version 1.207, 2015/10/27 17:36:57
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version 1.217, 2015/12/23 17:18:31
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/* $Id$ |
/* $Id$ |
$State$ |
$State$ |
$Log$ |
$Log$ |
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Revision 1.217 2015/12/23 17:18:31 brouard |
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Summary: Experimental backcast |
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Revision 1.216 2015/12/18 17:32:11 brouard |
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Summary: 0.98r4 Warning and status=-2 |
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Version 0.98r4 is now: |
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- displaying an error when status is -1, date of interview unknown and date of death known; |
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- permitting a status -2 when the vital status is unknown at a known date of right truncation. |
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Older changes concerning s=-2, dating from 2005 have been supersed. |
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Revision 1.215 2015/12/16 08:52:24 brouard |
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Summary: 0.98r4 working |
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Revision 1.214 2015/12/16 06:57:54 brouard |
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Summary: temporary not working |
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Revision 1.213 2015/12/11 18:22:17 brouard |
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Summary: 0.98r4 |
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Revision 1.212 2015/11/21 12:47:24 brouard |
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Summary: minor typo |
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Revision 1.211 2015/11/21 12:41:11 brouard |
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Summary: 0.98r3 with some graph of projected cross-sectional |
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Author: Nicolas Brouard |
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Revision 1.210 2015/11/18 17:41:20 brouard |
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Summary: Start working on projected prevalences |
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Revision 1.209 2015/11/17 22:12:03 brouard |
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Summary: Adding ftolpl parameter |
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Author: N Brouard |
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We had difficulties to get smoothed confidence intervals. It was due |
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to the period prevalence which wasn't computed accurately. The inner |
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parameter ftolpl is now an outer parameter of the .imach parameter |
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file after estepm. If ftolpl is small 1.e-4 and estepm too, |
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computation are long. |
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Revision 1.208 2015/11/17 14:31:57 brouard |
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Summary: temporary |
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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 *** |
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Line 741 typedef struct {
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Line 785 typedef struct {
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#define NDEATHMAX 8 /**< Maximum number of dead states (for func) */ |
#define NDEATHMAX 8 /**< Maximum number of dead states (for func) */ |
#define NCOVMAX 20 /**< Maximum number of covariates, including generated covariates V1*V2 */ |
#define NCOVMAX 20 /**< Maximum number of covariates, including generated covariates V1*V2 */ |
#define codtabm(h,k) (1 & (h-1) >> (k-1))+1 |
#define codtabm(h,k) (1 & (h-1) >> (k-1))+1 |
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/*#define decodtabm(h,k,cptcoveff)= (h <= (1<<cptcoveff)?(((h-1) >> (k-1)) & 1) +1 : -1)*/ |
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#define decodtabm(h,k,cptcoveff) (((h-1) >> (k-1)) & 1) +1 |
#define MAXN 20000 |
#define MAXN 20000 |
#define YEARM 12. /**< Number of months per year */ |
#define YEARM 12. /**< Number of months per year */ |
#define AGESUP 130 |
#define AGESUP 130 |
Line 798 double **matprod2(); /* test */
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Line 844 double **matprod2(); /* test */
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double **oldm, **newm, **savm; /* Working pointers to matrices */ |
double **oldm, **newm, **savm; /* Working pointers to matrices */ |
double **oldms, **newms, **savms; /* Fixed working pointers to matrices */ |
double **oldms, **newms, **savms; /* Fixed working pointers to matrices */ |
/*FILE *fic ; */ /* Used in readdata only */ |
/*FILE *fic ; */ /* Used in readdata only */ |
FILE *ficpar, *ficparo,*ficres, *ficresp, *ficrespl, *ficrespij, *ficrest,*ficresf,*ficrespop; |
FILE *ficpar, *ficparo,*ficres, *ficresp, *ficresphtm, *ficresphtmfr, *ficrespl, *ficresplb,*ficrespij, *ficrespijb, *ficrest,*ficresf, *ficresfb,*ficrespop; |
FILE *ficlog, *ficrespow; |
FILE *ficlog, *ficrespow; |
int globpr=0; /* Global variable for printing or not */ |
int globpr=0; /* Global variable for printing or not */ |
double fretone; /* Only one call to likelihood */ |
double fretone; /* Only one call to likelihood */ |
Line 821 char fileresv[FILENAMELENGTH];
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Line 867 char fileresv[FILENAMELENGTH];
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FILE *ficresvpl; |
FILE *ficresvpl; |
char fileresvpl[FILENAMELENGTH]; |
char fileresvpl[FILENAMELENGTH]; |
char title[MAXLINE]; |
char title[MAXLINE]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH]; |
char optionfile[FILENAMELENGTH], datafile[FILENAMELENGTH], filerespl[FILENAMELENGTH], fileresplb[FILENAMELENGTH]; |
char plotcmd[FILENAMELENGTH], pplotcmd[FILENAMELENGTH]; |
char plotcmd[FILENAMELENGTH], pplotcmd[FILENAMELENGTH]; |
char tmpout[FILENAMELENGTH], tmpout2[FILENAMELENGTH]; |
char tmpout[FILENAMELENGTH], tmpout2[FILENAMELENGTH]; |
char command[FILENAMELENGTH]; |
char command[FILENAMELENGTH]; |
int outcmd=0; |
int outcmd=0; |
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char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
char fileres[FILENAMELENGTH], filerespij[FILENAMELENGTH], filerespijb[FILENAMELENGTH], filereso[FILENAMELENGTH], rfileres[FILENAMELENGTH]; |
char fileresu[FILENAMELENGTH]; /* fileres without r in front */ |
char fileresu[FILENAMELENGTH]; /* fileres without r in front */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filelog[FILENAMELENGTH]; /* Log file */ |
char filerest[FILENAMELENGTH]; |
char filerest[FILENAMELENGTH]; |
Line 1360 char *subdirf3(char fileres[], char *pre
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Line 1406 char *subdirf3(char fileres[], char *pre
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strcat(tmpout,fileres); |
strcat(tmpout,fileres); |
return tmpout; |
return tmpout; |
} |
} |
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/*************** function subdirfext ***********/ |
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char *subdirfext(char fileres[], char *preop, char *postop) |
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{ |
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strcpy(tmpout,preop); |
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strcat(tmpout,fileres); |
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strcat(tmpout,postop); |
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return tmpout; |
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} |
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/*************** function subdirfext3 ***********/ |
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char *subdirfext3(char fileres[], char *preop, char *postop) |
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{ |
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/* Caution optionfilefiname is hidden */ |
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strcpy(tmpout,optionfilefiname); |
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strcat(tmpout,"/"); |
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strcat(tmpout,preop); |
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strcat(tmpout,fileres); |
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strcat(tmpout,postop); |
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return tmpout; |
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} |
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char *asc_diff_time(long time_sec, char ascdiff[]) |
char *asc_diff_time(long time_sec, char ascdiff[]) |
{ |
{ |
long sec_left, days, hours, minutes; |
long sec_left, days, hours, minutes; |
Line 1985 double **prevalim(double **prlim, int nl
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Line 2054 double **prevalim(double **prlim, int nl
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/* If we start from prlim again, prlim tends to a constant matrix */ |
/* If we start from prlim again, prlim tends to a constant matrix */ |
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int i, ii,j,k; |
int i, ii,j,k; |
double min, max, maxmin, maxmax,sumnew=0.; |
double *min, *max, *meandiff, maxmax,sumnew=0.; |
/* 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=200. ; /* 100 Max number of years to converge */ |
int ncvloop=0; |
int ncvloop=0; |
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min=vector(1,nlstate); |
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max=vector(1,nlstate); |
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meandiff=vector(1,nlstate); |
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for (ii=1;ii<=nlstate+ndeath;ii++) |
for (ii=1;ii<=nlstate+ndeath;ii++) |
for (j=1;j<=nlstate+ndeath;j++){ |
for (j=1;j<=nlstate+ndeath;j++){ |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
Line 2029 double **prevalim(double **prlim, int nl
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Line 2102 double **prevalim(double **prlim, int nl
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savm=oldm; |
savm=oldm; |
oldm=newm; |
oldm=newm; |
maxmax=0.; |
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for(j=1;j<=nlstate;j++){ |
for(j=1; j<=nlstate; j++){ |
min=1.; |
max[j]=0.; |
max=0.; |
min[j]=1.; |
for(i=1; i<=nlstate; i++) { |
} |
sumnew=0; |
for(i=1;i<=nlstate;i++){ |
for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; |
sumnew=0; |
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for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; |
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for(j=1; j<=nlstate; j++){ |
prlim[i][j]= newm[i][j]/(1-sumnew); |
prlim[i][j]= newm[i][j]/(1-sumnew); |
max=FMAX(max,prlim[i][j]); |
max[j]=FMAX(max[j],prlim[i][j]); |
min=FMIN(min,prlim[i][j]); |
min[j]=FMIN(min[j],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); |
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} |
} |
maxmin=(max-min)/(max+min)*2; |
} |
maxmax=FMAX(maxmax,maxmin); |
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maxmax=0.; |
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for(j=1; j<=nlstate; j++){ |
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meandiff[j]=(max[j]-min[j])/(max[j]+min[j])*2.; /* mean difference for each column */ |
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maxmax=FMAX(maxmax,meandiff[j]); |
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/* printf(" age= %d meandiff[%d]=%f, agefin=%d max[%d]=%f min[%d]=%f maxmax=%f\n", (int)age, j, meandiff[j],(int)agefin, j, max[j], j, min[j],maxmax); */ |
} /* 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 ncvloop=%ld, age=%d, agefin=%d ncvyear=%d \n", maxmax, ncvloop, (int)age, (int)agefin, *ncvyear); */ |
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free_vector(min,1,nlstate); |
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free_vector(max,1,nlstate); |
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free_vector(meandiff,1,nlstate); |
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. Try to lower 'ftolpl'. \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); |
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/* 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); */ |
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free_vector(min,1,nlstate); |
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free_vector(max,1,nlstate); |
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free_vector(meandiff,1,nlstate); |
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return prlim; /* should not reach here */ |
return prlim; /* should not reach here */ |
} |
} |
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/**** Back Prevalence limit (stable or period prevalence) ****************/ |
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double **bprevalim(double **bprlim, int nlstate, double x[], double age, double **oldm, double **savm, double ftolpl, int *ncvyear, int ij) |
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{ |
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/* Computes the prevalence limit in each live state at age x by left multiplying the unit |
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matrix by transitions matrix until convergence is reached with precision ftolpl */ |
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/* Wx= Wx-1 Px-1= Wx-2 Px-2 Px-1 = Wx-n Px-n ... Px-2 Px-1 I */ |
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/* Wx is row vector: population in state 1, population in state 2, population dead */ |
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/* or prevalence in state 1, prevalence in state 2, 0 */ |
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/* newm is the matrix after multiplications, its rows are identical at a factor */ |
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/* Initial matrix pimij */ |
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/* {0.85204250825084937, 0.13044499163996345, 0.017512500109187184, */ |
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/* 0.090851990222114765, 0.88271245433047185, 0.026435555447413338, */ |
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/* 0, 0 , 1} */ |
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/* |
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* and after some iteration: */ |
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/* {0.45504275246439968, 0.42731458730878791, 0.11764266022681241, */ |
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/* 0.45201005341706885, 0.42865420071559901, 0.11933574586733192, */ |
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/* 0, 0 , 1} */ |
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/* And prevalence by suppressing the deaths are close to identical rows in prlim: */ |
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/* {0.51571254859325999, 0.4842874514067399, */ |
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/* 0.51326036147820708, 0.48673963852179264} */ |
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/* If we start from prlim again, prlim tends to a constant matrix */ |
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int i, ii,j,k; |
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double *min, *max, *meandiff, maxmax,sumnew=0.; |
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/* double **matprod2(); */ /* test */ |
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double **out, cov[NCOVMAX+1], **bmij(); |
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double **newm; |
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double agefin, delaymax=200. ; /* 100 Max number of years to converge */ |
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int ncvloop=0; |
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min=vector(1,nlstate); |
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max=vector(1,nlstate); |
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meandiff=vector(1,nlstate); |
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for (ii=1;ii<=nlstate+ndeath;ii++) |
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for (j=1;j<=nlstate+ndeath;j++){ |
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oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
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} |
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cov[1]=1.; |
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/* Even if hstepm = 1, at least one multiplication by the unit matrix */ |
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/* Start at agefin= age, computes the matrix of passage and loops decreasing agefin until convergence is reached */ |
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for(agefin=age+stepm/YEARM; agefin<=age+delaymax; agefin=agefin+stepm/YEARM){ |
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ncvloop++; |
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newm=savm; |
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/* Covariates have to be included here again */ |
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cov[2]=agefin; |
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if(nagesqr==1) |
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cov[3]= agefin*agefin;; |
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for (k=1; k<=cptcovn;k++) { |
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/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
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cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
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/* printf("prevalim ij=%d k=%d Tvar[%d]=%d nbcode=%d cov=%lf codtabm(%d,Tvar[%d])=%d \n",ij,k, k, Tvar[k],nbcode[Tvar[k]][codtabm(ij,Tvar[k])],cov[2+k], ij, k, codtabm(ij,Tvar[k])]); */ |
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} |
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/*wrong? for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
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/* for (k=1; k<=cptcovage;k++) cov[2+nagesqr+Tage[k]]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]*cov[2]; */ |
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for (k=1; k<=cptcovage;k++) cov[2+nagesqr+Tage[k]]=nbcode[Tvar[k]][codtabm(ij,k)]*cov[2]; |
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for (k=1; k<=cptcovprod;k++) /* Useless */ |
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/* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,Tvard[k][1])] * nbcode[Tvard[k][2]][codtabm(ij,Tvard[k][2])]; */ |
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cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)] * nbcode[Tvard[k][2]][codtabm(ij,k)]; |
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/*printf("ij=%d cptcovprod=%d tvar=%d ", ij, cptcovprod, Tvar[1]);*/ |
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/*printf("ij=%d cov[3]=%lf cov[4]=%lf \n",ij, cov[3],cov[4]);*/ |
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/*printf("ij=%d cov[3]=%lf \n",ij, cov[3]);*/ |
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/* savm=pmij(pmmij,cov,ncovmodel,x,nlstate); */ |
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/* out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); /\* Bug Valgrind *\/ */ |
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out=matprod2(newm, oldm ,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, bmij(pmmij,cov,ncovmodel,x,nlstate)); /* Bug Valgrind */ |
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savm=oldm; |
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oldm=newm; |
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for(j=1; j<=nlstate; j++){ |
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max[j]=0.; |
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min[j]=1.; |
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} |
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/* sumnew=0; */ |
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/* for(k=1; k<=ndeath; k++) sumnew+=newm[i][nlstate+k]; */ |
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for(j=1; j<=nlstate; j++){ |
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for(i=1;i<=nlstate;i++){ |
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/* bprlim[i][j]= newm[i][j]/(1-sumnew); */ |
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bprlim[i][j]= newm[i][j]; |
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max[i]=FMAX(max[i],bprlim[i][j]); |
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min[i]=FMIN(min[i],bprlim[i][j]); |
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} |
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} |
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maxmax=0.; |
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for(i=1; i<=nlstate; i++){ |
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meandiff[i]=(max[i]-min[i])/(max[i]+min[i])*2.; /* mean difference for each column */ |
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maxmax=FMAX(maxmax,meandiff[i]); |
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/* printf("Back age= %d meandiff[%d]=%f, agefin=%d max[%d]=%f min[%d]=%f maxmax=%f\n", (int)age, i, meandiff[i],(int)agefin, i, max[i], i, min[i],maxmax); */ |
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} /* j loop */ |
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*ncvyear= -( (int)age- (int)agefin); |
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/* printf("Back maxmax=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, ncvloop, (int)age, (int)agefin, *ncvyear); */ |
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if(maxmax < ftolpl){ |
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printf("OK Back maxmax=%lf ncvloop=%d, age=%d, agefin=%d ncvyear=%d \n", maxmax, ncvloop, (int)age, (int)agefin, *ncvyear); |
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free_vector(min,1,nlstate); |
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free_vector(max,1,nlstate); |
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free_vector(meandiff,1,nlstate); |
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return bprlim; |
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} |
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} /* age loop */ |
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/* After some age loop it doesn't converge */ |
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printf("Warning: the back stable prevalence at age %d did not converge with the required precision (%g > ftolpl=%g) within %.0f years. Try to lower 'ftolpl'. \n\ |
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Oldest 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); |
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/* 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); */ |
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free_vector(min,1,nlstate); |
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free_vector(max,1,nlstate); |
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free_vector(meandiff,1,nlstate); |
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return bprlim; /* should not reach here */ |
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} |
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/*************** transition probabilities ***************/ |
/*************** transition probabilities ***************/ |
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double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
double **pmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
Line 2139 double **pmij(double **ps, double *cov,
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Line 2343 double **pmij(double **ps, double *cov,
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return ps; |
return ps; |
} |
} |
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/*************** transition probabilities ***************/ |
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double **bmij(double **ps, double *cov, int ncovmodel, double *x, int nlstate ) |
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{ |
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/* According to parameters values stored in x and the covariate's values stored in cov, |
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computes the probability to be observed in state j being in state i by appying the |
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model to the ncovmodel covariates (including constant and age). |
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lnpijopii=ln(pij/pii)= aij+bij*age+cij*v1+dij*v2+... = sum_nc=1^ncovmodel xij(nc)*cov[nc] |
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and, according on how parameters are entered, the position of the coefficient xij(nc) of the |
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ncth covariate in the global vector x is given by the formula: |
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j<i nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel |
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j>=i nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel |
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Computes ln(pij/pii) (lnpijopii), deduces pij/pii by exponentiation, |
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sums on j different of i to get 1-pii/pii, deduces pii, and then all pij. |
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Outputs ps[i][j] the probability to be observed in j being in j according to |
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the values of the covariates cov[nc] and corresponding parameter values x[nc+shiftij] |
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*/ |
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double s1, lnpijopii; |
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/*double t34;*/ |
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int i,j, nc, ii, jj; |
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for(i=1; i<= nlstate; i++){ |
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for(j=1; j<i;j++){ |
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for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
|
/*lnpijopii += param[i][j][nc]*cov[nc];*/ |
|
lnpijopii += x[nc+((i-1)*(nlstate+ndeath-1)+j-1)*ncovmodel]*cov[nc]; |
|
/* printf("Int j<i s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
|
} |
|
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
|
/* printf("s1=%.17e, lnpijopii=%.17e\n",s1,lnpijopii); */ |
|
} |
|
for(j=i+1; j<=nlstate+ndeath;j++){ |
|
for (nc=1, lnpijopii=0.;nc <=ncovmodel; nc++){ |
|
/*lnpijopii += x[(i-1)*nlstate*ncovmodel+(j-2)*ncovmodel+nc+(i-1)*(ndeath-1)*ncovmodel]*cov[nc];*/ |
|
lnpijopii += x[nc + ((i-1)*(nlstate+ndeath-1)+(j-2))*ncovmodel]*cov[nc]; |
|
/* printf("Int j>i s1=%.17e, lnpijopii=%.17e %lx %lx\n",s1,lnpijopii,s1,lnpijopii); */ |
|
} |
|
ps[i][j]=lnpijopii; /* In fact ln(pij/pii) */ |
|
} |
|
} |
|
|
|
for(i=1; i<= nlstate; i++){ |
|
s1=0; |
|
for(j=1; j<i; j++){ |
|
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
|
/*printf("debug1 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
|
} |
|
for(j=i+1; j<=nlstate+ndeath; j++){ |
|
s1+=exp(ps[i][j]); /* In fact sums pij/pii */ |
|
/*printf("debug2 %d %d ps=%lf exp(ps)=%lf s1+=%lf\n",i,j,ps[i][j],exp(ps[i][j]),s1); */ |
|
} |
|
/* s1= sum_{j<>i} pij/pii=(1-pii)/pii and thus pii is known from s1 */ |
|
ps[i][i]=1./(s1+1.); |
|
/* Computing other pijs */ |
|
for(j=1; j<i; j++) |
|
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
|
for(j=i+1; j<=nlstate+ndeath; j++) |
|
ps[i][j]= exp(ps[i][j])*ps[i][i]; |
|
/* ps[i][nlstate+1]=1.-s1- ps[i][i];*/ /* Sum should be 1 */ |
|
} /* end i */ |
|
|
|
for(ii=nlstate+1; ii<= nlstate+ndeath; ii++){ |
|
for(jj=1; jj<= nlstate+ndeath; jj++){ |
|
ps[ii][jj]=0; |
|
ps[ii][ii]=1; |
|
} |
|
} |
|
/* Added for backcast */ |
|
for(jj=1; jj<= nlstate; jj++){ |
|
s1=0.; |
|
for(ii=1; ii<= nlstate; ii++){ |
|
s1+=ps[ii][jj]; |
|
} |
|
for(ii=1; ii<= nlstate; ii++){ |
|
ps[ii][jj]=ps[ii][jj]/s1; |
|
} |
|
} |
|
|
|
/* for(ii=1; ii<= nlstate+ndeath; ii++){ */ |
|
/* for(jj=1; jj<= nlstate+ndeath; jj++){ */ |
|
/* printf(" pmij ps[%d][%d]=%lf ",ii,jj,ps[ii][jj]); */ |
|
/* } */ |
|
/* printf("\n "); */ |
|
/* } */ |
|
/* printf("\n ");printf("%lf ",cov[2]);*/ |
|
/* |
|
for(i=1; i<= npar; i++) printf("%f ",x[i]); |
|
goto end;*/ |
|
return ps; |
|
} |
|
|
|
|
/**************** Product of 2 matrices ******************/ |
/**************** Product of 2 matrices ******************/ |
|
|
double **matprod2(double **out, double **in,int nrl, int nrh, int ncl, int nch, int ncolol, int ncoloh, double **b) |
double **matprod2(double **out, double **in,int nrl, int nrh, int ncl, int nch, int ncolol, int ncoloh, double **b) |
Line 2179 double ***hpxij(double ***po, int nhstep
|
Line 2475 double ***hpxij(double ***po, int nhstep
|
double **out, cov[NCOVMAX+1]; |
double **out, cov[NCOVMAX+1]; |
double **newm; |
double **newm; |
double agexact; |
double agexact; |
|
double agebegin, ageend; |
|
|
/* Hstepm could be zero and should return the unit matrix */ |
/* Hstepm could be zero and should return the unit matrix */ |
for (i=1;i<=nlstate+ndeath;i++) |
for (i=1;i<=nlstate+ndeath;i++) |
Line 2192 double ***hpxij(double ***po, int nhstep
|
Line 2489 double ***hpxij(double ***po, int nhstep
|
newm=savm; |
newm=savm; |
/* Covariates have to be included here again */ |
/* Covariates have to be included here again */ |
cov[1]=1.; |
cov[1]=1.; |
agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; |
agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; /* age just before transition */ |
cov[2]=agexact; |
cov[2]=agexact; |
if(nagesqr==1) |
if(nagesqr==1) |
cov[3]= agexact*agexact; |
cov[3]= agexact*agexact; |
Line 2212 double ***hpxij(double ***po, int nhstep
|
Line 2509 double ***hpxij(double ***po, int nhstep
|
/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, |
out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, |
pmij(pmmij,cov,ncovmodel,x,nlstate)); |
pmij(pmmij,cov,ncovmodel,x,nlstate)); |
|
/* if((int)age == 70){ */ |
|
/* printf(" Forward hpxij age=%d agexact=%f d=%d nhstepm=%d hstepm=%d\n", (int) age, agexact, d, nhstepm, hstepm); */ |
|
/* for(i=1; i<=nlstate+ndeath; i++) { */ |
|
/* printf("%d pmmij ",i); */ |
|
/* for(j=1;j<=nlstate+ndeath;j++) { */ |
|
/* printf("%f ",pmmij[i][j]); */ |
|
/* } */ |
|
/* printf(" oldm "); */ |
|
/* for(j=1;j<=nlstate+ndeath;j++) { */ |
|
/* printf("%f ",oldm[i][j]); */ |
|
/* } */ |
|
/* printf("\n"); */ |
|
/* } */ |
|
/* } */ |
savm=oldm; |
savm=oldm; |
oldm=newm; |
oldm=newm; |
} |
} |
Line 2226 double ***hpxij(double ***po, int nhstep
|
Line 2537 double ***hpxij(double ***po, int nhstep
|
return po; |
return po; |
} |
} |
|
|
#ifdef NLOPT |
/************* Higher Back Matrix Product ***************/ |
double myfunc(unsigned n, const double *p1, double *grad, void *pd){ |
|
double fret; |
|
double *xt; |
|
int j; |
|
myfunc_data *d2 = (myfunc_data *) pd; |
|
/* xt = (p1-1); */ |
|
xt=vector(1,n); |
|
for (j=1;j<=n;j++) xt[j]=p1[j-1]; /* xt[1]=p1[0] */ |
|
|
|
fret=(d2->function)(xt); /* p xt[1]@8 is fine */ |
|
/* fret=(*func)(xt); /\* p xt[1]@8 is fine *\/ */ |
|
printf("Function = %.12lf ",fret); |
|
for (j=1;j<=n;j++) printf(" %d %.8lf", j, xt[j]); |
|
printf("\n"); |
|
free_vector(xt,1,n); |
|
return fret; |
|
} |
|
#endif |
|
|
|
/*************** log-likelihood *************/ |
double ***hbxij(double ***po, int nhstepm, double age, int hstepm, double *x, int nlstate, int stepm, double **oldm, double **savm, int ij ) |
double func( double *x) |
|
{ |
{ |
int i, ii, j, k, mi, d, kk; |
/* Computes the transition matrix starting at age 'age' over |
double l, ll[NLSTATEMAX+1], cov[NCOVMAX+1]; |
'nhstepm*hstepm*stepm' months (i.e. until |
double **out; |
age (in years) age+nhstepm*hstepm*stepm/12) by multiplying |
double sw; /* Sum of weights */ |
nhstepm*hstepm matrices. |
double lli; /* Individual log likelihood */ |
Output is stored in matrix po[i][j][h] for h every 'hstepm' step |
int s1, s2; |
(typically every 2 years instead of every month which is too big |
double bbh, survp; |
for the memory). |
long ipmx; |
Model is determined by parameters x and covariates have to be |
double agexact; |
included manually here. |
/*extern weight */ |
|
/* We are differentiating ll according to initial status */ |
|
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
|
/*for(i=1;i<imx;i++) |
|
printf(" %d\n",s[4][i]); |
|
*/ |
|
|
|
++countcallfunc; |
|
|
|
cov[1]=1.; |
*/ |
|
|
for(k=1; k<=nlstate; k++) ll[k]=0.; |
int i, j, d, h, k; |
|
double **out, cov[NCOVMAX+1]; |
|
double **newm; |
|
double agexact; |
|
double agebegin, ageend; |
|
|
if(mle==1){ |
/* Hstepm could be zero and should return the unit matrix */ |
for (i=1,ipmx=0, sw=0.; i<=imx; i++){ |
for (i=1;i<=nlstate+ndeath;i++) |
/* Computes the values of the ncovmodel covariates of the model |
for (j=1;j<=nlstate+ndeath;j++){ |
depending if the covariates are fixed or variying (age dependent) and stores them in cov[] |
oldm[i][j]=(i==j ? 1.0 : 0.0); |
Then computes with function pmij which return a matrix p[i][j] giving the elementary probability |
po[i][j][0]=(i==j ? 1.0 : 0.0); |
|
} |
|
/* Even if hstepm = 1, at least one multiplication by the unit matrix */ |
|
for(h=1; h <=nhstepm; h++){ |
|
for(d=1; d <=hstepm; d++){ |
|
newm=savm; |
|
/* Covariates have to be included here again */ |
|
cov[1]=1.; |
|
agexact=age-((h-1)*hstepm + (d-1))*stepm/YEARM; /* age just before transition */ |
|
/* agexact=age+((h-1)*hstepm + (d-1))*stepm/YEARM; /\* age just before transition *\/ */ |
|
cov[2]=agexact; |
|
if(nagesqr==1) |
|
cov[3]= agexact*agexact; |
|
for (k=1; k<=cptcovn;k++) |
|
cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,k)]; |
|
/* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ |
|
for (k=1; k<=cptcovage;k++) /* Should start at cptcovn+1 */ |
|
/* cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ |
|
cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; |
|
/* cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,Tvar[Tage[k]])]*cov[2]; */ |
|
for (k=1; k<=cptcovprod;k++) /* Useless because included in cptcovn */ |
|
cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; |
|
/* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,Tvard[k][1])]*nbcode[Tvard[k][2]][codtabm(ij,Tvard[k][2])]; */ |
|
|
|
|
|
/*printf("hxi cptcov=%d cptcode=%d\n",cptcov,cptcode);*/ |
|
/*printf("h=%d d=%d age=%f cov=%f\n",h,d,age,cov[2]);*/ |
|
out=matprod2(newm, bmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, |
|
oldm); |
|
/* if((int)age == 70){ */ |
|
/* printf(" Backward hbxij age=%d agexact=%f d=%d nhstepm=%d hstepm=%d\n", (int) age, agexact, d, nhstepm, hstepm); */ |
|
/* for(i=1; i<=nlstate+ndeath; i++) { */ |
|
/* printf("%d pmmij ",i); */ |
|
/* for(j=1;j<=nlstate+ndeath;j++) { */ |
|
/* printf("%f ",pmmij[i][j]); */ |
|
/* } */ |
|
/* printf(" oldm "); */ |
|
/* for(j=1;j<=nlstate+ndeath;j++) { */ |
|
/* printf("%f ",oldm[i][j]); */ |
|
/* } */ |
|
/* printf("\n"); */ |
|
/* } */ |
|
/* } */ |
|
savm=oldm; |
|
oldm=newm; |
|
} |
|
for(i=1; i<=nlstate+ndeath; i++) |
|
for(j=1;j<=nlstate+ndeath;j++) { |
|
po[i][j][h]=newm[i][j]; |
|
/*if(h==nhstepm) printf("po[%d][%d][%d]=%f ",i,j,h,po[i][j][h]);*/ |
|
} |
|
/*printf("h=%d ",h);*/ |
|
} /* end h */ |
|
/* printf("\n H=%d \n",h); */ |
|
return po; |
|
} |
|
|
|
|
|
#ifdef NLOPT |
|
double myfunc(unsigned n, const double *p1, double *grad, void *pd){ |
|
double fret; |
|
double *xt; |
|
int j; |
|
myfunc_data *d2 = (myfunc_data *) pd; |
|
/* xt = (p1-1); */ |
|
xt=vector(1,n); |
|
for (j=1;j<=n;j++) xt[j]=p1[j-1]; /* xt[1]=p1[0] */ |
|
|
|
fret=(d2->function)(xt); /* p xt[1]@8 is fine */ |
|
/* fret=(*func)(xt); /\* p xt[1]@8 is fine *\/ */ |
|
printf("Function = %.12lf ",fret); |
|
for (j=1;j<=n;j++) printf(" %d %.8lf", j, xt[j]); |
|
printf("\n"); |
|
free_vector(xt,1,n); |
|
return fret; |
|
} |
|
#endif |
|
|
|
/*************** log-likelihood *************/ |
|
double func( double *x) |
|
{ |
|
int i, ii, j, k, mi, d, kk; |
|
double l, ll[NLSTATEMAX+1], cov[NCOVMAX+1]; |
|
double **out; |
|
double sw; /* Sum of weights */ |
|
double lli; /* Individual log likelihood */ |
|
int s1, s2; |
|
double bbh, survp; |
|
long ipmx; |
|
double agexact; |
|
/*extern weight */ |
|
/* We are differentiating ll according to initial status */ |
|
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
|
/*for(i=1;i<imx;i++) |
|
printf(" %d\n",s[4][i]); |
|
*/ |
|
|
|
++countcallfunc; |
|
|
|
cov[1]=1.; |
|
|
|
for(k=1; k<=nlstate; k++) ll[k]=0.; |
|
|
|
if(mle==1){ |
|
for (i=1,ipmx=0, sw=0.; i<=imx; i++){ |
|
/* Computes the values of the ncovmodel covariates of the model |
|
depending if the covariates are fixed or variying (age dependent) and stores them in cov[] |
|
Then computes with function pmij which return a matrix p[i][j] giving the elementary probability |
to be observed in j being in i according to the model. |
to be observed in j being in i according to the model. |
*/ |
*/ |
for (k=1; k<=cptcovn;k++){ /* Simple and product covariates without age* products */ |
for (k=1; k<=cptcovn;k++){ /* Simple and product covariates without age* products */ |
Line 2369 double func( double *x)
|
Line 2764 double func( double *x)
|
/* else */ |
/* else */ |
/* lli=log(out[s1][s2] - savm[s1][s2]); */ |
/* lli=log(out[s1][s2] - savm[s1][s2]); */ |
/* #endif */ |
/* #endif */ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
|
|
} else if (s2==-2) { |
} else if ( s2==-1 ) { /* alive */ |
for (j=1,survp=0. ; j<=nlstate; j++) |
for (j=1,survp=0. ; j<=nlstate; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
/*survp += out[s1][j]; */ |
/*survp += out[s1][j]; */ |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
else if (s2==-4) { |
else if (s2==-4) { |
for (j=3,survp=0. ; j<=nlstate; j++) |
for (j=3,survp=0. ; j<=nlstate; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
else if (s2==-5) { |
else if (s2==-5) { |
for (j=1,survp=0. ; j<=2; j++) |
for (j=1,survp=0. ; j<=2; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
} |
} |
|
|
else{ |
else{ |
lli= log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]); /* linear interpolation */ |
lli= log((1.+bbh)*out[s1][s2]- bbh*savm[s1][s2]); /* linear interpolation */ |
/* lli= (savm[s1][s2]>(double)1.e-8 ?log((1.+bbh)*out[s1][s2]- bbh*(savm[s1][s2])):log((1.+bbh)*out[s1][s2]));*/ /* linear interpolation */ |
/* lli= (savm[s1][s2]>(double)1.e-8 ?log((1.+bbh)*out[s1][s2]- bbh*(savm[s1][s2])):log((1.+bbh)*out[s1][s2]));*/ /* linear interpolation */ |
Line 2501 double func( double *x)
|
Line 2893 double func( double *x)
|
s2=s[mw[mi+1][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
if( s2 > nlstate){ |
if( s2 > nlstate){ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
|
} else if ( s2==-1 ) { /* alive */ |
|
for (j=1,survp=0. ; j<=nlstate; j++) |
|
survp += out[s1][j]; |
|
lli= log(survp); |
}else{ |
}else{ |
lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]); /* Original formula */ |
lli=log(out[s[mw[mi][i]][i]][s[mw[mi+1][i]][i]]); /* Original formula */ |
} |
} |
Line 2563 double funcone( double *x)
|
Line 2959 double funcone( double *x)
|
int s1, s2; |
int s1, s2; |
double bbh, survp; |
double bbh, survp; |
double agexact; |
double agexact; |
|
double agebegin, ageend; |
/*extern weight */ |
/*extern weight */ |
/* We are differentiating ll according to initial status */ |
/* We are differentiating ll according to initial status */ |
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
/* for (i=1;i<=npar;i++) printf("%f ", x[i]);*/ |
Line 2581 double funcone( double *x)
|
Line 2978 double funcone( double *x)
|
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
oldm[ii][j]=(ii==j ? 1.0 : 0.0); |
savm[ii][j]=(ii==j ? 1.0 : 0.0); |
savm[ii][j]=(ii==j ? 1.0 : 0.0); |
} |
} |
for(d=0; d<dh[mi][i]; d++){ |
|
|
agebegin=agev[mw[mi][i]][i]; /* Age at beginning of effective wave */ |
|
ageend=agev[mw[mi][i]][i] + (dh[mi][i])*stepm/YEARM; /* Age at end of effective wave and at the end of transition */ |
|
for(d=0; d<dh[mi][i]; d++){ /* Delay between two effective waves */ |
|
/*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.*/ |
newm=savm; |
newm=savm; |
agexact=agev[mw[mi][i]][i]+d*stepm/YEARM; |
agexact=agev[mw[mi][i]][i]+d*stepm/YEARM; |
cov[2]=agexact; |
cov[2]=agexact; |
Line 2602 double funcone( double *x)
|
Line 3004 double funcone( double *x)
|
|
|
s1=s[mw[mi][i]][i]; |
s1=s[mw[mi][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
s2=s[mw[mi+1][i]][i]; |
|
/* if(s2==-1){ */ |
|
/* printf(" s1=%d, s2=%d i=%d \n", s1, s2, i); */ |
|
/* /\* exit(1); *\/ */ |
|
/* } */ |
bbh=(double)bh[mi][i]/(double)stepm; |
bbh=(double)bh[mi][i]/(double)stepm; |
/* bias is positive if real duration |
/* bias is positive if real duration |
* is higher than the multiple of stepm and negative otherwise. |
* is higher than the multiple of stepm and negative otherwise. |
*/ |
*/ |
if( s2 > nlstate && (mle <5) ){ /* Jackson */ |
if( s2 > nlstate && (mle <5) ){ /* Jackson */ |
lli=log(out[s1][s2] - savm[s1][s2]); |
lli=log(out[s1][s2] - savm[s1][s2]); |
} else if (s2==-2) { |
} else if ( s2==-1 ) { /* alive */ |
for (j=1,survp=0. ; j<=nlstate; j++) |
for (j=1,survp=0. ; j<=nlstate; j++) |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
survp += (1.+bbh)*out[s1][j]- bbh*savm[s1][j]; |
lli= log(survp); |
lli= log(survp); |
Line 2629 double funcone( double *x)
|
Line 3035 double funcone( double *x)
|
ll[s[mw[mi][i]][i]] += 2*weight[i]*lli; |
ll[s[mw[mi][i]][i]] += 2*weight[i]*lli; |
/*printf("i=%6d s1=%1d s2=%1d mi=%1d mw=%1d dh=%3d prob=%10.6f w=%6.4f out=%10.6f sav=%10.6f\n",i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],out[s1][s2],savm[s1][s2]); */ |
/*printf("i=%6d s1=%1d s2=%1d mi=%1d mw=%1d dh=%3d prob=%10.6f w=%6.4f out=%10.6f sav=%10.6f\n",i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],out[s1][s2],savm[s1][s2]); */ |
if(globpr){ |
if(globpr){ |
fprintf(ficresilk,"%9ld %6.1f %6d %2d %2d %2d %2d %3d %11.6f %8.4f %8.3f\ |
fprintf(ficresilk,"%9ld %6.1f %6.1f %6d %2d %2d %2d %2d %3d %11.6f %8.4f %8.3f\ |
%11.6f %11.6f %11.6f ", \ |
%11.6f %11.6f %11.6f ", \ |
num[i], agexact, i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],weight[i]*gipmx/gsw, |
num[i], agebegin, ageend, i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],weight[i]*gipmx/gsw, |
2*weight[i]*lli,out[s1][s2],savm[s1][s2]); |
2*weight[i]*lli,out[s1][s2],savm[s1][s2]); |
for(k=1,llt=0.,l=0.; k<=nlstate; k++){ |
for(k=1,llt=0.,l=0.; k<=nlstate; k++){ |
llt +=ll[k]*gipmx/gsw; |
llt +=ll[k]*gipmx/gsw; |
Line 2669 void likelione(FILE *ficres,double p[],
|
Line 3075 void likelione(FILE *ficres,double p[],
|
printf("Problem with resultfile: %s\n", fileresilk); |
printf("Problem with resultfile: %s\n", fileresilk); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresilk); |
fprintf(ficlog,"Problem with resultfile: %s\n", fileresilk); |
} |
} |
fprintf(ficresilk, "#individual(line's_record) count age s1 s2 wave# effective_wave# number_of_matrices_product pij weight weight/gpw -2ln(pij)*weight 0pij_x 0pij_(x-stepm) cumulating_loglikeli_by_health_state(reweighted=-2ll*weightXnumber_of_contribs/sum_of_weights) and_total\n"); |
fprintf(ficresilk, "#individual(line's_record) count ageb ageend s1 s2 wave# effective_wave# number_of_matrices_product pij weight weight/gpw -2ln(pij)*weight 0pij_x 0pij_(x-stepm) cumulating_loglikeli_by_health_state(reweighted=-2ll*weightXnumber_of_contribs/sum_of_weights) and_total\n"); |
fprintf(ficresilk, "#num_i age i s1 s2 mi mw dh likeli weight %%weight 2wlli out sav "); |
fprintf(ficresilk, "#num_i ageb agend i s1 s2 mi mw dh likeli weight %%weight 2wlli out sav "); |
/* i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],2*weight[i]*lli,out[s1][s2],savm[s1][s2]); */ |
/* i,s1,s2,mi,mw[mi][i],dh[mi][i],exp(lli),weight[i],2*weight[i]*lli,out[s1][s2],savm[s1][s2]); */ |
for(k=1; k<=nlstate; k++) |
for(k=1; k<=nlstate; k++) |
fprintf(ficresilk," -2*gipw/gsw*weight*ll[%d]++",k); |
fprintf(ficresilk," -2*gipw/gsw*weight*ll[%d]++",k); |
Line 2686 void likelione(FILE *ficres,double p[],
|
Line 3092 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)); |
|
|
|
|
|
for (k=1; k<= nlstate ; k++) { |
|
fprintf(fichtm,"<br>- Probability p<sub>%dj</sub> by origin %d and destination j. Dot's sizes are related to corresponding weight: <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); |
|
} |
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> \ |
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_")); |
<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> \ |
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_")); |
<img src=\"%s-dest.png\">",subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_"),subdirf2(optionfilefiname,"ILK_")); |
fflush(fichtm); |
fflush(fichtm); |
|
|
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> \ |
|
<img src=\"%s-p%dj.png\">",k,k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k,subdirf2(optionfilefiname,"ILK_"),k); |
|
} |
|
} |
} |
return; |
return; |
} |
} |
Line 2960 double hessij( double x[], double **hess
|
Line 3366 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 3389 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 3141 void pstamp(FILE *fichier)
|
Line 3550 void pstamp(FILE *fichier)
|
} |
} |
|
|
/************ Frequencies ********************/ |
/************ Frequencies ********************/ |
void freqsummary(char fileres[], int iagemin, int iagemax, int **s, double **agev, int nlstate, int imx, int *Tvaraff, int **nbcode, int *ncodemax,double **mint,double **anint, char strstart[]) |
void freqsummary(char fileres[], int iagemin, int iagemax, int **s, double **agev, int nlstate, int imx, \ |
|
int *Tvaraff, int **nbcode, int *ncodemax,double **mint,double **anint, char strstart[],\ |
|
int firstpass, int lastpass, int stepm, int weightopt, char model[]) |
{ /* Some frequencies */ |
{ /* Some frequencies */ |
|
|
int i, m, jk, j1, bool, z1,j; |
int i, m, jk, j1, bool, z1,j; |
|
int mi; /* Effective wave */ |
int first; |
int first; |
double ***freq; /* Frequencies */ |
double ***freq; /* Frequencies */ |
double *pp, **prop; |
double *pp, **prop; |
double pos,posprop, k2, dateintsum=0,k2cpt=0; |
double pos,posprop, k2, dateintsum=0,k2cpt=0; |
char fileresp[FILENAMELENGTH]; |
char fileresp[FILENAMELENGTH], fileresphtm[FILENAMELENGTH], fileresphtmfr[FILENAMELENGTH]; |
|
double agebegin, ageend; |
|
|
pp=vector(1,nlstate); |
pp=vector(1,nlstate); |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
prop=matrix(1,nlstate,iagemin,iagemax+3); |
strcpy(fileresp,"P_"); |
strcpy(fileresp,"P_"); |
strcat(fileresp,fileresu); |
strcat(fileresp,fileresu); |
|
/*strcat(fileresphtm,fileresu);*/ |
if((ficresp=fopen(fileresp,"w"))==NULL) { |
if((ficresp=fopen(fileresp,"w"))==NULL) { |
printf("Problem with prevalence resultfile: %s\n", fileresp); |
printf("Problem with prevalence resultfile: %s\n", fileresp); |
fprintf(ficlog,"Problem with prevalence resultfile: %s\n", fileresp); |
fprintf(ficlog,"Problem with prevalence resultfile: %s\n", fileresp); |
exit(0); |
exit(0); |
} |
} |
|
|
|
strcpy(fileresphtm,subdirfext(optionfilefiname,"PHTM_",".htm")); |
|
if((ficresphtm=fopen(fileresphtm,"w"))==NULL) { |
|
printf("Problem with prevalence HTM resultfile '%s' with errno='%s'\n",fileresphtm,strerror(errno)); |
|
fprintf(ficlog,"Problem with prevalence HTM resultfile '%s' with errno='%s'\n",fileresphtm,strerror(errno)); |
|
fflush(ficlog); |
|
exit(70); |
|
} |
|
else{ |
|
fprintf(ficresphtm,"<html><head>\n<title>IMaCh PHTM_ %s</title></head>\n <body><font size=\"2\">%s <br> %s</font> \ |
|
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
|
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s<br>\n",\ |
|
fileresphtm,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
|
} |
|
fprintf(ficresphtm,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Frequencies and prevalence by age at begin of transition</h4>\n",fileresphtm, fileresphtm); |
|
|
|
strcpy(fileresphtmfr,subdirfext(optionfilefiname,"PHTMFR_",".htm")); |
|
if((ficresphtmfr=fopen(fileresphtmfr,"w"))==NULL) { |
|
printf("Problem with frequency table HTM resultfile '%s' with errno='%s'\n",fileresphtmfr,strerror(errno)); |
|
fprintf(ficlog,"Problem with frequency table HTM resultfile '%s' with errno='%s'\n",fileresphtmfr,strerror(errno)); |
|
fflush(ficlog); |
|
exit(70); |
|
} |
|
else{ |
|
fprintf(ficresphtmfr,"<html><head>\n<title>IMaCh PHTM_Frequency table %s</title></head>\n <body><font size=\"2\">%s <br> %s</font> \ |
|
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
|
Title=%s <br>Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s<br>\n",\ |
|
fileresphtmfr,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
|
} |
|
fprintf(ficresphtmfr,"Current page is file <a href=\"%s\">%s</a><br>\n\n<h4>Frequencies of all effective transitions by age at begin of transition </h4>Unknown status is -1<br/>\n",fileresphtmfr, fileresphtmfr); |
|
|
freq= ma3x(-5,nlstate+ndeath,-5,nlstate+ndeath,iagemin,iagemax+3); |
freq= ma3x(-5,nlstate+ndeath,-5,nlstate+ndeath,iagemin,iagemax+3); |
j1=0; |
j1=0; |
|
|
Line 3168 void freqsummary(char fileres[], int ia
|
Line 3613 void freqsummary(char fileres[], int ia
|
|
|
first=1; |
first=1; |
|
|
/* for(k1=1; k1<=j ; k1++){ */ /* Loop on covariates */ |
for (j1 = 1; j1 <= (int) pow(2,cptcoveff); j1++){ /* Loop on covariates combination */ |
/* for(i1=1; i1<=ncodemax[k1];i1++){ */ /* Now it is 2 */ |
|
/* j1++; */ |
|
for (j1 = 1; j1 <= (int) pow(2,cptcoveff); j1++){ |
|
/*printf("cptcoveff=%d Tvaraff=%d", cptcoveff,Tvaraff[1]); |
/*printf("cptcoveff=%d Tvaraff=%d", cptcoveff,Tvaraff[1]); |
scanf("%d", i);*/ |
scanf("%d", i);*/ |
for (i=-5; i<=nlstate+ndeath; i++) |
for (i=-5; i<=nlstate+ndeath; i++) |
Line 3185 void freqsummary(char fileres[], int ia
|
Line 3627 void freqsummary(char fileres[], int ia
|
|
|
dateintsum=0; |
dateintsum=0; |
k2cpt=0; |
k2cpt=0; |
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { /* For each individual i */ |
bool=1; |
bool=1; |
if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
for (z1=1; z1<=cptcoveff; z1++) |
for (z1=1; z1<=cptcoveff; z1++) |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]){ |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]){ |
/* Tests if the value of each of the covariates of i is equal to filter j1 */ |
/* Tests if the value of each of the covariates of i is equal to filter j1 */ |
Line 3197 void freqsummary(char fileres[], int ia
|
Line 3639 void freqsummary(char fileres[], int ia
|
j1,z1,nbcode[Tvaraff[z1]][codtabm(j1,z1)],j1);*/ |
j1,z1,nbcode[Tvaraff[z1]][codtabm(j1,z1)],j1);*/ |
/* For j1=7 in V1+V2+V3+V4 = 0 1 1 0 and codtabm(7,3)=1 and nbcde[3][?]=1*/ |
/* For j1=7 in V1+V2+V3+V4 = 0 1 1 0 and codtabm(7,3)=1 and nbcde[3][?]=1*/ |
} |
} |
} |
} /* cptcovn > 0 */ |
|
|
if (bool==1){ |
if (bool==1){ |
for(m=firstpass; m<=lastpass; m++){ |
/* for(m=firstpass; m<=lastpass; m++){ */ |
k2=anint[m][i]+(mint[m][i]/12.); |
for(mi=1; mi<wav[i];mi++){ |
/*if ((k2>=dateprev1) && (k2<=dateprev2)) {*/ |
m=mw[mi][i]; |
if(agev[m][i]==0) agev[m][i]=iagemax+1; |
/* dh[m][i] or dh[mw[mi][i]][i] is the delay between two effective (mi) waves m=mw[mi][i] |
if(agev[m][i]==1) agev[m][i]=iagemax+2; |
and mw[mi+1][i]. dh depends on stepm. */ |
if (s[m][i]>0 && s[m][i]<=nlstate) prop[s[m][i]][(int)agev[m][i]] += weight[i]; |
agebegin=agev[m][i]; /* Age at beginning of wave before transition*/ |
|
ageend=agev[m][i]+(dh[m][i])*stepm/YEARM; /* Age at end of wave and transition */ |
|
if(m >=firstpass && m <=lastpass){ |
|
k2=anint[m][i]+(mint[m][i]/12.); |
|
/*if ((k2>=dateprev1) && (k2<=dateprev2)) {*/ |
|
if(agev[m][i]==0) agev[m][i]=iagemax+1; /* All ages equal to 0 are in iagemax+1 */ |
|
if(agev[m][i]==1) agev[m][i]=iagemax+2; /* All ages equal to 1 are in iagemax+2 */ |
|
if (s[m][i]>0 && s[m][i]<=nlstate) /* If status at wave m is known and a live state */ |
|
prop[s[m][i]][(int)agev[m][i]] += weight[i]; /* At age of beginning of transition, where status is known */ |
if (m<lastpass) { |
if (m<lastpass) { |
freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i]; |
/* if(s[m][i]==4 && s[m+1][i]==4) */ |
freq[s[m][i]][s[m+1][i]][iagemax+3] += weight[i]; |
/* printf(" num=%ld m=%d, i=%d s1=%d s2=%d agev at m=%d\n", num[i], m, i,s[m][i],s[m+1][i], (int)agev[m][i]); */ |
} |
if(s[m][i]==-1) |
|
printf(" num=%ld m=%d, i=%d s1=%d s2=%d agev at m=%d agebegin=%.2f ageend=%.2f, agemed=%d\n", num[i], m, i,s[m][i],s[m+1][i], (int)agev[m][i],agebegin, ageend, (int)((agebegin+ageend)/2.)); |
if ((agev[m][i]>1) && (agev[m][i]< (iagemax+3))) { |
freq[s[m][i]][s[m+1][i]][(int)agev[m][i]] += weight[i]; /* At age of beginning of transition, where status is known */ |
dateintsum=dateintsum+k2; |
/* freq[s[m][i]][s[m+1][i]][(int)((agebegin+ageend)/2.)] += weight[i]; */ |
k2cpt++; |
freq[s[m][i]][s[m+1][i]][iagemax+3] += weight[i]; /* Total is in iagemax+3 *//* At age of beginning of transition, where status is known */ |
} |
} |
/*}*/ |
} |
} |
if ((agev[m][i]>1) && (agev[m][i]< (iagemax+3)) && (anint[m][i]!=9999) && (mint[m][i]!=99)) { |
} |
dateintsum=dateintsum+k2; |
} /* end i */ |
k2cpt++; |
|
/* printf("i=%ld dateintmean = %lf dateintsum=%lf k2cpt=%lf k2=%lf\n",i, dateintsum/k2cpt, dateintsum,k2cpt, k2); */ |
|
} |
|
/*}*/ |
|
} /* end m */ |
|
} /* end bool */ |
|
} /* end i = 1 to imx */ |
|
|
/* fprintf(ficresp, "#Count between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);*/ |
/* fprintf(ficresp, "#Count between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2);*/ |
pstamp(ficresp); |
pstamp(ficresp); |
if (cptcovn>0) { |
if (cptcovn>0) { |
fprintf(ficresp, "\n#********** Variable "); |
fprintf(ficresp, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficresphtm, "\n<br/><br/><h3>********** Variable "); |
fprintf(ficresp, "**********\n#"); |
fprintf(ficresphtmfr, "\n<br/><br/><h3>********** Variable "); |
|
for (z1=1; z1<=cptcoveff; z1++){ |
|
fprintf(ficresp, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
|
fprintf(ficresphtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
|
fprintf(ficresphtmfr, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
|
} |
|
fprintf(ficresp, "**********\n#"); |
|
fprintf(ficresphtm, "**********</h3>\n"); |
|
fprintf(ficresphtmfr, "**********</h3>\n"); |
fprintf(ficlog, "\n#********** Variable "); |
fprintf(ficlog, "\n#********** Variable "); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficlog, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
for (z1=1; z1<=cptcoveff; z1++) fprintf(ficlog, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,z1)]); |
fprintf(ficlog, "**********\n#"); |
fprintf(ficlog, "**********\n"); |
} |
} |
for(i=1; i<=nlstate;i++) |
fprintf(ficresphtm,"<table style=\"text-align:center; border: 1px solid\">"); |
|
for(i=1; i<=nlstate;i++) { |
fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i); |
fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i); |
|
fprintf(ficresphtm, "<th>Age</th><th>Prev(%d)</th><th>N(%d)</th><th>N</th>",i,i); |
|
} |
fprintf(ficresp, "\n"); |
fprintf(ficresp, "\n"); |
|
fprintf(ficresphtm, "\n"); |
|
|
|
/* Header of frequency table by age */ |
|
fprintf(ficresphtmfr,"<table style=\"text-align:center; border: 1px solid\">"); |
|
fprintf(ficresphtmfr,"<th>Age</th> "); |
|
for(jk=-1; jk <=nlstate+ndeath; jk++){ |
|
for(m=-1; m <=nlstate+ndeath; m++){ |
|
if(jk!=0 && m!=0) |
|
fprintf(ficresphtmfr,"<th>%d%d</th> ",jk,m); |
|
} |
|
} |
|
fprintf(ficresphtmfr, "\n"); |
|
|
|
/* For each age */ |
for(i=iagemin; i <= iagemax+3; i++){ |
for(i=iagemin; i <= iagemax+3; i++){ |
if(i==iagemax+3){ |
fprintf(ficresphtm,"<tr>"); |
|
if(i==iagemax+1){ |
|
fprintf(ficlog,"1"); |
|
fprintf(ficresphtmfr,"<tr><th>0</th> "); |
|
}else if(i==iagemax+2){ |
|
fprintf(ficlog,"0"); |
|
fprintf(ficresphtmfr,"<tr><th>Unknown</th> "); |
|
}else if(i==iagemax+3){ |
fprintf(ficlog,"Total"); |
fprintf(ficlog,"Total"); |
|
fprintf(ficresphtmfr,"<tr><th>Total</th> "); |
}else{ |
}else{ |
if(first==1){ |
if(first==1){ |
first=0; |
first=0; |
printf("See log file for details...\n"); |
printf("See log file for details...\n"); |
} |
} |
|
fprintf(ficresphtmfr,"<tr><th>%d</th> ",i); |
fprintf(ficlog,"Age %d", i); |
fprintf(ficlog,"Age %d", i); |
} |
} |
for(jk=1; jk <=nlstate ; jk++){ |
for(jk=1; jk <=nlstate ; jk++){ |
Line 3284 void freqsummary(char fileres[], int ia
|
Line 3773 void freqsummary(char fileres[], int ia
|
if( i <= iagemax){ |
if( i <= iagemax){ |
if(pos>=1.e-5){ |
if(pos>=1.e-5){ |
fprintf(ficresp," %d %.5f %.0f %.0f",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
fprintf(ficresp," %d %.5f %.0f %.0f",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
|
fprintf(ficresphtm,"<th>%d</th><td>%.5f</td><td>%.0f</td><td>%.0f</td>",i,prop[jk][i]/posprop, prop[jk][i],posprop); |
/*probs[i][jk][j1]= pp[jk]/pos;*/ |
/*probs[i][jk][j1]= pp[jk]/pos;*/ |
/*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/ |
/*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/ |
} |
} |
else |
else{ |
fprintf(ficresp," %d NaNq %.0f %.0f",i,prop[jk][i],posprop); |
fprintf(ficresp," %d NaNq %.0f %.0f",i,prop[jk][i],posprop); |
|
fprintf(ficresphtm,"<th>%d</th><td>NaNq</td><td>%.0f</td><td>%.0f</td>",i, prop[jk][i],posprop); |
|
} |
} |
} |
} |
} |
|
|
for(jk=-1; jk <=nlstate+ndeath; jk++) |
for(jk=-1; jk <=nlstate+ndeath; jk++){ |
for(m=-1; m <=nlstate+ndeath; m++) |
for(m=-1; m <=nlstate+ndeath; m++){ |
if(freq[jk][m][i] !=0 ) { |
if(freq[jk][m][i] !=0 ) { /* minimizing output */ |
if(first==1) |
if(first==1){ |
printf(" %d%d=%.0f",jk,m,freq[jk][m][i]); |
printf(" %d%d=%.0f",jk,m,freq[jk][m][i]); |
|
} |
fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]); |
fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]); |
} |
} |
if(i <= iagemax) |
if(jk!=0 && m!=0) |
|
fprintf(ficresphtmfr,"<td>%.0f</td> ",freq[jk][m][i]); |
|
} |
|
} |
|
fprintf(ficresphtmfr,"</tr>\n "); |
|
if(i <= iagemax){ |
fprintf(ficresp,"\n"); |
fprintf(ficresp,"\n"); |
|
fprintf(ficresphtm,"</tr>\n"); |
|
} |
if(first==1) |
if(first==1) |
printf("Others in log...\n"); |
printf("Others in log...\n"); |
fprintf(ficlog,"\n"); |
fprintf(ficlog,"\n"); |
} |
} /* end loop i */ |
|
fprintf(ficresphtm,"</table>\n"); |
|
fprintf(ficresphtmfr,"</table>\n"); |
/*}*/ |
/*}*/ |
} |
} /* end j1 */ |
dateintmean=dateintsum/k2cpt; |
dateintmean=dateintsum/k2cpt; |
|
|
fclose(ficresp); |
fclose(ficresp); |
|
fclose(ficresphtm); |
|
fclose(ficresphtmfr); |
free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin, iagemax+3); |
free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin, iagemax+3); |
free_vector(pp,1,nlstate); |
free_vector(pp,1,nlstate); |
free_matrix(prop,1,nlstate,iagemin, iagemax+3); |
free_matrix(prop,1,nlstate,iagemin, iagemax+3); |
Line 3325 void prevalence(double ***probs, double
|
Line 3829 void prevalence(double ***probs, double
|
*/ |
*/ |
|
|
int i, m, jk, j1, bool, z1,j; |
int i, m, jk, j1, bool, z1,j; |
|
int mi; /* Effective wave */ |
|
int iage; |
|
double agebegin, ageend; |
|
|
double **prop; |
double **prop; |
double posprop; |
double posprop; |
Line 3344 void prevalence(double ***probs, double
|
Line 3851 void prevalence(double ***probs, double
|
|
|
first=1; |
first=1; |
for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ |
for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ |
/*for(i1=1; i1<=ncodemax[k1];i1++){ |
for (i=1; i<=nlstate; i++) |
j1++;*/ |
for(iage=iagemin; iage <= iagemax+3; iage++) |
|
prop[i][iage]=0.0; |
for (i=1; i<=nlstate; i++) |
|
for(m=iagemin; m <= iagemax+3; m++) |
for (i=1; i<=imx; i++) { /* Each individual */ |
prop[i][m]=0.0; |
bool=1; |
|
if (cptcovn>0) { /* Filter is here: Must be looked at for model=V1+V2+V3+V4 */ |
for (i=1; i<=imx; i++) { /* Each individual */ |
for (z1=1; z1<=cptcoveff; z1++) |
bool=1; |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]) |
if (cptcovn>0) { |
bool=0; |
for (z1=1; z1<=cptcoveff; z1++) |
} |
if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtabm(j1,z1)]) |
if (bool==1) { |
bool=0; |
/* for(m=firstpass; m<=lastpass; m++){/\* Other selection (we can limit to certain interviews*\/ */ |
} |
for(mi=1; mi<wav[i];mi++){ |
if (bool==1) { |
m=mw[mi][i]; |
for(m=firstpass; m<=lastpass; m++){/* Other selection (we can limit to certain interviews*/ |
agebegin=agev[m][i]; /* Age at beginning of wave before transition*/ |
|
/* ageend=agev[m][i]+(dh[m][i])*stepm/YEARM; /\* Age at end of wave and transition *\/ */ |
|
if(m >=firstpass && m <=lastpass){ |
y2=anint[m][i]+(mint[m][i]/12.); /* Fractional date in year */ |
y2=anint[m][i]+(mint[m][i]/12.); /* Fractional date in year */ |
if ((y2>=dateprev1) && (y2<=dateprev2)) { /* Here is the main selection (fractional years) */ |
if ((y2>=dateprev1) && (y2<=dateprev2)) { /* Here is the main selection (fractional years) */ |
if(agev[m][i]==0) agev[m][i]=iagemax+1; |
if(agev[m][i]==0) agev[m][i]=iagemax+1; |
if(agev[m][i]==1) agev[m][i]=iagemax+2; |
if(agev[m][i]==1) agev[m][i]=iagemax+2; |
if((int)agev[m][i] <iagemin || (int)agev[m][i] >iagemax+3) printf("Error on individual =%d agev[m][i]=%f m=%d\n",i, agev[m][i],m); |
if((int)agev[m][i] <iagemin || (int)agev[m][i] >iagemax+3) printf("Error on individual =%d agev[m][i]=%f m=%d\n",i, agev[m][i],m); |
if (s[m][i]>0 && s[m][i]<=nlstate) { |
if (s[m][i]>0 && s[m][i]<=nlstate) { |
/*if(i>4620) printf(" i=%d m=%d s[m][i]=%d (int)agev[m][i]=%d weight[i]=%f prop=%f\n",i,m,s[m][i],(int)agev[m][m],weight[i],prop[s[m][i]][(int)agev[m][i]]);*/ |
/*if(i>4620) printf(" i=%d m=%d s[m][i]=%d (int)agev[m][i]=%d weight[i]=%f prop=%f\n",i,m,s[m][i],(int)agev[m][m],weight[i],prop[s[m][i]][(int)agev[m][i]]);*/ |
prop[s[m][i]][(int)agev[m][i]] += weight[i]; |
prop[s[m][i]][(int)agev[m][i]] += weight[i];/* At age of beginning of transition, where status is known */ |
prop[s[m][i]][iagemax+3] += weight[i]; |
prop[s[m][i]][iagemax+3] += weight[i]; |
} |
} /* end valid statuses */ |
} |
} /* end selection of dates */ |
} /* end selection of waves */ |
} /* end selection of waves */ |
} |
} /* end effective waves */ |
} |
} /* end bool */ |
for(i=iagemin; i <= iagemax+3; i++){ |
} |
for(jk=1,posprop=0; jk <=nlstate ; jk++) { |
for(i=iagemin; i <= iagemax+3; i++){ |
posprop += prop[jk][i]; |
for(jk=1,posprop=0; jk <=nlstate ; jk++) { |
} |
posprop += prop[jk][i]; |
|
} |
for(jk=1; jk <=nlstate ; jk++){ |
|
if( i <= iagemax){ |
for(jk=1; jk <=nlstate ; jk++){ |
if(posprop>=1.e-5){ |
if( i <= iagemax){ |
probs[i][jk][j1]= prop[jk][i]/posprop; |
if(posprop>=1.e-5){ |
} else{ |
probs[i][jk][j1]= prop[jk][i]/posprop; |
if(first==1){ |
} else{ |
first=0; |
if(first==1){ |
printf("Warning Observed prevalence probs[%d][%d][%d]=%lf because of lack of cases\nSee others on log file...\n",jk,i,j1,probs[i][jk][j1]); |
first=0; |
} |
printf("Warning Observed prevalence probs[%d][%d][%d]=%lf because of lack of cases\nSee others on log file...\n",jk,i,j1,probs[i][jk][j1]); |
} |
} |
} |
} |
}/* end jk */ |
} |
}/* end i */ |
}/* end jk */ |
|
}/* end i */ |
/*} *//* end i1 */ |
/*} *//* end i1 */ |
} /* end j1 */ |
} /* end j1 */ |
|
|
Line 3414 void concatwav(int wav[], int **dh, int
|
Line 3924 void concatwav(int wav[], int **dh, int
|
int i, mi, m; |
int i, mi, m; |
/* int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1; |
/* int j, k=0,jk, ju, jl,jmin=1e+5, jmax=-1; |
double sum=0., jmean=0.;*/ |
double sum=0., jmean=0.;*/ |
int first; |
int first, firstwo, firsthree; |
int j, k=0,jk, ju, jl; |
int j, k=0,jk, ju, jl; |
double sum=0.; |
double sum=0.; |
first=0; |
first=0; |
|
firstwo=0; |
|
firsthree=0; |
jmin=100000; |
jmin=100000; |
jmax=-1; |
jmax=-1; |
jmean=0.; |
jmean=0.; |
for(i=1; i<=imx; i++){ |
for(i=1; i<=imx; i++){ /* For simple cases and if state is death */ |
mi=0; |
mi=0; |
m=firstpass; |
m=firstpass; |
while(s[m][i] <= nlstate){ |
while(s[m][i] <= nlstate){ /* a live state */ |
if(s[m][i]>=1 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5) |
if(s[m][i]>=1 || s[m][i]==-4 || s[m][i]==-5){ /* Since 0.98r4 if status=-2 vital status is really unknown, wave should be skipped */ |
mw[++mi][i]=m; |
mw[++mi][i]=m; |
if(m >=lastpass) |
} |
|
if(m >=lastpass){ |
|
if(s[m][i]==-1 && (int) andc[i] == 9999 && (int)anint[m][i] != 9999){ |
|
if(firsthree == 0){ |
|
printf("Information! Unknown health 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.\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); |
|
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.\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); |
|
firsthree=1; |
|
}else{ |
|
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.\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); |
|
} |
|
mw[++mi][i]=m; |
|
} |
|
if(s[m][i]==-2){ /* Vital status is really unknown */ |
|
nbwarn++; |
|
if((int)anint[m][i] == 9999){ /* Has the vital status really been verified? */ |
|
printf("Warning! Vital status for individual %ld (line=%d) at last wave %d interviewed at date %d/%d is unknown %d. Please, check if the vital status and the date of death %d/%d are really unknown. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], s[m][i], (int) moisdc[i], (int) andc[i], i, m); |
|
fprintf(ficlog,"Warning! Vital status for individual %ld (line=%d) at last wave %d interviewed at date %d/%d is unknown %d. Please, check if the vital status and the date of death %d/%d are really unknown. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,lastpass,(int)mint[m][i],(int)anint[m][i], s[m][i], (int) moisdc[i], (int) andc[i], i, m); |
|
} |
|
break; |
|
} |
break; |
break; |
|
} |
else |
else |
m++; |
m++; |
}/* end while */ |
}/* end while */ |
if (s[m][i] > nlstate){ |
|
|
/* After last pass */ |
|
if (s[m][i] > nlstate){ /* In a death state */ |
mi++; /* Death is another wave */ |
mi++; /* Death is another wave */ |
/* if(mi==0) never been interviewed correctly before death */ |
/* if(mi==0) never been interviewed correctly before death */ |
/* Only death is a correct wave */ |
/* Only death is a correct wave */ |
mw[mi][i]=m; |
mw[mi][i]=m; |
|
}else if ((int) andc[i] != 9999) { /* Status is either death or negative. A death occured after lastpass, we can't take it into account because of potential bias */ |
|
/* m++; */ |
|
/* mi++; */ |
|
/* s[m][i]=nlstate+1; /\* We are setting the status to the last of non live state *\/ */ |
|
/* mw[mi][i]=m; */ |
|
nberr++; |
|
if(firstwo==0){ |
|
printf("Error! Death for individual %ld line=%d occurred %d/%d after last wave %d interviewed at %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
fprintf(ficlog,"Error! Death for individual %ld line=%d occurred %d/%d after last wave %d interviewed at %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
firstwo=1; |
|
}else if(firstwo==1){ |
|
fprintf(ficlog,"Error! Death for individual %ld line=%d occurred %d/%d after last wave %d interviewed at %d/%d. Potential bias if other individuals are still alive at this date but ignored. This case (%d)/wave (%d) is skipped, no contribution to likelihood.\nOthers in log file only\n",num[i],i,(int) moisdc[i], (int) andc[i], lastpass,(int)mint[m][i],(int)anint[m][i], i,m ); |
|
} |
} |
} |
|
|
wav[i]=mi; |
wav[i]=mi; |
if(mi==0){ |
if(mi==0){ |
nbwarn++; |
nbwarn++; |
Line 3451 void concatwav(int wav[], int **dh, int
|
Line 3997 void concatwav(int wav[], int **dh, int
|
} |
} |
} /* end mi==0 */ |
} /* end mi==0 */ |
} /* End individuals */ |
} /* End individuals */ |
|
/* wav and mw are no more changed */ |
|
|
|
|
for(i=1; i<=imx; i++){ |
for(i=1; i<=imx; i++){ |
for(mi=1; mi<wav[i];mi++){ |
for(mi=1; mi<wav[i];mi++){ |
if (stepm <=0) |
if (stepm <=0) |
Line 3993 void cvevsij(double ***eij, double x[],
|
Line 4541 void cvevsij(double ***eij, double x[],
|
} |
} |
|
|
/************ Variance ******************/ |
/************ Variance ******************/ |
void varevsij(char optionfilefiname[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyear, int ij, int estepm, int cptcov, int cptcod, int popbased, int mobilav, char strstart[]) |
void varevsij(char optionfilefiname[], double ***vareij, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, int estepm, int cptcov, int cptcod, int popbased, int mobilav, char strstart[]) |
{ |
{ |
/* Variance of health expectancies */ |
/* Variance of health expectancies */ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/ |
Line 4047 void cvevsij(double ***eij, double x[],
|
Line 4595 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 4605 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 4643 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 because of memory size limitations, |
/* 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 4118 void cvevsij(double ***eij, double x[],
|
Line 4666 void cvevsij(double ***eij, double x[],
|
for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ |
for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ |
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); |
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij); |
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
|
if (popbased==1) { |
if (popbased==1) { |
if(mobilav ==0){ |
if(mobilav ==0){ |
Line 4131 void cvevsij(double ***eij, double x[],
|
Line 4679 void cvevsij(double ***eij, double x[],
|
} |
} |
} |
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); /* Returns p3mat[i][j][h] for h=1 to nhstepm */ |
for(j=1; j<= nlstate; j++){ |
for(j=1; j<= nlstate; j++){ |
for(h=0; h<=nhstepm; h++){ |
for(h=0; h<=nhstepm; h++){ |
for(i=1, gp[h][j]=0.;i<=nlstate;i++) |
for(i=1, gp[h][j]=0.;i<=nlstate;i++) |
gp[h][j] += prlim[i][i]*p3mat[i][j][h]; |
gp[h][j] += prlim[i][i]*p3mat[i][j][h]; |
} |
} |
} |
} |
/* This for computing probability of death (h=1 means |
/* Next for computing probability of death (h=1 means |
computed over hstepm matrices product = hstepm*stepm months) |
computed over hstepm matrices product = hstepm*stepm months) |
as a weighted average of prlim. |
as a weighted average of prlim. |
*/ |
*/ |
Line 4149 void cvevsij(double ***eij, double x[],
|
Line 4698 void cvevsij(double ***eij, double x[],
|
|
|
for(i=1; i<=npar; i++) /* Computes gradient x - delta */ |
for(i=1; i<=npar; i++) /* Computes gradient x - delta */ |
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); |
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear, ij); |
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp, ij); |
|
|
if (popbased==1) { |
if (popbased==1) { |
if(mobilav ==0){ |
if(mobilav ==0){ |
Line 4162 void cvevsij(double ***eij, double x[],
|
Line 4711 void cvevsij(double ***eij, double x[],
|
} |
} |
} |
} |
|
|
|
hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); |
|
|
for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ |
for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ |
for(h=0; h<=nhstepm; h++){ |
for(h=0; h<=nhstepm; h++){ |
for(i=1, gm[h][j]=0.;i<=nlstate;i++) |
for(i=1, gm[h][j]=0.;i<=nlstate;i++) |
Line 4224 void cvevsij(double ***eij, double x[],
|
Line 4775 void cvevsij(double ***eij, double x[],
|
varppt[j][i]=doldmp[j][i]; |
varppt[j][i]=doldmp[j][i]; |
/* end ppptj */ |
/* end ppptj */ |
/* x centered again */ |
/* x centered again */ |
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij); |
|
prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ncvyear,ij); |
prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
|
if (popbased==1) { |
if (popbased==1) { |
if(mobilav ==0){ |
if(mobilav ==0){ |
Line 4241 void cvevsij(double ***eij, double x[],
|
Line 4792 void cvevsij(double ***eij, double x[],
|
computed over hstepm (estepm) matrices product = hstepm*stepm months) |
computed over hstepm (estepm) matrices product = hstepm*stepm months) |
as a weighted average of prlim. |
as a weighted average of prlim. |
*/ |
*/ |
|
hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij); |
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
for(j=nlstate+1;j<=nlstate+ndeath;j++){ |
for(i=1,gmp[j]=0.;i<= nlstate; i++) |
for(i=1,gmp[j]=0.;i<= nlstate; i++) |
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
gmp[j] += prlim[i][i]*p3mat[i][j][1]; |
Line 4303 void cvevsij(double ***eij, double x[],
|
Line 4855 void cvevsij(double ***eij, double x[],
|
} /* end varevsij */ |
} /* end varevsij */ |
|
|
/************ Variance of prevlim ******************/ |
/************ Variance of prevlim ******************/ |
void varprevlim(char fileres[], double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyear, int ij, char strstart[]) |
void varprevlim(char fileres[], double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, char strstart[]) |
{ |
{ |
/* Variance of prevalence limit for each state ij using current parameters x[] and estimates of neighbourhood give by delti*/ |
/* Variance of prevalence limit for each state ij using current parameters x[] and estimates of neighbourhood give by delti*/ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double **savm,double ftolpl);*/ |
/* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double **savm,double ftolpl);*/ |
Line 4313 void cvevsij(double ***eij, double x[],
|
Line 4865 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 4335 void cvevsij(double ***eij, double x[],
|
Line 4888 void cvevsij(double ***eij, double x[],
|
if (stepm >= YEARM) hstepm=1; |
if (stepm >= YEARM) hstepm=1; |
nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */ |
nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */ |
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 4897 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); |
} |
} |
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyear,ij); |
if((int)age==79 ||(int)age== 80 ||(int)age== 81 ) |
for(i=1;i<=nlstate;i++) |
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
else |
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
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); |
if((int)age==79 ||(int)age== 80 ||(int)age== 81 ) |
for(i=1;i<=nlstate;i++) |
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
else |
|
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij); |
|
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]; |
|
/* gradg[theta][2]= -gradg[theta][1]; */ /* For testing if nlstate=2 */ |
} /* End theta */ |
} /* End theta */ |
|
|
trgradg =matrix(1,nlstate,1,npar); |
trgradg =matrix(1,nlstate,1,npar); |
Line 4361 void cvevsij(double ***eij, double x[],
|
Line 4925 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==79 ||(int)age== 80 ||(int)age== 81 ){ */ |
|
/* 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==79 ||(int)age== 80 ||(int)age== 81 ){ */ |
|
/* 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==79 ||(int)age== 80 ||(int)age== 81){ |
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 4962 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 4730 To be simple, these graphs help to under
|
Line 5314 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 estepm ,\ |
int popforecast, int prevfcast, int backcast, int estepm , \ |
double jprev1, double mprev1,double anprev1, \ |
double jprev1, double mprev1,double anprev1, double dateprev1, \ |
double jprev2, double mprev2,double anprev2){ |
double jprev2, double mprev2,double anprev2, double dateprev2){ |
int jj1, k1, i1, cpt; |
int jj1, k1, i1, cpt; |
|
|
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 \ |
<li><a href='#secondorder'>Result files (second order (variance)</a>\n \ |
<li><a href='#secondorder'>Result files (second order (variance)</a>\n \ |
</ul>"); |
</ul>"); |
fprintf(fichtm,"<ul><li><h4><a name='firstorder'>Result files (first order: no variance)</a></h4>\n \ |
fprintf(fichtm,"<ul><li><h4><a name='firstorder'>Result files (first order: no variance)</a></h4>\n"); |
- Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> <br>\n ", |
fprintf(fichtm,"<li>- Observed frequency between two states (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> (html file)<br/>\n", |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileresu,"P_"),subdirf2(fileresu,"P_")); |
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTMFR_",".htm"),subdirfext3(optionfilefiname,"PHTMFR_",".htm")); |
|
fprintf(fichtm,"<li> - Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): <a href=\"%s\">%s</a> (html file) ", |
|
jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTM_",".htm"),subdirfext3(optionfilefiname,"PHTM_",".htm")); |
|
fprintf(fichtm,", <a href=\"%s\">%s</a> (text file) <br>\n",subdirf2(fileresu,"P_"),subdirf2(fileresu,"P_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- Estimated transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
- Estimated transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
stepm,subdirf2(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); |
stepm,subdirf2(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
|
- Estimated back transition probabilities over %d (stepm) months: <a href=\"%s\">%s</a><br>\n ", |
|
stepm,subdirf2(fileresu,"PIJB_"),subdirf2(fileresu,"PIJB_")); |
|
fprintf(fichtm,"\ |
- Period (stable) prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
- Period (stable) prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
subdirf2(fileresu,"PL_"),subdirf2(fileresu,"PL_")); |
subdirf2(fileresu,"PL_"),subdirf2(fileresu,"PL_")); |
fprintf(fichtm,"\ |
fprintf(fichtm,"\ |
- (a) Life expectancies by health status at initial age, ei. (b) health expectancies by health status at initial age, eij . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ |
- Period (stable) back prevalence in each health state: <a href=\"%s\">%s</a> <br>\n", |
|
subdirf2(fileresu,"PLB_"),subdirf2(fileresu,"PLB_")); |
|
fprintf(fichtm,"\ |
|
- (a) Life expectancies by health status at initial age, e<sub>i.</sub> (b) health expectancies by health status at initial age, e<sub>ij</sub> . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ |
<a href=\"%s\">%s</a> <br>\n", |
<a href=\"%s\">%s</a> <br>\n", |
estepm,subdirf2(fileresu,"E_"),subdirf2(fileresu,"E_")); |
estepm,subdirf2(fileresu,"E_"),subdirf2(fileresu,"E_")); |
fprintf(fichtm,"\ |
if(prevfcast==1){ |
- Population projections by age and states: \ |
fprintf(fichtm,"\ |
|
- Prevalence projections by age and states: \ |
<a href=\"%s\">%s</a> <br>\n</li>", subdirf2(fileresu,"F_"),subdirf2(fileresu,"F_")); |
<a href=\"%s\">%s</a> <br>\n</li>", subdirf2(fileresu,"F_"),subdirf2(fileresu,"F_")); |
|
} |
|
|
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
fprintf(fichtm," \n<ul><li><b>Graphs</b></li><p>"); |
|
|
Line 4773 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
Line 5368 fprintf(fichtm," \n<ul><li><b>Graphs</b>
|
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
fprintf(fichtm," ************\n<hr size=\"2\" color=\"#EC5E5E\">"); |
} |
} |
/* aij, bij */ |
/* aij, bij */ |
fprintf(fichtm,"<br>- Logit model, for example: logit(pij)=log(pij/pii)= aij+ bij age + V1 age + etc. as a function of age: <a href=\"%s_%d-1.svg\">%s_%d-1.svg</a><br> \ |
fprintf(fichtm,"<br>- Logit model (yours is: 1+age+%s), for example: logit(pij)=log(pij/pii)= aij+ bij age + V1 age + etc. as a function of age: <a href=\"%s_%d-1.svg\">%s_%d-1.svg</a><br> \ |
<img src=\"%s_%d-1.svg\">",subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
<img src=\"%s_%d-1.svg\">",model,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
/* Pij */ |
/* Pij */ |
fprintf(fichtm,"<br>\n- Pij or conditional probabilities to be observed in state j being in state i, %d (stepm) months before: <a href=\"%s_%d-2.svg\">%s_%d-2.svg</a><br> \ |
fprintf(fichtm,"<br>\n- P<sub>ij</sub> or conditional probabilities to be observed in state j being in state i, %d (stepm) months before: <a href=\"%s_%d-2.svg\">%s_%d-2.svg</a><br> \ |
<img src=\"%s_%d-2.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
<img src=\"%s_%d-2.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
/* Quasi-incidences */ |
/* Quasi-incidences */ |
fprintf(fichtm,"<br>\n- Iij or Conditional probabilities to be observed in state j being in state i %d (stepm) months\ |
fprintf(fichtm,"<br>\n- I<sub>ij</sub> or Conditional probabilities to be observed in state j being in state i %d (stepm) months\ |
before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too,\ |
before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too,\ |
incidence (rates) are the limit when h tends to zero of the ratio of the probability hPij \ |
incidence (rates) are the limit when h tends to zero of the ratio of the probability <sub>h</sub>P<sub>ij</sub> \ |
divided by h: hPij/h : <a href=\"%s_%d-3.svg\">%s_%d-3.svg</a><br> \ |
divided by h: <sub>h</sub>P<sub>ij</sub>/h : <a href=\"%s_%d-3.svg\">%s_%d-3.svg</a><br> \ |
<img src=\"%s_%d-3.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
<img src=\"%s_%d-3.svg\">",stepm,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1,subdirf2(optionfilefiname,"PE_"),jj1); |
/* Survival functions (period) in state j */ |
/* Survival functions (period) in state j */ |
for(cpt=1; cpt<=nlstate;cpt++){ |
for(cpt=1; cpt<=nlstate;cpt++){ |
Line 4791 divided by h: hPij/h : <a href=\"%s_%d-3
|
Line 5386 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); |
} |
} |
/* Period (stable) prevalence in each health state */ |
/* Period (stable) prevalence in each health state */ |
for(cpt=1; cpt<=nlstate;cpt++){ |
for(cpt=1; cpt<=nlstate;cpt++){ |
fprintf(fichtm,"<br>\n- Convergence to period (stable) prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> \ |
fprintf(fichtm,"<br>\n- Convergence to period (stable) prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s_%d-%d.svg\">%s_%d-%d.svg</a><br> \ |
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1); |
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1,subdirf2(optionfilefiname,"P_"),cpt,jj1); |
} |
} |
|
if(backcast==1){ |
|
/* Period (stable) back prevalence in each health state */ |
|
for(cpt=1; cpt<=nlstate;cpt++){ |
|
fprintf(fichtm,"<br>\n- Convergence to period (stable) back prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s_%d-%d.svg\">%s_%d-%d.svg</a><br> \ |
|
<img src=\"%s_%d-%d.svg\">", cpt, cpt, nlstate, subdirf2(optionfilefiname,"PB_"),cpt,jj1,subdirf2(optionfilefiname,"PB_"),cpt,jj1,subdirf2(optionfilefiname,"PB_"),cpt,jj1); |
|
} |
|
} |
|
if(prevfcast==1){ |
|
/* Projection of prevalence up to period (stable) prevalence in each health state */ |
|
for(cpt=1; cpt<=nlstate;cpt++){ |
|
fprintf(fichtm,"<br>\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f) up to period (stable) prevalence in state %d. Or probability to be in state %d being in state (1 to %d) at different ages. <a href=\"%s%d_%d.svg\">%s%d_%d.svg</a><br> \ |
|
<img src=\"%s_%d-%d.svg\">", dateprev1, dateprev2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1,subdirf2(optionfilefiname,"PROJ_"),cpt,jj1); |
|
} |
|
} |
|
|
for(cpt=1; cpt<=nlstate;cpt++) { |
for(cpt=1; cpt<=nlstate;cpt++) { |
fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) (or area under each survival functions): <a href=\"%s_%d%d.svg\">%s_%d%d.svg</a> <br> \ |
fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) (or area under each survival functions): <a href=\"%s_%d%d.svg\">%s_%d%d.svg</a> <br> \ |
<img src=\"%s_%d%d.svg\">",cpt,nlstate,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1); |
<img src=\"%s_%d%d.svg\">",cpt,nlstate,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1,subdirf2(optionfilefiname,"EXP_"),cpt,jj1); |
Line 4887 true period expectancies (those weighted
|
Line 5497 true period expectancies (those weighted
|
} |
} |
|
|
/******************* Gnuplot file **************/ |
/******************* Gnuplot file **************/ |
void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , char pathc[], double p[]){ |
void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , int prevfcast, char pathc[], double p[]){ |
|
|
char dirfileres[132],optfileres[132]; |
char dirfileres[132],optfileres[132]; |
int cpt=0,k1=0,i=0,k=0,j=0,jk=0,k2=0,k3=0,ij=0,l=0; |
int cpt=0,k1=0,i=0,k=0,j=0,jk=0,k2=0,k3=0,ij=0,l=0; |
|
int lv=0, vlv=0, kl=0; |
int ng=0; |
int ng=0; |
int vpopbased; |
int vpopbased; |
/* if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { */ |
/* if((ficgp=fopen(optionfilegnuplot,"a"))==NULL) { */ |
Line 4914 void printinggnuplot(char fileresu[], ch
|
Line 5525 void printinggnuplot(char fileresu[], ch
|
/* replot exp(p1+p2*x)/(1+exp(p1+p2*x)+exp(p3+p4*x)+exp(p5+p6*x)) t "p12(x)" */ |
/* replot exp(p1+p2*x)/(1+exp(p1+p2*x)+exp(p3+p4*x)+exp(p5+p6*x)) t "p12(x)" */ |
/* fprintf(ficgp,"\nset out \"%s.svg\";",subdirf2(optionfilefiname,"ILK_")); */ |
/* fprintf(ficgp,"\nset out \"%s.svg\";",subdirf2(optionfilefiname,"ILK_")); */ |
fprintf(ficgp,"\nset out \"%s-dest.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset out \"%s-dest.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$12):5 t \"All sample, transitions colored by destination\" with dots lc variable; set out;\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$13):6 t \"All sample, transitions colored by destination\" with dots lc variable; set out;\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset out \"%s-ori.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset out \"%s-ori.png\";",subdirf2(optionfilefiname,"ILK_")); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$12):4 t \"All sample, transitions colored by origin\" with dots lc variable; set out;\n\n",subdirf(fileresilk)); |
fprintf(ficgp,"\nset log y;plot \"%s\" u 2:(-$13):5 t \"All sample, transitions colored by origin\" with dots lc variable; set out;\n\n",subdirf(fileresilk)); |
for (i=1; i<= nlstate ; i ++) { |
for (i=1; i<= nlstate ; i ++) { |
fprintf(ficgp,"\nset out \"%s-p%dj.png\";set ylabel \"Probability for each individual/wave\";",subdirf2(optionfilefiname,"ILK_"),i); |
fprintf(ficgp,"\nset out \"%s-p%dj.png\";set ylabel \"Probability for each individual/wave\";",subdirf2(optionfilefiname,"ILK_"),i); |
fprintf(ficgp,"unset log;\n# plot weighted, mean weight should have point size of 0.5\n plot \"%s\"",subdirf(fileresilk)); |
fprintf(ficgp,"unset log;\n# plot weighted, mean weight should have point size of 0.5\n plot \"%s\"",subdirf(fileresilk)); |
fprintf(ficgp," u 2:($4 == %d && $5==%d ? $9 : 1/0):($11/4.):5 t \"p%d%d\" with points pointtype 7 ps variable lc variable \\\n",i,1,i,1); |
fprintf(ficgp," u 2:($5 == %d && $6==%d ? $10 : 1/0):($12/4.):6 t \"p%d%d\" with points pointtype 7 ps variable lc variable \\\n",i,1,i,1); |
for (j=2; j<= nlstate+ndeath ; j ++) { |
for (j=2; j<= nlstate+ndeath ; j ++) { |
fprintf(ficgp,",\\\n \"\" u 2:($4 == %d && $5==%d ? $9 : 1/0):($11/4.):5 t \"p%d%d\" with points pointtype 7 ps variable lc variable ",i,j,i,j); |
fprintf(ficgp,",\\\n \"\" u 2:($5 == %d && $6==%d ? $10 : 1/0):($12/4.):6 t \"p%d%d\" with points pointtype 7 ps variable lc variable ",i,j,i,j); |
} |
} |
fprintf(ficgp,";\nset out; unset ylabel;\n"); |
fprintf(ficgp,";\nset out; unset ylabel;\n"); |
} |
} |
Line 4935 void printinggnuplot(char fileresu[], ch
|
Line 5546 void printinggnuplot(char fileresu[], ch
|
strcpy(dirfileres,optionfilefiname); |
strcpy(dirfileres,optionfilefiname); |
strcpy(optfileres,"vpl"); |
strcpy(optfileres,"vpl"); |
/* 1eme*/ |
/* 1eme*/ |
fprintf(ficgp,"\n# 1st: Period (stable) prevalence with CI: 'VPL_' files\n"); |
for (cpt=1; cpt<= nlstate ; cpt ++) { /* For each live state */ |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (k1=1; k1<= m ; k1 ++) { /* For each combination of covariate */ |
for (k1=1; k1<= m ; k1 ++) { /* plot [100000000000000000000:-100000000000000000000] "mysbiaspar/vplrmysbiaspar.txt to check */ |
/* plot [100000000000000000000:-100000000000000000000] "mysbiaspar/vplrmysbiaspar.txt to check */ |
|
fprintf(ficgp,"\n# 1st: Period (stable) prevalence with CI: 'VPL_' files "); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"V_"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"V_"),cpt,k1); |
fprintf(ficgp,"\n#set out \"V_%s_%d-%d.svg\" \n",optionfilefiname,cpt,k1); |
fprintf(ficgp,"\n#set out \"V_%s_%d-%d.svg\" \n",optionfilefiname,cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \n\ |
Line 4964 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
Line 5586 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
} /* k1 */ |
} /* k1 */ |
} /* cpt */ |
} /* cpt */ |
/*2 eme*/ |
/*2 eme*/ |
fprintf(ficgp,"\n# 2nd: Total life expectancy with CI: 't' files\n"); |
|
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
|
fprintf(ficgp,"\n# 2nd: Total life expectancy with CI: 't' files "); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
fprintf(ficgp,"\nset out \"%s_%d.svg\" \n",subdirf2(optionfilefiname,"E_"),k1); |
fprintf(ficgp,"\nset out \"%s_%d.svg\" \n",subdirf2(optionfilefiname,"E_"),k1); |
for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ |
for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ |
if(vpopbased==0) |
if(vpopbased==0) |
Line 4998 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
Line 5630 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
} /* vpopbased */ |
} /* vpopbased */ |
fprintf(ficgp,"\nset out;set out \"%s_%d.svg\"; replot; set out; \n",subdirf2(optionfilefiname,"E_"),k1); /* Buggy gnuplot */ |
fprintf(ficgp,"\nset out;set out \"%s_%d.svg\"; replot; set out; \n",subdirf2(optionfilefiname,"E_"),k1); /* Buggy gnuplot */ |
} /* k1 */ |
} /* k1 */ |
|
|
|
|
/*3eme*/ |
/*3eme*/ |
|
|
for (k1=1; k1<= m ; k1 ++) { |
for (k1=1; k1<= m ; k1 ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
for (cpt=1; cpt<= nlstate ; cpt ++) { |
|
fprintf(ficgp,"\n# 3d: Life expectancy with EXP_ files: cov=%d state=%d",k1, cpt); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
/* k=2+nlstate*(2*cpt-2); */ |
/* k=2+nlstate*(2*cpt-2); */ |
k=2+(nlstate+1)*(cpt-1); |
k=2+(nlstate+1)*(cpt-1); |
fprintf(ficgp,"\nset out \"%s_%d%d.svg\" \n",subdirf2(optionfilefiname,"EXP_"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d%d.svg\" \n",subdirf2(optionfilefiname,"EXP_"),cpt,k1); |
Line 5027 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
Line 5671 plot [%.f:%.f] \"%s\" every :::%d::%d u
|
/* Survival functions (period) from state i in state j by initial state i */ |
/* Survival functions (period) from state i in state j by initial state i */ |
for (k1=1; k1<= m ; k1 ++) { /* For each multivariate if any */ |
for (k1=1; k1<= m ; k1 ++) { /* For each multivariate if any */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
k=3; |
fprintf(ficgp,"\n#\n#\n# Survival functions in state j : 'LIJ_' files, cov=%d state=%d",k1, cpt); |
fprintf(ficgp,"\n#\n#\n# Survival functions in state j : 'lij' files, cov=%d state=%d",k1, cpt); |
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJ_"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJ_"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
set ter svg size 640, 480\n\ |
set ter svg size 640, 480\n\ |
unset log y\n\ |
unset log y\n\ |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
k=3; |
for (i=1; i<= nlstate ; i ++){ |
for (i=1; i<= nlstate ; i ++){ |
if(i==1) |
if(i==1){ |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
else |
}else{ |
fprintf(ficgp,", '' "); |
fprintf(ficgp,", '' "); |
|
} |
l=(nlstate+ndeath)*(i-1)+1; |
l=(nlstate+ndeath)*(i-1)+1; |
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); |
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); |
for (j=2; j<= nlstate+ndeath ; j ++) |
for (j=2; j<= nlstate+ndeath ; j ++) |
Line 5052 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 5707 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
/* Survival functions (period) from state i in state j by final state j */ |
/* Survival functions (period) from state i in state j by final state j */ |
for (k1=1; k1<= m ; k1 ++) { /* For each covariate if any */ |
for (k1=1; k1<= m ; k1 ++) { /* For each covariate if any */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each inital state */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each inital state */ |
k=3; |
|
fprintf(ficgp,"\n#\n#\n# Survival functions in state j and all livestates from state i by final state j: 'lij' files, cov=%d state=%d",k1, cpt); |
fprintf(ficgp,"\n#\n#\n# Survival functions in state j and all livestates from state i by final state j: 'lij' files, cov=%d state=%d",k1, cpt); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJT_"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"LIJT_"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability to be alive\" \n\ |
set ter svg size 640, 480\n\ |
set ter svg size 640, 480\n\ |
unset log y\n\ |
unset log y\n\ |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
k=3; |
for (j=1; j<= nlstate ; j ++){ /* Lived in state j */ |
for (j=1; j<= nlstate ; j ++){ /* Lived in state j */ |
if(j==1) |
if(j==1) |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
Line 5084 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 5749 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
} /* end covariate */ |
} /* end covariate */ |
|
|
/* CV preval stable (period) for each covariate */ |
/* CV preval stable (period) for each covariate */ |
for (k1=1; k1<= m ; k1 ++) { /* For each covariate if any */ |
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
k=3; |
fprintf(ficgp,"\n#\n#\n#CV preval stable (period): 'pij' files, covariatecombination#=%d state=%d",k1, cpt); |
fprintf(ficgp,"\n#\n#\n#CV preval stable (period): 'pij' files, cov=%d state=%d",k1, cpt); |
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"P_"),cpt,k1); |
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"P_"),cpt,k1); |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
set ter svg size 640, 480\n\ |
set ter svg size 640, 480\n\ |
unset log y\n\ |
unset log y\n\ |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
k=3; /* Offset */ |
for (i=1; i<= nlstate ; i ++){ |
for (i=1; i<= nlstate ; i ++){ |
if(i==1) |
if(i==1) |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJ_")); |
Line 5108 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 5783 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
} /* end cpt state*/ |
} /* end cpt state*/ |
} /* end covariate */ |
} /* end covariate */ |
|
|
|
/* CV back preval stable (period) for each covariate */ |
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
|
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
|
fprintf(ficgp,"\n#\n#\n#CV Back preval stable (period): 'pij' files, covariatecombination#=%d state=%d",k1, cpt); |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate and each value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate number corresponding to k1 combination */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"PB_"),cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\ |
|
set ter svg size 640, 480\n\ |
|
unset log y\n\ |
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
k=3; /* Offset */ |
|
for (i=1; i<= nlstate ; i ++){ |
|
if(i==1) |
|
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"PIJB_")); |
|
else |
|
fprintf(ficgp,", '' "); |
|
l=(nlstate+ndeath)*(i-1)+1; |
|
fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l); /* a vérifier */ |
|
for (j=2; j<= nlstate ; j ++) |
|
fprintf(ficgp,"+$%d",k+l+j-1); |
|
fprintf(ficgp,")) t \"prev(%d,%d)\" w l",i,cpt); |
|
} /* nlstate */ |
|
fprintf(ficgp,"\nset out\n"); |
|
} /* end cpt state*/ |
|
} /* end covariate */ |
|
|
|
if(prevfcast==1){ |
|
/* Projection from cross-sectional to stable (period) for each covariate */ |
|
|
|
for (k1=1; k1<= m ; k1 ++) { /* For each covariate combination (1 to m=2**k), if any covariate is present */ |
|
for (cpt=1; cpt<=nlstate ; cpt ++) { /* For each life state */ |
|
fprintf(ficgp,"\n#\n#\n#Projection of prevalence to stable (period): 'PROJ_' files, covariatecombination#=%d state=%d",k1, cpt); |
|
for (k=1; k<=cptcoveff; k++){ /* For each correspondig covariate value */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate value corresponding to k1 combination and kth covariate */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
fprintf(ficgp," V%d=%d ",k,vlv); |
|
} |
|
fprintf(ficgp,"\n#\n"); |
|
|
|
fprintf(ficgp,"# hpijx=probability over h years, hp.jx is weighted by observed prev\n "); |
|
fprintf(ficgp,"\nset out \"%s_%d-%d.svg\" \n",subdirf2(optionfilefiname,"PROJ_"),cpt,k1); |
|
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Prevalence\" \n\ |
|
set ter svg size 640, 480\n\ |
|
unset log y\n\ |
|
plot [%.f:%.f] ", ageminpar, agemaxpar); |
|
for (i=1; i<= nlstate+1 ; i ++){ /* nlstate +1 p11 p21 p.1 */ |
|
/*# V1 = 1 V2 = 0 yearproj age p11 p21 p.1 p12 p22 p.2 p13 p23 p.3*/ |
|
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 */ |
|
/*# yearproj age p11 p21 p.1 p12 p22 p.2 p13 p23 p.3*/ |
|
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 */ |
|
if(i==1){ |
|
fprintf(ficgp,"\"%s\"",subdirf2(fileresu,"F_")); |
|
}else{ |
|
fprintf(ficgp,",\\\n '' "); |
|
} |
|
if(cptcoveff ==0){ /* No covariate */ |
|
fprintf(ficgp," u 2:("); /* Age is in 2 */ |
|
/*# yearproj age p11 p21 p31 p.1 p12 p22 p32 p.2 p13 p23 p33 p.3 p14 p24 p34 p.4*/ |
|
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 */ |
|
if(i==nlstate+1) |
|
fprintf(ficgp," $%d/(1.-$%d)) t 'p.%d' with line ", \ |
|
2+(cpt-1)*(nlstate+1)+1+(i-1), 2+1+(i-1)+(nlstate+1)*nlstate,cpt ); |
|
else |
|
fprintf(ficgp," $%d/(1.-$%d)) t 'p%d%d' with line ", \ |
|
2+(cpt-1)*(nlstate+1)+1+(i-1), 2+1+(i-1)+(nlstate+1)*nlstate,i,cpt ); |
|
}else{ |
|
fprintf(ficgp,"u 6:(("); /* Age is in 6 */ |
|
/*# V1 = 1 V2 = 0 yearproj age p11 p21 p.1 p12 p22 p.2 p13 p23 p.3*/ |
|
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 */ |
|
kl=0; |
|
for (k=1; k<=cptcoveff; k++){ /* For each covariate */ |
|
lv= decodtabm(k1,k,cptcoveff); /* Should be the covariate value corresponding to k1 combination and kth covariate */ |
|
/* decodtabm(1,1,4) = 1 because h=1 k= (1) 1 1 1 */ |
|
/* decodtabm(1,2,4) = 1 because h=1 k= 1 (1) 1 1 */ |
|
/* decodtabm(13,3,4)= 2 because h=13 k= 1 1 (2) 2 */ |
|
vlv= nbcode[Tvaraff[lv]][lv]; |
|
kl++; |
|
/* kl=6+(cpt-1)*(nlstate+1)+1+(i-1); /\* 6+(1-1)*(2+1)+1+(1-1)=7, 6+(2-1)(2+1)+1+(1-1)=10 *\/ */ |
|
/*6+(cpt-1)*(nlstate+1)+1+(i-1)+(nlstate+1)*nlstate; 6+(1-1)*(2+1)+1+(1-1) +(2+1)*2=13 */ |
|
/*6+1+(i-1)+(nlstate+1)*nlstate; 6+1+(1-1) +(2+1)*2=13 */ |
|
/* '' u 6:(($1==1 && $2==0 && $3==2 && $4==0)? $9/(1.-$15) : 1/0):($5==2000? 3:2) t 'p.1' with line lc variable*/ |
|
if(k==cptcoveff) |
|
if(i==nlstate+1) |
|
fprintf(ficgp,"$%d==%d && $%d==%d)? $%d/(1.-$%d) : 1/0) t 'p.%d' with line ",kl, k,kl+1,nbcode[Tvaraff[lv]][lv], \ |
|
6+(cpt-1)*(nlstate+1)+1+(i-1), 6+1+(i-1)+(nlstate+1)*nlstate,cpt ); |
|
else |
|
fprintf(ficgp,"$%d==%d && $%d==%d)? $%d/(1.-$%d) : 1/0) t 'p%d%d' with line ",kl, k,kl+1,nbcode[Tvaraff[lv]][lv], \ |
|
6+(cpt-1)*(nlstate+1)+1+(i-1), 6+1+(i-1)+(nlstate+1)*nlstate,i,cpt ); |
|
else{ |
|
fprintf(ficgp,"$%d==%d && $%d==%d && ",kl, k,kl+1,nbcode[Tvaraff[lv]][lv]); |
|
kl++; |
|
} |
|
} /* end covariate */ |
|
} /* end if covariate */ |
|
} /* nlstate */ |
|
fprintf(ficgp,"\nset out\n"); |
|
} /* end cpt state*/ |
|
} /* end covariate */ |
|
} /* End if prevfcast */ |
|
|
|
|
/* proba elementaires */ |
/* proba elementaires */ |
fprintf(ficgp,"\n##############\n#MLE estimated parameters\n#############\n"); |
fprintf(ficgp,"\n##############\n#MLE estimated parameters\n#############\n"); |
for(i=1,jk=1; i <=nlstate; i++){ |
for(i=1,jk=1; i <=nlstate; i++){ |
Line 5197 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
Line 5985 plot [%.f:%.f] ", ageminpar, agemaxpar)
|
else |
else |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
fprintf(ficgp,"+p%d*%d",i+j+nagesqr-1,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
} |
} |
if(ng != 1){ |
}else{ |
fprintf(ficgp,")/(1"); |
i=i-ncovmodel; |
|
if(ng !=1 ) /* For logit formula of log p11 is more difficult to get */ |
|
fprintf(ficgp," (1."); |
|
} |
|
|
|
if(ng != 1){ |
|
fprintf(ficgp,")/(1"); |
|
|
for(k1=1; k1 <=nlstate; k1++){ |
for(k1=1; k1 <=nlstate; k1++){ |
if(nagesqr==0) |
if(nagesqr==0) |
fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1); |
fprintf(ficgp,"+exp(p%d+p%d*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1); |
else /* nagesqr =1 */ |
else /* nagesqr =1 */ |
fprintf(ficgp,"+exp(p%d+p%d*x+p%d*x*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1,k3+(k1-1)*ncovmodel+1+nagesqr); |
fprintf(ficgp,"+exp(p%d+p%d*x+p%d*x*x",k3+(k1-1)*ncovmodel,k3+(k1-1)*ncovmodel+1,k3+(k1-1)*ncovmodel+1+nagesqr); |
|
|
ij=1; |
ij=1; |
for(j=3; j <=ncovmodel-nagesqr; j++){ |
for(j=3; j <=ncovmodel-nagesqr; j++){ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if(ij <=cptcovage) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
if((j-2)==Tage[ij]) { /* Bug valgrind */ |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
/* fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
/* fprintf(ficgp,"+p%d*%d*x",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,Tvar[j-2])]); */ |
ij++; |
ij++; |
} |
|
} |
} |
else |
|
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
|
} |
} |
fprintf(ficgp,")"); |
else |
|
fprintf(ficgp,"+p%d*%d",k3+(k1-1)*ncovmodel+1+j-2+nagesqr,nbcode[Tvar[j-2]][codtabm(jk,j-2)]); |
} |
} |
fprintf(ficgp,")"); |
fprintf(ficgp,")"); |
if(ng ==2) |
|
fprintf(ficgp," t \"p%d%d\" ", k2,k); |
|
else /* ng= 3 */ |
|
fprintf(ficgp," t \"i%d%d\" ", k2,k); |
|
}else{ /* end ng <> 1 */ |
|
fprintf(ficgp," t \"logit(p%d%d)\" ", k2,k); |
|
} |
} |
if ((k+k2)!= (nlstate*2+ndeath)) fprintf(ficgp,","); |
fprintf(ficgp,")"); |
i=i+ncovmodel; |
if(ng ==2) |
|
fprintf(ficgp," t \"p%d%d\" ", k2,k); |
|
else /* ng= 3 */ |
|
fprintf(ficgp," t \"i%d%d\" ", k2,k); |
|
}else{ /* end ng <> 1 */ |
|
if( k !=k2) /* logit p11 is hard to draw */ |
|
fprintf(ficgp," t \"logit(p%d%d)\" ", k2,k); |
} |
} |
|
if ((k+k2)!= (nlstate*2+ndeath) && ng != 1) |
|
fprintf(ficgp,","); |
|
if (ng == 1 && k!=k2 && (k+k2)!= (nlstate*2+ndeath)) |
|
fprintf(ficgp,","); |
|
i=i+ncovmodel; |
} /* end k */ |
} /* end k */ |
} /* end k2 */ |
} /* end k2 */ |
fprintf(ficgp,"\n set out\n"); |
fprintf(ficgp,"\n set out\n"); |
Line 5273 int movingaverage(double ***probs, doubl
|
Line 6070 int movingaverage(double ***probs, doubl
|
mobaverage[(int)age][i][cptcod] +=probs[(int)age-cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age-cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age+cpt][i][cptcod]; |
mobaverage[(int)age][i][cptcod] +=probs[(int)age+cpt][i][cptcod]; |
} |
} |
mobaverage[(int)age][i][cptcod]=mobaverage[(int)age][i][cptcod]/mob; |
mobaverage[(int)age][i][cptcod]=mobaverage[(int)age][i][cptcod]/mob; |
} |
} |
} |
} |
}/* end age */ |
}/* end age */ |
}/* end mob */ |
}/* end mob */ |
}else return -1; |
}else return -1; |
return 0; |
return 0; |
}/* End movingaverage */ |
}/* End movingaverage */ |
|
|
|
|
|
/************** Forecasting ******************/ |
|
void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){ |
|
/* proj1, year, month, day of starting projection |
|
agemin, agemax range of age |
|
dateprev1 dateprev2 range of dates during which prevalence is computed |
|
anproj2 year of en of projection (same day and month as proj1). |
|
*/ |
|
int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1; |
|
double agec; /* generic age */ |
|
double agelim, ppij, yp,yp1,yp2,jprojmean,mprojmean,anprojmean; |
|
double *popeffectif,*popcount; |
|
double ***p3mat; |
|
double ***mobaverage; |
|
char fileresf[FILENAMELENGTH]; |
|
|
|
agelim=AGESUP; |
|
/* Compute observed prevalence between dateprev1 and dateprev2 by counting the number of people |
|
in each health status at the date of interview (if between dateprev1 and dateprev2). |
|
We still use firstpass and lastpass as another selection. |
|
*/ |
|
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ */ |
|
/* firstpass, lastpass, stepm, weightopt, model); */ |
|
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
|
|
|
strcpy(fileresf,"F_"); |
|
strcat(fileresf,fileresu); |
|
if((ficresf=fopen(fileresf,"w"))==NULL) { |
|
printf("Problem with forecast resultfile: %s\n", fileresf); |
|
fprintf(ficlog,"Problem with forecast resultfile: %s\n", fileresf); |
|
} |
|
printf("Computing forecasting: result on file '%s', please wait... \n", fileresf); |
|
fprintf(ficlog,"Computing forecasting: result on file '%s', please wait... \n", fileresf); |
|
|
|
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
|
|
|
if (mobilav!=0) { |
|
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
if (movingaverage(probs, ageminpar, fage, mobaverage,mobilav)!=0){ |
|
fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); |
|
printf(" Error in movingaverage mobilav=%d\n",mobilav); |
|
} |
|
} |
|
|
|
stepsize=(int) (stepm+YEARM-1)/YEARM; |
|
if (stepm<=12) stepsize=1; |
|
if(estepm < stepm){ |
|
printf ("Problem %d lower than %d\n",estepm, stepm); |
|
} |
|
else hstepm=estepm; |
|
|
|
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; |
|
|
|
i1=cptcoveff; |
|
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,"#****** Routine prevforecast **\n"); |
|
|
|
/* if (h==(int)(YEARM*yearp)){ */ |
|
for(cptcov=1, k=0;cptcov<=i1;cptcov++){ |
|
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ |
|
k=k+1; |
|
fprintf(ficresf,"\n#****** hpijx=probability over h years, hp.jx is weighted by observed prev \n#"); |
|
for(j=1;j<=cptcoveff;j++) { |
|
fprintf(ficresf," V%d (=) %d",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
} |
|
fprintf(ficresf," yearproj age"); |
|
for(j=1; j<=nlstate+ndeath;j++){ |
|
for(i=1; i<=nlstate;i++) |
|
fprintf(ficresf," p%d%d",i,j); |
|
fprintf(ficresf," p.%d",j); |
|
} |
|
for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { |
|
fprintf(ficresf,"\n"); |
|
fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+yearp); |
|
for (agec=fage; agec>=(ageminpar-1); agec--){ |
|
nhstepm=(int) rint((agelim-agec)*YEARM/stepm); |
|
nhstepm = nhstepm/hstepm; |
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
oldm=oldms;savm=savms; |
|
hpxij(p3mat,nhstepm,agec,hstepm,p,nlstate,stepm,oldm,savm, k); |
|
|
|
for (h=0; h<=nhstepm; h++){ |
|
if (h*hstepm/YEARM*stepm ==yearp) { |
|
fprintf(ficresf,"\n"); |
|
for(j=1;j<=cptcoveff;j++) |
|
fprintf(ficresf,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
fprintf(ficresf,"%.f %.f ",anproj1+yearp,agec+h*hstepm/YEARM*stepm); |
|
} |
|
for(j=1; j<=nlstate+ndeath;j++) { |
|
ppij=0.; |
|
for(i=1; i<=nlstate;i++) { |
|
if (mobilav==1) |
|
ppij=ppij+p3mat[i][j][h]*mobaverage[(int)agec][i][cptcod]; |
|
else { |
|
ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][cptcod]; |
|
} |
|
if (h*hstepm/YEARM*stepm== yearp) { |
|
fprintf(ficresf," %.3f", p3mat[i][j][h]); |
|
} |
|
} /* end i */ |
|
if (h*hstepm/YEARM*stepm==yearp) { |
|
fprintf(ficresf," %.3f", ppij); |
|
} |
|
}/* end j */ |
|
} /* end h */ |
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
} /* end agec */ |
|
} /* end yearp */ |
|
} /* end cptcod */ |
|
} /* end cptcov */ |
|
|
|
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
|
|
fclose(ficresf); |
|
printf("End of Computing forecasting \n"); |
|
fprintf(ficlog,"End of Computing forecasting\n"); |
|
|
/************** Forecasting ******************/ |
} |
void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){ |
|
/* proj1, year, month, day of starting projection |
/************** Back Forecasting ******************/ |
|
void prevbackforecast(char fileres[], 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 |
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). |
anback2 year of en of backection (same day and month as back1). |
*/ |
*/ |
int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1; |
int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1; |
double agec; /* generic age */ |
double agec; /* generic age */ |
Line 5296 void prevforecast(char fileres[], double
|
Line 6223 void prevforecast(char fileres[], double
|
double *popeffectif,*popcount; |
double *popeffectif,*popcount; |
double ***p3mat; |
double ***p3mat; |
double ***mobaverage; |
double ***mobaverage; |
char fileresf[FILENAMELENGTH]; |
char fileresfb[FILENAMELENGTH]; |
|
|
agelim=AGESUP; |
agelim=AGESUP; |
|
/* Compute observed prevalence between dateprev1 and dateprev2 by counting the number of people |
|
in each health status at the date of interview (if between dateprev1 and dateprev2). |
|
We still use firstpass and lastpass as another selection. |
|
*/ |
|
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ */ |
|
/* firstpass, lastpass, stepm, weightopt, model); */ |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
prevalence(probs, ageminpar, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); |
|
|
strcpy(fileresf,"F_"); |
strcpy(fileresfb,"FB_"); |
strcat(fileresf,fileresu); |
strcat(fileresfb,fileresu); |
if((ficresf=fopen(fileresf,"w"))==NULL) { |
if((ficresfb=fopen(fileresfb,"w"))==NULL) { |
printf("Problem with forecast resultfile: %s\n", fileresf); |
printf("Problem with back forecast resultfile: %s\n", fileresfb); |
fprintf(ficlog,"Problem with forecast resultfile: %s\n", fileresf); |
fprintf(ficlog,"Problem with back forecast resultfile: %s\n", fileresfb); |
} |
} |
printf("Computing forecasting: result on file '%s' \n", fileresf); |
printf("Computing back forecasting: result on file '%s', please wait... \n", fileresfb); |
fprintf(ficlog,"Computing forecasting: result on file '%s' \n", fileresf); |
fprintf(ficlog,"Computing back forecasting: result on file '%s', please wait... \n", fileresfb); |
|
|
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
if (cptcoveff==0) ncodemax[cptcoveff]=1; |
|
|
Line 5341 void prevforecast(char fileres[], double
|
Line 6274 void prevforecast(char fileres[], double
|
i1=cptcoveff; |
i1=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(ficresfb,"# Mean day of interviews %.lf/%.lf/%.lf (%.2f) between %.2f and %.2f \n",jprojmean,mprojmean,anprojmean,dateintmean,dateprev1,dateprev2); |
|
|
fprintf(ficresf,"#****** Routine prevforecast **\n"); |
fprintf(ficresfb,"#****** Routine prevbackforecast **\n"); |
|
|
/* if (h==(int)(YEARM*yearp)){ */ |
/* if (h==(int)(YEARM*yearp)){ */ |
for(cptcov=1, k=0;cptcov<=i1;cptcov++){ |
for(cptcov=1, k=0;cptcov<=i1;cptcov++){ |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ |
for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ |
k=k+1; |
k=k+1; |
fprintf(ficresf,"\n#******"); |
fprintf(ficresfb,"\n#****** hbijx=probability over h years, hp.jx is weighted by observed prev \n#"); |
for(j=1;j<=cptcoveff;j++) { |
for(j=1;j<=cptcoveff;j++) { |
fprintf(ficresf," V%d=%d, hpijx=probability over h years, hp.jx is weighted by observed prev ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresfb," V%d (=) %d",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
} |
} |
fprintf(ficresf,"******\n"); |
fprintf(ficresfb," yearbproj age"); |
fprintf(ficresf,"# Covariate valuofcovar yearproj age"); |
|
for(j=1; j<=nlstate+ndeath;j++){ |
for(j=1; j<=nlstate+ndeath;j++){ |
for(i=1; i<=nlstate;i++) |
for(i=1; i<=nlstate;i++) |
fprintf(ficresf," p%d%d",i,j); |
fprintf(ficresfb," p%d%d",i,j); |
fprintf(ficresf," p.%d",j); |
fprintf(ficresfb," p.%d",j); |
} |
} |
for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { |
for (yearp=0; yearp>=(anback2-anback1);yearp -=stepsize) { |
fprintf(ficresf,"\n"); |
/* for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { */ |
fprintf(ficresf,"\n# Forecasting at date %.lf/%.lf/%.lf ",jproj1,mproj1,anproj1+yearp); |
fprintf(ficresfb,"\n"); |
|
fprintf(ficresfb,"\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp); |
for (agec=fage; agec>=(ageminpar-1); agec--){ |
for (agec=fage; agec>=(ageminpar-1); agec--){ |
nhstepm=(int) rint((agelim-agec)*YEARM/stepm); |
nhstepm=(int) rint((agelim-agec)*YEARM/stepm); |
nhstepm = nhstepm/hstepm; |
nhstepm = nhstepm/hstepm; |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
hpxij(p3mat,nhstepm,agec,hstepm,p,nlstate,stepm,oldm,savm, k); |
hbxij(p3mat,nhstepm,agec,hstepm,p,nlstate,stepm,oldm,savm, k); |
|
|
for (h=0; h<=nhstepm; h++){ |
for (h=0; h<=nhstepm; h++){ |
if (h*hstepm/YEARM*stepm ==yearp) { |
if (h*hstepm/YEARM*stepm ==yearp) { |
fprintf(ficresf,"\n"); |
fprintf(ficresfb,"\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(ficresfb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficresf,"%.f %.f ",anproj1+yearp,agec+h*hstepm/YEARM*stepm); |
fprintf(ficresfb,"%.f %.f ",anback1+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 5387 void prevforecast(char fileres[], double
|
Line 6319 void prevforecast(char fileres[], double
|
ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][cptcod]; |
ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][cptcod]; |
} |
} |
if (h*hstepm/YEARM*stepm== yearp) { |
if (h*hstepm/YEARM*stepm== yearp) { |
fprintf(ficresf," %.3f", p3mat[i][j][h]); |
fprintf(ficresfb," %.3f", p3mat[i][j][h]); |
} |
} |
} /* end i */ |
} /* end i */ |
if (h*hstepm/YEARM*stepm==yearp) { |
if (h*hstepm/YEARM*stepm==yearp) { |
fprintf(ficresf," %.3f", ppij); |
fprintf(ficresfb," %.3f", ppij); |
} |
} |
}/* end j */ |
}/* end j */ |
} /* end h */ |
} /* end h */ |
Line 5403 void prevforecast(char fileres[], double
|
Line 6335 void prevforecast(char fileres[], double
|
|
|
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
|
|
fclose(ficresf); |
fclose(ficresfb); |
|
printf("End of Computing Back forecasting \n"); |
|
fprintf(ficlog,"End of Computing Back forecasting\n"); |
|
|
} |
} |
|
|
/************** Forecasting *****not tested NB*************/ |
/************** Forecasting *****not tested NB*************/ |
Line 6223 int calandcheckages(int imx, int maxwav,
|
Line 7158 int calandcheckages(int imx, int maxwav,
|
for(m=2; (m<= maxwav); m++) { |
for(m=2; (m<= maxwav); m++) { |
if (((int)mint[m][i]== 99) && (s[m][i] <= nlstate)){ |
if (((int)mint[m][i]== 99) && (s[m][i] <= nlstate)){ |
anint[m][i]=9999; |
anint[m][i]=9999; |
s[m][i]=-1; |
if (s[m][i] != -2) /* Keeping initial status of unknown vital status */ |
|
s[m][i]=-1; |
} |
} |
if((int)moisdc[i]==99 && (int)andc[i]==9999 && s[m][i]>nlstate){ |
if((int)moisdc[i]==99 && (int)andc[i]==9999 && s[m][i]>nlstate){ |
*nberr = *nberr + 1; |
*nberr = *nberr + 1; |
Line 6243 int calandcheckages(int imx, int maxwav,
|
Line 7179 int calandcheckages(int imx, int maxwav,
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]); |
agedc[i]=(moisdc[i]/12.+andc[i])-(moisnais[i]/12.+annais[i]); |
for(m=firstpass; (m<= lastpass); m++){ |
for(m=firstpass; (m<= lastpass); m++){ |
if(s[m][i] >0 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5){ |
if(s[m][i] >0 || s[m][i]==-1 || s[m][i]==-2 || s[m][i]==-4 || s[m][i]==-5){ /* What if s[m][i]=-1 */ |
if (s[m][i] >= nlstate+1) { |
if (s[m][i] >= nlstate+1) { |
if(agedc[i]>0){ |
if(agedc[i]>0){ |
if((int)moisdc[i]!=99 && (int)andc[i]!=9999){ |
if((int)moisdc[i]!=99 && (int)andc[i]!=9999){ |
agev[m][i]=agedc[i]; |
agev[m][i]=agedc[i]; |
/*if(moisdc[i]==99 && andc[i]==9999) s[m][i]=-1;*/ |
/*if(moisdc[i]==99 && andc[i]==9999) s[m][i]=-1;*/ |
}else { |
}else { |
if ((int)andc[i]!=9999){ |
if ((int)andc[i]!=9999){ |
nbwarn++; |
nbwarn++; |
Line 6258 int calandcheckages(int imx, int maxwav,
|
Line 7194 int calandcheckages(int imx, int maxwav,
|
} |
} |
} |
} |
} /* agedc > 0 */ |
} /* agedc > 0 */ |
} |
} /* end if */ |
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 month */ |
years but with the precision of a 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]); |
Line 6274 int calandcheckages(int imx, int maxwav,
|
Line 7210 int calandcheckages(int imx, int maxwav,
|
} |
} |
/*agev[m][i]=anint[m][i]-annais[i];*/ |
/*agev[m][i]=anint[m][i]-annais[i];*/ |
/* agev[m][i] = age[i]+2*m;*/ |
/* agev[m][i] = age[i]+2*m;*/ |
} |
} /* en if 9*/ |
else { /* =9 */ |
else { /* =9 */ |
|
/* printf("Debug num[%d]=%ld s[%d][%d]=%d\n",i,num[i], m,i, s[m][i]); */ |
agev[m][i]=1; |
agev[m][i]=1; |
s[m][i]=-1; |
s[m][i]=-1; |
} |
} |
} |
} |
else /*= 0 Unknown */ |
else if(s[m][i]==0) /*= 0 Unknown */ |
agev[m][i]=1; |
agev[m][i]=1; |
} |
else{ |
|
printf("Warning, num[%d]=%ld, s[%d][%d]=%d\n", i, num[i], m, i,s[m][i]); |
|
fprintf(ficlog, "Warning, num[%d]=%ld, s[%d][%d]=%d\n", i, num[i], m, i,s[m][i]); |
|
agev[m][i]=0; |
|
} |
|
} /* End for lastpass */ |
} |
} |
|
|
for (i=1; i<=imx; i++) { |
for (i=1; i<=imx; i++) { |
for(m=firstpass; (m<=lastpass); m++){ |
for(m=firstpass; (m<=lastpass); m++){ |
if (s[m][i] > (nlstate+ndeath)) { |
if (s[m][i] > (nlstate+ndeath)) { |
Line 6510 void syscompilerinfo(int logged)
|
Line 7452 void syscompilerinfo(int logged)
|
|
|
} |
} |
|
|
int prevalence_limit(double *p, double **prlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyear){ |
int prevalence_limit(double *p, double **prlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyearp){ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
int i, j, k, i1 ; |
int i, j, k, i1 ; |
/* double ftolpl = 1.e-10; */ |
/* double ftolpl = 1.e-10; */ |
Line 6566 void syscompilerinfo(int logged)
|
Line 7508 void syscompilerinfo(int logged)
|
|
|
for (age=agebase; age<=agelim; age++){ |
for (age=agebase; age<=agelim; age++){ |
/* for (age=agebase; age<=agebase; age++){ */ |
/* for (age=agebase; age<=agebase; age++){ */ |
prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, ncvyear, k); |
prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, ncvyearp, k); |
fprintf(ficrespl,"%.0f ",age ); |
fprintf(ficrespl,"%.0f ",age ); |
for(j=1;j<=cptcoveff;j++) |
for(j=1;j<=cptcoveff;j++) |
fprintf(ficrespl,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
fprintf(ficrespl,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
Line 6575 void syscompilerinfo(int logged)
|
Line 7517 void syscompilerinfo(int logged)
|
tot += prlim[i][i]; |
tot += prlim[i][i]; |
fprintf(ficrespl," %.5f", prlim[i][i]); |
fprintf(ficrespl," %.5f", prlim[i][i]); |
} |
} |
fprintf(ficrespl," %.3f %d\n", tot, *ncvyear); |
fprintf(ficrespl," %.3f %d\n", tot, *ncvyearp); |
|
} /* Age */ |
|
/* was end of cptcod */ |
|
} /* cptcov */ |
|
return 0; |
|
} |
|
|
|
int back_prevalence_limit(double *p, double **bprlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyearp){ |
|
/*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ |
|
int i, j, k, i1 ; |
|
/* double ftolpl = 1.e-10; */ |
|
double age, agebase, agelim; |
|
double tot; |
|
|
|
strcpy(fileresplb,"PLB_"); |
|
strcat(fileresplb,fileresu); |
|
if((ficresplb=fopen(fileresplb,"w"))==NULL) { |
|
printf("Problem with period (stable) back prevalence resultfile: %s\n", fileresplb);return 1; |
|
fprintf(ficlog,"Problem with period (stable) back prevalence resultfile: %s\n", fileresplb);return 1; |
|
} |
|
printf("Computing period (stable) back prevalence: result on file '%s' \n", fileresplb); |
|
fprintf(ficlog,"Computing period (stable) back prevalence: result on file '%s' \n", fileresplb); |
|
pstamp(ficresplb); |
|
fprintf(ficresplb,"# Period (stable) back prevalence. Precision given by ftolpl=%g \n", ftolpl); |
|
fprintf(ficresplb,"#Age "); |
|
for(i=1; i<=nlstate;i++) fprintf(ficresplb,"%d-%d ",i,i); |
|
fprintf(ficresplb,"\n"); |
|
|
|
/* prlim=matrix(1,nlstate,1,nlstate);*/ /* back in main */ |
|
|
|
agebase=ageminpar; |
|
agelim=agemaxpar; |
|
|
|
i1=pow(2,cptcoveff); |
|
if (cptcovn < 1){i1=1;} |
|
|
|
for(cptcov=1,k=0;cptcov<=i1;cptcov++){ |
|
/* for(cptcov=1,k=0;cptcov<=1;cptcov++){ */ |
|
//for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ |
|
k=k+1; |
|
/* to clean */ |
|
//printf("cptcov=%d cptcod=%d codtab=%d\n",cptcov, cptcod,codtabm(cptcod,cptcov)); |
|
fprintf(ficresplb,"#******"); |
|
printf("#******"); |
|
fprintf(ficlog,"#******"); |
|
for(j=1;j<=cptcoveff;j++) { |
|
fprintf(ficresplb," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
} |
|
fprintf(ficresplb,"******\n"); |
|
printf("******\n"); |
|
fprintf(ficlog,"******\n"); |
|
|
|
fprintf(ficresplb,"#Age "); |
|
for(j=1;j<=cptcoveff;j++) { |
|
fprintf(ficresplb,"V%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
} |
|
for(i=1; i<=nlstate;i++) fprintf(ficresplb," %d-%d ",i,i); |
|
fprintf(ficresplb,"Total Years_to_converge\n"); |
|
|
|
for (age=agebase; age<=agelim; age++){ |
|
/* for (age=agebase; age<=agebase; age++){ */ |
|
bprevalim(bprlim, nlstate, p, age, oldm, savm, ftolpl, ncvyearp, k); |
|
fprintf(ficresplb,"%.0f ",age ); |
|
for(j=1;j<=cptcoveff;j++) |
|
fprintf(ficresplb,"%d %d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
tot=0.; |
|
for(i=1; i<=nlstate;i++){ |
|
tot += bprlim[i][i]; |
|
fprintf(ficresplb," %.5f", bprlim[i][i]); |
|
} |
|
fprintf(ficresplb," %.3f %d\n", tot, *ncvyearp); |
} /* Age */ |
} /* Age */ |
/* was end of cptcod */ |
/* was end of cptcod */ |
} /* cptcov */ |
} /* cptcov */ |
Line 6652 int hPijx(double *p, int bage, int fage)
|
Line 7666 int hPijx(double *p, int bage, int fage)
|
return 0; |
return 0; |
} |
} |
|
|
|
int hBijx(double *p, int bage, int fage){ |
|
/*------------- h Bij x at various ages ------------*/ |
|
|
|
int stepsize; |
|
int agelim; |
|
int hstepm; |
|
int nhstepm; |
|
int h, i, i1, j, k; |
|
|
|
double agedeb; |
|
double ***p3mat; |
|
|
|
strcpy(filerespijb,"PIJB_"); strcat(filerespijb,fileresu); |
|
if((ficrespijb=fopen(filerespijb,"w"))==NULL) { |
|
printf("Problem with Pij back resultfile: %s\n", filerespijb); return 1; |
|
fprintf(ficlog,"Problem with Pij back resultfile: %s\n", filerespijb); return 1; |
|
} |
|
printf("Computing pij back: result on file '%s' \n", filerespijb); |
|
fprintf(ficlog,"Computing pij back: result on file '%s' \n", filerespijb); |
|
|
|
stepsize=(int) (stepm+YEARM-1)/YEARM; |
|
/*if (stepm<=24) stepsize=2;*/ |
|
|
|
agelim=AGESUP; |
|
hstepm=stepsize*YEARM; /* Every year of age */ |
|
hstepm=hstepm/stepm; /* Typically 2 years, = 2/6 months = 4 */ |
|
|
|
/* hstepm=1; aff par mois*/ |
|
pstamp(ficrespijb); |
|
fprintf(ficrespijb,"#****** h Pij x Back Probability to be in state i at age x-h being in j at x "); |
|
i1= pow(2,cptcoveff); |
|
/* for(cptcov=1,k=0;cptcov<=i1;cptcov++){ */ |
|
/* /\*for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*\/ */ |
|
/* k=k+1; */ |
|
for (k=1; k <= (int) pow(2,cptcoveff); k++){ |
|
fprintf(ficrespijb,"\n#****** "); |
|
for(j=1;j<=cptcoveff;j++) |
|
fprintf(ficrespijb,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); |
|
fprintf(ficrespijb,"******\n"); |
|
|
|
/* for (agedeb=fage; agedeb>=bage; agedeb--){ /\* If stepm=6 months *\/ */ |
|
for (agedeb=bage; agedeb<=fage; agedeb++){ /* If stepm=6 months */ |
|
nhstepm=(int) rint((agelim-agedeb)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ |
|
nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */ |
|
|
|
/* nhstepm=nhstepm*YEARM; aff par mois*/ |
|
|
|
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
oldm=oldms;savm=savms; |
|
hbxij(p3mat,nhstepm,agedeb,hstepm,p,nlstate,stepm,oldm,savm, k); |
|
fprintf(ficrespijb,"# Cov Agex agex-h hpijx with i,j="); |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate+ndeath;j++) |
|
fprintf(ficrespijb," %1d-%1d",i,j); |
|
fprintf(ficrespijb,"\n"); |
|
for (h=0; h<=nhstepm; h++){ |
|
/*agedebphstep = agedeb + h*hstepm/YEARM*stepm;*/ |
|
fprintf(ficrespijb,"%d %3.f %3.f",k, agedeb, agedeb - h*hstepm/YEARM*stepm ); |
|
/* fprintf(ficrespijb,"%d %3.f %3.f",k, agedeb, agedeb + h*hstepm/YEARM*stepm ); */ |
|
for(i=1; i<=nlstate;i++) |
|
for(j=1; j<=nlstate+ndeath;j++) |
|
fprintf(ficrespijb," %.5f", p3mat[i][j][h]); |
|
fprintf(ficrespijb,"\n"); |
|
} |
|
free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); |
|
fprintf(ficrespijb,"\n"); |
|
} |
|
/*}*/ |
|
} |
|
return 0; |
|
} |
|
|
|
|
/***********************************************/ |
/***********************************************/ |
/**************** Main Program *****************/ |
/**************** Main Program *****************/ |
Line 6668 int main(int argc, char *argv[])
|
Line 7754 int main(int argc, char *argv[])
|
#endif |
#endif |
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=0,m,size=100, cptcod; |
int i,j, k, n=MAXN,iter=0,m,size=100, cptcod; |
int ncvyearnp=0; |
int ncvyear=0; /* Number of years needed for the period prevalence to converge */ |
int *ncvyear=&ncvyearnp; /* Number of years needed for the period prevalence to converge */ |
|
int jj, ll, li, lj, lk; |
int jj, ll, li, lj, lk; |
int numlinepar=0; /* Current linenumber of parameter file */ |
int numlinepar=0; /* Current linenumber of parameter file */ |
int num_filled; |
int num_filled; |
Line 6704 int main(int argc, char *argv[])
|
Line 7789 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; |
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 6714 int main(int argc, char *argv[])
|
Line 7800 int main(int argc, char *argv[])
|
double bage=0, fage=110., age, agelim=0., agebase=0.; |
double bage=0, fage=110., age, agelim=0., agebase=0.; |
double ftolpl=FTOL; |
double ftolpl=FTOL; |
double **prlim; |
double **prlim; |
|
double **bprlim; |
double ***param; /* Matrix of parameters */ |
double ***param; /* Matrix of parameters */ |
double *p; |
double *p; |
double **matcov; /* Matrix of covariance */ |
double **matcov; /* Matrix of covariance */ |
Line 6725 int main(int argc, char *argv[])
|
Line 7812 int main(int argc, char *argv[])
|
double *epj, vepp; |
double *epj, vepp; |
|
|
double dateprev1, dateprev2,jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000; |
double dateprev1, dateprev2,jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000; |
|
double jback1=1,mback1=1,anback1=2000,jback2=1,mback2=1,anback2=2000; |
|
|
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"; |
int *dcwave; |
int *dcwave; |
Line 6929 int main(int argc, char *argv[])
|
Line 8018 int main(int argc, char *argv[])
|
if((num_filled=sscanf(line,"ftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n", \ |
if((num_filled=sscanf(line,"ftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n", \ |
&ftol, &stepm, &ncovcol, &nlstate, &ndeath, &maxwav, &mle, &weightopt)) !=EOF){ |
&ftol, &stepm, &ncovcol, &nlstate, &ndeath, &maxwav, &mle, &weightopt)) !=EOF){ |
if (num_filled != 8) { |
if (num_filled != 8) { |
printf("Not 8\n"); |
printf("Not 8 parameters, for example:ftol=1.e-8 stepm=12 ncovcol=2 nlstate=2 ndeath=1 maxwav=3 mle=1 weight=1\n"); |
|
printf("but line=%s\n",line); |
} |
} |
printf("ftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt); |
printf("ftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt); |
} |
} |
/* ftolpl=6*ftol*1.e5; /\* 6.e-3 make convergences in less than 80 loops for the prevalence limit *\/ */ |
/* ftolpl=6*ftol*1.e5; /\* 6.e-3 make convergences in less than 80 loops for the prevalence limit *\/ */ |
ftolpl=6.e-3; /* 6.e-3 make convergences in less than 80 loops for the prevalence limit */ |
/*ftolpl=6.e-4; *//* 6.e-3 make convergences in less than 80 loops for the prevalence limit */ |
/* Third parameter line */ |
/* Third parameter line */ |
while(fgets(line, MAXLINE, ficpar)) { |
while(fgets(line, MAXLINE, ficpar)) { |
/* If line starts with a # it is a comment */ |
/* If line starts with a # it is a comment */ |
Line 7283 Please run with mle=-1 to get a correct
|
Line 8373 Please run with mle=-1 to get a correct
|
free_vector(annais,1,n); |
free_vector(annais,1,n); |
/* free_matrix(mint,1,maxwav,1,n); |
/* free_matrix(mint,1,maxwav,1,n); |
free_matrix(anint,1,maxwav,1,n);*/ |
free_matrix(anint,1,maxwav,1,n);*/ |
free_vector(moisdc,1,n); |
/* free_vector(moisdc,1,n); */ |
free_vector(andc,1,n); |
/* free_vector(andc,1,n); */ |
/* */ |
/* */ |
|
|
wav=ivector(1,imx); |
wav=ivector(1,imx); |
dh=imatrix(1,lastpass-firstpass+1,1,imx); |
/* dh=imatrix(1,lastpass-firstpass+1,1,imx); */ |
bh=imatrix(1,lastpass-firstpass+1,1,imx); |
/* bh=imatrix(1,lastpass-firstpass+1,1,imx); */ |
mw=imatrix(1,lastpass-firstpass+1,1,imx); |
/* mw=imatrix(1,lastpass-firstpass+1,1,imx); */ |
|
dh=imatrix(1,lastpass-firstpass+2,1,imx); /* We are adding a wave if status is unknown at last wave but death occurs after last wave.*/ |
|
bh=imatrix(1,lastpass-firstpass+2,1,imx); |
|
mw=imatrix(1,lastpass-firstpass+2,1,imx); |
|
|
/* Concatenates waves */ |
/* Concatenates waves */ |
|
/* Concatenates waves: wav[i] is the number of effective (useful waves) of individual i. |
|
Death is a valid wave (if date is known). |
|
mw[mi][i] is the number of (mi=1 to wav[i]) effective wave out of mi of individual 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. |
|
*/ |
|
|
concatwav(wav, dh, bh, mw, s, agedc, agev, firstpass, lastpass, imx, nlstate, stepm); |
concatwav(wav, dh, bh, mw, s, agedc, agev, firstpass, lastpass, imx, nlstate, stepm); |
/* */ |
/* */ |
|
|
|
free_vector(moisdc,1,n); |
|
free_vector(andc,1,n); |
|
|
/* Routine tricode is to calculate cptcoveff (real number of unique covariates) and to associate covariable number and modality */ |
/* Routine tricode is to calculate cptcoveff (real number of unique covariates) and to associate covariable number and modality */ |
|
|
nbcode=imatrix(0,NCOVMAX,0,NCOVMAX); |
nbcode=imatrix(0,NCOVMAX,0,NCOVMAX); |
Line 7303 Please run with mle=-1 to get a correct
|
Line 8406 Please run with mle=-1 to get a correct
|
Ndum =ivector(-1,NCOVMAX); |
Ndum =ivector(-1,NCOVMAX); |
if (ncovmodel-nagesqr > 2 ) /* That is if covariate other than cst, age and age*age */ |
if (ncovmodel-nagesqr > 2 ) /* That is if covariate other than cst, age and age*age */ |
tricode(Tvar,nbcode,imx, Ndum); /**< Fills nbcode[Tvar[j]][l]; */ |
tricode(Tvar,nbcode,imx, Ndum); /**< Fills nbcode[Tvar[j]][l]; */ |
/* Nbcode gives the value of the lth modality of jth covariate, in |
/* Nbcode gives the value of the lth modality (currently 1 to 2) of jth covariate, in |
V2+V1*age, there are 3 covariates Tvar[2]=1 (V1).*/ |
V2+V1*age, there are 3 covariates Tvar[2]=1 (V1).*/ |
/* 1 to ncodemax[j] is the maximum value of this jth covariate */ |
/* 1 to ncodemax[j] which is the maximum value of this jth covariate */ |
|
|
/* codtab=imatrix(1,100,1,10);*/ /* codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) */ |
/* codtab=imatrix(1,100,1,10);*/ /* codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) */ |
/*printf(" codtab[1,1],codtab[100,10]=%d,%d\n", codtab[1][1],codtabm(100,10));*/ |
/*printf(" codtab[1,1],codtab[100,10]=%d,%d\n", codtab[1][1],codtabm(100,10));*/ |
/* codtab gives the value 1 or 2 of the hth combination of k covariates (1 or 2).*/ |
/* codtab gives the value 1 or 2 of the hth combination of k covariates (1 or 2).*/ |
|
/* nbcode[Tvaraff[j]][codtabm(h,j)]) : if there are only 2 modalities for a covariate j, |
|
* codtabm(h,j) gives its value classified at position h and nbcode gives how it is coded |
|
* (currently 0 or 1) in the data. |
|
* In a loop on h=1 to 2**k, and a loop on j (=1 to k), we get the value of |
|
* corresponding modality (h,j). |
|
*/ |
|
|
h=0; |
h=0; |
|
|
|
|
Line 7319 Please run with mle=-1 to get a correct
|
Line 8429 Please run with mle=-1 to get a correct
|
m=pow(2,cptcoveff); |
m=pow(2,cptcoveff); |
|
|
/**< codtab(h,k) k = codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) + 1 |
/**< codtab(h,k) k = codtab[h,k]=( (h-1) - mod(k-1,2**(k-1) )/2**(k-1) + 1 |
* For k=4 covariates, h goes from 1 to 2**k |
* For k=4 covariates, h goes from 1 to m=2**k |
* codtabm(h,k)= 1 & (h-1) >> (k-1) ; |
* codtabm(h,k)= (1 & (h-1) >> (k-1)) + 1; |
|
* #define codtabm(h,k) (1 & (h-1) >> (k-1))+1 |
* h\k 1 2 3 4 |
* h\k 1 2 3 4 |
*______________________________ |
*______________________________ |
* 1 i=1 1 i=1 1 i=1 1 i=1 1 |
* 1 i=1 1 i=1 1 i=1 1 i=1 1 |
Line 7340 Please run with mle=-1 to get a correct
|
Line 8451 Please run with mle=-1 to get a correct
|
* 15 i=8 1 2 2 2 |
* 15 i=8 1 2 2 2 |
* 16 2 2 2 2 |
* 16 2 2 2 2 |
*/ |
*/ |
|
/* How to do the opposite? From combination h (=1 to 2**k) how to get the value on the covariates? */ |
|
/* from h=5 and m, we get then number of covariates k=log(m)/log(2)=4 |
|
* and the value of each covariate? |
|
* V1=1, V2=1, V3=2, V4=1 ? |
|
* h-1=4 and 4 is 0100 or reverse 0010, and +1 is 1121 ok. |
|
* h=6, 6-1=5, 5 is 0101, 1010, 2121, V1=2nd, V2=1st, V3=2nd, V4=1st. |
|
* In order to get the real value in the data, we use nbcode |
|
* nbcode[Tvar[3][2nd]]=1 and nbcode[Tvar[4][1]]=0 |
|
* We are keeping this crazy system in order to be able (in the future?) |
|
* to have more than 2 values (0 or 1) for a covariate. |
|
* #define codtabm(h,k) (1 & (h-1) >> (k-1))+1 |
|
* h=6, k=2? h-1=5=0101, reverse 1010, +1=2121, k=2nd position: value is 1: codtabm(6,2)=1 |
|
* bbbbbbbb |
|
* 76543210 |
|
* h-1 00000101 (6-1=5) |
|
*(h-1)>>(k-1)= 00000001 >> (2-1) = 1 right shift |
|
* & |
|
* 1 00000001 (1) |
|
* 00000001 = 1 & ((h-1) >> (k-1)) |
|
* +1= 00000010 =2 |
|
* |
|
* h=14, k=3 => h'=h-1=13, k'=k-1=2 |
|
* h' 1101 =2^3+2^2+0x2^1+2^0 |
|
* >>k' 11 |
|
* & 00000001 |
|
* = 00000001 |
|
* +1 = 00000010=2 = codtabm(14,3) |
|
* Reverse h=6 and m=16? |
|
* cptcoveff=log(16)/log(2)=4 covariate: 6-1=5=0101 reversed=1010 +1=2121 =>V1=2, V2=1, V3=2, V4=1. |
|
* for (j=1 to cptcoveff) Vj=decodtabm(j,h,cptcoveff) |
|
* decodtabm(h,j,cptcoveff)= (((h-1) >> (j-1)) & 1) +1 |
|
* decodtabm(h,j,cptcoveff)= (h <= (1<<cptcoveff)?(((h-1) >> (j-1)) & 1) +1 : -1) |
|
* V3=decodtabm(14,3,2**4)=2 |
|
* h'=13 1101 =2^3+2^2+0x2^1+2^0 |
|
*(h-1) >> (j-1) 0011 =13 >> 2 |
|
* &1 000000001 |
|
* = 000000001 |
|
* +1= 000000010 =2 |
|
* 2211 |
|
* V1=1+1, V2=0+1, V3=1+1, V4=1+1 |
|
* V3=2 |
|
*/ |
|
|
/* /\* for(h=1; h <=100 ;h++){ *\/ */ |
/* /\* for(h=1; h <=100 ;h++){ *\/ */ |
/* /\* printf("h=%2d ", h); *\/ */ |
/* /\* printf("h=%2d ", h); *\/ */ |
/* /\* for(k=1; k <=10; k++){ *\/ */ |
/* /\* for(k=1; k <=10; k++){ *\/ */ |
Line 7418 Title=%s <br>Datafile=%s Firstpass=%d La
|
Line 8572 Title=%s <br>Datafile=%s Firstpass=%d La
|
optionfilehtmcov,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
optionfilehtmcov,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); |
} |
} |
|
|
fprintf(fichtm,"<html><head>\n<head>\n<meta charset=\"utf-8\"/><meta http-equiv=\"Content-Type\" content=\"text/html; charset=utf-8\" />\n<title>IMaCh %s</title></head>\n <body><font size=\"7\"><a href=http:/euroreves.ined.fr/imach>IMaCh for Interpolated Markov Chain</a> </font><br>\n<font size=\"3\">Sponsored by Copyright (C) 2002-2015 <a href=http://www.ined.fr>INED</a>-EUROREVES-Institut de longévité-Japan Society for the Promotion of Sciences 日本å¦è¡“振興会 (<a href=https://www.jsps.go.jp/english/e-grants/>Grant-in-Aid for Scientific Research 25293121</a>) - <a href=https://software.intel.com/en-us>Intel Software 2015</a></font><br> \ |
fprintf(fichtm,"<html><head>\n<head>\n<meta charset=\"utf-8\"/><meta http-equiv=\"Content-Type\" content=\"text/html; charset=utf-8\" />\n<title>IMaCh %s</title></head>\n <body><font size=\"7\"><a href=http:/euroreves.ined.fr/imach>IMaCh for Interpolated Markov Chain</a> </font><br>\n<font size=\"3\">Sponsored by Copyright (C) 2002-2015 <a href=http://www.ined.fr>INED</a>-EUROREVES-Institut de longévité-2013-2016-Japan Society for the Promotion of Sciences 日本å¦è¡“振興会 (<a href=https://www.jsps.go.jp/english/e-grants/>Grant-in-Aid for Scientific Research 25293121</a>) - <a href=https://software.intel.com/en-us>Intel Software 2015-2018</a></font><br> \ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<font size=\"2\">IMaCh-%s <br> %s</font> \ |
<font size=\"2\">IMaCh-%s <br> %s</font> \ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
<hr size=\"2\" color=\"#EC5E5E\"> \n\ |
Line 7448 Title=%s <br>Datafile=%s Firstpass=%d La
|
Line 8602 Title=%s <br>Datafile=%s Firstpass=%d La
|
|
|
/* Calculates basic frequencies. Computes observed prevalence at single age |
/* Calculates basic frequencies. Computes observed prevalence at single age |
and prints on file fileres'p'. */ |
and prints on file fileres'p'. */ |
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart); |
freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart,\ |
|
firstpass, lastpass, stepm, weightopt, model); |
|
|
fprintf(fichtm,"\n"); |
fprintf(fichtm,"\n"); |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
fprintf(fichtm,"<br>Total number of observations=%d <br>\n\ |
Line 7870 Please run with mle=-1 to get a correct
|
Line 9025 Please run with mle=-1 to get a correct
|
|
|
fflush(ficlog); |
fflush(ficlog); |
fflush(ficres); |
fflush(ficres); |
|
while(fgets(line, MAXLINE, ficpar)) { |
while((c=getc(ficpar))=='#' && c!= EOF){ |
/* If line starts with a # it is a comment */ |
ungetc(c,ficpar); |
if (line[0] == '#') { |
fgets(line, MAXLINE, ficpar); |
numlinepar++; |
fputs(line,stdout); |
fputs(line,stdout); |
fputs(line,ficparo); |
fputs(line,ficparo); |
} |
fputs(line,ficlog); |
ungetc(c,ficpar); |
continue; |
|
}else |
|
break; |
|
} |
|
|
|
/* while((c=getc(ficpar))=='#' && c!= EOF){ */ |
|
/* ungetc(c,ficpar); */ |
|
/* fgets(line, MAXLINE, ficpar); */ |
|
/* fputs(line,stdout); */ |
|
/* fputs(line,ficparo); */ |
|
/* } */ |
|
/* ungetc(c,ficpar); */ |
|
|
estepm=0; |
estepm=0; |
fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm); |
if((num_filled=sscanf(line,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%lf\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm, &ftolpl)) !=EOF){ |
|
|
|
if (num_filled != 6) { |
|
printf("Not 6 parameters in line, for example:agemin=60 agemax=95 bage=55 fage=95 estepm=24 ftolpl=6e-4\n"); |
|
printf("but line=%s\n",line); |
|
goto end; |
|
} |
|
printf("agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%lf\n",ageminpar,agemaxpar, bage, fage, estepm, ftolpl); |
|
} |
|
/* ftolpl=6*ftol*1.e5; /\* 6.e-3 make convergences in less than 80 loops for the prevalence limit *\/ */ |
|
/*ftolpl=6.e-4;*/ /* 6.e-3 make convergences in less than 80 loops for the prevalence limit */ |
|
|
|
/* fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm); */ |
if (estepm==0 || estepm < stepm) estepm=stepm; |
if (estepm==0 || estepm < stepm) estepm=stepm; |
if (fage <= 2) { |
if (fage <= 2) { |
bage = ageminpar; |
bage = ageminpar; |
Line 7888 Please run with mle=-1 to get a correct
|
Line 9066 Please run with mle=-1 to get a correct
|
} |
} |
|
|
fprintf(ficres,"# agemin agemax for life expectancy, bage fage (if mle==0 ie no data nor Max likelihood).\n"); |
fprintf(ficres,"# agemin agemax for life expectancy, bage fage (if mle==0 ie no data nor Max likelihood).\n"); |
fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm); |
fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d ftolpl=%e\n",ageminpar,agemaxpar,bage,fage, estepm, ftolpl); |
fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm); |
fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d, ftolpl=%e\n",ageminpar,agemaxpar,bage,fage, estepm, ftolpl); |
|
|
/* Other stuffs, more or less useful */ |
/* Other stuffs, more or less useful */ |
while((c=getc(ficpar))=='#' && c!= EOF){ |
while((c=getc(ficpar))=='#' && c!= EOF){ |
Line 7938 Please run with mle=-1 to get a correct
|
Line 9116 Please run with mle=-1 to get a correct
|
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.*/ |
|
|
|
while((c=getc(ficpar))=='#' && c!= EOF){ |
|
ungetc(c,ficpar); |
|
fgets(line, MAXLINE, ficpar); |
|
fputs(line,stdout); |
|
fputs(line,ficparo); |
|
} |
|
ungetc(c,ficpar); |
|
|
|
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); |
|
fscanf(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); |
|
fscanf(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); |
|
fscanf(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.*/ |
|
|
|
|
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); */ |
/* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); */ |
Line 7952 Please run with mle=-1 to get a correct
|
Line 9143 Please run with mle=-1 to get a correct
|
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ |
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, pathc,p); |
printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, pathc,p); |
|
|
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt,\ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,estepm,\ |
model,imx,jmin,jmax,jmean,rfileres,popforecast,prevfcast,backcast, estepm, \ |
jprev1,mprev1,anprev1,jprev2,mprev2,anprev2); |
jprev1,mprev1,anprev1,dateprev1,jprev2,mprev2,anprev2,dateprev2); |
|
|
/*------------ free_vector -------------*/ |
/*------------ free_vector -------------*/ |
/* chdir(path); */ |
/* chdir(path); */ |
|
|
free_ivector(wav,1,imx); |
/* free_ivector(wav,1,imx); */ /* Moved after last prevalence call */ |
free_imatrix(dh,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(dh,1,lastpass-firstpass+2,1,imx); */ |
free_imatrix(bh,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(bh,1,lastpass-firstpass+2,1,imx); */ |
free_imatrix(mw,1,lastpass-firstpass+1,1,imx); |
/* free_imatrix(mw,1,lastpass-firstpass+2,1,imx); */ |
free_lvector(num,1,n); |
free_lvector(num,1,n); |
free_vector(agedc,1,n); |
free_vector(agedc,1,n); |
/*free_matrix(covar,0,NCOVMAX,1,n);*/ |
/*free_matrix(covar,0,NCOVMAX,1,n);*/ |
Line 7979 Please run with mle=-1 to get a correct
|
Line 9170 Please run with mle=-1 to get a correct
|
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*--------------- Prevalence limit (period or stable prevalence) --------------*/ |
/*#include "prevlim.h"*/ /* Use ficrespl, ficlog */ |
/*#include "prevlim.h"*/ /* Use ficrespl, ficlog */ |
prlim=matrix(1,nlstate,1,nlstate); |
prlim=matrix(1,nlstate,1,nlstate); |
prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl, ncvyear); |
prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl, &ncvyear); |
fclose(ficrespl); |
fclose(ficrespl); |
|
|
|
/*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ |
|
/*#include "prevlim.h"*/ /* Use ficresplb, ficlog */ |
|
bprlim=matrix(1,nlstate,1,nlstate); |
|
back_prevalence_limit(p, bprlim, ageminpar, agemaxpar, ftolpl, &ncvyear); |
|
fclose(ficresplb); |
|
|
|
|
#ifdef FREEEXIT2 |
#ifdef FREEEXIT2 |
#include "freeexit2.h" |
#include "freeexit2.h" |
#endif |
#endif |
Line 7991 Please run with mle=-1 to get a correct
|
Line 9189 Please run with mle=-1 to get a correct
|
hPijx(p, bage, fage); |
hPijx(p, bage, fage); |
fclose(ficrespij); |
fclose(ficrespij); |
|
|
|
hBijx(p, bage, fage); |
|
fclose(ficrespijb); |
|
|
/*-------------- Variance of one-step probabilities---*/ |
/*-------------- Variance of one-step probabilities---*/ |
k=1; |
k=1; |
varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); |
varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); |
Line 8007 Please run with mle=-1 to get a correct
|
Line 9208 Please run with mle=-1 to get a correct
|
if(prevfcast==1){ |
if(prevfcast==1){ |
/* if(stepm ==1){*/ |
/* if(stepm ==1){*/ |
prevforecast(fileresu, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); |
prevforecast(fileresu, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); |
/* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ |
|
/* } */ |
|
/* else{ */ |
|
/* erreur=108; */ |
|
/* printf("Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
|
/* fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
|
/* } */ |
|
} |
} |
|
if(backcast==1){ |
|
prevbackforecast(fileresu, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); |
|
} |
|
/* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ |
|
/* } */ |
|
/* else{ */ |
|
/* erreur=108; */ |
|
/* printf("Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
|
/* fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ |
|
/* } */ |
|
|
|
|
/* ------ Other prevalence ratios------------ */ |
/* ------ Other prevalence ratios------------ */ |
|
|
Line 8024 Please run with mle=-1 to get a correct
|
Line 9229 Please run with mle=-1 to get a correct
|
/* printf("ageminpar=%f, agemax=%f, s[lastpass][imx]=%d, agev[lastpass][imx]=%f, nlstate=%d, imx=%d, mint[lastpass][imx]=%f, anint[lastpass][imx]=%f,dateprev1=%f, dateprev2=%f, firstpass=%d, lastpass=%d\n",\ |
/* printf("ageminpar=%f, agemax=%f, s[lastpass][imx]=%d, agev[lastpass][imx]=%f, nlstate=%d, imx=%d, mint[lastpass][imx]=%f, anint[lastpass][imx]=%f,dateprev1=%f, dateprev2=%f, firstpass=%d, lastpass=%d\n",\ |
ageminpar, agemax, s[lastpass][imx], agev[lastpass][imx], nlstate, imx, mint[lastpass][imx],anint[lastpass][imx], dateprev1, dateprev2, firstpass, lastpass); |
ageminpar, agemax, s[lastpass][imx], agev[lastpass][imx], nlstate, imx, mint[lastpass][imx],anint[lastpass][imx], dateprev1, dateprev2, firstpass, lastpass); |
*/ |
*/ |
|
free_ivector(wav,1,imx); |
|
free_imatrix(dh,1,lastpass-firstpass+2,1,imx); |
|
free_imatrix(bh,1,lastpass-firstpass+2,1,imx); |
|
free_imatrix(mw,1,lastpass-firstpass+2,1,imx); |
|
|
|
|
if (mobilav!=0) { |
if (mobilav!=0) { |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); |
Line 8042 Please run with mle=-1 to get a correct
|
Line 9252 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 9272 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 9284 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 9294 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 9303 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 9312 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 9426 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 9438 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 8226 Please run with mle=-1 to get a correct
|
Line 9452 Please run with mle=-1 to get a correct
|
|
|
varpl=matrix(1,nlstate,(int) bage, (int) fage); |
varpl=matrix(1,nlstate,(int) bage, (int) fage); |
oldm=oldms;savm=savms; |
oldm=oldms;savm=savms; |
varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, ncvyear, k, strstart); |
varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, k, strstart); |
free_matrix(varpl,1,nlstate,(int) bage, (int)fage); |
free_matrix(varpl,1,nlstate,(int) bage, (int)fage); |
/*}*/ |
/*}*/ |
} |
} |
|
|
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); |
Line 8265 Please run with mle=-1 to get a correct
|
Line 9493 Please run with mle=-1 to get a correct
|
|
|
|
|
if((nberr >0) || (nbwarn>0)){ |
if((nberr >0) || (nbwarn>0)){ |
printf("End of Imach with %d errors and/or %d warnings\n",nberr,nbwarn); |
printf("End of Imach with %d errors and/or %d warnings. Please look at the log file for details.\n",nberr,nbwarn); |
fprintf(ficlog,"End of Imach with %d errors and/or warnings %d\n",nberr,nbwarn); |
fprintf(ficlog,"End of Imach with %d errors and/or warnings %d. Please look at the log file for details.\n",nberr,nbwarn); |
}else{ |
}else{ |
printf("End of Imach\n"); |
printf("End of Imach\n"); |
fprintf(ficlog,"End of Imach\n"); |
fprintf(ficlog,"End of Imach\n"); |