![%s-p%dj.png](\"%s-p%dj.png\"){kind=link}
\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
\ -
![](\"%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);
}
}
@@ -6921,7 +6951,7 @@ 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];
@@ -6930,6 +6960,8 @@ 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 */
@@ -6943,6 +6975,20 @@ 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");
@@ -7012,7 +7058,8 @@ 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 ? $3:1/0) \"%%lf %%lf",ageminpar,fage,subdirf2(fileresu,"VPL_"),k1-1,k1-1,nres); */
/* k1-1 error should be nres-1*/
@@ -7034,7 +7081,7 @@ void printinggnuplot(char fileresu[], ch
fprintf(ficgp,"\" t\"\" w l lt 1,\"%s\" u 1:((",subdirf2(fileresu,"P_"));
if(cptcoveff ==0){
- fprintf(ficgp,"$%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 */
@@ -7092,20 +7139,21 @@ 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 */
@@ -7503,24 +7551,22 @@ 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,"(");
@@ -7542,13 +7588,13 @@ 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, \
@@ -7618,24 +7664,22 @@ 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,"(");
@@ -7657,14 +7701,14 @@ 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, \ */
@@ -7723,7 +7767,7 @@ 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 */
@@ -7740,7 +7784,9 @@ 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 */
@@ -7860,12 +7906,12 @@ 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,",");
@@ -7874,7 +7920,8 @@ 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: */
@@ -8112,7 +8159,7 @@ set ter svg size 640, 480\nunset log y\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){
+ void prevforecast(char fileres[], double anproj1, double mproj1, double jproj1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double ***prev, double bage, double fage, int firstpass, int lastpass, double anproj2, double p[], int cptcoveff){
/* proj1, year, month, day of starting projection
agemin, agemax range of age
dateprev1 dateprev2 range of dates during which prevalence is computed
@@ -8151,7 +8198,12 @@ void prevforecast(char fileres[], double
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
@@ -8196,7 +8248,8 @@ void prevforecast(char fileres[], double
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);
@@ -8218,7 +8271,7 @@ void prevforecast(char fileres[], double
ppij=0.;
for(i=1; i<=nlstate;i++) {
/* if (mobilav>=1) */
- ppij=ppij+p3mat[i][j][h]*mobaverage[(int)agec][i][k];
+ 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]; */
/* } */
@@ -8239,12 +8292,13 @@ void prevforecast(char fileres[], double
}
-/* /\************** Back Forecasting ******************\/ */
-void prevbackforecast(char fileres[], double ***prevacurrent, double anback1, double mback1, double jback1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anback2, double p[], int cptcoveff){
+/************** Back Forecasting ******************/
+ void prevbackforecast(char fileres[], double ***prevacurrent, double anback1, double mback1, double jback1, double ageminpar, double agemax, double dateprev1, double dateprev2, int mobilav, double bage, double fage, int firstpass, int lastpass, double anback2, double p[], int cptcoveff){
/* back1, year, month, day of starting backection
agemin, agemax range of age
dateprev1 dateprev2 range of dates during which prevalence is computed
- anback2 year of en of backection (same day and month as back1).
+ anback2 year of end of backprojection (same day and month as back1).
+ prevacurrent and prev are prevalences.
*/
int yearp, stepsize, hstepm, nhstepm, j, k, cptcod, i, h, i1, k4, nres=0;
double agec; /* generic age */
@@ -8283,7 +8337,12 @@ void prevbackforecast(char fileres[], do
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
@@ -8304,10 +8363,6 @@ void prevbackforecast(char fileres[], do
fprintf(ficresfb,"#****** Routine prevbackforecast **\n");
- /* if (h==(int)(YEARM*yearp)){ */
- /* for(cptcov=1, k=0;cptcov<=i1;cptcov++){ */
- /* for(cptcod=1;cptcod<=ncodemax[cptcoveff];cptcod++){ */
- /* k=k+1; */
for(nres=1; nres <= nresult; nres++) /* For each resultline */
for(k=1; k<=i1;k++){
if(i1 != 1 && TKresult[nres]!= k)
@@ -8333,16 +8388,16 @@ void prevbackforecast(char fileres[], do
/* for (yearp=0; yearp<=(anproj2-anproj1);yearp +=stepsize) { */
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=fage; agec>=(ageminpar-1); agec--){ */
- /* nhstepm=(int) rint((agelim-agec)*YEARM/stepm); */
- for (agec=bage; agec<=agemax-1; agec++){ /* testing */
+ /* 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<=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 */
@@ -8360,8 +8415,10 @@ void prevbackforecast(char fileres[], do
ppij=0.;ppi=0.;
for(j=1; j<=nlstate;j++) {
/* if (mobilav==1) */
- ppij=ppij+p3mat[i][j][h]*mobaverage[(int)agec][j][k];
- ppi=ppi+mobaverage[(int)agec][j][k];
+ ppij=ppij+p3mat[i][j][h]*prevacurrent[(int)agec][j][k];
+ ppi=ppi+prevacurrent[(int)agec][j][k];
+ /* ppij=ppij+p3mat[i][j][h]*mobaverage[(int)agec][j][k]; */
+ /* ppi=ppi+mobaverage[(int)agec][j][k]; */
/* else { */
/* ppij=ppij+p3mat[i][j][h]*probs[(int)(agec)][i][k]; */
/* } */
@@ -8386,6 +8443,123 @@ void prevbackforecast(char fileres[], do
}
+/* Variance of prevalence limit: varprlim */
+ void varprlim(char fileresu[], int nresult, double ***prevacurrent, int mobilavproj, double bage, double fage, double **prlim, int *ncvyearp, double ftolpl, double p[], double **matcov, double *delti, int stepm, int cptcoveff){
+ /*------- Variance of period (stable) prevalence------*/
+
+ char fileresvpl[FILENAMELENGTH];
+ FILE *ficresvpl;
+ double **oldm, **savm;
+ double **varpl; /* Variances of prevalence limits by age */
+ int i1, k, nres, j ;
+
+ strcpy(fileresvpl,"VPL_");
+ strcat(fileresvpl,fileresu);
+ if((ficresvpl=fopen(fileresvpl,"w"))==NULL) {
+ printf("Problem with variance of period (stable) prevalence resultfile: %s\n", fileresvpl);
+ exit(0);
+ }
+ 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(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/
+
+ i1=pow(2,cptcoveff);
+ if (cptcovn < 1){i1=1;}
+
+ for(nres=1; nres <= nresult; nres++) /* For each resultline */
+ for(k=1; k<=i1;k++){
+ if(i1 != 1 && TKresult[nres]!= k)
+ continue;
+ fprintf(ficresvpl,"\n#****** ");
+ printf("\n#****** ");
+ fprintf(ficlog,"\n#****** ");
+ for(j=1;j<=cptcoveff;j++) {
+ fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ fprintf(ficlog,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ }
+ for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */
+ printf(" V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ fprintf(ficresvpl," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ fprintf(ficlog," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ }
+ fprintf(ficresvpl,"******\n");
+ printf("******\n");
+ fprintf(ficlog,"******\n");
+
+ varpl=matrix(1,nlstate,(int) bage, (int) fage);
+ oldm=oldms;savm=savms;
+ varprevlim(fileresvpl, ficresvpl, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, ncvyearp, k, strstart, nres);
+ free_matrix(varpl,1,nlstate,(int) bage, (int)fage);
+ /*}*/
+ }
+
+ fclose(ficresvpl);
+ printf("done variance-covariance of period prevalence\n");fflush(stdout);
+ fprintf(ficlog,"done variance-covariance of period prevalence\n");fflush(ficlog);
+
+ }
+/* Variance of back prevalence: varbprlim */
+ void varbprlim(char fileresu[], int nresult, double ***prevacurrent, int mobilavproj, double bage, double fage, double **bprlim, int *ncvyearp, double ftolpl, double p[], double **matcov, double *delti, int stepm, int cptcoveff){
+ /*------- Variance of back (stable) prevalence------*/
+
+ char fileresvbl[FILENAMELENGTH];
+ FILE *ficresvbl;
+
+ double **oldm, **savm;
+ double **varbpl; /* Variances of back prevalence limits by age */
+ int i1, k, nres, j ;
+
+ strcpy(fileresvbl,"VBL_");
+ strcat(fileresvbl,fileresu);
+ if((ficresvbl=fopen(fileresvbl,"w"))==NULL) {
+ printf("Problem with variance of back (stable) prevalence resultfile: %s\n", fileresvbl);
+ exit(0);
+ }
+ printf("Computing Variance-covariance of back (stable) prevalence: file '%s' ...", fileresvbl);fflush(stdout);
+ fprintf(ficlog, "Computing Variance-covariance of back (stable) prevalence: file '%s' ...", fileresvbl);fflush(ficlog);
+
+
+ i1=pow(2,cptcoveff);
+ if (cptcovn < 1){i1=1;}
+
+ for(nres=1; nres <= nresult; nres++) /* For each resultline */
+ for(k=1; k<=i1;k++){
+ if(i1 != 1 && TKresult[nres]!= k)
+ continue;
+ fprintf(ficresvbl,"\n#****** ");
+ printf("\n#****** ");
+ fprintf(ficlog,"\n#****** ");
+ for(j=1;j<=cptcoveff;j++) {
+ fprintf(ficresvbl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ fprintf(ficlog,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]);
+ }
+ for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */
+ printf(" V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ fprintf(ficresvbl," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ fprintf(ficlog," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]);
+ }
+ fprintf(ficresvbl,"******\n");
+ printf("******\n");
+ fprintf(ficlog,"******\n");
+
+ varbpl=matrix(1,nlstate,(int) bage, (int) fage);
+ oldm=oldms;savm=savms;
+
+ varbrevlim(fileresvbl, ficresvbl, varbpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, bprlim, ftolpl, mobilavproj, ncvyearp, k, strstart, nres);
+ free_matrix(varbpl,1,nlstate,(int) bage, (int)fage);
+ /*}*/
+ }
+
+ fclose(ficresvbl);
+ printf("done variance-covariance of back prevalence\n");fflush(stdout);
+ fprintf(ficlog,"done variance-covariance of back prevalence\n");fflush(ficlog);
+
+ } /* End of varbprlim */
+
/************** Forecasting *****not tested NB*************/
/* void populforecast(char fileres[], double anpyram,double mpyram,double jpyram,double ageminpar, double agemax,double dateprev1, double dateprev2s, int mobilav, double agedeb, double fage, int popforecast, char popfile[], double anpyram1,double p[], int i2){ */
@@ -10442,7 +10616,9 @@ int main(int argc, char *argv[])
int vpopbased=0;
int nres=0;
int endishere=0;
-
+ int noffset=0;
+ int ncurrv=0; /* Temporary variable */
+
char ca[32], cb[32];
/* FILE *fichtm; *//* Html File */
/* FILE *ficgp;*/ /*Gnuplot File */
@@ -10494,11 +10670,12 @@ int main(int argc, char *argv[])
double *delti; /* Scale */
double ***eij, ***vareij;
double **varpl; /* Variances of prevalence limits by age */
- double **varbpl; /* Variances of back prevalence limits by age */
+
double *epj, vepp;
- 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 dateprev1, dateprev2;
+ double jproj1=1,mproj1=1,anproj1=2000,jproj2=1,mproj2=1,anproj2=2000, dateproj1=0, dateproj2=0;
+ double jback1=1,mback1=1,anback1=2000,jback2=1,mback2=1,anback2=2000, dateback1=0, dateback2=0;
double **ximort;
char *alph[]={"a","a","b","c","d","e"}, str[4]="1234";
@@ -10668,11 +10845,32 @@ int main(int argc, char *argv[])
/* Reads comments: lines beginning with '#' */
numlinepar=0;
-
- /* First parameter line */
+ /* Is it a BOM UTF-8 Windows file? */
+ /* First parameter line */
while(fgets(line, MAXLINE, ficpar)) {
+ noffset=0;
+ if( line[0] == (char)0xEF && line[1] == (char)0xBB) /* EF BB BF */
+ {
+ noffset=noffset+3;
+ printf("# File is an UTF8 Bom.\n"); // 0xBF
+ }
+ else if( line[0] == (char)0xFE && line[1] == (char)0xFF)
+ {
+ noffset=noffset+2;
+ printf("# File is an UTF16BE BOM file\n");
+ }
+ else if( line[0] == 0 && line[1] == 0)
+ {
+ if( line[2] == (char)0xFE && line[3] == (char)0xFF){
+ noffset=noffset+4;
+ printf("# File is an UTF16BE BOM file\n");
+ }
+ } else{
+ ;/*printf(" Not a BOM file\n");*/
+ }
+
/* If line starts with a # it is a comment */
- if (line[0] == '#') {
+ if (line[noffset] == '#') {
numlinepar++;
fputs(line,stdout);
fputs(line,ficparo);
@@ -11326,10 +11524,31 @@ 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=%f \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
Diagram of states %s_.svg
\n\ +![](\"%s_.svg\")
", subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"));
+
+
+ fprintf(fichtm,"\nSome descriptive statistics
\nTotal 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 */ @@ -11889,6 +12108,9 @@ 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: @@ -11904,6 +12126,8 @@ 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: @@ -11954,11 +12178,12 @@ 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); */ @@ -11994,16 +12219,17 @@ Please run with mle=-1 to get a correct k=1; varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); - /* Prevalence for each covariates in probs[age][status][cov] */ - probs= ma3x(1,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); - for(i=1;i<=AGESUP;i++) + /* Prevalence for each covariate combination in probs[age][status][cov] */ + probs= ma3x(AGEINF,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); + for(i=AGEINF;i<=AGESUP;i++) for(j=1;j<=nlstate+ndeath;j++) /* ndeath is useless but a necessity to be compared with mobaverages */ for(k=1;k<=ncovcombmax;k++) probs[i][j][k]=0.; - prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); + prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, + ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); if (mobilav!=0 ||mobilavproj !=0 ) { - mobaverages= ma3x(1, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); - for(i=1;i<=AGESUP;i++) + mobaverages= ma3x(AGEINF, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); + for(i=AGEINF;i<=AGESUP;i++) for(j=1;j<=nlstate+ndeath;j++) for(k=1;k<=ncovcombmax;k++) mobaverages[i][j][k]=0.; @@ -12015,31 +12241,27 @@ Please run with mle=-1 to get a correct fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); printf(" Error in movingaverage mobilav=%d\n",mobilav); } - } - /* else if(mobilavproj==-1){ /\* Forcing raw observed prevalences *\/ */ - /* for(i=1;i<=AGESUP;i++) */ - /* for(j=1;j<=nlstate;j++) */ - /* for(k=1;k<=ncovcombmax;k++) */ - /* mobaverages[i][j][k]=probs[i][j][k]; */ - /* /\* /\\* Prevalence for each covariates in probs[age][status][cov] *\\/ *\/ */ - /* /\* prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); *\/ */ - /* } */ - else if (mobilavproj !=0) { + } else if (mobilavproj !=0) { printf("Movingaveraging projected observed prevalence\n"); fprintf(ficlog,"Movingaveraging projected observed prevalence\n"); if (movingaverage(probs, ageminpar, agemaxpar, mobaverage, mobilavproj)!=0){ fprintf(ficlog," Error in movingaverage mobilavproj=%d\n",mobilavproj); printf(" Error in movingaverage mobilavproj=%d\n",mobilavproj); } + }else{ + printf("Internal error moving average\n"); + fflush(stdout); + exit(1); } }/* end if moving average */ /*---------- Forecasting ------------------*/ - /*if((stepm == 1) && (strcmp(model,".")==0)){*/ if(prevfcast==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, mobaverage, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); } + + /* Backcasting */ if(backcast==1){ ddnewms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); ddoldms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); @@ -12048,71 +12270,23 @@ Please run with mle=-1 to get a correct /*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ bprlim=matrix(1,nlstate,1,nlstate); + back_prevalence_limit(p, bprlim, ageminpar, agemaxpar, ftolpl, &ncvyear, dateprev1, dateprev2, firstpass, lastpass, mobilavproj); fclose(ficresplb); hBijx(p, bage, fage, mobaverage); fclose(ficrespijb); - /* free_matrix(bprlim,1,nlstate,1,nlstate); /\*here or after loop ? *\/ */ - prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, mobilavproj, - bage, fage, firstpass, lastpass, anback2, p, cptcoveff); + prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, + mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); + varbprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, bprlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff); - /*------- Variance of back (stable) prevalence------*/ - strcpy(fileresvbl,"VBL_"); - strcat(fileresvbl,fileresu); - if((ficresvbl=fopen(fileresvbl,"w"))==NULL) { - printf("Problem with variance of back (stable) prevalence resultfile: %s\n", fileresvbl); - exit(0); - } - printf("Computing Variance-covariance of back (stable) prevalence: file '%s' ...", fileresvbl);fflush(stdout); - fprintf(ficlog, "Computing Variance-covariance of back (stable) prevalence: file '%s' ...", fileresvbl);fflush(ficlog); - - /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ - for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - - i1=pow(2,cptcoveff); - if (cptcovn < 1){i1=1;} - - for(nres=1; nres <= nresult; nres++) /* For each resultline */ - for(k=1; k<=i1;k++){ - if(i1 != 1 && TKresult[nres]!= k) - continue; - fprintf(ficresvbl,"\n#****** "); - printf("\n#****** "); - fprintf(ficlog,"\n#****** "); - for(j=1;j<=cptcoveff;j++) { - fprintf(ficresvbl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - fprintf(ficlog,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - } - for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */ - printf(" V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - fprintf(ficresvbl," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - fprintf(ficlog," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - } - fprintf(ficresvbl,"******\n"); - printf("******\n"); - fprintf(ficlog,"******\n"); - - varbpl=matrix(1,nlstate,(int) bage, (int) fage); - oldm=oldms;savm=savms; - - varbrevlim(fileres, varbpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, bprlim, ftolpl, mobilavproj, &ncvyear, k, strstart, nres); - free_matrix(varbpl,1,nlstate,(int) bage, (int)fage); - /*}*/ - } - - fclose(ficresvbl); - printf("done variance-covariance of back prevalence\n");fflush(stdout); - fprintf(ficlog,"done variance-covariance of back prevalence\n");fflush(ficlog); - + free_matrix(bprlim,1,nlstate,1,nlstate); /*here or after loop ? */ free_matrix(ddnewms, 1, nlstate+ndeath, 1, nlstate+ndeath); free_matrix(ddsavms, 1, nlstate+ndeath, 1, nlstate+ndeath); free_matrix(ddoldms, 1, nlstate+ndeath, 1, nlstate+ndeath); - } - free_matrix(bprlim,1,nlstate,1,nlstate); /*here or after loop ? */ + } /* end Backcasting */ /* ------ Other prevalence ratios------------ */ @@ -12165,10 +12339,10 @@ Please run with mle=-1 to get a correct fclose(ficreseij); printf("done evsij\n");fflush(stdout); fprintf(ficlog,"done evsij\n");fflush(ficlog); + /*---------- State-specific expectancies and variances ------------*/ - strcpy(filerest,"T_"); strcat(filerest,fileresu); if((ficrest=fopen(filerest,"w"))==NULL) { @@ -12177,8 +12351,6 @@ Please run with mle=-1 to get a correct } 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); fflush(ficlog); - - strcpy(fileresstde,"STDE_"); strcat(fileresstde,fileresu); if((ficresstdeij=fopen(fileresstde,"w"))==NULL) { @@ -12206,9 +12378,6 @@ Please run with mle=-1 to get a correct printf(" Computing Variance-covariance of State-specific Expectancies: file '%s' ... ", fileresv);fflush(stdout); fprintf(ficlog," Computing Variance-covariance of State-specific Expectancies: file '%s' ... ", fileresv);fflush(ficlog); - /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ - for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - i1=pow(2,cptcoveff); /* Number of combination of dummy covariates */ if (cptcovn < 1){i1=1;} @@ -12270,7 +12439,7 @@ Please run with mle=-1 to get a correct vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); pstamp(ficrest); - + epj=vector(1,nlstate+1); for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ oldm=oldms;savm=savms; /* ZZ Segmentation fault */ cptcod= 0; /* To be deleted */ @@ -12286,7 +12455,6 @@ Please run with mle=-1 to get a correct for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i); fprintf(ficrest,"\n"); /* printf("Which p?\n"); for(i=1;i<=npar;i++)printf("p[i=%d]=%lf,",i,p[i]);printf("\n"); */ - epj=vector(1,nlstate+1); printf("Computing age specific period (stable) prevalences in each health state \n"); fprintf(ficlog,"Computing age specific period (stable) prevalences in each health state \n"); for(age=bage; age <=fage ;age++){ @@ -12324,66 +12492,19 @@ Please run with mle=-1 to get a correct fprintf(ficrest,"\n"); } } /* End vpopbased */ + free_vector(epj,1,nlstate+1); free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage); - free_vector(epj,1,nlstate+1); printf("done selection\n");fflush(stdout); fprintf(ficlog,"done selection\n");fflush(ficlog); - /*}*/ } /* End k selection */ printf("done State-specific expectancies\n");fflush(stdout); fprintf(ficlog,"done State-specific expectancies\n");fflush(ficlog); - /*------- Variance of period (stable) prevalence------*/ - - strcpy(fileresvpl,"VPL_"); - strcat(fileresvpl,fileresu); - if((ficresvpl=fopen(fileresvpl,"w"))==NULL) { - printf("Problem with variance of period (stable) prevalence resultfile: %s\n", fileresvpl); - exit(0); - } - 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(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - - i1=pow(2,cptcoveff); - if (cptcovn < 1){i1=1;} - - for(nres=1; nres <= nresult; nres++) /* For each resultline */ - for(k=1; k<=i1;k++){ - if(i1 != 1 && TKresult[nres]!= k) - continue; - fprintf(ficresvpl,"\n#****** "); - printf("\n#****** "); - fprintf(ficlog,"\n#****** "); - for(j=1;j<=cptcoveff;j++) { - fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - fprintf(ficlog,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); - } - for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */ - printf(" V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - fprintf(ficresvpl," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - fprintf(ficlog," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); - } - fprintf(ficresvpl,"******\n"); - printf("******\n"); - fprintf(ficlog,"******\n"); - - varpl=matrix(1,nlstate,(int) bage, (int) fage); - oldm=oldms;savm=savms; - varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, k, strstart, nres); - free_matrix(varpl,1,nlstate,(int) bage, (int)fage); - /*}*/ - } - - fclose(ficresvpl); - printf("done variance-covariance of period prevalence\n");fflush(stdout); - fprintf(ficlog,"done variance-covariance of period prevalence\n");fflush(ficlog); + /* variance-covariance of period prevalence*/ + varprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, prlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff); free_vector(weight,1,n); @@ -12402,8 +12523,8 @@ Please run with mle=-1 to get a correct /*---------- End : free ----------------*/ if (mobilav!=0 ||mobilavproj !=0) - free_ma3x(mobaverages,1, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); /* We need to have a squared matrix with prevalence of the dead! */ - free_ma3x(probs,1,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); + free_ma3x(mobaverages,AGEINF, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); /* We need to have a squared matrix with prevalence of the dead! */ + free_ma3x(probs,AGEINF,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); free_matrix(prlim,1,nlstate,1,nlstate); /*here or after loop ? */ free_matrix(pmmij,1,nlstate+ndeath,1,nlstate+ndeath); } /* mle==-3 arrives here for freeing */ @@ -12420,6 +12541,7 @@ Please run with mle=-1 to get a correct /*free_vector(delti,1,npar);*/ free_ma3x(delti3,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); free_matrix(agev,1,maxwav,1,imx); + free_ma3x(paramstart,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); free_ma3x(param,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); free_ivector(ncodemax,1,NCOVMAX);