Added base64 encoding to zipped data

Samo Penic

2016-02-16 f0bcead40eea062fb556e142f6f1f7a7240bc144

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#include<stdio.h>
#include<math.h>
#include<stdlib.h>
#include "general.h"
#include "vertex.h"
#include "bond.h"
#include "triangle.h"
#include "cell.h"
#include "vesicle.h"
#include "io.h"
#include "initial_distribution.h"
#include "frame.h"
#include "timestep.h"
#include "poly.h"
#include "sh.h"
#include "shcomplex.h"
#include "dumpstate.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.
*/
 
int main(int argv, char *argc[]){
    ts_vesicle *vesicle;
    ts_tape *tape;
    ts_uint start_iteration=0;
    force_from_tape=0;
    parse_args(argv,argc); // sets global variable command_line_args (defined in io.h)
    ts_fprintf(stdout,"Starting program...\n\n");
 
    if(command_line_args.dump_from_vtk[0]!=0){
        ts_fprintf(stdout,"************************************************\n");
        ts_fprintf(stdout,"***** Dumping vesicle from VTK points list *****\n");
        ts_fprintf(stdout,"************************************************\n\n");
        tape=parsetape(command_line_args.tape_fullfilename);
        vesicle=vtk2vesicle(command_line_args.dump_from_vtk,tape);
    }
    else if(command_line_args.force_from_tape){
        ts_fprintf(stdout,"************************************************\n");
        ts_fprintf(stdout,"**** Generating initial geometry from tape *****\n");
        ts_fprintf(stdout,"************************************************\n\n");
        tape=parsetape(command_line_args.tape_fullfilename);
        vesicle=create_vesicle_from_tape(tape);
    } else {
 
        ts_fprintf(stdout,"**********************************************************************\n");
        ts_fprintf(stdout,"**** Recreating vesicle from dump file and continuing simulation *****\n");
        ts_fprintf(stdout,"**********************************************************************\n\n");
        tape=parsetape(command_line_args.tape_fullfilename);
        vesicle=restore_state(&start_iteration);
        if(vesicle==NULL){
            ts_fprintf(stderr, "Dump file does not exist or is not a regular file! Did you mean to invoke trisurf with --force-from-tape option?\n\n");
            return 1;
        }
        // nove vrednosti iz tapea...
        vesicle->bending_rigidity=tape->xk0;
        vtx_set_global_values(vesicle);
        vesicle->pswitch =tape->pswitch;
        vesicle->pressure=tape->pressure;
        vesicle->dmax=tape->dmax*tape->dmax;
        poly_assign_filament_xi(vesicle,tape);
        free(vesicle->tape);
        vesicle->tape=tape;
        vesicle->clist->dmin_interspecies = tape->dmin_interspecies*tape->dmin_interspecies;
 
 
 
        /* spherical harmonics */
        if(tape->shc>0){
            vesicle->sphHarmonics=complex_sph_init(vesicle->vlist,tape->shc);
        }
        else {
            vesicle->sphHarmonics=NULL;
        }
 
        if(command_line_args.reset_iteration_count) start_iteration=tape->inititer;
        else start_iteration++;
 
        if(start_iteration>=tape->iterations){
            ts_fprintf(stdout, "Simulation already completed. if you want to rerun it try with --force-from-tape or --reset-iteration-count\n\n");
            return 0;
        }
 
    /* if requested in tape, we can have smaller number of polymeres attached to membrane than the number of polymeres in dump file */
        if(vesicle->tape->npoly != vesicle->poly_list->n){
 
        ts_fprintf(stdout,"(INFO) the number of polymeres attached to membrane in tape is different than a number of polymeres in dump file!\n");
        if(vesicle->tape->npoly > vesicle->poly_list->n){
            ts_fprintf(stdout,"(INFO) It is possible to decrease the number of polymeres on the membrane, but it is not allowed to increase its number. The maximal allowed number in tape is %d The execution of program will terminate!\n",vesicle->poly_list->n);
            fatal("Terminating due to increase of number of polymeres",1);
        } else {
            remove_random_polymeres(vesicle->poly_list, vesicle->poly_list->n - vesicle->tape->npoly);
            ts_fprintf(stdout,"(INFO)\n(INFO) The new number of polymeres from tape is %d.\n\n",vesicle->poly_list->n);
 
        }
        }
    }
 
    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");
    vesicle_free(vesicle);
    tape_free(tape);
    return 0; //program finished perfectly ok. We return 0.
}