     {      {
       if (cens[i]==1 & wav[i]>1)        if (cens[i] == 1 && wav[i]>1)
         A=-x[1]/(x[2])*(exp(x[2]*(agecens[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)));          A=-x[1]/(x[2])*(exp(x[2]*(agecens[i]-agegomp))-exp(x[2]*(ageexmed[i]-agegomp)));
               
       if (cens[i]==0 & wav[i]>1)        if (cens[i] == 0 && wav[i]>1)
         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);  
               
       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]);*/
       }        }
Line 4073  int main(int argc, char *argv[]) Line 4102  int main(int argc, char *argv[])
 {  {
   int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav);    int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav);
   int i,j, k, n=MAXN,iter,m,size=100,cptcode, cptcod;    int i,j, k, n=MAXN,iter,m,size=100,cptcode, cptcod;
     int linei, month, year,iout;
   int jj, ll, li, lj, lk, imk;    int jj, ll, li, lj, lk, imk;
   int numlinepar=0; /* Current linenumber of parameter file */    int numlinepar=0; /* Current linenumber of parameter file */
   int itimes;    int itimes;
Line 4356  int main(int argc, char *argv[]) Line 4386  int main(int argc, char *argv[])
     }        }  
     fflush(ficlog);      fflush(ficlog);
   
   
     p=param[1][1];      p=param[1][1];
           
     /* Reads comments: lines beginning with '#' */      /* Reads comments: lines beginning with '#' */
Line 4480  int main(int argc, char *argv[]) Line 4509  int main(int argc, char *argv[])
   ncodemax=ivector(1,8);    ncodemax=ivector(1,8);
   
   i=1;    i=1;
   while (fgets(line, MAXLINE, fic) != NULL)    {    linei=0;
     if ((i >= firstobs) && (i <=lastobs)) {    while ((fgets(line, MAXLINE, fic) != NULL) &&((i >= firstobs) && (i <=lastobs)))    {
       for(j=0; line[j] != '\n';j++){  /* Untabifies line */      linei=linei+1;
       for(j=strlen(line); j>=0;j--){  /* Untabifies line */
         if(line[j] == '\t')          if(line[j] == '\t')
           line[j] = ' ';            line[j] = ' ';
       }        }
         for(j=strlen(line)-1; (line[j]==' ')||(line[j]==10)||(line[j]==13);j--){
           ;
         };
         line[j+1]=0;  /* Trims blanks at end of line */
         if(line[0]=='#'){
           fprintf(ficlog,"Comment line\n%s\n",line);
           printf("Comment line\n%s\n",line);
           continue;
         }
       for (j=maxwav;j>=1;j--){        for (j=maxwav;j>=1;j--){
         cutv(stra, strb,line,' '); s[j][i]=atoi(strb);           cutv(stra, strb,line,' '); 
           errno=0;
           lval=strtol(strb,&endptr,10); 
           /*      if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN))*/
           if( strb[0]=='\0' || (*endptr != '\0')){
             printf("Error reading data around '%d' at line number %d %s for individual %d\nShould be a status of wave %d. Setting maxwav=%d might be wrong.  Exiting.\n",lval, i,line,linei,j,maxwav);
             exit(1);
           }
           s[j][i]=lval;
   
         strcpy(line,stra);          strcpy(line,stra);
         cutv(stra, strb,line,'/'); anint[j][i]=(double)(atoi(strb)); strcpy(line,stra);          cutv(stra, strb,line,' ');
         cutv(stra, strb,line,' '); mint[j][i]=(double)(atoi(strb)); strcpy(line,stra);          if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){
       }          }
           else  if(iout=sscanf(strb,".") != 0){
             month=99;
             year=9999;
           }else{
             printf("Error reading data around '%s'.at line number %ld %s for individual %d\nShould be a year of exam at wave %d.  Exiting.\n",strb, i,line,linei,j);
             exit(1);
           }
           anint[j][i]= (double) year; 
           mint[j][i]= (double)month; 
           strcpy(line,stra);
         } /* ENd Waves */
                   
       cutv(stra, strb,line,'/'); andc[i]=(double)(atoi(strb)); strcpy(line,stra);        cutv(stra, strb,line,' '); 
       cutv(stra, strb,line,' '); moisdc[i]=(double)(atoi(strb)); strcpy(line,stra);        if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){
         }
       cutv(stra, strb,line,'/'); annais[i]=(double)(atoi(strb)); strcpy(line,stra);        else  if(iout=sscanf(strb,".") != 0){
       cutv(stra, strb,line,' '); moisnais[i]=(double)(atoi(strb)); strcpy(line,stra);          month=99;
           year=9999;
         }else{
           printf("Error reading data around '%s'.at line number %ld %s for individual %d\nShould be a year of exam at wave %d.  Exiting.\n",strb, i,line,linei,j);
           exit(1);
         }
         andc[i]=(double) year; 
         moisdc[i]=(double) month; 
         strcpy(line,stra);
   
         cutv(stra, strb,line,' '); 
         if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){
         }
         else  if(iout=sscanf(strb,".") != 0){
           month=99;
           year=9999;
         }else{
           printf("Error reading data around '%s'.at line number %ld %s for individual %d\nShould be a year of exam at wave %d.  Exiting.\n",strb, i,line,linei,j);
           exit(1);
         }
         annais[i]=(double)(year);
         moisnais[i]=(double)(month); 
         strcpy(line,stra);
   
         cutv(stra, strb,line,' '); 
         errno=0;
         lval=strtol(strb,&endptr,10); 
         if( strb[0]=='\0' || (*endptr != '\0')){
           printf("Error reading data around '%d' at line number %ld %s for individual %d\nShould be a weight.  Exiting.\n",lval, i,line,linei);
           exit(1);
         }
         weight[i]=(double)(lval); 
         strcpy(line,stra);
   
       cutv(stra, strb,line,' '); weight[i]=(double)(atoi(strb)); strcpy(line,stra);  
       for (j=ncovcol;j>=1;j--){        for (j=ncovcol;j>=1;j--){
         cutv(stra, strb,line,' '); covar[j][i]=(double)(atoi(strb)); strcpy(line,stra);          cutv(stra, strb,line,' '); 
           errno=0;
           lval=strtol(strb,&endptr,10); 
           if( strb[0]=='\0' || (*endptr != '\0')){
             printf("Error reading data around '%d' at line number %ld %s for individual %d\nShould be a covar (meaning 0 for the reference or 1).  Exiting.\n",lval, i,line,linei);
             exit(1);
           }
           if(lval <-1 || lval >1){
             printf("Error reading data around '%d' at line number %ld %s for individual %d\nShould be a value of the %d covar (meaning 0 for the reference or 1. IMaCh does not build design variables, do it your self).  Exiting.\n",lval,i,line,linei,j);
             exit(1);
           }
           covar[j][i]=(double)(lval);
           strcpy(line,stra);
       }         } 
       lstra=strlen(stra);        lstra=strlen(stra);
   
       if(lstra > 9){ /* More than 2**32 or max of what printf can write with %ld */        if(lstra > 9){ /* More than 2**32 or max of what printf can write with %ld */
         stratrunc = &(stra[lstra-9]);          stratrunc = &(stra[lstra-9]);
         num[i]=atol(stratrunc);          num[i]=atol(stratrunc);
       }        }
       else        else
         num[i]=atol(stra);          num[i]=atol(stra);
           
       /*if((s[2][i]==2) && (s[3][i]==-1)&&(s[4][i]==9)){        /*if((s[2][i]==2) && (s[3][i]==-1)&&(s[4][i]==9)){
         printf("%ld %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]),weight[i], (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]),  (mint[2][i]), (anint[2][i]), (s[2][i]),  (mint[3][i]), (anint[3][i]), (s[3][i]),  (mint[4][i]), (anint[4][i]), (s[4][i])); ij=ij+1;}*/          printf("%ld %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]),weight[i], (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]),  (mint[2][i]), (anint[2][i]), (s[2][i]),  (mint[3][i]), (anint[3][i]), (s[3][i]),  (mint[4][i]), (anint[4][i]), (s[4][i])); ij=ij+1;}*/
   
       i=i+1;        i=i+1;
     }    } /* End loop reading  data */
   }  
   /* printf("ii=%d", ij);    /* printf("ii=%d", ij);
      scanf("%d",i);*/       scanf("%d",i);*/
   imx=i-1; /* Number of individuals */    imx=i-1; /* Number of individuals */
Line 4664  int main(int argc, char *argv[]) Line 4765  int main(int argc, char *argv[])
             }              }
         }          }
         else if(s[m][i] !=9){ /* Standard case, age in fractional          else if(s[m][i] !=9){ /* Standard case, age in fractional
                                  years but with the precision of a                                   years but with the precision of a month */
                                  month */  
           agev[m][i]=(mint[m][i]/12.+1./24.+anint[m][i])-(moisnais[i]/12.+1./24.+annais[i]);            agev[m][i]=(mint[m][i]/12.+1./24.+anint[m][i])-(moisnais[i]/12.+1./24.+annais[i]);
           if((int)mint[m][i]==99 || (int)anint[m][i]==9999)            if((int)mint[m][i]==99 || (int)anint[m][i]==9999)
             agev[m][i]=1;              agev[m][i]=1;
Line 4841  Interval (in months) between two waves: Line 4941  Interval (in months) between two waves:
   p=param[1][1]; /* *(*(*(param +1)+1)+0) */    p=param[1][1]; /* *(*(*(param +1)+1)+0) */
   
   globpr=0; /* To get the number ipmx of contributions and the sum of weights*/    globpr=0; /* To get the number ipmx of contributions and the sum of weights*/
   
   if (mle==-3){    if (mle==-3){
     ximort=matrix(1,NDIM,1,NDIM);      ximort=matrix(1,NDIM,1,NDIM);
     cens=ivector(1,n);      cens=ivector(1,n);
Line 4850  Interval (in months) between two waves: Line 4951  Interval (in months) between two waves:
     
     for (i=1; i<=imx; i++){      for (i=1; i<=imx; i++){
       dcwave[i]=-1;        dcwave[i]=-1;
       for (j=1; j<=lastpass; j++)        for (m=firstpass; m<=lastpass; m++)
         if (s[j][i]>nlstate) {          if (s[m][i]>nlstate) {
           dcwave[i]=j;            dcwave[i]=m;
           /*    printf("i=%d j=%d s=%d dcwave=%d\n",i,j, s[j][i],dcwave[i]);*/            /*    printf("i=%d j=%d s=%d dcwave=%d\n",i,j, s[j][i],dcwave[i]);*/
           break;            break;
         }          }
Line 4861  Interval (in months) between two waves: Line 4962  Interval (in months) between two waves:
     for (i=1; i<=imx; i++) {      for (i=1; i<=imx; i++) {
       if (wav[i]>0){        if (wav[i]>0){
         ageexmed[i]=agev[mw[1][i]][i];          ageexmed[i]=agev[mw[1][i]][i];
         j=wav[i];agecens[i]=1.;           j=wav[i];
         if (ageexmed[i]>1 & wav[i]>0) agecens[i]=agev[mw[j][i]][i];          agecens[i]=1.; 
         cens[i]=1;  
                   if (ageexmed[i]> 1 && wav[i] > 0){
         if (ageexmed[i]<1) cens[i]=-1;            agecens[i]=agev[mw[j][i]][i];
         if (agedc[i]< AGESUP & agedc[i]>1 & dcwave[i]>firstpass & dcwave[i]<=lastpass) cens[i]=0 ;            cens[i]= 1;
           }else if (ageexmed[i]< 1) 
             cens[i]= -1;
           if (agedc[i]< AGESUP && agedc[i]>1 && dcwave[i]>firstpass && dcwave[i]<=lastpass)
             cens[i]=0 ;
       }        }
       else cens[i]=-1;        else cens[i]=-1;
     }      }
Line 4875  Interval (in months) between two waves: Line 4980  Interval (in months) between two waves:
       for (j=1;j<=NDIM;j++)        for (j=1;j<=NDIM;j++)
         ximort[i][j]=(i == j ? 1.0 : 0.0);          ximort[i][j]=(i == j ? 1.0 : 0.0);
     }      }
       
     p[1]=0.1; p[2]=0.1;      p[1]=0.1; p[NDIM]=0.1;
     /*printf("%lf %lf", p[1], p[2]);*/      /*printf("%lf %lf", p[1], p[2]);*/
           
           
   printf("Powell\n");  fprintf(ficlog,"Powell\n");      printf("Powell\n");  fprintf(ficlog,"Powell\n");
   strcpy(filerespow,"pow-mort");       strcpy(filerespow,"pow-mort"); 
   strcat(filerespow,fileres);      strcat(filerespow,fileres);
   if((ficrespow=fopen(filerespow,"w"))==NULL) {      if((ficrespow=fopen(filerespow,"w"))==NULL) {
     printf("Problem with resultfile: %s\n", filerespow);        printf("Problem with resultfile: %s\n", filerespow);
     fprintf(ficlog,"Problem with resultfile: %s\n", filerespow);        fprintf(ficlog,"Problem with resultfile: %s\n", filerespow);
   }      }
   fprintf(ficrespow,"# Powell\n# iter -2*LL");      fprintf(ficrespow,"# Powell\n# iter -2*LL");
   /*  for (i=1;i<=nlstate;i++)      /*  for (i=1;i<=nlstate;i++)
     for(j=1;j<=nlstate+ndeath;j++)          for(j=1;j<=nlstate+ndeath;j++)
       if(j!=i)fprintf(ficrespow," p%1d%1d",i,j);          if(j!=i)fprintf(ficrespow," p%1d%1d",i,j);
   */      */
   fprintf(ficrespow,"\n");      fprintf(ficrespow,"\n");
       
     powell(p,ximort,NDIM,ftol,&iter,&fret,gompertz);      powell(p,ximort,NDIM,ftol,&iter,&fret,gompertz);
     fclose(ficrespow);      fclose(ficrespow);
           
     hesscov(matcov, p, NDIM,delti, 1e-4, gompertz);       hesscov(matcov, p, NDIM, delti, 1e-4, gompertz); 
   
     for(i=1; i <=NDIM; i++)      for(i=1; i <=NDIM; i++)
       for(j=i+1;j<=NDIM;j++)        for(j=i+1;j<=NDIM;j++)
Line 4915  Interval (in months) between two waves: Line 5020  Interval (in months) between two waves:
     for (i=1;i<=NDIM;i++)       for (i=1;i<=NDIM;i++) 
       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]));
   
 lsurv=vector(1,AGESUP);      lsurv=vector(1,AGESUP);
     lpop=vector(1,AGESUP);      lpop=vector(1,AGESUP);
     tpop=vector(1,AGESUP);      tpop=vector(1,AGESUP);
     lsurv[agegomp]=100000;      lsurv[agegomp]=100000;
          
      for (k=agegomp;k<=AGESUP;k++) {      for (k=agegomp;k<=AGESUP;k++) {
       agemortsup=k;        agemortsup=k;
       if (p[1]*exp(p[2]*(k-agegomp))>1) break;        if (p[1]*exp(p[2]*(k-agegomp))>1) break;
     }      }
          
       for (k=agegomp;k<agemortsup;k++)      for (k=agegomp;k<agemortsup;k++)
       lsurv[k+1]=lsurv[k]-lsurv[k]*(p[1]*exp(p[2]*(k-agegomp)));        lsurv[k+1]=lsurv[k]-lsurv[k]*(p[1]*exp(p[2]*(k-agegomp)));
       
     for (k=agegomp;k<agemortsup;k++){      for (k=agegomp;k<agemortsup;k++){
       lpop[k]=(lsurv[k]+lsurv[k+1])/2.;        lpop[k]=(lsurv[k]+lsurv[k+1])/2.;
       sumlpop=sumlpop+lpop[k];        sumlpop=sumlpop+lpop[k];
     }      }
       
  tpop[agegomp]=sumlpop;      tpop[agegomp]=sumlpop;
     for (k=agegomp;k<(agemortsup-3);k++){      for (k=agegomp;k<(agemortsup-3);k++){
       /*  tpop[k+1]=2;*/        /*  tpop[k+1]=2;*/
       tpop[k+1]=tpop[k]-lpop[k];        tpop[k+1]=tpop[k]-lpop[k];
        }      }
          
          
        printf("\nAge   lx     qx    dx    Lx     Tx     e(x)\n");      printf("\nAge   lx     qx    dx    Lx     Tx     e(x)\n");
     for (k=agegomp;k<(agemortsup-2);k++)       for (k=agegomp;k<(agemortsup-2);k++) 
       printf("%d %.0lf %lf %.0lf %.0lf %.0lf %lf\n",k,lsurv[k],p[1]*exp(p[2]*(k-agegomp)),(p[1]*exp(p[2]*(k-agegomp)))*lsurv[k],lpop[k],tpop[k],tpop[k]/lsurv[k]);        printf("%d %.0lf %lf %.0lf %.0lf %.0lf %lf\n",k,lsurv[k],p[1]*exp(p[2]*(k-agegomp)),(p[1]*exp(p[2]*(k-agegomp)))*lsurv[k],lpop[k],tpop[k],tpop[k]/lsurv[k]);
       
       
     replace_back_to_slash(pathc,path); /* Even gnuplot wants a / */      replace_back_to_slash(pathc,path); /* Even gnuplot wants a / */
     printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p);      printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p);
           
     printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \      printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \
                      stepm, weightopt,\                       stepm, weightopt,\
                      model,imx,p,matcov,agemortsup);                       model,imx,p,matcov,agemortsup);
       
     free_vector(lsurv,1,AGESUP);      free_vector(lsurv,1,AGESUP);
     free_vector(lpop,1,AGESUP);      free_vector(lpop,1,AGESUP);
     free_vector(tpop,1,AGESUP);      free_vector(tpop,1,AGESUP);
   } /* Endof if mle==-3 */    } /* Endof if mle==-3 */
     
   else{ /* For mle >=1 */    else{ /* For mle >=1 */
       
     likelione(ficres, p, npar, nlstate, &globpr, &ipmx, &sw, &fretone, funcone); /* Prints the contributions to the likelihood */      likelione(ficres, p, npar, nlstate, &globpr, &ipmx, &sw, &fretone, funcone); /* Prints the contributions to the likelihood */
Line 5550  lsurv=vector(1,AGESUP); Line 5655  lsurv=vector(1,AGESUP);
   
   chdir(path);    chdir(path);
 #ifndef UNIX  #ifndef UNIX
   strcpy(plotcmd,"\"");    /*  strcpy(plotcmd,"\""); */
 #endif  #endif
   strcat(plotcmd,pathimach);    strcpy(plotcmd,pathimach);
   /*strcat(plotcmd,CHARSEPARATOR);*/    /*strcat(plotcmd,CHARSEPARATOR);*/
   strcat(plotcmd,GNUPLOTPROGRAM);    strcat(plotcmd,GNUPLOTPROGRAM);
 #ifndef UNIX  #ifndef UNIX
   strcat(plotcmd,"\"");    strcat(plotcmd,".exe");
     /*  strcat(plotcmd,"\"");*/
 #endif  #endif
   if(stat(plotcmd,&info)){    if(stat(plotcmd,&info)){
     printf("Error gnuplot program not found: %s\n",plotcmd);fflush(stdout);      printf("Error gnuplot program not found: %s\n",plotcmd);fflush(stdout);
   }    }
   
   #ifndef UNIX
     strcpy(plotcmd,"\"");
   #endif
     strcat(plotcmd,pathimach);
     strcat(plotcmd,GNUPLOTPROGRAM);
   #ifndef UNIX
     strcat(plotcmd,".exe");
     strcat(plotcmd,"\"");
   #endif
   strcat(plotcmd," ");    strcat(plotcmd," ");
   strcat(plotcmd,optionfilegnuplot);    strcat(plotcmd,optionfilegnuplot);
   printf("Starting graphs with: %s",plotcmd);fflush(stdout);    printf("Starting graphs with: %s",plotcmd);fflush(stdout);
   
   if((outcmd=system(plotcmd)) != 0){    if((outcmd=system(plotcmd)) != 0){
     printf(" Problem with gnuplot\n");      printf("\n Problem with gnuplot\n");
   }    }
   printf(" Wait...");    printf(" Wait...");
   while (z[0] != 'q') {    while (z[0] != 'q') {
Removed from v.1.107  
changed lines
  Added in v.1.110

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