Added direct force plugin and fixes in stretching energy

Samo Penic

2019-03-09 2c4278db6ead5c27e30a3000097ed898c968534e

 src/main.c

@@ -17,19 +17,50 @@
#include "shcomplex.h"
#include "dumpstate.h"
#include "restore.h"

#include "plugins.h"
#include <fcntl.h>
/** Entrance function to the program
  * @param argv is a number of parameters used in program call (including the program name
  * @param argc is a pointer to strings (character arrays) which holds the arguments
  * @returns returns 0 on success, any other number on fail.
*/

#include <string.h>
int main(int argv, char *argc[]){
   ts_char *plugin0 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin1 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin2 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin3 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin4 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin5 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin6 = (ts_char *)calloc(255,sizeof(ts_char));
   ts_char *plugin7 = (ts_char *)calloc(255,sizeof(ts_char));
   strcpy(plugin0,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/demoplugin.so");
   strcpy(plugin1,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/vmdefaulthardconstraints.so");
   strcpy(plugin2,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/plane_confinement.so");
   strcpy(plugin3,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/pressure.so");
   strcpy(plugin4,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/constant_volume.so");
   strcpy(plugin5,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/constant_area.so");
   strcpy(plugin6,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/stretching_energy.so");
   strcpy(plugin7,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/direct_force_on_c0.so");
   ts_char **plugins=(ts_char **)calloc(8,sizeof(ts_char *));
   plugins[0]=plugin0;
   plugins[1]=plugin1;
   plugins[2]=plugin2;
   plugins[3]=plugin3;
   plugins[4]=plugin4;
   plugins[5]=plugin5;
   plugins[6]=plugin6;
   plugins[7]=plugin7;
   ts_plugin_list *plist=init_plugin_list(plugins,8);
   //printf("%s", plist->chain->at_start->next->plugin->filename);
   //ts_fprintf(stdout, "TRISURF in PRVI PLUGIN %s\n", plist->plugin[0]->details->name);
   ts_vesicle *vesicle;
   ts_tape *tape;
   ts_uint start_iteration=0;
   force_from_tape=0;
   /* Area and volume for constant area and constant volume are initialized to be zero */
   A0=0;
   V0=0;
   /* create lock file */
   createPidFile("ts_trisurf",".lock",0);
   parse_args(argv,argc); // sets global variable command_line_args (defined in io.h)
@@ -37,8 +68,13 @@
   ts_fprintf(stdout,"Programming done by: Samo Penic and Miha Fosnaric\n");
   ts_fprintf(stdout,"Released under terms of GPLv3\n");
   ts_fprintf(stdout,"Starting program...\n\n");
//   vesicle = parseDump("timestep_000000.vtu");
//      run_simulation(vesicle, vesicle->tape->mcsweeps, vesicle->tape->inititer, vesicle->tape->iterations, 1);
	
/* Entry point for plugin function at_start() */
   ts_plugin_chain *ptr=plist->chain->at_start;
   while(ptr!=NULL){
      ptr->plugin->function->at_start(argv,argc);
      ptr=ptr->next;
   }

    if(command_line_args.dump_from_vtk[0]!=0){
      ts_fprintf(stdout,"************************************************\n");
@@ -51,16 +87,13 @@
      if(fd!=NULL){
         arguments_no=fscanf(fd,"%u", &start_iteration);
         if(arguments_no==0){
            ts_fprintf(stdout,"No information of start iteration in .status file");
            ts_fprintf(stdout,"No information of start iteration in .status file\n");
            }
         fclose(fd);
         start_iteration++;
         start_iteration++; 
      }
      else
         ts_fprintf(stdout,"No .status file. The iteration count will start from 0");
/* Here you should read new tape file, reassign some values in vertex from the tape and assign read tape to vesicle->tape */
//        tape=parsetape(command_line_args.tape_fullfilename);
  //      vesicle=vtk2vesicle(command_line_args.dump_from_vtk,tape);
         ts_fprintf(stdout,"No .status file. The iteration count will start from 0\n");
    }
   else if(command_line_args.force_from_tape){
      ts_fprintf(stdout,"************************************************\n");
@@ -122,11 +155,26 @@
      }
      }
   }
         //printf("nucleus coords: %.17e %.17e %.17e\n",vesicle->nucleus_center[0], vesicle->nucleus_center[1], vesicle->nucleus_center[2]);

   vesicle->plist=plist;
/* Entry point for plugin after_vesicle_init() function */
   vesicle->plist->pointer=vesicle->plist->chain->after_vesicle_init;
   while(vesicle->plist->pointer!=NULL){
      vesicle=vesicle->plist->pointer->plugin->function->after_vesicle_init(vesicle);
      vesicle->plist->pointer=vesicle->plist->pointer->next;
   }

   run_simulation(vesicle, tape->mcsweeps, tape->inititer, tape->iterations, start_iteration);
   write_master_xml_file(command_line_args.output_fullfilename);
   write_dout_fcompat_file(vesicle,"dout");
/* Entry point for plugin cleanup() function */
   ptr=plist->chain->cleanup;
   while(ptr!=NULL){
      ptr->plugin->function->cleanup();
      ptr=ptr->next;
   }


   vesicle_free(vesicle);
   tape_free(tape);
   return 0; //program finished perfectly ok. We return 0.