From bd826de2f539f2e48c8c01d2d7f9f34c7e97104a Mon Sep 17 00:00:00 2001
From: Samo Penic <samo.penic@gmail.com>
Date: Fri, 13 May 2016 07:43:27 +0000
Subject: [PATCH] Fix in trisurf output, inhibiting print of successful reconstruction. Multiple fixes and improvements in python module. Added symlinking of tapes into the running directories and dumping tapes from snapshots into tape files.
---
src/frame.c | 75 ++++++++++++++++++++++++++++++-------
1 files changed, 60 insertions(+), 15 deletions(-)
diff --git a/src/frame.c b/src/frame.c
index a4a9d32..b29d3e3 100644
--- a/src/frame.c
+++ b/src/frame.c
@@ -1,42 +1,87 @@
+/* vim: set ts=4 sts=4 sw=4 noet : */
#include<stdlib.h>
#include "general.h"
#include "cell.h"
#include "frame.h"
+
+
+#include "triangle.h"
ts_bool centermass(ts_vesicle *vesicle){
- ts_uint i, n=vesicle->vlist->n;
+ ts_uint i,j, n=vesicle->vlist->n;
ts_vertex **vtx=vesicle->vlist->vtx;
vesicle->cm[0]=0;
vesicle->cm[1]=0;
vesicle->cm[2]=0;
for(i=0;i<n;i++){
- vesicle->cm[0]+=vtx[i]->data->x;
- vesicle->cm[1]+=vtx[i]->data->y;
- vesicle->cm[2]+=vtx[i]->data->z;
+ vesicle->cm[0]+=vtx[i]->x;
+ vesicle->cm[1]+=vtx[i]->y;
+ vesicle->cm[2]+=vtx[i]->z;
}
vesicle->cm[0]/=(ts_float)n;
vesicle->cm[1]/=(ts_float)n;
vesicle->cm[2]/=(ts_float)n;
+
+ for(i=0;i<n;i++){
+ vtx[i]->x-=vesicle->cm[0];
+ vtx[i]->y-=vesicle->cm[1];
+ vtx[i]->z-=vesicle->cm[2];
+ }
+//move polymers for the same vector as we moved vesicle
+ for(i=0;i<vesicle->poly_list->n;i++){
+ for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++){
+ vesicle->poly_list->poly[i]->vlist->vtx[j]->x-=vesicle->cm[0];
+ vesicle->poly_list->poly[i]->vlist->vtx[j]->y-=vesicle->cm[1];
+ vesicle->poly_list->poly[i]->vlist->vtx[j]->z-=vesicle->cm[2];
+ }
+ }
+//move filaments for the same vector as we moved vesicle
+ for(i=0;i<vesicle->filament_list->n;i++){
+ for(j=0;j<vesicle->filament_list->poly[i]->vlist->n;j++){
+ vesicle->filament_list->poly[i]->vlist->vtx[j]->x-=vesicle->cm[0];
+ vesicle->filament_list->poly[i]->vlist->vtx[j]->y-=vesicle->cm[1];
+ vesicle->filament_list->poly[i]->vlist->vtx[j]->z-=vesicle->cm[2];
+ }
+ }
+
+ vesicle->cm[0]=0.0;
+ vesicle->cm[1]=0.0;
+ vesicle->cm[2]=0.0;
+
+ for(i=0;i<vesicle->tlist->n;i++){
+ triangle_normal_vector(vesicle->tlist->tria[i]);
+ }
+
+
return TS_SUCCESS;
}
ts_bool cell_occupation(ts_vesicle *vesicle){
- ts_uint i,cellidx, n=vesicle->vlist->n;
- ts_double shift;
- ts_double dcell;
- shift=(ts_double) vesicle->clist->ncmax[0]/2;
- dcell=1.0/(1.0 + vesicle->stepsize);
- //`fprintf(stderr, "Bil sem tu\n");
+ ts_uint i,j,cellidx, n=vesicle->vlist->n;
cell_list_cell_occupation_clear(vesicle->clist);
for(i=0;i<n;i++){
cellidx=vertex_self_avoidance(vesicle, vesicle->vlist->vtx[i]);
- vesicle->vlist->vtx[i]->data->cell=vesicle->clist->cell[cellidx];
+// already done in cell_add_vertex
+// vesicle->vlist->vtx[i]->cell=vesicle->clist->cell[cellidx];
cell_add_vertex(vesicle->clist->cell[cellidx],vesicle->vlist->vtx[i]);
-
}
- //fprintf(stderr, "Bil sem tu\n");
- if(dcell);
- if(shift);
+
+//Add all polymers to cells
+ for(i=0;i<vesicle->poly_list->n;i++){
+ for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++){
+ cellidx=vertex_self_avoidance(vesicle, vesicle->poly_list->poly[i]->vlist->vtx[j]);
+ cell_add_vertex(vesicle->clist->cell[cellidx],vesicle->poly_list->poly[i]->vlist->vtx[j]);
+ }
+ }
+//Add all filaments to cells
+ for(i=0;i<vesicle->filament_list->n;i++){
+ for(j=0;j<vesicle->filament_list->poly[i]->vlist->n;j++){
+ cellidx=vertex_self_avoidance(vesicle, vesicle->filament_list->poly[i]->vlist->vtx[j]);
+ cell_add_vertex(vesicle->clist->cell[cellidx],vesicle->filament_list->poly[i]->vlist->vtx[j]);
+ }
+ }
+
+
return TS_SUCCESS;
}
--
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