--- imach/src/imach.c 2001/05/02 17:21:42 1.3 +++ imach/src/imach.c 2001/05/02 17:47:10 1.6 @@ -51,6 +51,8 @@ #define FILENAMELENGTH 80 /*#define DEBUG*/ #define windows +#define GLOCK_ERROR_NOPATH -1 /* empty path */ +#define GLOCK_ERROR_GETCWD -2 /* cannot get cwd */ #define MAXPARM 30 /* Maximum number of parameters for the optimization */ #define NPARMAX 64 /* (nlstate+ndeath-1)*nlstate*ncovmodel */ @@ -67,7 +69,7 @@ int nvar; static int cptcov; -int cptcovn; +int cptcovn, cptcovage=0; int npar=NPARMAX; int nlstate=2; /* Number of live states */ int ndeath=1; /* Number of dead states */ @@ -89,9 +91,6 @@ FILE *ficreseij; FILE *ficresvpl; char fileresvpl[FILENAMELENGTH]; - - - #define NR_END 1 #define FREE_ARG char* #define FTOL 1.0e-10 @@ -125,7 +124,7 @@ int stepm; /* Stepm, step in month: minimum step interpolation*/ int m,nb; -int *num, firstpass=0, lastpass=4,*cod, *ncodemax; +int *num, firstpass=0, lastpass=4,*cod, *ncodemax, *Tage; double **agev,*moisnais, *annais, *moisdc, *andc,**mint, **anint; double **pmmij; @@ -138,6 +137,41 @@ double ftol=FTOL; /* Tolerance for compu double ftolhess; /* Tolerance for computing hessian */ +static int split( char *path, char *dirc, char *name ) +{ + char *s; /* pointer */ + int l1, l2; /* length counters */ + + l1 = strlen( path ); /* length of path */ + if ( l1 == 0 ) return( GLOCK_ERROR_NOPATH ); + s = strrchr( path, '\\' ); /* find last / */ + if ( s == NULL ) { /* no directory, so use current */ +#if defined(__bsd__) /* get current working directory */ + extern char *getwd( ); + + if ( getwd( dirc ) == NULL ) { +#else + extern char *getcwd( ); + + if ( getcwd( dirc, FILENAME_MAX ) == NULL ) { +#endif + return( GLOCK_ERROR_GETCWD ); + } + strcpy( name, path ); /* we've got it */ + } else { /* strip direcotry from path */ + s++; /* after this, the filename */ + l2 = strlen( s ); /* length of filename */ + if ( l2 == 0 ) return( GLOCK_ERROR_NOPATH ); + strcpy( name, s ); /* save file name */ + strncpy( dirc, path, l1 - l2 ); /* now the directory */ + dirc[l1-l2] = 0; /* add zero */ + } + l1 = strlen( dirc ); /* length of directory */ + if ( dirc[l1-1] != '\\' ) { dirc[l1] = '\\'; dirc[l1+1] = 0; } + return( 0 ); /* we're done */ +} + + /******************************************/ void replace(char *s, char*t) @@ -166,7 +200,7 @@ int nbocc(char *s, char occ) void cutv(char *u,char *v, char*t, char occ) { - int i,lg,j,p; + int i,lg,j,p=0; i=0; for(j=0; j<=strlen(t)-1; j++) { if((t[j]!= occ) && (t[j+1]== occ)) p=j+1; @@ -175,8 +209,8 @@ void cutv(char *u,char *v, char*t, char lg=strlen(t); for(j=0; j=(p+1))(v[j-p-1] = t[j]); @@ -613,15 +647,23 @@ double **prevalim(double **prlim, int nl for (j=1;j<=nlstate+ndeath;j++){ oldm[ii][j]=(ii==j ? 1.0 : 0.0); } - /* Even if hstepm = 1, at least one multiplication by the unit matrix */ + + cov[1]=1.; + + /* Even if hstepm = 1, at least one multiplication by the unit matrix */ for(agefin=age-stepm/YEARM; agefin>=age-delaymax; agefin=agefin-stepm/YEARM){ newm=savm; /* Covariates have to be included here again */ - cov[1]=1.; - cov[2]=agefin; - if (cptcovn>0){ - for (k=1; k<=cptcovn;k++) {cov[2+k]=nbcode[Tvar[k]][codtab[ij][k]];/*printf("Tcode[ij]=%d nbcode=%d\n",Tcode[ij],nbcode[k][Tcode[ij]]);*/} - } + cov[2]=agefin; + + for (k=1; k<=cptcovn;k++) { + cov[2+k]=nbcode[Tvar[k]][codtab[ij][k]]; + +/*printf("Tcode[ij]=%d nbcode=%d\n",Tcode[ij],nbcode[k][Tcode[ij]]);*/ + } + for (k=1; k<=cptcovage;k++) + cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; + out=matprod2(newm, pmij(pmmij,cov,ncovmodel,x,nlstate),1,nlstate+ndeath,1,nlstate+ndeath,1,nlstate+ndeath, oldm); savm=oldm; @@ -780,7 +822,7 @@ double ***hpxij(double ***po, int nhstep /*************** log-likelihood *************/ double func( double *x) { - int i, ii, j, k, mi, d; + int i, ii, j, k, mi, d, kk; double l, ll[NLSTATEMAX], cov[NCOVMAX]; double **out; double sw; /* Sum of weights */ @@ -792,19 +834,24 @@ double func( double *x) /*for(i=1;i0){ - for (k=1; k<=cptcovn;k++) cov[2+k]=covar[1+k-1][i]; - } + newm=savm; + cov[2]=agev[mw[mi][i]][i]+d*stepm/YEARM; + for (kk=1; kk<=cptcovage;kk++) { + cov[Tage[kk]+2]=covar[Tvar[Tage[kk]]][i]*cov[2]; + /*printf("%d %d",kk,Tage[kk]);*/ + } + /*cov[4]=covar[1][i]*cov[2];scanf("%d", i);*/ + /*cov[3]=pow(cov[2],2)/1000.;*/ + out=matprod2(newm,oldm,1,nlstate+ndeath,1,nlstate+ndeath, 1,nlstate+ndeath,pmij(pmmij,cov,ncovmodel,x,nlstate)); savm=oldm; @@ -1271,11 +1318,11 @@ float sum=0.; /*********** Tricode ****************************/ void tricode(int *Tvar, int **nbcode, int imx) { - int Ndum[80],ij, k, j, i; + int Ndum[80],ij=1, k, j, i, Ntvar[20]; int cptcode=0; for (k=0; k<79; k++) Ndum[k]=0; for (k=1; k<=7; k++) ncodemax[k]=0; - + for (j=1; j<=cptcovn; j++) { for (i=1; i<=imx; i++) { ij=(int)(covar[Tvar[j]][i]); @@ -1298,8 +1345,8 @@ void tricode(int *Tvar, int **nbcode, in } } } - - } + +} /*********** Health Expectancies ****************/ @@ -1573,7 +1620,7 @@ int main() int sdeb, sfin; /* Status at beginning and end */ int c, h , cpt,l; int ju,jl, mi; - int i1,j1, k1,jk,aa,bb, stepsize; + int i1,j1, k1,k2,k3,jk,aa,bb, stepsize; int jnais,jdc,jint4,jint1,jint2,jint3,**outcome,**adl,*tab; int hstepm, nhstepm; @@ -1591,6 +1638,7 @@ int main() double *epj, vepp; char version[80]="Imach version 62c, May 1999, INED-EUROREVES "; char *alph[]={"a","a","b","c","d","e"}, str[4]; + char z[1]="c", occ; #include #include @@ -1601,13 +1649,17 @@ int main() gettimeofday(&start_time, (struct timezone*)0); */ /* at first time */ - printf("\nIMACH, Version 0.63"); + printf("\nIMACH, Version 0.64a"); printf("\nEnter the parameter file name: "); #ifdef windows scanf("%s",pathtot); getcwd(pathcd, size); - cutv(path,optionfile,pathtot,'\\'); + /*cygwin_split_path(pathtot,path,optionfile); + printf("pathtot=%s, path=%s, optionfile=%s\n",pathtot,path,optionfile);*/ + /* cutv(path,optionfile,pathtot,'\\');*/ + +split(pathtot, path,optionfile); chdir(path); replace(pathc,path); #endif @@ -1646,7 +1698,7 @@ int main() printf("title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol, stepm, ncov, nlstate,ndeath, maxwav, mle, weightopt,model); fprintf(ficparo,"title=%s datafile=%s lastobs=%d firstpass=%d lastpass=%d\nftol=%e stepm=%d ncov=%d nlstate=%d ndeath=%d maxwav=%d mle=%d weight=%d\nmodel=%s\n", title, datafile, lastobs, firstpass,lastpass,ftol,stepm,ncov,nlstate,ndeath,maxwav, mle, weightopt,model); - covar=matrix(1,NCOVMAX,1,n); + covar=matrix(0,NCOVMAX,1,n); if (strlen(model)<=1) cptcovn=0; else { j=0; @@ -1744,7 +1796,6 @@ int main() printf("\n"); - if(mle==1){ /*-------- data file ----------*/ if((ficres =fopen(fileres,"w"))==NULL) { printf("Problem with resultfile: %s\n", fileres);goto end; @@ -1797,7 +1848,7 @@ int main() } num[i]=atol(stra); - /*printf("%d %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]), (weight[i]), (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]), (mint[2][i]), (anint[2][i]), (s[2][i]), (mint[3][i]), (anint[3][i]), (s[3][i]), (mint[4][i]), (anint[4][i]), (s[4][i]), (mint[5][i]), (anint[5][i]), (s[5][i]), (mint[6][i]), (anint[6][i]), (s[6][i]));*/ + /*printf("%d %.lf %.lf %.lf %.lf/%.lf %.lf/%.lf %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d %.lf/%.lf %d\n",num[i],(covar[1][i]), (covar[2][i]), (weight[i]), (moisnais[i]), (annais[i]), (moisdc[i]), (andc[i]), (mint[1][i]), (anint[1][i]), (s[1][i]), (mint[2][i]), (anint[2][i]), (s[2][i]), (mint[3][i]), (anint[3][i]), (s[3][i]), (mint[4][i]), (anint[4][i]), (s[4][i]));*/ i=i+1; } @@ -1807,28 +1858,67 @@ int main() imx=i-1; /* Number of individuals */ /* Calculation of the number of parameter from char model*/ - Tvar=ivector(1,8); + Tvar=ivector(1,15); + Tage=ivector(1,15); if (strlen(model) >1){ - j=0; + j=0, j1=0; j=nbocc(model,'+'); + j1=nbocc(model,'*'); cptcovn=j+1; strcpy(modelsav,model); if (j==0) { - cutv(stra,strb,modelsav,'V'); Tvar[1]=atoi(strb); + if (j1==0){ + cutv(stra,strb,modelsav,'V'); + Tvar[1]=atoi(strb); + } + else if (j1==1) { + cutv(stra,strb,modelsav,'*'); + /* printf("stra=%s strb=%s modelsav=%s ",stra,strb,modelsav);*/ + Tage[1]=1; cptcovage++; + if (strcmp(stra,"age")==0) { + cutv(strd,strc,strb,'V'); + Tvar[1]=atoi(strc); + } + else if (strcmp(strb,"age")==0) { + cutv(strd,strc,stra,'V'); + Tvar[1]=atoi(strc); + } + else {printf("Error"); exit(0);} + } } else { for(i=j; i>=1;i--){ cutv(stra,strb,modelsav,'+'); + /*printf("%s %s %s\n", stra,strb,modelsav);*/ if (strchr(strb,'*')) { cutv(strd,strc,strb,'*'); - cutv(strb,stre,strc,'V');Tvar[i+1]=ncov+1; - cutv(strb,strc,strd,'V'); - for (k=1; k<=lastobs;k++) - covar[ncov+1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k]; + if (strcmp(strc,"age")==0) { + cutv(strb,stre,strd,'V'); + Tvar[i+1]=atoi(stre); + cptcovage++; + Tage[cptcovage]=i+1; + printf("stre=%s ", stre); + } + else if (strcmp(strd,"age")==0) { + cutv(strb,stre,strc,'V'); + Tvar[i+1]=atoi(stre); + cptcovage++; + Tage[cptcovage]=i+1; + } + else { + cutv(strb,stre,strc,'V'); + Tvar[i+1]=ncov+1; + cutv(strb,strc,strd,'V'); + for (k=1; k<=lastobs;k++) + covar[ncov+1][k]=covar[atoi(stre)][k]*covar[atoi(strc)][k]; + } } - else {cutv(strd,strc,strb,'V'); + else { + cutv(strd,strc,strb,'V'); + /* printf("%s %s %s", strd,strc,strb);*/ + Tvar[i+1]=atoi(strc); } strcpy(modelsav,stra); @@ -1837,10 +1927,12 @@ int main() Tvar[1]=atoi(strc); } } - /*printf("tvar=%d ",Tvar[1]); - scanf("%d ",i);*/ + + /* printf("tvar=%d %d cptcovage=%d %d",Tvar[1],Tvar[2],cptcovage,Tage[1]); + scanf("%d ",i);*/ fclose(fic); + if(mle==1){ if (weightopt != 1) { /* Maximisation without weights*/ for(i=1;i<=n;i++) weight[i]=1.0; } @@ -1914,7 +2006,7 @@ printf("Total number of individuals= %d, concatwav(wav, dh, mw, s, agedc, agev, firstpass, lastpass, imx, nlstate, stepm); -Tcode=ivector(1,100); + Tcode=ivector(1,100); nbcode=imatrix(1,nvar,1,8); ncodemax[1]=1; if (cptcovn > 0) tricode(Tvar,nbcode,imx); @@ -1934,21 +2026,17 @@ Tcode=ivector(1,100); } } - /*for(i=1; i <=m ;i++){ + /* for(i=1; i <=m ;i++){ for(k=1; k <=cptcovn; k++){ printf("i=%d k=%d %d ",i,k,codtab[i][k]); } printf("\n"); - }*/ - /*scanf("%d",i);*/ + } + scanf("%d",i);*/ /* Calculates basic frequencies. Computes observed prevalence at single age and prints on file fileres'p'. */ - freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax); - - - /*scanf("%d ",i);*/ - + freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvar,nbcode, ncodemax); pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ @@ -2118,7 +2206,7 @@ fprintf(ficgp,"\nset out \"v%s%d%d.gif\" /*3eme*/ - for (k1=1; k1<= m ; k1 ++) { + for (k1=1; k1<= m ; k1 ++) { for (cpt=1; cpt<= nlstate ; cpt ++) { k=2+nlstate*(cpt-1); fprintf(ficgp,"set ter gif small size 400,300\nplot [%.f:%.f] \"e%s\" every :::%d::%d u 1:%d t \"e%d1\" w l",agemin,fage,fileres,k1-1,k1-1,k,cpt); @@ -2127,10 +2215,10 @@ fprintf(ficgp,"\nset out \"v%s%d%d.gif\" } fprintf(ficgp,"\nset out \"exp%s%d%d.gif\" \nreplot\n\n",strtok(optionfile, "."),cpt,k1); } - } + } /* CV preval stat */ - for (k1=1; k1<= m ; k1 ++) { + for (k1=1; k1<= m ; k1 ++) { for (cpt=1; cpt
    Imach, Version 0.63
  • Outputs files

    \n + fprintf(fichtm,"
      Imach, Version 0.64a
    • Outputs files

      \n - Observed prevalence in each state: p%s
      \n - Estimated parameters and the covariance matrix: %s
      - Stationary prevalence in each state: pl%s
      @@ -2268,7 +2361,7 @@ interval) in state (%d): v%s%d%d.gif
      - Health life expectancies by age and initial health state (%d): exp%s%d%d.gif
      -",cpt,strtok(optionfile, "."),cpt,j1,strtok(optionfile, "."),cpt,j1); +",cpt,strtok(optionfile, "."),cpt,j1,strtok(optionfile, "."),cpt,j1); } fprintf(fichtm,"\n
      - Total life expectancy by age and health expectancies in states (1) and (2): e%s%d.gif
      @@ -2308,9 +2401,9 @@ fclose(fichtm); for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ k=k+1; /*printf("cptcov=%d cptcod=%d codtab=%d nbcode=%d\n",cptcov, cptcod,Tcode[cptcode],codtab[cptcod][cptcov]);*/ - fprintf(ficrespl,"\n#****** "); + fprintf(ficrespl,"\n#******"); for(j=1;j<=cptcovn;j++) - fprintf(ficrespl,"V%d=%d ",Tvar[j],nbcode[Tvar[j]][codtab[k][j]]); + fprintf(ficrespl," V%d=%d ",Tvar[j],nbcode[Tvar[j]][codtab[k][j]]); fprintf(ficrespl,"******\n"); for (age=agebase; age<=agelim; age++){ @@ -2456,7 +2549,7 @@ fclose(fichtm); fclose(ficrest); fclose(ficpar); free_vector(epj,1,nlstate+1); - /*scanf("%d ",i); */ + /* scanf("%d ",i); */ /*------- Variance limit prevalence------*/