From 063289f4f872d642078d70757685c728e3fdfc81 Mon Sep 17 00:00:00 2001
From: Samo Penic <samo.penic@gmail.com>
Date: Thu, 06 Mar 2014 07:48:56 +0000
Subject: [PATCH] Fixed a bug. added cells
---
src/io.c | 230 +++++++++++++++++++++++++++------------------------------
1 files changed, 108 insertions(+), 122 deletions(-)
diff --git a/src/io.c b/src/io.c
index 8ebfb97..b4e879f 100644
--- a/src/io.c
+++ b/src/io.c
@@ -19,7 +19,6 @@
/* save current state with wrong pointers. Will fix that later */
ts_uint i,j,k;
- ts_ulong off;
FILE *fh=fopen("dump.bin","wb");
/* dump vesicle */
@@ -46,64 +45,45 @@
cell is ignored
*/
for(j=0;j<vesicle->vlist->vtx[i]->neigh_no;j++){
- off=(ts_ulong)(vesicle->vlist->vtx[i]->neigh[j]-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ fwrite(&vesicle->vlist->vtx[i]->neigh[j]->idx,sizeof(ts_uint),1,fh);
}
for(j=0;j<vesicle->vlist->vtx[i]->bond_no;j++){
- off=(ts_ulong)(vesicle->vlist->vtx[i]->bond[j]-vesicle->blist->bond[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ fwrite(&vesicle->vlist->vtx[i]->bond[j]->idx,sizeof(ts_uint),1,fh);
}
for(j=0;j<vesicle->vlist->vtx[i]->tristar_no;j++){
- off=(ts_ulong)(vesicle->vlist->vtx[i]->tristar[j]-vesicle->tlist->tria[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ fwrite(&vesicle->vlist->vtx[i]->tristar[j]->idx,sizeof(ts_uint),1,fh);
}
-// off=(ts_ulong)(vesicle->vlist->vtx[i]->cell-vesicle->clist->cell[0]);
-// fwrite(&off,sizeof(ts_ulong),1,fh);
-
}
/*dump bonds*/
for(i=0;i<vesicle->blist->n;i++){
fwrite(vesicle->blist->bond[i],sizeof(ts_bond),1,fh);
/* dump pointer offsets for vtx1 and vtx2 */
- off=(ts_ulong)(vesicle->blist->bond[i]->vtx1-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
- off=(ts_ulong)(vesicle->blist->bond[i]->vtx2-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ //off=(ts_ulong)(vesicle->blist->bond[i]->vtx1-vesicle->vlist->vtx[0]);
+ fwrite(&vesicle->blist->bond[i]->vtx1->idx,sizeof(ts_uint),1,fh);
+ //off=(ts_ulong)(vesicle->blist->bond[i]->vtx2-vesicle->vlist->vtx[0]);
+ fwrite(&vesicle->blist->bond[i]->vtx2->idx,sizeof(ts_uint),1,fh);
}
/*dump triangles*/
for(i=0;i<vesicle->tlist->n;i++){
fwrite(vesicle->tlist->tria[i],sizeof(ts_triangle),1,fh);
/* dump pointer offsets for vertex */
- off=(ts_ulong)(vesicle->tlist->tria[i]->vertex[0]-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
- off=(ts_ulong)(vesicle->tlist->tria[i]->vertex[1]-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
- off=(ts_ulong)(vesicle->tlist->tria[i]->vertex[2]-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ fwrite(&vesicle->tlist->tria[i]->vertex[0]->idx,sizeof(ts_uint),1,fh);
+ fwrite(&vesicle->tlist->tria[i]->vertex[1]->idx,sizeof(ts_uint),1,fh);
+ fwrite(&vesicle->tlist->tria[i]->vertex[2]->idx,sizeof(ts_uint),1,fh);
/* dump pointer offsets for neigh */
for(j=0;j<vesicle->tlist->tria[i]->neigh_no;j++){
- off=(ts_ulong)(vesicle->tlist->tria[i]->neigh[j]-vesicle->tlist->tria[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ fwrite(&vesicle->tlist->tria[i]->neigh[j]->idx,sizeof(ts_uint),1,fh);
}
}
-
- /*dump cells and its contents is not dumped but recalculated on restore*/
-
-/* for(i=0;i<vesicle->clist->cellno;i++){
- fwrite(vesicle->clist->cell[i],sizeof(ts_cell),1,fh);
- for(j=0;j<vesicle->clist->cell[i]->nvertex;j++){
- off=(ts_ulong)(vesicle->clist->cell[i]->vertex[j]-vesicle->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
- }
- }
-*/
/*dump polymeres */
for(i=0;i<vesicle->poly_list->n;i++){
fwrite(vesicle->poly_list->poly[i],sizeof(ts_poly),1,fh);
+ fwrite(vesicle->poly_list->poly[i]->vlist,sizeof(ts_vertex_list),1,fh);
+ fwrite(vesicle->poly_list->poly[i]->blist,sizeof(ts_bond_list),1,fh);
}
/* dump poly vertex(monomer) list*/
@@ -112,24 +92,26 @@
fwrite(vesicle->poly_list->poly[i]->vlist->vtx[j],sizeof(ts_vertex),1,fh);
/* dump offset for neigh and bond */
for(k=0;k<vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh_no;k++){
- off=(ts_ulong)(vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh[k]-vesicle->poly_list->poly[i]->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ // off=(ts_ulong)(vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh[k]-vesicle->poly_list->poly[i]->vlist->vtx[0]);
+ fwrite(&vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh[k]->idx,sizeof(ts_uint),1,fh);
}
for(k=0;k<vesicle->poly_list->poly[i]->vlist->vtx[j]->bond_no;k++){
- off=(ts_ulong)(vesicle->poly_list->poly[i]->vlist->vtx[j]->bond[k]-vesicle->poly_list->poly[i]->blist->bond[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ //off=(ts_ulong)(vesicle->poly_list->poly[i]->vlist->vtx[j]->bond[k]-vesicle->poly_list->poly[i]->blist->bond[0]);
+ fwrite(&vesicle->poly_list->poly[i]->vlist->vtx[j]->bond[k]->idx,sizeof(ts_uint),1,fh);
}
}
+ // grafted vtx on vesicle data dump
+ fwrite(&vesicle->poly_list->poly[i]->grafted_vtx->idx, sizeof(ts_uint),1,fh);
}
/* dump poly bonds between monomers list*/
for(i=0;i<vesicle->poly_list->n;i++){
for(j=0;j<vesicle->poly_list->poly[i]->blist->n;j++){
fwrite(vesicle->poly_list->poly[i]->blist->bond[j],sizeof(ts_bond),1,fh);
/* dump vtx1 and vtx2 offsets */
- off=(ts_ulong)(vesicle->poly_list->poly[i]->blist->bond[j]->vtx1-vesicle->poly_list->poly[i]->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
- off=(ts_ulong)(vesicle->poly_list->poly[i]->blist->bond[j]->vtx2-vesicle->poly_list->poly[i]->vlist->vtx[0]);
- fwrite(&off,sizeof(ts_ulong),1,fh);
+ //off=(ts_ulong)(vesicle->poly_list->poly[i]->blist->bond[j]->vtx1-vesicle->poly_list->poly[i]->vlist->vtx[0]);
+ fwrite(&vesicle->poly_list->poly[i]->blist->bond[j]->vtx1->idx,sizeof(ts_uint),1,fh);
+// off=(ts_ulong)(vesicle->poly_list->poly[i]->blist->bond[j]->vtx2-vesicle->poly_list->poly[i]->vlist->vtx[0]);
+ fwrite(&vesicle->poly_list->poly[i]->blist->bond[j]->vtx2->idx,sizeof(ts_uint),1,fh);
}
}
@@ -145,15 +127,8 @@
poly_list->poly->bond
*/
- fwrite(vesicle->vlist->vtx, sizeof(ts_vertex *),1,fh);
- fwrite(vesicle->blist->bond, sizeof(ts_bond *),1,fh);
- fwrite(vesicle->tlist->tria, sizeof(ts_triangle *),1,fh);
- fwrite(vesicle->clist->cell, sizeof(ts_cell *),1,fh);
- fwrite(vesicle->poly_list->poly, sizeof(ts_poly *),1,fh);
- for(i=0;i<vesicle->poly_list->n;i++){
- fwrite(vesicle->poly_list->poly[i]->vlist->vtx, sizeof(ts_vertex *),1,fh);
- fwrite(vesicle->poly_list->poly[i]->blist->bond, sizeof(ts_bond *),1,fh);
- }
+ fwrite(vesicle->clist, sizeof(ts_cell_list),1, fh);
+
fclose(fh);
return TS_SUCCESS;
}
@@ -164,7 +139,7 @@
ts_uint i,j,k;
FILE *fh=fopen("dump.bin","rb");
ts_uint retval;
- ts_ulong off;
+ ts_uint idx;
/* we restore all the data from the dump */
/* restore vesicle */
@@ -187,6 +162,17 @@
retval=fread(vesicle->poly_list, sizeof(ts_poly_list),1,fh);
/* level 1 complete */
+/* prerequisity. Bonds must be malloced before vertexes are recreated */
+ vesicle->blist->bond=(ts_bond **)calloc(vesicle->blist->n,sizeof(ts_bond *));
+ for(i=0;i<vesicle->blist->n;i++){
+ vesicle->blist->bond[i]=(ts_bond *)malloc(sizeof(ts_bond));
+ }
+/* prerequisity. Triangles must be malloced before vertexes are recreated */
+ vesicle->tlist->tria=(ts_triangle **)calloc(vesicle->tlist->n,sizeof(ts_triangle *));
+ for(i=0;i<vesicle->tlist->n;i++){
+ vesicle->tlist->tria[i]=(ts_triangle *)malloc(sizeof(ts_triangle));
+}
+
/*restore vertices*/
vesicle->vlist->vtx=(ts_vertex **)calloc(vesicle->vlist->n,sizeof(ts_vertex *));
for(i=0;i<vesicle->vlist->n;i++){
@@ -195,51 +181,54 @@
/*restore neigh, bond, tristar. Ignoring cell */
vesicle->vlist->vtx[i]->neigh=(ts_vertex **)calloc(vesicle->vlist->vtx[i]->neigh_no, sizeof(ts_vertex *));
for(j=0;j<vesicle->vlist->vtx[i]->neigh_no;j++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->vlist->vtx[i]->neigh[j]=vesicle->vlist->vtx[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->vlist->vtx[i]->neigh[j]=vesicle->vlist->vtx[idx];
}
vesicle->vlist->vtx[i]->bond=(ts_bond **)calloc(vesicle->vlist->vtx[i]->bond_no, sizeof(ts_bond *));
for(j=0;j<vesicle->vlist->vtx[i]->bond_no;j++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->vlist->vtx[i]->bond[j]=vesicle->blist->bond[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+/* pointer can be assigned only when list of bonds is fully initialized in memory. Thus bondlist popularization must be done before vertex can reference to it */
+ vesicle->vlist->vtx[i]->bond[j]=vesicle->blist->bond[idx];
}
vesicle->vlist->vtx[i]->tristar=(ts_triangle **)calloc(vesicle->vlist->vtx[i]->tristar_no, sizeof(ts_triangle *));
for(j=0;j<vesicle->vlist->vtx[i]->tristar_no;j++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->vlist->vtx[i]->tristar[j]=vesicle->tlist->tria[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+/* same comment as above */
+ vesicle->vlist->vtx[i]->tristar[j]=vesicle->tlist->tria[idx];
}
}
/*restore bonds*/
- vesicle->blist->bond=(ts_bond **)calloc(vesicle->blist->n,sizeof(ts_bond *));
+ // vesicle->blist->bond=(ts_bond **)calloc(vesicle->blist->n,sizeof(ts_bond *)); // done before.
for(i=0;i<vesicle->blist->n;i++){
- vesicle->blist->bond[i]=(ts_bond *)malloc(sizeof(ts_bond));
+ // vesicle->blist->bond[i]=(ts_bond *)malloc(sizeof(ts_bond)); //done before.
retval=fread(vesicle->blist->bond[i],sizeof(ts_bond),1,fh);
/* restore vtx1 and vtx2 */
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->blist->bond[i]->vtx1=vesicle->vlist->vtx[0]+off;
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->blist->bond[i]->vtx2=vesicle->vlist->vtx[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->blist->bond[i]->vtx1=vesicle->vlist->vtx[idx];
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->blist->bond[i]->vtx2=vesicle->vlist->vtx[idx];
}
/*restore triangles*/
- vesicle->tlist->tria=(ts_triangle **)calloc(vesicle->tlist->n,sizeof(ts_triangle *));
+// vesicle->tlist->tria=(ts_triangle **)calloc(vesicle->tlist->n,sizeof(ts_triangle *)); // done before
for(i=0;i<vesicle->tlist->n;i++){
- vesicle->tlist->tria[i]=(ts_triangle *)malloc(sizeof(ts_triangle));
+ // vesicle->tlist->tria[i]=(ts_triangle *)malloc(sizeof(ts_triangle)); // done before
retval=fread(vesicle->tlist->tria[i],sizeof(ts_triangle),1,fh);
/* restore pointers for vertices */
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->tlist->tria[i]->vertex[0]=vesicle->vlist->vtx[0]+off;
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->tlist->tria[i]->vertex[1]=vesicle->vlist->vtx[0]+off;
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->tlist->tria[i]->vertex[2]=vesicle->vlist->vtx[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->tlist->tria[i]->vertex[0]=vesicle->vlist->vtx[idx];
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->tlist->tria[i]->vertex[1]=vesicle->vlist->vtx[idx];
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->tlist->tria[i]->vertex[2]=vesicle->vlist->vtx[idx];
/* restore pointers for neigh */
+ vesicle->tlist->tria[i]->neigh=(ts_triangle **)malloc(vesicle->tlist->tria[i]->neigh_no*sizeof(ts_triangle *));
for(j=0;j<vesicle->tlist->tria[i]->neigh_no;j++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->tlist->tria[i]->neigh[j]=vesicle->tlist->tria[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->tlist->tria[i]->neigh[j]=vesicle->tlist->tria[idx];
}
}
@@ -257,74 +246,68 @@
for(i=0;i<vesicle->poly_list->n;i++){
vesicle->poly_list->poly[i]=(ts_poly *)calloc(1,sizeof(ts_poly));
retval=fread(vesicle->poly_list->poly[i],sizeof(ts_poly),1,fh);
+ vesicle->poly_list->poly[i]->vlist=(ts_vertex_list *)calloc(1,sizeof(ts_vertex_list));
+ retval=fread(vesicle->poly_list->poly[i]->vlist,sizeof(ts_vertex_list),1,fh);
+ vesicle->poly_list->poly[i]->blist=(ts_bond_list *)calloc(1,sizeof(ts_bond_list));
+ retval=fread(vesicle->poly_list->poly[i]->blist,sizeof(ts_bond_list),1,fh);
+ /* initialize adress space for pointers that will hold specific vertices (monomers) and bonds */
+ vesicle->poly_list->poly[i]->vlist->vtx=(ts_vertex **)calloc(vesicle->poly_list->poly[i]->vlist->n,sizeof(ts_vertex *));
+ vesicle->poly_list->poly[i]->blist->bond=(ts_bond **)calloc(vesicle->poly_list->poly[i]->blist->n,sizeof(ts_bond *));
+ for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++){
+ vesicle->poly_list->poly[i]->vlist->vtx[j]=(ts_vertex *)malloc(sizeof(ts_vertex));
+ }
+ for(j=0;j<vesicle->poly_list->poly[i]->blist->n;j++){
+ vesicle->poly_list->poly[i]->blist->bond[j]=(ts_bond *)malloc(sizeof(ts_bond));
+ }
+
}
+
/* restore poly vertex(monomer) list*/
for(i=0;i<vesicle->poly_list->n;i++){
- vesicle->poly_list->poly[i]->vlist->vtx=(ts_vertex **)calloc(vesicle->poly_list->poly[i]->vlist->n,sizeof(ts_vertex *));
for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++){
- vesicle->poly_list->poly[i]->vlist->vtx[j]=(ts_vertex *)malloc(sizeof(ts_vertex));
retval=fread(vesicle->poly_list->poly[i]->vlist->vtx[j],sizeof(ts_vertex),1,fh);
-
+
/* restore neigh and bonds */
vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh=(ts_vertex **)calloc(vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh_no, sizeof(ts_vertex *));
for(k=0;k<vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh_no;k++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh[k]=vesicle->poly_list->poly[i]->vlist->vtx[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->poly_list->poly[i]->vlist->vtx[j]->neigh[k]=vesicle->poly_list->poly[i]->vlist->vtx[idx];
}
vesicle->poly_list->poly[i]->vlist->vtx[j]->bond=(ts_bond **)calloc(vesicle->poly_list->poly[i]->vlist->vtx[j]->bond_no, sizeof(ts_bond *));
for(k=0;k<vesicle->poly_list->poly[i]->vlist->vtx[j]->bond_no;k++){
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->poly_list->poly[i]->vlist->vtx[j]->bond[k]=vesicle->poly_list->poly[i]->blist->bond[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->poly_list->poly[i]->vlist->vtx[j]->bond[k]=vesicle->poly_list->poly[i]->blist->bond[idx];
}
}
+ /* restore grafted vtx on vesicle and grafted_poly */
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->vlist->vtx[idx]->grafted_poly=vesicle->poly_list->poly[i];
+ vesicle->poly_list->poly[i]->grafted_vtx=vesicle->vlist->vtx[idx];
}
+
/* restore poly bonds between monomers list*/
for(i=0;i<vesicle->poly_list->n;i++){
- vesicle->poly_list->poly[i]->blist->bond=(ts_bond **)calloc(vesicle->poly_list->poly[i]->blist->n,sizeof(ts_bond *));
for(j=0;j<vesicle->poly_list->poly[i]->blist->n;j++){
- vesicle->poly_list->poly[i]->blist->bond[j]=(ts_bond *)malloc(sizeof(ts_bond));
+ // vesicle->poly_list->poly[i]->blist->bond[j]=(ts_bond *)malloc(sizeof(ts_bond));
retval=fread(vesicle->poly_list->poly[i]->blist->bond[j],sizeof(ts_bond),1,fh);
/* restore vtx1 and vtx2 */
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->poly_list->poly[i]->blist->bond[j]->vtx1=vesicle->poly_list->poly[i]->vlist->vtx[0]+off;
- retval=fread(&off,sizeof(ts_ulong),1,fh);
- vesicle->poly_list->poly[i]->blist->bond[j]->vtx2=vesicle->poly_list->poly[i]->vlist->vtx[0]+off;
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->poly_list->poly[i]->blist->bond[j]->vtx1=vesicle->poly_list->poly[i]->vlist->vtx[idx];
+ retval=fread(&idx,sizeof(ts_uint),1,fh);
+ vesicle->poly_list->poly[i]->blist->bond[j]->vtx2=vesicle->poly_list->poly[i]->vlist->vtx[idx];
}
}
-
- /* recalculate pointers using saved information on pointer addresses */
- /* following pointers need to be recalculated:
- all vtx->neigh
- all vtx->tristar
- all vtx->bond
- vtx->cell
- vtx->grafted_poly
- bond->vtx1
- bond->vtx2
- tria->vertex[*]
- tria->neigh
- cell->vertex
- poly->grafted_vtx
- poly->vlist->vtx->neigh
- poly->vlist->vtx->bond
- poly->vlist->vtx->cell
- */
-
- /* read pointers from disk */
-/* fwrite(vesicle->vlist->vtx, sizeof(ts_vertex *),1,fh);
- fwrite(vesicle->blist->bond, sizeof(ts_bond *),1,fh);
- fwrite(vesicle->tlist->tria, sizeof(ts_triangle *),1,fh);
- fwrite(vesicle->clist->cell, sizeof(ts_cell *),1,fh);
- fwrite(vesicle->poly_list->poly, sizeof(ts_poly *),1,fh);
- for(i=0;i<vesicle->poly_list->n;i++){
- fwrite(vesicle->poly_list->poly[i]->vlist->vtx, sizeof(ts_vertex *),1,fh);
- fwrite(vesicle->poly_list->poly[i]->blist->bond, sizeof(ts_bond *),1,fh);
- }
-*/
-
+// recreating space for cells //
+ vesicle->clist=(ts_cell_list *)malloc(sizeof(ts_cell_list));
+ retval=fread(vesicle->clist, sizeof(ts_cell_list), 1,fh);
+ vesicle->clist->cell=(ts_cell **)malloc(sizeof(ts_cell *)*vesicle->clist->ncmax[0]*vesicle->clist->ncmax[1]*vesicle->clist->ncmax[2]);
+ for(i=0;i<vesicle->clist->ncmax[0]*vesicle->clist->ncmax[1]*vesicle->clist->ncmax[2];i++){
+ vesicle->clist->cell[i]=(ts_cell *)calloc(1,sizeof(ts_cell));
+ vesicle->clist->cell[i]->idx=i+1; // We enumerate cells! Probably never required!
+ }
if(retval);
fclose(fh);
@@ -542,7 +525,7 @@
/* Here comes header of the file */
//find number of extra vtxs and bonds of polymeres
- ts_uint monono=0, polyno=0;
+ ts_uint monono=0, polyno=0, poly_idx=0;
ts_bool poly=0;
if(vesicle->poly_list!=NULL){
if(vesicle->poly_list->poly[0]!=NULL){
@@ -559,9 +542,10 @@
}
//polymeres
if(poly){
+ poly_idx=vlist->n;
for(i=0;i<vesicle->poly_list->n;i++){
- for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++){
- fprintf(fh,"%u ", vesicle->poly_list->poly[i]->vlist->vtx[j]->idx);
+ for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++,poly_idx++){
+ fprintf(fh,"%u ", poly_idx);
}
}
}
@@ -585,12 +569,14 @@
}
//polymeres
if(poly){
+ poly_idx=vlist->n;
for(i=0;i<vesicle->poly_list->n;i++){
for(j=0;j<vesicle->poly_list->poly[i]->blist->n;j++){
- fprintf(fh,"%u %u\n", vesicle->poly_list->poly[i]->blist->bond[j]->vtx1->idx,vesicle->poly_list->poly[i]->blist->bond[j]->vtx2->idx);
+// fprintf(fh,"%u %u\n", vesicle->poly_list->poly[i]->blist->bond[j]->vtx1->idx,vesicle->poly_list->poly[i]->blist->bond[j]->vtx2->idx);
+ fprintf(fh,"%u %u\n", vesicle->poly_list->poly[i]->blist->bond[j]->vtx1->idx+vlist->n+i*monono,vesicle->poly_list->poly[i]->blist->bond[j]->vtx2->idx+vlist->n+i*monono);
}
//grafted bonds
- fprintf(fh,"%u %u\n", vesicle->poly_list->poly[i]->grafted_vtx->idx, vesicle->poly_list->poly[i]->vlist->vtx[0]->idx);
+ fprintf(fh,"%u %u\n", vesicle->poly_list->poly[i]->grafted_vtx->idx, vesicle->poly_list->poly[i]->vlist->vtx[0]->idx+vlist->n+i*monono);
}
}
--
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