/* vim: set ts=4 sts=4 sw=4 noet : */
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#include<stdio.h>
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#include<math.h>
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#include<stdlib.h>
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#include "general.h"
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#include "vertex.h"
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#include "bond.h"
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#include "triangle.h"
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#include "cell.h"
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#include "vesicle.h"
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#include "io.h"
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#include "initial_distribution.h"
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#include "frame.h"
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#include "timestep.h"
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#include "poly.h"
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#include "sh.h"
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#include "shcomplex.h"
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#include "dumpstate.h"
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#include "restore.h"
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#include <fcntl.h>
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/** Entrance function to the program
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* @param argv is a number of parameters used in program call (including the program name
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* @param argc is a pointer to strings (character arrays) which holds the arguments
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* @returns returns 0 on success, any other number on fail.
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*/
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int main(int argv, char *argc[]){
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ts_vesicle *vesicle;
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ts_tape *tape;
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ts_uint start_iteration=0;
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force_from_tape=0;
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/* Area and volume for constant area and constant volume are initialized to be zero */
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A0=0;
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V0=0;
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/* create lock file */
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createPidFile("ts_trisurf",".lock",0);
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parse_args(argv,argc); // sets global variable command_line_args (defined in io.h)
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ts_fprintf(stdout,"TRISURF-NG v. %s, compiled on: %s %s.\n", TS_VERSION, __DATE__, __TIME__);
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ts_fprintf(stdout,"Programming done by: Samo Penic and Miha Fosnaric\n");
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ts_fprintf(stdout,"Released under terms of GPLv3\n");
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ts_fprintf(stdout,"Starting program...\n\n");
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// vesicle = parseDump("timestep_000000.vtu");
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// run_simulation(vesicle, vesicle->tape->mcsweeps, vesicle->tape->inititer, vesicle->tape->iterations, 1);
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if(command_line_args.dump_from_vtk[0]!=0){
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ts_fprintf(stdout,"************************************************\n");
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ts_fprintf(stdout,"**** Restoring vesicle from VTK points list ****\n");
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ts_fprintf(stdout,"************************************************\n\n");
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vesicle = parseDump(command_line_args.dump_from_vtk);
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// write_vertex_xml_file(vesicle,9999); // here you can test if restoration and rewritting results in the same dump file. Only the date od creation of dump file must differ.
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tape = vesicle->tape;
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int arguments_no;
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FILE *fd=fopen(".status","r");
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if(fd!=NULL){
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arguments_no=fscanf(fd,"%u", &start_iteration);
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if(arguments_no==0){
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ts_fprintf(stdout,"No information of start iteration in .status file\n");
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}
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fclose(fd);
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start_iteration++;
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}
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else
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ts_fprintf(stdout,"No .status file. The iteration count will start from 0\n");
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/* Here you should read new tape file, reassign some values in vertex from the tape and assign read tape to vesicle->tape */
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// tape=parsetape(command_line_args.tape_fullfilename);
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// vesicle=vtk2vesicle(command_line_args.dump_from_vtk,tape);
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}
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else if(command_line_args.force_from_tape){
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ts_fprintf(stdout,"************************************************\n");
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ts_fprintf(stdout,"**** Generating initial geometry from tape *****\n");
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ts_fprintf(stdout,"************************************************\n\n");
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tape=parsetape(command_line_args.tape_fullfilename);
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vesicle=create_vesicle_from_tape(tape);
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} else {
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ts_fprintf(stdout,"**********************************************************************\n");
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ts_fprintf(stdout,"**** Recreating vesicle from dump file and continuing simulation *****\n");
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ts_fprintf(stdout,"**********************************************************************\n\n");
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tape=parsetape(command_line_args.tape_fullfilename);
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vesicle=restore_state(&start_iteration);
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if(vesicle==NULL){
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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");
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return 1;
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}
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// nove vrednosti iz tapea...
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vesicle->bending_rigidity=tape->xk0;
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vtx_set_global_values(vesicle);
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vesicle->pswitch =tape->pswitch;
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vesicle->pressure=tape->pressure;
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vesicle->dmax=tape->dmax*tape->dmax;
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poly_assign_filament_xi(vesicle,tape);
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free(vesicle->tape);
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vesicle->tape=tape;
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vesicle->clist->dmin_interspecies = tape->dmin_interspecies*tape->dmin_interspecies;
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/* spherical harmonics */
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if(tape->shc>0){
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vesicle->sphHarmonics=complex_sph_init(vesicle->vlist,tape->shc);
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}
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else {
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vesicle->sphHarmonics=NULL;
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}
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if(command_line_args.reset_iteration_count) start_iteration=tape->inititer;
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else start_iteration++;
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if(start_iteration>=tape->iterations){
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ts_fprintf(stdout, "Simulation already completed. if you want to rerun it try with --force-from-tape or --reset-iteration-count\n\n");
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return 0;
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}
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/* if requested in tape, we can have smaller number of polymeres attached to membrane than the number of polymeres in dump file */
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if(vesicle->tape->npoly != vesicle->poly_list->n){
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ts_fprintf(stdout,"(INFO) the number of polymeres attached to membrane in tape is different than a number of polymeres in dump file!\n");
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if(vesicle->tape->npoly > vesicle->poly_list->n){
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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);
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fatal("Terminating due to increase of number of polymeres",1);
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} else {
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remove_random_polymeres(vesicle->poly_list, vesicle->poly_list->n - vesicle->tape->npoly);
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ts_fprintf(stdout,"(INFO)\n(INFO) The new number of polymeres from tape is %d.\n\n",vesicle->poly_list->n);
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}
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}
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}
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//printf("nucleus coords: %.17e %.17e %.17e\n",vesicle->nucleus_center[0], vesicle->nucleus_center[1], vesicle->nucleus_center[2]);
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// write_vertex_xml_file(vesicle,0);
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// exit(1);
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//write_vertex_xml_file(vesicle,1000);
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run_simulation(vesicle, tape->mcsweeps, tape->inititer, tape->iterations, start_iteration);
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write_master_xml_file(command_line_args.output_fullfilename);
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write_dout_fcompat_file(vesicle,"dout");
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vesicle_free(vesicle);
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tape_free(tape);
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return 0; //program finished perfectly ok. We return 0.
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}
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