--- imach/src/imach.c	2014/06/20 16:45:46	1.153
+++ imach/src/imach.c	2014/08/25 18:32:34	1.155
@@ -1,6 +1,13 @@
-/* $Id: imach.c,v 1.153 2014/06/20 16:45:46 brouard Exp $
+/* $Id: imach.c,v 1.155 2014/08/25 18:32:34 brouard Exp $
   $State: Exp $
   $Log: imach.c,v $
+  Revision 1.155  2014/08/25 18:32:34  brouard
+  Summary: New compile, minor changes
+  Author: Brouard
+
+  Revision 1.154  2014/06/20 17:32:08  brouard
+  Summary: Outputs now all graphs of convergence to period prevalence
+
   Revision 1.153  2014/06/20 16:45:46  brouard
   Summary: If 3 live state, convergence to period prevalence on same graph
   Author: Brouard
@@ -510,11 +517,11 @@ extern int errno;
 #define ODIRSEPARATOR '/'
 #endif
 
-/* $Id: imach.c,v 1.153 2014/06/20 16:45:46 brouard Exp $ */
+/* $Id: imach.c,v 1.155 2014/08/25 18:32:34 brouard Exp $ */
 /* $State: Exp $ */
 
-char version[]="Imach version 0.98nT, January 2014,INED-EUROREVES-Institut de longevite-Japan Society for the Promotion of Science (Grant-in-Aid for Scientific Research 25293121)";
-char fullversion[]="$Revision: 1.153 $ $Date: 2014/06/20 16:45:46 $"; 
+char version[]="Imach version 0.98nV, August 2014,INED-EUROREVES-Institut de longevite-Japan Society for the Promotion of Science (Grant-in-Aid for Scientific Research 25293121)";
+char fullversion[]="$Revision: 1.155 $ $Date: 2014/08/25 18:32:34 $"; 
 char strstart[80];
 char optionfilext[10], optionfilefiname[FILENAMELENGTH];
 int erreur=0, nberr=0, nbwarn=0; /* Error number, number of errors number of warnings  */
@@ -3892,13 +3899,13 @@ fprintf(fichtm," \n<ul><li><b>Graphs</b>
  before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too: <a href=\"%s%d_2.png\">%s%d_2.png</a><br> \
 <img src=\"%s%d_2.png\">",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1); 
        /* Period (stable) prevalence in each health state */
-       for(cpt=1; cpt<nlstate;cpt++){
-	 fprintf(fichtm,"<br>- Period (stable) prevalence in each health state : <a href=\"%s%d_%d.png\">%s%d_%d.png</a><br> \
-<img src=\"%s%d_%d.png\">",subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1);
+       for(cpt=1; cpt<=nlstate;cpt++){
+	 fprintf(fichtm,"<br>- Convergence from each state (1 to %d) to period (stable) prevalence in state %d <a href=\"%s%d_%d.png\">%s%d_%d.png</a><br> \
+<img src=\"%s%d_%d.png\">",nlstate, cpt, subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1);
        }
      for(cpt=1; cpt<=nlstate;cpt++) {
-        fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies : <a href=\"%s%d%d.png\">%s%d%d.png</a> <br> \
-<img src=\"%s%d%d.png\">",cpt,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1);
+        fprintf(fichtm,"\n<br>- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) : <a href=\"%s%d%d.png\">%s%d%d.png</a> <br> \
+<img src=\"%s%d%d.png\">",cpt,nlstate,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1);
      }
    } /* end i1 */
  }/* End k1 */
@@ -4084,7 +4091,6 @@ plot [%.f:%.f] \"%s\" every :::%d::%d u
       k=3;
       fprintf(ficgp,"\n#\n#\n#CV preval stable (period): 'pij' files, cov=%d state=%d",k1, cpt);
       fprintf(ficgp,"\nset out \"%s%d_%d.png\" \n",subdirf2(optionfilefiname,"p"),cpt,k1);
-      l=(nlstate+ndeath)*(cpt-1)+1;
       fprintf(ficgp,"set xlabel \"Age\" \nset ylabel \"Probability\" \n\
 set ter png small size 320, 240\n\
 unset log y\n\
@@ -4094,7 +4100,8 @@ plot [%.f:%.f]  ", ageminpar, agemaxpar)
 	  fprintf(ficgp,"\"%s\"",subdirf2(fileres,"pij"));
 	else
 	  fprintf(ficgp,", '' ");
-	fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l,k+l);
+	l=(nlstate+ndeath)*(i-1)+1;
+	fprintf(ficgp," u ($1==%d ? ($3):1/0):($%d/($%d",k1,k+l+(cpt-1),k+l);
 	for (j=1; j<= (nlstate-1) ; j ++)
 	  fprintf(ficgp,"+$%d",k+l+j);
 	fprintf(ficgp,")) t \"prev(%d,%d)\" w l",i,cpt);
@@ -5405,8 +5412,8 @@ int main(int argc, char *argv[])
   /*---------arguments file --------*/
 
   if((ficpar=fopen(optionfile,"r"))==NULL)    {
-    printf("Problem with optionfile %s with errno=%s\n",optionfile,strerror(errno));
-    fprintf(ficlog,"Problem with optionfile %s with errno=%s\n",optionfile,strerror(errno));
+    printf("Problem with optionfile '%s' with errno='%s'\n",optionfile,strerror(errno));
+    fprintf(ficlog,"Problem with optionfile '%s' with errno='%s'\n",optionfile,strerror(errno));
     fflush(ficlog);
     /* goto end; */
     exit(70); 
@@ -6660,9 +6667,9 @@ Interval (in months) between two waves:
   sprintf(plotcmd,"\"%sgnuplot.exe\"",pathimach);
 #endif
   if(!stat(plotcmd,&info)){
-    printf("Error gnuplot program not found: %s\n",plotcmd);fflush(stdout);
+    printf("Error or gnuplot program not found: %s\n",plotcmd);fflush(stdout);
     if(!stat(getenv("GNUPLOTBIN"),&info)){
-      printf("Error gnuplot program not found: %s Environment GNUPLOTBIN not set.\n",plotcmd);fflush(stdout);
+      printf("Error or gnuplot program not found: %s Environment GNUPLOTBIN not set.\n",plotcmd);fflush(stdout);
     }else
       strcpy(pplotcmd,plotcmd);
 #ifdef UNIX
@@ -6679,16 +6686,16 @@ Interval (in months) between two waves:
   printf("Starting graphs with: %s\n",plotcmd);fflush(stdout);
 
   if((outcmd=system(plotcmd)) != 0){
-    printf("\n Problem with gnuplot command %s, err=%d\n", plotcmd, outcmd);
-    printf("\n Trying on same directory\n");
+    printf("gnuplot command might not be in your path: %s, err=%d\n", plotcmd, outcmd);
+    printf("\n Trying if gnuplot resides on the same directory that IMaCh\n");
     sprintf(plotcmd,"%sgnuplot %s", pathimach, optionfilegnuplot);
     if((outcmd=system(plotcmd)) != 0)
       printf("\n Still a problem with gnuplot command %s, err=%d\n", plotcmd, outcmd);
   }
-  printf(" Wait...");
+  printf(" Successul, please wait...");
   while (z[0] != 'q') {
     /* chdir(path); */
-    printf("\nType e to edit output files, g to graph again and q for exiting: ");
+    printf("\nType e to edit results with your browser, g to graph again and q for exit: ");
     scanf("%s",z);
 /*     if (z[0] == 'c') system("./imach"); */
     if (z[0] == 'e') {