From c14bd6e408bec0634a7cac3aa87e177562430afe Mon Sep 17 00:00:00 2001
From: Samo Penic <samo.penic@fe.uni-lj.si>
Date: Mon, 07 Mar 2016 14:04:32 +0000
Subject: [PATCH] Working on script for executing trisurf. Added directory generation, started working on start code. Started reading statistics CSV file for generating report on running simulation
---
src/io.c | 56 ++++++++++++++++++++++++++++++++++++++++++++++----------
1 files changed, 46 insertions(+), 10 deletions(-)
diff --git a/src/io.c b/src/io.c
index 00f6db5..51ef836 100644
--- a/src/io.c
+++ b/src/io.c
@@ -1,3 +1,4 @@
+/* vim: set ts=4 sts=4 sw=4 noet : */
#include "general.h"
#include<stdio.h>
#include "io.h"
@@ -15,6 +16,7 @@
#include <sys/types.h>
#include <dirent.h>
#include <errno.h>
+#include <snapshot.h>
/** DUMP STATE TO DISK DRIVE **/
ts_bool dump_state(ts_vesicle *vesicle, ts_uint iteration){
@@ -24,7 +26,7 @@
FILE *fh=fopen(command_line_args.dump_fullfilename,"wb");
/* dump vesicle */
- fwrite(vesicle, sizeof(ts_vesicle),1,fh);
+ fwrite(vesicle, sizeof(ts_vesicle)-sizeof(ts_double),1,fh);
/* dump vertex list */
fwrite(vesicle->vlist, sizeof(ts_vertex_list),1,fh);
/* dump bond list */
@@ -201,7 +203,7 @@
/* we restore all the data from the dump */
/* restore vesicle */
ts_vesicle *vesicle=(ts_vesicle *)calloc(1,sizeof(ts_vesicle));
- retval=fread(vesicle, sizeof(ts_vesicle),1,fh);
+ retval=fread(vesicle, sizeof(ts_vesicle)-sizeof(ts_double),1,fh);
// fprintf(stderr,"was here! %e\n",vesicle->dmax);
/* restore vertex list */
@@ -439,6 +441,7 @@
sprintf(command_line_args.output_fullfilename,"output.pvd");
sprintf(command_line_args.dump_fullfilename,"dump.bin");
sprintf(command_line_args.tape_fullfilename,"tape");
+ sprintf(command_line_args.tape_templatefull,"./tape");
FILE *file;
while (1)
@@ -452,6 +455,8 @@
{"directory", required_argument, 0, 'd'},
{"dump-filename", required_argument,0, 'f'},
{"tape-options",required_argument,0,'c'},
+ {"tape-template", required_argument,0,0},
+ {"restore-from-vtk",required_argument,0,0},
{0, 0, 0, 0}
};
/* getopt_long stores the option index here. */
@@ -470,10 +475,17 @@
/* If this option set a flag, do nothing else now. */
if (long_options[option_index].flag != 0)
break;
- printf ("option %s", long_options[option_index].name);
+/* printf ("option %s", long_options[option_index].name);
if (optarg)
- printf (" with arg %s", optarg);
- printf ("\n");
+ printf (" with arg %s", optarg);
+ printf ("\n"); */
+ //TODO: find a better way.
+ if(strcmp(long_options[option_index].name,"tape-template")==0){
+ strcpy(command_line_args.tape_templatefull,optarg);
+ }
+ if(strcmp(long_options[option_index].name,"restore-from-vtk")==0){
+ strcpy(command_line_args.dump_from_vtk,optarg);
+ }
break;
case 'c':
@@ -534,6 +546,7 @@
if ((file = fopen(buffer, "w")) == NULL) {
fprintf(stderr,"Could not create output file %s!\n", buffer);
fatal("Please specify correct output file or check permissions of the file",1);
+ //there is a tape template. make a copy into desired directory
} else {
fclose(file);
@@ -544,8 +557,15 @@
strcpy(buffer,command_line_args.path);
strcat(buffer,command_line_args.tape_fullfilename);
if (stat(buffer, &sb) == -1) {
- ts_fprintf(stderr,"Tape '%s' does not exist!\n",buffer);
- fatal("Please select correct tape or check permissions of the file",1);
+
+ //tape does not exist. does tape template exist?
+ if(stat(command_line_args.tape_templatefull, &sb)==-1){
+ ts_fprintf(stderr,"Tape '%s' does not exist and no tape template was specified (or does not exist)!\n",buffer);
+ fatal("Please select correct tape or check permissions of the file",1);
+ } else {
+ //tape template found
+ fatal("Samo did not program template copy yet",1);
+ }
} else {
strcpy(command_line_args.tape_fullfilename,buffer);
}
@@ -573,7 +593,6 @@
return TS_SUCCESS;
}
-
@@ -807,7 +826,9 @@
}
}
- fprintf(fh, "<?xml version=\"1.0\"?>\n<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\" compressor=\"vtkZLibDataCompressor\">\n <UnstructuredGrid>\n");
+ fprintf(fh, "<?xml version=\"1.0\"?>\n<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\" compressor=\"vtkZLibDataCompressor\">\n");
+ xml_trisurf_data(fh,vesicle);
+ fprintf(fh, " <UnstructuredGrid>\n");
fprintf(fh, "<Piece NumberOfPoints=\"%u\" NumberOfCells=\"%u\">\n",vlist->n+monono*polyno+fonono*filno, blist->n+monono*polyno+filno*(fonono-1));
fprintf(fh,"<PointData Scalars=\"scalars\">\n<DataArray type=\"Int64\" Name=\"scalars\" format=\"ascii\">");
for(i=0;i<vlist->n;i++){
@@ -980,6 +1001,20 @@
ts_tape *parsetape(char *filename){
+ FILE *fd = fopen (filename, "r");
+ long length;
+ size_t size;
+ fseek (fd, 0, SEEK_END);
+ length = ftell (fd);
+ fseek (fd, 0, SEEK_SET);
+ size=fread (tapetxt, 1, length, fd);
+ fclose(fd);
+ if(size);
+ ts_tape *tape=parsetapebuffer(tapetxt);
+ return tape;
+}
+
+ts_tape *parsetapebuffer(char *buffer){
ts_tape *tape=(ts_tape *)calloc(1,sizeof(ts_tape));
tape->multiprocessing=calloc(255,sizeof(char));
@@ -995,6 +1030,7 @@
CFG_SIMPLE_FLOAT("xk0",&tape->xk0),
CFG_SIMPLE_INT("pswitch",&tape->pswitch),
CFG_SIMPLE_INT("constvolswitch",&tape->constvolswitch),
+ CFG_SIMPLE_INT("constareaswitch",&tape->constareaswitch),
CFG_SIMPLE_FLOAT("constvolprecision",&tape->constvolprecision),
CFG_SIMPLE_FLOAT("pressure",&tape->pressure),
CFG_SIMPLE_FLOAT("k_spring",&tape->kspring),
@@ -1017,7 +1053,7 @@
cfg_t *cfg;
ts_uint retval;
cfg = cfg_init(opts, 0);
- retval=cfg_parse(cfg, filename);
+ retval=cfg_parse_buf(cfg, buffer);
if(retval==CFG_FILE_ERROR){
fatal("No tape file.",100);
}
--
Gitblit v1.9.3