| commit | author | age | ||
| 7f6076 | 1 | /* vim: set ts=4 sts=4 sw=4 noet : */ |
| d7639a | 2 | #include<stdio.h> |
| SP | 3 | #include<math.h> |
| 2b14da | 4 | #include<stdlib.h> |
| d7639a | 5 | #include "general.h" |
| SP | 6 | #include "vertex.h" |
| a10dd5 | 7 | #include "bond.h" |
| a2a676 | 8 | #include "triangle.h" |
| bb77ca | 9 | #include "cell.h" |
| 7958e9 | 10 | #include "vesicle.h" |
| a6b1b5 | 11 | #include "io.h" |
| 7958e9 | 12 | #include "initial_distribution.h" |
| dac2e5 | 13 | #include "frame.h" |
| aec47d | 14 | #include "timestep.h" |
| 8db569 | 15 | #include "poly.h" |
| dc77e8 | 16 | #include "sh.h" |
| 459ff9 | 17 | #include "shcomplex.h" |
| ee84bd | 18 | #include "dumpstate.h" |
| 8c1bb1 | 19 | #include "restore.h" |
| eb7d7e | 20 | #include "plugins.h" |
| 6e42ef | 21 | #include <fcntl.h> |
| d7639a | 22 | /** Entrance function to the program |
| SP | 23 | * @param argv is a number of parameters used in program call (including the program name |
| 24 | * @param argc is a pointer to strings (character arrays) which holds the arguments | |
| 25 | * @returns returns 0 on success, any other number on fail. | |
| 26 | */ | |
| eb7d7e | 27 | #include <string.h> |
| d7639a | 28 | int main(int argv, char *argc[]){ |
| eb7d7e | 29 | ts_char *plugin0 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 51b4f0 | 30 | ts_char *plugin1 = (ts_char *)calloc(255,sizeof(ts_char)); |
| b5cd8c | 31 | ts_char *plugin2 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 36dba8 | 32 | ts_char *plugin3 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 77a2c7 | 33 | ts_char *plugin4 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 5e08f2 | 34 | ts_char *plugin5 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 4df6ed | 35 | ts_char *plugin6 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 2c4278 | 36 | ts_char *plugin7 = (ts_char *)calloc(255,sizeof(ts_char)); |
| 74bf1e | 37 | strcpy(plugin0,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/demoplugin.so"); |
| 51b4f0 | 38 | strcpy(plugin1,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/vmdefaulthardconstraints.so"); |
| b5cd8c | 39 | strcpy(plugin2,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/plane_confinement.so"); |
| 36dba8 | 40 | strcpy(plugin3,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/pressure.so"); |
| 77a2c7 | 41 | strcpy(plugin4,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/constant_volume.so"); |
| 5e08f2 | 42 | strcpy(plugin5,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/constant_area.so"); |
| 4df6ed | 43 | strcpy(plugin6,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/stretching_energy.so"); |
| 2c4278 | 44 | strcpy(plugin7,"/home/samo/programiranje/trisurf-ng/src/plugins/.libs/direct_force_on_c0.so"); |
| SP | 45 | ts_char **plugins=(ts_char **)calloc(8,sizeof(ts_char *)); |
| 77a2c7 | 46 | plugins[0]=plugin0; |
| 51b4f0 | 47 | plugins[1]=plugin1; |
| b5cd8c | 48 | plugins[2]=plugin2; |
| 36dba8 | 49 | plugins[3]=plugin3; |
| 77a2c7 | 50 | plugins[4]=plugin4; |
| 5e08f2 | 51 | plugins[5]=plugin5; |
| 4df6ed | 52 | plugins[6]=plugin6; |
| 2c4278 | 53 | plugins[7]=plugin7; |
| SP | 54 | ts_plugin_list *plist=init_plugin_list(plugins,8); |
| ca9f26 | 55 | //printf("%s", plist->chain->at_start->next->plugin->filename); |
| SP | 56 | //ts_fprintf(stdout, "TRISURF in PRVI PLUGIN %s\n", plist->plugin[0]->details->name); |
| 1ab449 | 57 | ts_vesicle *vesicle; |
| SP | 58 | ts_tape *tape; |
| 8a6614 | 59 | ts_uint start_iteration=0; |
| 152052 | 60 | force_from_tape=0; |
| fab2ad | 61 | /* Area and volume for constant area and constant volume are initialized to be zero */ |
| SP | 62 | A0=0; |
| 63 | V0=0; | |
| 6e42ef | 64 | /* create lock file */ |
| SP | 65 | createPidFile("ts_trisurf",".lock",0); |
| 8a6614 | 66 | parse_args(argv,argc); // sets global variable command_line_args (defined in io.h) |
| 7f6076 | 67 | ts_fprintf(stdout,"TRISURF-NG v. %s, compiled on: %s %s.\n", TS_VERSION, __DATE__, __TIME__); |
| SP | 68 | ts_fprintf(stdout,"Programming done by: Samo Penic and Miha Fosnaric\n"); |
| 69 | ts_fprintf(stdout,"Released under terms of GPLv3\n"); | |
| 8a6614 | 70 | ts_fprintf(stdout,"Starting program...\n\n"); |
| 51b4f0 | 71 | |
| SP | 72 | /* Entry point for plugin function at_start() */ |
| ca9f26 | 73 | ts_plugin_chain *ptr=plist->chain->at_start; |
| SP | 74 | while(ptr!=NULL){ |
| 75 | ptr->plugin->function->at_start(argv,argc); | |
| 76 | ptr=ptr->next; | |
| 51b4f0 | 77 | } |
| ab798b | 78 | |
| ee84bd | 79 | if(command_line_args.dump_from_vtk[0]!=0){ |
| SP | 80 | ts_fprintf(stdout,"************************************************\n"); |
| 57f830 | 81 | ts_fprintf(stdout,"**** Restoring vesicle from VTK points list ****\n"); |
| ee84bd | 82 | ts_fprintf(stdout,"************************************************\n\n"); |
| ab798b | 83 | vesicle = parseDump(command_line_args.dump_from_vtk); |
| SP | 84 | tape = vesicle->tape; |
| bb2074 | 85 | int arguments_no; |
| 3d0247 | 86 | FILE *fd=fopen(".status","r"); |
| SP | 87 | if(fd!=NULL){ |
| bb2074 | 88 | arguments_no=fscanf(fd,"%u", &start_iteration); |
| SP | 89 | if(arguments_no==0){ |
| a17e91 | 90 | ts_fprintf(stdout,"No information of start iteration in .status file\n"); |
| bb2074 | 91 | } |
| 3d0247 | 92 | fclose(fd); |
| a17e91 | 93 | start_iteration++; |
| 3d0247 | 94 | } |
| bb2074 | 95 | else |
| a17e91 | 96 | ts_fprintf(stdout,"No .status file. The iteration count will start from 0\n"); |
| ee84bd | 97 | } |
| SP | 98 | else if(command_line_args.force_from_tape){ |
| 8a6614 | 99 | ts_fprintf(stdout,"************************************************\n"); |
| SP | 100 | ts_fprintf(stdout,"**** Generating initial geometry from tape *****\n"); |
| 101 | ts_fprintf(stdout,"************************************************\n\n"); | |
| 267db5 | 102 | tape=parsetape(command_line_args.tape_fullfilename); |
| 8a6614 | 103 | vesicle=create_vesicle_from_tape(tape); |
| SP | 104 | } else { |
| 083e03 | 105 | |
| 8a6614 | 106 | ts_fprintf(stdout,"**********************************************************************\n"); |
| SP | 107 | ts_fprintf(stdout,"**** Recreating vesicle from dump file and continuing simulation *****\n"); |
| 108 | ts_fprintf(stdout,"**********************************************************************\n\n"); | |
| 267db5 | 109 | tape=parsetape(command_line_args.tape_fullfilename); |
| 8a6614 | 110 | vesicle=restore_state(&start_iteration); |
| 3f5c83 | 111 | if(vesicle==NULL){ |
| SP | 112 | 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"); |
| 113 | return 1; | |
| 114 | } | |
| 152052 | 115 | // nove vrednosti iz tapea... |
| d9cb01 | 116 | vesicle->bending_rigidity=tape->xk0; |
| M | 117 | vtx_set_global_values(vesicle); |
| bc9583 | 118 | vesicle->pswitch =tape->pswitch; |
| 152052 | 119 | vesicle->pressure=tape->pressure; |
| 2dcc65 | 120 | vesicle->dmax=tape->dmax*tape->dmax; |
| bcf455 | 121 | poly_assign_filament_xi(vesicle,tape); |
| 2b14da | 122 | free(vesicle->tape); |
| 9166cb | 123 | vesicle->tape=tape; |
| ea1cce | 124 | vesicle->clist->dmin_interspecies = tape->dmin_interspecies*tape->dmin_interspecies; |
| 47a7ac | 125 | |
| SP | 126 | |
| 127 | ||
| 632960 | 128 | /* spherical harmonics */ |
| SP | 129 | if(tape->shc>0){ |
| 459ff9 | 130 | vesicle->sphHarmonics=complex_sph_init(vesicle->vlist,tape->shc); |
| 632960 | 131 | } |
| SP | 132 | else { |
| 133 | vesicle->sphHarmonics=NULL; | |
| 134 | } | |
| d9cb01 | 135 | |
| 144784 | 136 | if(command_line_args.reset_iteration_count) start_iteration=tape->inititer; |
| 8a6614 | 137 | else start_iteration++; |
| 083e03 | 138 | |
| 8a6614 | 139 | if(start_iteration>=tape->iterations){ |
| SP | 140 | ts_fprintf(stdout, "Simulation already completed. if you want to rerun it try with --force-from-tape or --reset-iteration-count\n\n"); |
| 141 | return 0; | |
| 142 | } | |
| a752b5 | 143 | |
| SP | 144 | /* if requested in tape, we can have smaller number of polymeres attached to membrane than the number of polymeres in dump file */ |
| 145 | if(vesicle->tape->npoly != vesicle->poly_list->n){ | |
| 146 | ||
| 147 | ts_fprintf(stdout,"(INFO) the number of polymeres attached to membrane in tape is different than a number of polymeres in dump file!\n"); | |
| 148 | if(vesicle->tape->npoly > vesicle->poly_list->n){ | |
| 149 | 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); | |
| 150 | fatal("Terminating due to increase of number of polymeres",1); | |
| 151 | } else { | |
| 152 | remove_random_polymeres(vesicle->poly_list, vesicle->poly_list->n - vesicle->tape->npoly); | |
| 153 | ts_fprintf(stdout,"(INFO)\n(INFO) The new number of polymeres from tape is %d.\n\n",vesicle->poly_list->n); | |
| 154 | ||
| 155 | } | |
| 156 | } | |
| 8a6614 | 157 | } |
| SP | 158 | |
| 51b4f0 | 159 | vesicle->plist=plist; |
| SP | 160 | /* Entry point for plugin after_vesicle_init() function */ |
| 77a2c7 | 161 | vesicle->plist->pointer=vesicle->plist->chain->after_vesicle_init; |
| SP | 162 | while(vesicle->plist->pointer!=NULL){ |
| 163 | vesicle=vesicle->plist->pointer->plugin->function->after_vesicle_init(vesicle); | |
| 164 | vesicle->plist->pointer=vesicle->plist->pointer->next; | |
| 51b4f0 | 165 | } |
| ca9f26 | 166 | |
| 8a6614 | 167 | run_simulation(vesicle, tape->mcsweeps, tape->inititer, tape->iterations, start_iteration); |
| 267db5 | 168 | write_master_xml_file(command_line_args.output_fullfilename); |
| 8a6614 | 169 | write_dout_fcompat_file(vesicle,"dout"); |
| ca9f26 | 170 | /* Entry point for plugin cleanup() function */ |
| SP | 171 | ptr=plist->chain->cleanup; |
| 172 | while(ptr!=NULL){ | |
| 173 | ptr->plugin->function->cleanup(); | |
| 174 | ptr=ptr->next; | |
| 175 | } | |
| 176 | ||
| 177 | ||
| 8a6614 | 178 | vesicle_free(vesicle); |
| SP | 179 | tape_free(tape); |
| 180 | return 0; //program finished perfectly ok. We return 0. | |
| d7639a | 181 | } |
