Datafile=%s Firstpass=%d La
}/* Some are varying covariates, we tried to speed up if all fixed covariates in the model, avoiding waves loop */
} /* end j==0 */
/* bool =0 we keep that guy which corresponds to the combination of dummy values */
- if(bool==1){
+ if(bool==1){ /*Selected */
/* dh[m][iind] or dh[mw[mi][iind]][iind] is the delay between two effective (mi) waves m=mw[mi][iind]
and mw[mi+1][iind]. dh depends on stepm. */
agebegin=agev[m][iind]; /* Age at beginning of wave before transition*/
@@ -4522,6 +4580,11 @@ Title=%s
Datafile=%s Firstpass=%d La
if(s[m][iind]==-1)
printf(" num=%ld m=%d, iind=%d s1=%d s2=%d agev at m=%d agebegin=%.2f ageend=%.2f, agemed=%d\n", num[iind], m, iind,s[m][iind],s[m+1][iind], (int)agev[m][iind],agebegin, ageend, (int)((agebegin+ageend)/2.));
freq[s[m][iind]][s[m+1][iind]][(int)agev[m][iind]] += weight[iind]; /* At age of beginning of transition, where status is known */
+ for (z1=1; z1<= nqfveff; z1++) { /* Quantitative variables, calculating mean */
+ idq[z1]=idq[z1]+weight[iind];
+ meanq[z1]+=covar[ncovcol+z1][iind]*weight[iind]; /* Computes mean of quantitative with selected filter */
+ stdq[z1]+=covar[ncovcol+z1][iind]*covar[ncovcol+z1][iind]*weight[iind]*weight[iind]; /* *weight[iind];*/ /* Computes mean of quantitative with selected filter */
+ }
/* if((int)agev[m][iind] == 55) */
/* printf("j=%d, j1=%d Age %d, iind=%d, num=%09ld m=%d\n",j,j1,(int)agev[m][iind],iind, num[iind],m); */
/* freq[s[m][iind]][s[m+1][iind]][(int)((agebegin+ageend)/2.)] += weight[iind]; */
@@ -4537,6 +4600,11 @@ Title=%s
Datafile=%s Firstpass=%d La
bool=1;
}/* end bool 2 */
} /* end m */
+ /* for (z1=1; z1<= nqfveff; z1++) { /\* Quantitative variables, calculating mean *\/ */
+ /* idq[z1]=idq[z1]+weight[iind]; */
+ /* meanq[z1]+=covar[ncovcol+z1][iind]*weight[iind]; /\* Computes mean of quantitative with selected filter *\/ */
+ /* stdq[z1]+=covar[ncovcol+z1][iind]*covar[ncovcol+z1][iind]*weight[iind]*weight[iind]; /\* *weight[iind];*\/ /\* Computes mean of quantitative with selected filter *\/ */
+ /* } */
} /* end bool */
} /* end iind = 1 to imx */
/* prop[s][age] is feeded for any initial and valid live state as well as
@@ -4574,6 +4642,27 @@ Title=%s
Datafile=%s Firstpass=%d La
fprintf(ficresphtmfr, "**********\n");
fprintf(ficlog, "**********\n");
}
+ /*
+ Printing means of quantitative variables if any
+ */
+ for (z1=1; z1<= nqfveff; z1++) {
+ fprintf(ficlog,"Mean of fixed quantitative variable V%d on %.0f individuals sum=%f", ncovcol+z1, idq[z1], meanq[z1]);
+ fprintf(ficlog,", mean=%.3g\n",meanq[z1]/idq[z1]);
+ if(weightopt==1){
+ printf(" Weighted mean and standard deviation of");
+ fprintf(ficlog," Weighted mean and standard deviation of");
+ fprintf(ficresphtmfr," Weighted mean and standard deviation of");
+ }
+ printf(" fixed quantitative variable V%d on %.0f representatives of the population : %6.3g (%6.3g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt((stdq[z1]-meanq[z1]*meanq[z1]/idq[z1])/idq[z1]));
+ fprintf(ficlog," fixed quantitative variable V%d on %.0f representatives of the population : %6.3g (%6.3g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt((stdq[z1]-meanq[z1]*meanq[z1]/idq[z1])/idq[z1]));
+ fprintf(ficresphtmfr," fixed quantitative variable V%d on %.0f representatives of the population : %6.3g (%6.3g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt((stdq[z1]-meanq[z1]*meanq[z1]/idq[z1])/idq[z1]));
+ }
+ /* for (z1=1; z1<= nqtveff; z1++) { */
+ /* for(m=1;m<=lastpass;m++){ */
+ /* fprintf(ficresphtmfr,"V quantitative id %d, pass id=%d, mean=%f
\n", z1, m, meanqt[m][z1]); */
+ /* } */
+ /* } */
+
fprintf(ficresphtm,"
");
if((cptcoveff==0 && nj==1)|| nj==2 ) /* no covariate and first pass */
fprintf(ficresp, " Age");
@@ -4808,7 +4897,7 @@ Title=%s
Datafile=%s Firstpass=%d La
fprintf(ficlog,"\n");
}
}
- }
+ } /* end of state i */
printf("#Freqsummary\n");
fprintf(ficlog,"\n");
for(s1=-1; s1 <=nlstate+ndeath; s1++){
@@ -4854,7 +4943,9 @@ Title=%s
Datafile=%s Firstpass=%d La
fclose(ficresp);
fclose(ficresphtm);
fclose(ficresphtmfr);
+ free_vector(idq,1,nqfveff);
free_vector(meanq,1,nqfveff);
+ free_vector(stdq,1,nqfveff);
free_matrix(meanqt,1,lastpass,1,nqtveff);
free_vector(x, iagemin-AGEMARGE, iagemax+4+AGEMARGE);
free_vector(y, iagemin-AGEMARGE, iagemax+4+AGEMARGE);
@@ -5270,6 +5361,9 @@ void concatwav(int wav[], int **dh, int
/* *cptcov=0; */
for (k=1; k <= maxncov; k++) ncodemax[k]=0; /* Horrible constant again replaced by NCOVMAX */
+ for (k=1; k <= maxncov; k++)
+ for(j=1; j<=2; j++)
+ nbcode[k][j]=0; /* Valgrind */
/* Loop on covariates without age and products and no quantitative variable */
/* for (j=1; j<=(cptcovs); j++) { /\* From model V1 + V2*age+ V3 + V3*V4 keeps V1 + V3 = 2 only *\/ */
@@ -5464,7 +5558,7 @@ void concatwav(int wav[], int **dh, int
/* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm.
nhstepm is the number of hstepm from age to agelim
nstepm is the number of stepm from age to agelin.
- Look at hpijx to understand the reason of that which relies in memory size
+ Look at hpijx to understand the reason which relies in memory size consideration
and note for a fixed period like estepm months */
/* We decided (b) to get a life expectancy respecting the most precise curvature of the
survival function given by stepm (the optimization length). Unfortunately it
@@ -5745,10 +5839,11 @@ void concatwav(int wav[], int **dh, int
/************ 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 *ncvyearp, int ij, int estepm, int cptcov, int cptcod, int popbased, int mobilav, char strstart[], int nres)
{
- /* Variance of health expectancies */
- /* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);*/
- /* double **newm;*/
- /* int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav)*/
+ /** Variance of health expectancies
+ * double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double ** savm,double ftolpl);
+ * double **newm;
+ * int movingaverage(double ***probs, double bage,double fage, double ***mobaverage, int mobilav)
+ */
/* int movingaverage(); */
double **dnewm,**doldm;
@@ -5756,11 +5851,11 @@ void concatwav(int wav[], int **dh, int
int i, j, nhstepm, hstepm, h, nstepm ;
int k;
double *xp;
- double **gp, **gm; /* for var eij */
- double ***gradg, ***trgradg; /*for var eij */
- double **gradgp, **trgradgp; /* for var p point j */
- double *gpp, *gmp; /* for var p point j */
- double **varppt; /* for var p point j nlstate to nlstate+ndeath */
+ double **gp, **gm; /**< for var eij */
+ double ***gradg, ***trgradg; /**< for var eij */
+ double **gradgp, **trgradgp; /**< for var p point j */
+ double *gpp, *gmp; /**< for var p point j */
+ double **varppt; /**< for var p point j nlstate to nlstate+ndeath */
double ***p3mat;
double age,agelim, hf;
/* double ***mobaverage; */
@@ -5821,7 +5916,7 @@ void concatwav(int wav[], int **dh, int
/* fprintf(fichtm, "#Local time at start: %s", strstart);*/
fprintf(fichtm,"\n Computing probabilities of dying over estepm months as a weighted average (i.e global mortality independent of initial healh state)
\n");
fprintf(fichtm,"\n
%s
\n",digitp);
- /* } */
+
varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath);
pstamp(ficresvij);
fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are ");
@@ -5876,9 +5971,12 @@ void concatwav(int wav[], int **dh, int
for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/
xp[i] = x[i] + (i==theta ?delti[theta]:0);
}
-
+ /**< Computes the prevalence limit with parameter theta shifted of delta up to ftolpl precision and
+ * returns into prlim .
+ */
prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij, nres);
-
+
+ /* If popbased = 1 we use crossection prevalences. Previous step is useless but prlim is created */
if (popbased==1) {
if(mobilav ==0){
for(i=1; i<=nlstate;i++)
@@ -5888,23 +5986,28 @@ void concatwav(int wav[], int **dh, int
prlim[i][i]=mobaverage[(int)age][i][ij];
}
}
-
- hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres); /* Returns p3mat[i][j][h] for h=1 to nhstepm */
+ /**< Computes the shifted transition matrix \f$ {}{h}_p^{ij}_x\f$ at horizon h.
+ */
+ hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres); /* Returns p3mat[i][j][h] for h=0 to nhstepm */
+ /**< And for each alive state j, sums over i \f$ w^i_x {}{h}_p^{ij}_x\f$, which are the probability
+ * at horizon h in state j including mortality.
+ */
for(j=1; j<= nlstate; j++){
for(h=0; h<=nhstepm; h++){
for(i=1, gp[h][j]=0.;i<=nlstate;i++)
gp[h][j] += prlim[i][i]*p3mat[i][j][h];
}
}
- /* Next for computing probability of death (h=1 means
+ /* Next for computing shifted+ probability of death (h=1 means
computed over hstepm matrices product = hstepm*stepm months)
- as a weighted average of prlim.
+ as a weighted average of prlim(i) * p(i,j) p.3=w1*p13 + w2*p23 .
*/
for(j=nlstate+1;j<=nlstate+ndeath;j++){
for(i=1,gpp[j]=0.; i<= nlstate; i++)
gpp[j] += prlim[i][i]*p3mat[i][j][1];
- }
- /* end probability of death */
+ }
+
+ /* Again with minus shift */
for(i=1; i<=npar; i++) /* Computes gradient x - delta */
xp[i] = x[i] - (i==theta ?delti[theta]:0);
@@ -5937,19 +6040,23 @@ void concatwav(int wav[], int **dh, int
for(i=1,gmp[j]=0.; i<= nlstate; i++)
gmp[j] += prlim[i][i]*p3mat[i][j][1];
}
- /* end probability of death */
-
+ /* end shifting computations */
+
+ /**< Computing gradient matrix at horizon h
+ */
for(j=1; j<= nlstate; j++) /* vareij */
for(h=0; h<=nhstepm; h++){
gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta];
}
-
- for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu */
+ /**< Gradient of overall mortality p.3 (or p.j)
+ */
+ for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu mortality from j */
gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta];
}
} /* End theta */
-
+
+ /* We got the gradient matrix for each theta and state j */
trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */
for(h=0; h<=nhstepm; h++) /* veij */
@@ -5960,13 +6067,19 @@ void concatwav(int wav[], int **dh, int
for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */
for(theta=1; theta <=npar; theta++)
trgradgp[j][theta]=gradgp[theta][j];
-
+ /**< as well as its transposed matrix
+ */
hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */
for(i=1;i<=nlstate;i++)
for(j=1;j<=nlstate;j++)
vareij[i][j][(int)age] =0.;
-
+
+ /* Computing trgradg by matcov by gradg at age and summing over h
+ * and k (nhstepm) formula 15 of article
+ * Lievre-Brouard-Heathcote
+ */
+
for(h=0;h<=nhstepm;h++){
for(k=0;k<=nhstepm;k++){
matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov);
@@ -5977,7 +6090,11 @@ void concatwav(int wav[], int **dh, int
}
}
- /* pptj */
+ /* pptj is p.3 or p.j = trgradgp by cov by gradgp, variance of
+ * p.j overall mortality formula 49 but computed directly because
+ * we compute the grad (wix pijx) instead of grad (pijx),even if
+ * wix is independent of theta.
+ */
matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov);
matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp);
for(j=nlstate+1;j<=nlstate+ndeath;j++)
@@ -6586,7 +6703,12 @@ To be simple, these graphs help to under
}
/* Eigen vectors */
- v11=(1./sqrt(1+(v1-lc1)*(v1-lc1)/cv12/cv12));
+ if(1+(v1-lc1)*(v1-lc1)/cv12/cv12 <1.e-5){
+ printf(" Error sqrt of a negative number: %lf\n",1+(v1-lc1)*(v1-lc1)/cv12/cv12);
+ fprintf(ficlog," Error sqrt of a negative number: %lf\n",1+(v1-lc1)*(v1-lc1)/cv12/cv12);
+ v11=(1./sqrt(fabs(1+(v1-lc1)*(v1-lc1)/cv12/cv12)));
+ }else
+ v11=(1./sqrt(1+(v1-lc1)*(v1-lc1)/cv12/cv12));
/*v21=sqrt(1.-v11*v11); *//* error */
v21=(lc1-v1)/cv12*v11;
v12=-v21;
@@ -6617,8 +6739,8 @@ To be simple, these graphs help to under
fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2);
fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2);
fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not", \
- mu1,std,v11,sqrt(lc1),v12,sqrt(fabs(lc2)), \
- mu2,std,v21,sqrt(lc1),v22,sqrt(fabs(lc2))); /* For gnuplot only */
+ mu1,std,v11,sqrt(fabs(lc1)),v12,sqrt(fabs(lc2)), \
+ mu2,std,v21,sqrt(fabs(lc1)),v22,sqrt(fabs(lc2))); /* For gnuplot only */
}else{
first=0;
fprintf(fichtmcov," %d (%.3f),",(int) age, c12);
@@ -6655,8 +6777,8 @@ void printinghtml(char fileresu[], char
int lastpass, int stepm, int weightopt, char model[],\
int imx,int jmin, int jmax, double jmeanint,char rfileres[],\
int popforecast, int mobilav, int prevfcast, int mobilavproj, int backcast, int estepm , \
- double jprev1, double mprev1,double anprev1, double dateprev1, \
- double jprev2, double mprev2,double anprev2, double dateprev2){
+ double jprev1, double mprev1,double anprev1, double dateprev1, double dateproj1, double dateback1, \
+ double jprev2, double mprev2,double anprev2, double dateprev2, double dateproj2, double dateback2){
int jj1, k1, i1, cpt, k4, nres;
fprintf(fichtm,"- Result files (first order: no variance)\n \
@@ -6793,7 +6915,7 @@ divided by h: hPij
for(cpt=1; cpt<=nlstate;cpt++){
fprintf(fichtm,"
\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. \
- %s_%d%d-%d.svg
", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);
+ %s_%d-%d-%d.svg
", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);
}
/* Period (stable) prevalence in each health state */
for(cpt=1; cpt<=nlstate;cpt++){
@@ -6810,15 +6932,18 @@ divided by h: hPij
if(prevfcast==1){
/* Projection of prevalence up to period (stable) prevalence in each health state */
for(cpt=1; cpt<=nlstate;cpt++){
- fprintf(fichtm,"
\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d) up to period (stable) prevalence in state %d. Or probability to be in state %d being in an observed weighted state (from 1 to %d). %s_%d-%d-%d.svg
\
-", dateprev1, dateprev2, mobilavproj, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);
+ fprintf(fichtm,"
\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), from year %.1f up to year %.1f tending to period (stable) prevalence in state %d. Or probability to be in state %d being in an observed weighted state (from 1 to %d). %s_%d-%d-%d.svg
\
+", dateprev1, dateprev2, mobilavproj, dateproj1, dateproj2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);
}
}
if(backcast==1){
/* Back projection of prevalence up to stable (mixed) back-prevalence in each health state */
for(cpt=1; cpt<=nlstate;cpt++){
- fprintf(fichtm,"
\n- Back projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d) up to stable (mixed) back prevalence in state %d. Or probability to have been in an state %d, knowing that the person was in either state (1 or %d) with weights corresponding to observed prevalence at different ages. %s_%d-%d-%d.svg
\
-", dateprev1, dateprev2, mobilavproj, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres);
+ fprintf(fichtm,"
\n- Back projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), \
+ from year %.1f up to year %.1f (probably close to stable [mixed] back prevalence in state %d (randomness in cross-sectional prevalence is not taken into \
+ account but can visually be appreciated). Or probability to have been in an state %d, knowing that the person was in either state (1 or %d) \
+with weights corresponding to observed prevalence at different ages. %s_%d-%d-%d.svg
\
+ ", dateprev1, dateprev2, mobilavproj, dateback1, dateback2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres);
}
}
@@ -6924,7 +7049,7 @@ true period expectancies (those weighted
}
/******************* Gnuplot file **************/
-void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double fage , int prevfcast, int backcast, char pathc[], double p[], int offyear, int offbyear){
+void printinggnuplot(char fileresu[], char optionfilefiname[], double ageminpar, double agemaxpar, double bage, double fage , int prevfcast, int backcast, char pathc[], double p[], int offyear, int offbyear){
char dirfileres[132],optfileres[132];
char gplotcondition[132], gplotlabel[132];
@@ -6933,6 +7058,8 @@ void printinggnuplot(char fileresu[], ch
int ng=0;
int vpopbased;
int ioffset; /* variable offset for columns */
+ int iyearc=1; /* variable column for year of projection */
+ int iagec=1; /* variable column for age of projection */
int nres=0; /* Index of resultline */
int istart=1; /* For starting graphs in projections */
@@ -6946,6 +7073,20 @@ void printinggnuplot(char fileresu[], ch
/*#endif */
m=pow(2,cptcoveff);
+ /* diagram of the model */
+ fprintf(ficgp,"\n#Diagram of the model \n");
+ fprintf(ficgp,"\ndelta=0.03;delta2=0.07;unset arrow;\n");
+ fprintf(ficgp,"yoff=(%d > 2? 0:1);\n",nlstate);
+ fprintf(ficgp,"\n#Peripheral arrows\nset for [i=1:%d] for [j=1:%d] arrow i*10+j from cos(pi*((1-(%d/2)*2./%d)/2+(i-1)*2./%d))-(i!=j?(i-j)/abs(i-j)*delta:0), yoff +sin(pi*((1-(%d/2)*2./%d)/2+(i-1)*2./%d)) + (i!=j?(i-j)/abs(i-j)*delta:0) rto -0.95*(cos(pi*((1-(%d/2)*2./%d)/2+(i-1)*2./%d))+(i!=j?(i-j)/abs(i-j)*delta:0) - cos(pi*((1-(%d/2)*2./%d)/2+(j-1)*2./%d)) + (i!=j?(i-j)/abs(i-j)*delta2:0)), -0.95*(sin(pi*((1-(%d/2)*2./%d)/2+(i-1)*2./%d)) + (i!=j?(i-j)/abs(i-j)*delta:0) - sin(pi*((1-(%d/2)*2./%d)/2+(j-1)*2./%d))+( i!=j?(i-j)/abs(i-j)*delta2:0)) ls (i < j? 1:2)\n",nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate);
+
+ fprintf(ficgp,"\n#Centripete arrows (turning in other direction (1-i) instead of (i-1)) \nset for [i=1:%d] arrow (%d+1)*10+i from cos(pi*((1-(%d/2)*2./%d)/2+(1-i)*2./%d))-(i!=j?(i-j)/abs(i-j)*delta:0), yoff +sin(pi*((1-(%d/2)*2./%d)/2+(1-i)*2./%d)) + (i!=j?(i-j)/abs(i-j)*delta:0) rto -0.80*(cos(pi*((1-(%d/2)*2./%d)/2+(1-i)*2./%d))+(i!=j?(i-j)/abs(i-j)*delta:0) ), -0.80*(sin(pi*((1-(%d/2)*2./%d)/2+(1-i)*2./%d)) + (i!=j?(i-j)/abs(i-j)*delta:0) + yoff ) ls 4\n",nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate);
+ fprintf(ficgp,"\n#show arrow\nunset label\n");
+ fprintf(ficgp,"\n#States labels, starting from 2 (2-i) instead of (1-i), was (i-1)\nset for [i=1:%d] label i sprintf(\"State %%d\",i) center at cos(pi*((1-(%d/2)*2./%d)/2+(2-i)*2./%d)), yoff+sin(pi*((1-(%d/2)*2./%d)/2+(2-i)*2./%d)) font \"helvetica, 16\" tc rgbcolor \"blue\"\n",nlstate,nlstate,nlstate,nlstate,nlstate,nlstate,nlstate);
+ fprintf(ficgp,"\nset label %d+1 sprintf(\"State %%d\",%d+1) center at 0.,0. font \"helvetica, 16\" tc rgbcolor \"red\"\n",nlstate,nlstate);
+ fprintf(ficgp,"\n#show label\nunset border;unset xtics; unset ytics;\n");
+ fprintf(ficgp,"\n\nset ter svg size 640, 480;set out \"%s_.svg\" \n",subdirf2(optionfilefiname,"D_"));
+ fprintf(ficgp,"unset log y; plot [-1.2:1.2][yoff-1.2:1.2] 1/0 not; set out;reset;\n");
+
/* Contribution to likelihood */
/* Plot the probability implied in the likelihood */
fprintf(ficgp,"\n# Contributions to the Likelihood, mle >=1. For mle=4 no interpolation, pure matrix products.\n#\n");
@@ -7015,7 +7156,8 @@ void printinggnuplot(char fileresu[], ch
fprintf(ficgp,"\nset out \"%s_%d-%d-%d.svg\" \n",subdirf2(optionfilefiname,"V_"),cpt,k1,nres);
fprintf(ficgp,"\n#set out \"V_%s_%d-%d-%d.svg\" \n",optionfilefiname,cpt,k1,nres);
- fprintf(ficgp,"set label \"Alive state %d %s\" at graph 0.98,0.5 center rotate font \"Helvetica,12\"\n",cpt,gplotlabel);
+ /* fprintf(ficgp,"set label \"Alive state %d %s\" at graph 0.98,0.5 center rotate font \"Helvetica,12\"\n",cpt,gplotlabel); */
+ fprintf(ficgp,"set title \"Alive state %d %s\" font \"Helvetica,12\"\n",cpt,gplotlabel);
fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter svg size 640, 480\nplot [%.f:%.f] \"%s\" every :::%d::%d u 1:($2==%d ? $3:1/0) \"%%lf %%lf",ageminpar,fage,subdirf2(fileresu,"VPL_"),nres-1,nres-1,nres);
/* fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \nset ter svg size 640, 480\nplot [%.f:%.f] \"%s\" every :::%d::%d u 1:($2==%d ? $3:1/0) \"%%lf %%lf",ageminpar,fage,subdirf2(fileresu,"VPL_"),k1-1,k1-1,nres); */
/* k1-1 error should be nres-1*/
@@ -7037,7 +7179,7 @@ void printinggnuplot(char fileresu[], ch
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" u 1:((",subdirf2(fileresu,"P_"));
if(cptcoveff ==0){
- fprintf(ficgp,"$%d)) t 'Observed prevalence in state %d' with line lt 3", 2+(cpt-1), cpt );
+ fprintf(ficgp,"$%d)) t 'Observed prevalence in state %d' with line lt 3", 2+3*(cpt-1), cpt );
}else{
kl=0;
for (k=1; k<=cptcoveff; k++){ /* For each combination of covariate */
@@ -7095,20 +7237,21 @@ void printinggnuplot(char fileresu[], ch
if (i==cpt) fprintf(ficgp," %%lf (%%lf)");
else fprintf(ficgp," %%*lf (%%*lf)");
}
- fprintf(ficgp,"\" t\"Backward (stable) prevalence\" w l lt 0,\"%s\" every :::%d::%d u 1:($2==%d ? $3+1.96*$4 : 1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);
+ fprintf(ficgp,"\" t\"Backward (stable) prevalence\" w l lt 6 dt 3,\"%s\" every :::%d::%d u 1:($2==%d ? $3+1.96*$4 : 1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);
for (i=1; i<= nlstate ; i ++) {
if (i==cpt) fprintf(ficgp," %%lf (%%lf)");
else fprintf(ficgp," %%*lf (%%*lf)");
}
- fprintf(ficgp,"\" t\"95%% CI\" w l lt 1,\"%s\" every :::%d::%d u 1:($2==%d ? $3-1.96*$4 : 1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);
+ fprintf(ficgp,"\" t\"95%% CI\" w l lt 4,\"%s\" every :::%d::%d u 1:($2==%d ? $3-1.96*$4 : 1/0) \"%%lf %%lf",subdirf2(fileresu,"VBL_"),nres-1,nres-1,nres);
for (i=1; i<= nlstate ; i ++) {
if (i==cpt) fprintf(ficgp," %%lf (%%lf)");
else fprintf(ficgp," %%*lf (%%*lf)");
}
- fprintf(ficgp,"\" t\"\" w l lt 1");
+ fprintf(ficgp,"\" t\"\" w l lt 4");
} /* end if backprojcast */
} /* end if backcast */
- fprintf(ficgp,"\nset out ;unset label;\n");
+ /* fprintf(ficgp,"\nset out ;unset label;\n"); */
+ fprintf(ficgp,"\nset out ;unset title;\n");
} /* nres */
} /* k1 */
} /* cpt */
@@ -7506,24 +7649,22 @@ set ter svg size 640, 480\nunset log y\n
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 */
fprintf(ficgp," u %d:(", ioffset);
if(i==nlstate+1){
- fprintf(ficgp," $%d/(1.-$%d)):5 t 'pw.%d' with line lc variable ", \
+ fprintf(ficgp," $%d/(1.-$%d)):1 t 'pw.%d' with line lc variable ", \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,cpt );
fprintf(ficgp,",\\\n '' ");
fprintf(ficgp," u %d:(",ioffset);
- fprintf(ficgp," (($5-$6) == %d ) ? $%d/(1.-$%d) : 1/0):5 with labels center not ", \
+ fprintf(ficgp," (($1-$2) == %d ) ? $%d/(1.-$%d) : 1/0):1 with labels center not ", \
offyear, \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate );
}else
fprintf(ficgp," $%d/(1.-$%d)) t 'p%d%d' with line ", \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,i,cpt );
}else{ /* more than 2 covariates */
- if(cptcoveff ==1){
- ioffset=4; /* Age is in 4 */
- }else{
- ioffset=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 */
- }
+ ioffset=2*cptcoveff+2; /* Age is in 4 or 6 or etc.*/
+ /*# 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 */
+ iyearc=ioffset-1;
+ iagec=ioffset;
fprintf(ficgp," u %d:(",ioffset);
kl=0;
strcpy(gplotcondition,"(");
@@ -7545,13 +7686,13 @@ set ter svg size 640, 480\nunset log y\n
/*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(i==nlstate+1){
- fprintf(ficgp,"%s ? $%d/(1.-$%d) : 1/0):5 t 'p.%d' with line lc variable", gplotcondition, \
- ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,cpt );
+ fprintf(ficgp,"%s ? $%d/(1.-$%d) : 1/0):%d t 'p.%d' with line lc variable", gplotcondition, \
+ ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,iyearc, cpt );
fprintf(ficgp,",\\\n '' ");
- fprintf(ficgp," u %d:(",ioffset);
- fprintf(ficgp,"%s && (($5-$6) == %d ) ? $%d/(1.-$%d) : 1/0):5 with labels center not ", gplotcondition, \
- offyear, \
- ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate );
+ fprintf(ficgp," u %d:(",iagec);
+ fprintf(ficgp,"%s && (($%d-$%d) == %d ) ? $%d/(1.-$%d) : 1/0):%d with labels center not ", gplotcondition, \
+ iyearc, iagec, offyear, \
+ ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate, iyearc );
/* '' u 6:(($1==1 && $2==0 && $3==2 && $4==0) && (($5-$6) == 1947) ? $10/(1.-$22) : 1/0):5 with labels center boxed not*/
}else{
fprintf(ficgp,"%s ? $%d/(1.-$%d) : 1/0) t 'p%d%d' with line ", gplotcondition, \
@@ -7621,24 +7762,22 @@ set ter svg size 640, 480\nunset log y\n
/*# 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 */
fprintf(ficgp," u %d:(", ioffset);
if(i==nlstate+1){
- fprintf(ficgp," $%d/(1.-$%d)):5 t 'bw%d' with line lc variable ", \
+ fprintf(ficgp," $%d/(1.-$%d)):1 t 'bw%d' with line lc variable ", \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,cpt );
fprintf(ficgp,",\\\n '' ");
fprintf(ficgp," u %d:(",ioffset);
- fprintf(ficgp," (($5-$6) == %d ) ? $%d : 1/0):5 with labels center not ", \
+ fprintf(ficgp," (($1-$2) == %d ) ? $%d : 1/0):1 with labels center not ", \
offbyear, \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1) );
}else
fprintf(ficgp," $%d/(1.-$%d)) t 'b%d%d' with line ", \
ioffset+(cpt-1)*(nlstate+1)+1+(i-1), ioffset+1+(i-1)+(nlstate+1)*nlstate,cpt,i );
}else{ /* more than 2 covariates */
- if(cptcoveff ==1){
- ioffset=4; /* Age is in 4 */
- }else{
- ioffset=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 */
- }
+ ioffset=2*cptcoveff+2; /* Age is in 4 or 6 or etc.*/
+ /*# 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 */
+ iyearc=ioffset-1;
+ iagec=ioffset;
fprintf(ficgp," u %d:(",ioffset);
kl=0;
strcpy(gplotcondition,"(");
@@ -7660,14 +7799,14 @@ set ter svg size 640, 480\nunset log y\n
/*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(i==nlstate+1){
- fprintf(ficgp,"%s ? $%d : 1/0):5 t 'bw%d' with line lc variable", gplotcondition, \
- ioffset+(cpt-1)*(nlstate+1)+1+(i-1),cpt );
+ fprintf(ficgp,"%s ? $%d : 1/0):%d t 'bw%d' with line lc variable", gplotcondition, \
+ ioffset+(cpt-1)*(nlstate+1)+1+(i-1),iyearc,cpt );
fprintf(ficgp,",\\\n '' ");
- fprintf(ficgp," u %d:(",ioffset);
+ fprintf(ficgp," u %d:(",iagec);
/* fprintf(ficgp,"%s && (($5-$6) == %d ) ? $%d/(1.-$%d) : 1/0):5 with labels center not ", gplotcondition, \ */
- fprintf(ficgp,"%s && (($5-$6) == %d ) ? $%d : 1/0):5 with labels center not ", gplotcondition, \
- offbyear, \
- ioffset+(cpt-1)*(nlstate+1)+1+(i-1) );
+ fprintf(ficgp,"%s && (($%d-$%d) == %d ) ? $%d : 1/0):%d with labels center not ", gplotcondition, \
+ iyearc,iagec,offbyear, \
+ ioffset+(cpt-1)*(nlstate+1)+1+(i-1), iyearc );
/* '' u 6:(($1==1 && $2==0 && $3==2 && $4==0) && (($5-$6) == 1947) ? $10/(1.-$22) : 1/0):5 with labels center boxed not*/
}else{
/* fprintf(ficgp,"%s ? $%d/(1.-$%d) : 1/0) t 'p%d%d' with line ", gplotcondition, \ */
@@ -7726,7 +7865,7 @@ set ter svg size 640, 480\nunset log y\n
continue;
fprintf(ficgp,"\n\n# Combination of dummy k1=%d which is ",k1);
strcpy(gplotlabel,"(");
- sprintf(gplotlabel+strlen(gplotlabel)," Dummy combination %d ",k1);
+ /*sprintf(gplotlabel+strlen(gplotlabel)," Dummy combination %d ",k1);*/
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 */
@@ -7743,7 +7882,9 @@ set ter svg size 640, 480\nunset log y\n
strcpy(gplotlabel+strlen(gplotlabel),")");
fprintf(ficgp,"\n#\n");
fprintf(ficgp,"\nset out \"%s_%d-%d-%d.svg\" ",subdirf2(optionfilefiname,"PE_"),k1,ng,nres);
- fprintf(ficgp,"\nset label \"%s\" at graph 0.98,0.5 center rotate font \"Helvetica,12\"\n",gplotlabel);
+ fprintf(ficgp,"\nset key outside ");
+ /* fprintf(ficgp,"\nset label \"%s\" at graph 1.2,0.5 center rotate font \"Helvetica,12\"\n",gplotlabel); */
+ fprintf(ficgp,"\nset title \"%s\" font \"Helvetica,12\"\n",gplotlabel);
fprintf(ficgp,"\nset ter svg size 640, 480 ");
if (ng==1){
fprintf(ficgp,"\nset ylabel \"Value of the logit of the model\"\n"); /* exp(a12+b12*x) could be nice */
@@ -7863,12 +8004,12 @@ set ter svg size 640, 480\nunset log y\n
}
fprintf(ficgp,")");
if(ng ==2)
- fprintf(ficgp," t \"p%d%d\" ", k2,k);
+ fprintf(ficgp," w l lw 2 lt (%d*%d+%d)%%%d+1 dt %d t \"p%d%d\" ", nlstate+ndeath, k2, k, nlstate+ndeath, k2, k2,k);
else /* ng= 3 */
- fprintf(ficgp," t \"i%d%d\" ", k2,k);
+ fprintf(ficgp," w l lw 2 lt (%d*%d+%d)%%%d+1 dt %d t \"i%d%d\" ", nlstate+ndeath, k2, k, nlstate+ndeath, k2, k2,k);
}else{ /* end ng <> 1 */
if( k !=k2) /* logit p11 is hard to draw */
- fprintf(ficgp," t \"logit(p%d%d)\" ", k2,k);
+ fprintf(ficgp," w l lw 2 lt (%d*%d+%d)%%%d+1 dt %d t \"logit(p%d%d)\" ", nlstate+ndeath, k2, k, nlstate+ndeath, k2, k2,k);
}
if ((k+k2)!= (nlstate*2+ndeath) && ng != 1)
fprintf(ficgp,",");
@@ -7877,7 +8018,8 @@ set ter svg size 640, 480\nunset log y\n
i=i+ncovmodel;
} /* end k */
} /* end k2 */
- fprintf(ficgp,"\n set out; unset label;\n");
+ /* fprintf(ficgp,"\n set out; unset label;set key default;\n"); */
+ fprintf(ficgp,"\n set out; unset title;set key default;\n");
} /* end k1 */
} /* end ng */
/* avoid: */
@@ -7901,8 +8043,8 @@ set ter svg size 640, 480\nunset log y\n
double *agemingoodr, *agemaxgoodr;
- /* modcovmax=2*cptcoveff;/\* Max number of modalities. We suppose */
- /* a covariate has 2 modalities, should be equal to ncovcombmax *\/ */
+ /* modcovmax=2*cptcoveff; Max number of modalities. We suppose */
+ /* a covariate has 2 modalities, should be equal to ncovcombmax */
sumnewp = vector(1,ncovcombmax);
sumnewm = vector(1,ncovcombmax);
@@ -8154,7 +8296,12 @@ set ter svg size 640, 480\nunset log y\n
if(estepm < stepm){
printf ("Problem %d lower than %d\n",estepm, stepm);
}
- else hstepm=estepm;
+ else{
+ hstepm=estepm;
+ }
+ if(estepm > stepm){ /* Yes every two year */
+ stepsize=2;
+ }
hstepm=hstepm/stepm;
yp1=modf(dateintmean,&yp);/* extracts integral of datemean in yp and
@@ -8199,7 +8346,8 @@ set ter svg size 640, 480\nunset log y\n
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--){
+ /* for (agec=fage; agec>=(ageminpar-1); agec--){ */
+ for (agec=fage; agec>=(bage); agec--){
nhstepm=(int) rint((agelim-agec)*YEARM/stepm);
nhstepm = nhstepm/hstepm;
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
@@ -8220,11 +8368,11 @@ set ter svg size 640, 480\nunset log y\n
for(j=1; j<=nlstate+ndeath;j++) {
ppij=0.;
for(i=1; i<=nlstate;i++) {
- /* if (mobilav>=1) */
- ppij=ppij+p3mat[i][j][h]*prev[(int)agec][i][k];
- /* else { */ /* even if mobilav==-1 we use mobaverage */
- /* ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][k]; */
- /* } */
+ if (mobilav>=1)
+ ppij=ppij+p3mat[i][j][h]*prev[(int)agec][i][k];
+ else { /* even if mobilav==-1 we use mobaverage, probs may not sums to 1 */
+ ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][k];
+ }
fprintf(ficresf," %.3f", p3mat[i][j][h]);
} /* end i */
fprintf(ficresf," %.3f", ppij);
@@ -8287,7 +8435,12 @@ set ter svg size 640, 480\nunset log y\n
if(estepm < stepm){
printf ("Problem %d lower than %d\n",estepm, stepm);
}
- else hstepm=estepm;
+ else{
+ hstepm=estepm;
+ }
+ if(estepm >= stepm){ /* Yes every two year */
+ stepsize=2;
+ }
hstepm=hstepm/stepm;
yp1=modf(dateintmean,&yp);/* extracts integral of datemean in yp and
@@ -8334,13 +8487,15 @@ set ter svg size 640, 480\nunset log y\n
fprintf(ficresfb,"\n");
fprintf(ficresfb,"\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp);
/* printf("\n# Back Forecasting at date %.lf/%.lf/%.lf ",jback1,mback1,anback1+yearp); */
- for (agec=bage; agec<=agemax-1; agec++){ /* testing */
+ /* for (agec=bage; agec<=agemax-1; agec++){ /\* testing *\/ */
+ for (agec=bage; agec<=fage; agec++){ /* testing */
/* We compute bij at age agec over nhstepm, nhstepm decreases when agec increases because of agemax;*/
- nhstepm=(int) rint((agec-agelim)*YEARM/stepm);
+ nhstepm=(int) (agec-agelim) *YEARM/stepm;/* nhstepm=(int) rint((agec-agelim)*YEARM/stepm);*/
nhstepm = nhstepm/hstepm;
p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm);
oldm=oldms;savm=savms;
/* computes hbxij at age agec over 1 to nhstepm */
+ /* printf("####prevbackforecast debug agec=%.2f nhstepm=%d\n",agec, nhstepm);fflush(stdout); */
hbxij(p3mat,nhstepm,agec,hstepm,p,prevacurrent,nlstate,stepm, k, nres);
/* hpxij(p3mat,nhstepm,agec,hstepm,p, nlstate,stepm,oldm,savm, k,nres); */
/* Then we print p3mat for h corresponding to the right agec+h*stepms=yearp */
@@ -9584,7 +9739,7 @@ Dummy[k] 0=dummy (0 1), 1 quantitative (
Typevar: 0 for simple covariate (dummy, quantitative, fixed or varying), 1 for age product, 2 for product \n\
Fixed[k] 0=fixed (product or simple), 1 varying, 2 fixed with age product, 3 varying with age product \n\
Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product\n",model);
- for(k=1;k<=cptcovt; k++){ Fixed[k]=0; Dummy[k]=0;}
+ for(k=-1;k<=cptcovt; k++){ Fixed[k]=0; Dummy[k]=0;}
for(k=1, ncovf=0, nsd=0, nsq=0, ncovv=0, ncova=0, ncoveff=0, nqfveff=0, ntveff=0, nqtveff=0;k<=cptcovt; k++){ /* or cptocvt */
if (Tvar[k] <=ncovcol && Typevar[k]==0 ){ /* Simple fixed dummy (<=ncovcol) covariates */
Fixed[k]= 0;
@@ -9834,11 +9989,12 @@ Dummy[k] 0=dummy (0 1), 1 quantitative (
/* Searching for doublons in the model */
for(k1=1; k1<= cptcovt;k1++){
for(k2=1; k2 maxwav){
+ printf("Error (lastpass = %d) > (maxwav = %d)\n",lastpass, maxwav);
+ fprintf(ficlog,"Error (lastpass = %d) > (maxwav = %d)\n",lastpass, maxwav);
+ fflush(ficlog);
+ goto end;
}
- printf("ftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, mle, weightopt);
+ printf("ftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, mle, weightopt);
+ fprintf(ficparo,"ftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, mle, weightopt);
+ fprintf(ficres,"ftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, 0, weightopt);
+ fprintf(ficlog,"ftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\n",ftol, stepm, ncovcol, nqv, ntv, nqtv, 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.e-4; *//* 6.e-3 make convergences in less than 80 loops for the prevalence limit */
@@ -10833,22 +11047,18 @@ int main(int argc, char *argv[])
/* If line starts with a # it is a comment */
if (line[0] == '#') {
numlinepar++;
- fputs(line,stdout);
- fputs(line,ficparo);
- fputs(line,ficlog);
+ printf("%s",line);
+ fprintf(ficres,"%s",line);
+ fprintf(ficparo,"%s",line);
+ fprintf(ficlog,"%s",line);
continue;
}else
break;
}
if((num_filled=sscanf(line,"model=1+age%[^.\n]", model)) !=EOF){
- if (num_filled == 0){
- printf("ERROR %d: Model should be at minimum 'model=1+age.' WITHOUT space:'%s'\n",num_filled, line);
- fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age.' WITHOUT space:'%s'\n",num_filled, line);
- model[0]='\0';
- goto end;
- } else if (num_filled != 1){
- printf("ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line);
- fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age.' %s\n",num_filled, line);
+ if (num_filled != 1){
+ printf("ERROR %d: Model should be at minimum 'model=1+age' %s\n",num_filled, line);
+ fprintf(ficlog,"ERROR %d: Model should be at minimum 'model=1+age' %s\n",num_filled, line);
model[0]='\0';
goto end;
}
@@ -10861,20 +11071,23 @@ int main(int argc, char *argv[])
}
/* printf(" model=1+age%s modeltemp= %s, model=%s\n",model, modeltemp, model);fflush(stdout); */
printf("model=1+age+%s\n",model);fflush(stdout);
+ fprintf(ficparo,"model=1+age+%s\n",model);fflush(stdout);
+ fprintf(ficres,"model=1+age+%s\n",model);fflush(stdout);
+ fprintf(ficlog,"model=1+age+%s\n",model);fflush(stdout);
}
/* fscanf(ficpar,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%lf stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d model=1+age+%s\n",title, datafile, &lastobs, &firstpass,&lastpass,&ftol, &stepm, &ncovcol, &nlstate,&ndeath, &maxwav, &mle, &weightopt,model); */
/* numlinepar=numlinepar+3; /\* In general *\/ */
/* printf("title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=1+age+%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncovcol, nlstate,ndeath, maxwav, mle, weightopt,model); */
- fprintf(ficparo,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncovcol, nqv, ntv, nqtv, nlstate,ndeath,maxwav, mle, weightopt,model);
- fprintf(ficlog,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncovcol, nqv, ntv, nqtv, nlstate,ndeath,maxwav, mle, weightopt,model);
+ /* fprintf(ficparo,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncovcol, nqv, ntv, nqtv, nlstate,ndeath,maxwav, mle, weightopt,model); */
+ /* fprintf(ficlog,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncovcol, nqv, ntv, nqtv, nlstate,ndeath,maxwav, mle, weightopt,model); */
fflush(ficlog);
/* if(model[0]=='#'|| model[0]== '\0'){ */
if(model[0]=='#'){
- printf("Error in 'model' line: model should start with 'model=1+age+' and end with '.' \n \
- 'model=1+age+.' or 'model=1+age+V1.' or 'model=1+age+age*age+V1+V1*age.' or \n \
- 'model=1+age+V1+V2.' or 'model=1+age+V1+V2+V1*V2.' etc. \n"); \
+ printf("Error in 'model' line: model should start with 'model=1+age+' and end without space \n \
+ 'model=1+age+' or 'model=1+age+V1.' or 'model=1+age+age*age+V1+V1*age' or \n \
+ 'model=1+age+V1+V2' or 'model=1+age+V1+V2+V1*V2' etc. \n"); \
if(mle != -1){
- printf("Fix the model line and run imach with mle=-1 to get a correct template of the parameter file.\n");
+ printf("Fix the model line and run imach with mle=-1 to get a correct template of the parameter vectors and subdiagonal covariance matrix.\n");
exit(1);
}
}
@@ -11096,16 +11309,6 @@ Please run with mle=-1 to get a correct
fflush(ficlog);
- /*-------- Rewriting parameter file ----------*/
- strcpy(rfileres,"r"); /* "Rparameterfile */
- strcat(rfileres,optionfilefiname); /* Parameter file first name*/
- strcat(rfileres,"."); /* */
- strcat(rfileres,optionfilext); /* Other files have txt extension */
- if((ficres =fopen(rfileres,"w"))==NULL) {
- printf("Problem writing new parameter file: %s\n", rfileres);goto end;
- fprintf(ficlog,"Problem writing new parameter file: %s\n", rfileres);goto end;
- }
- fprintf(ficres,"#%s\n",version);
} /* End of mle != -3 */
/* Main data
@@ -11443,10 +11646,31 @@ Title=%s
Datafile=%s Firstpass=%d La
firstpass, lastpass, stepm, weightopt, model);
fprintf(fichtm,"\n");
- fprintf(fichtm,"
Total number of observations=%d
\n\
+ fprintf(fichtm,"Parameter line 2
- Tolerance for the convergence of the likelihood: ftol=%g \n
- Interval for the elementary matrix (in month): stepm=%d",\
+ ftol, stepm);
+ fprintf(fichtm,"\n
- Number of fixed dummy covariates: ncovcol=%d ", ncovcol);
+ ncurrv=1;
+ for(i=ncurrv; i <=ncovcol; i++) fprintf(fichtm,"V%d ", i);
+ fprintf(fichtm,"\n
- Number of fixed quantitative variables: nqv=%d ", nqv);
+ ncurrv=i;
+ for(i=ncurrv; i <=ncurrv-1+nqv; i++) fprintf(fichtm,"V%d ", i);
+ fprintf(fichtm,"\n
- Number of time varying (wave varying) covariates: ntv=%d ", ntv);
+ ncurrv=i;
+ for(i=ncurrv; i <=ncurrv-1+ntv; i++) fprintf(fichtm,"V%d ", i);
+ fprintf(fichtm,"\n
- Number of quantitative time varying covariates: nqtv=%d ", nqtv);
+ ncurrv=i;
+ for(i=ncurrv; i <=ncurrv-1+nqtv; i++) fprintf(fichtm,"V%d ", i);
+ fprintf(fichtm,"\n
- Weights column \n
Number of alive states: nlstate=%d
Number of death states (not really implemented): ndeath=%d \n - Number of waves: maxwav=%d \n
- Parameter for maximization (1), using parameter values (0), for design of parameters and variance-covariance matrix: mle=%d \n
- Does the weight column be taken into account (1), or not (0): weight=%d
\n", \
+ nlstate, ndeath, maxwav, mle, weightopt);
+
+ fprintf(fichtm," Diagram of states %s_.svg
\n\
+", subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"));
+
+
+ fprintf(fichtm,"\nSome descriptive statistics
\n
Total number of observations=%d
\n\
Youngest age at first (selected) pass %.2f, oldest age %.2f
\n\
Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf
\n",\
- imx,agemin,agemax,jmin,jmax,jmean);
+ imx,agemin,agemax,jmin,jmax,jmean);
pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */
@@ -11718,7 +11942,7 @@ Please run with mle=-1 to get a correct
printf("\n");
/*--------- results files --------------*/
- fprintf(ficres,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle= 0 weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, weightopt,model);
+ /* fprintf(ficres,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncovcol=%d nqv=%d ntv=%d nqtv=%d nlstate=%d ndeath=%d maxwav=%d mle= 0 weight=%d\nmodel=1+age+%s.\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncovcol, nqv, ntv, nqtv, nlstate, ndeath, maxwav, weightopt,model); */
fprintf(ficres,"# Parameters nlstate*nlstate*ncov a12*1 + b12 * age + ...\n");
@@ -12006,6 +12230,9 @@ Please run with mle=-1 to get a correct
fprintf(ficlog,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj);
/* day and month of proj2 are not used but only year anproj2.*/
+ dateproj1=anproj1+(mproj1-1)/12.+(jproj1-1)/365.;
+ dateproj2=anproj2+(mproj2-1)/12.+(jproj2-1)/365.;
+
}
break;
case 12:
@@ -12021,6 +12248,8 @@ Please run with mle=-1 to get a correct
fprintf(ficlog,"backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
fprintf(ficres,"backcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",backcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj);
/* day and month of proj2 are not used but only year anproj2.*/
+ dateback1=anback1+(mback1-1)/12.+(jback1-1)/365.;
+ dateback2=anback2+(mback2-1)/12.+(jback2-1)/365.;
}
break;
case 13:
@@ -12071,11 +12300,12 @@ 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\
Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar);
}else{
- printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p, (int)anproj1-(int)agemin, (int)anback1-(int)agemax+1);
+ /* printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p, (int)anproj1-(int)agemin, (int)anback1-(int)agemax+1); */
+ printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,bage, fage, prevfcast, backcast, pathc,p, (int)anproj1-bage, (int)anback1-fage);
}
printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt, \
model,imx,jmin,jmax,jmean,rfileres,popforecast,mobilav,prevfcast,mobilavproj,backcast, estepm, \
- jprev1,mprev1,anprev1,dateprev1,jprev2,mprev2,anprev2,dateprev2);
+ jprev1,mprev1,anprev1,dateprev1, dateproj1, dateback1,jprev2,mprev2,anprev2,dateprev2,dateproj2, dateback2);
/*------------ free_vector -------------*/
/* chdir(path); */
@@ -12510,6 +12740,8 @@ Please run with mle=-1 to get a correct
fclose(ficlog);
/*------ End -----------*/
+
+/* Executes gnuplot */
printf("Before Current directory %s!\n",pathcd);
#ifdef WIN32
@@ -12578,4 +12810,6 @@ end:
printf("\nType q for exiting: "); fflush(stdout);
scanf("%s",z);
}
+ printf("End\n");
+ exit(0);
}