cleaned up old files that don't matter

1 files changed, 0 insertions, 492 deletions

diff --git a/src/voro_fracture.c b/src/voro_fracture.c
deleted file mode 100644
index 237192a..0000000
--- a/src/voro_fracture.c
+++ /dev/null
@@ -1,492 +0,0 @@
-
-
-#include "fracture.h"
-
-int main(int argc, char *argv[]) {
-	int opt;
-
-	// defining variables to be (potentially) set by command line flags
-	uint8_t filename_len;
-	uint32_t N;
-	uint_t L;
-	double beta, inf, cutoff, crack_len;
-	bool save_data, save_cluster_dist, use_voltage_boundaries, use_dual, save_network,
-			 save_crit_stress, save_stress_field, save_voltage_field, save_toughness, save_conductivity,
-			 save_damage, save_damage_field;
-	bound_t boundary;
-
-
-	// assume filenames will be less than 100 characters
-
-	filename_len = 100;
-
-
-	// set default values
-
-	N = 100;
-	L = 16;
-	crack_len = 0.;
-	beta = .3;
-	inf = 1e10;
-	cutoff = 1e-9;
-	boundary = FREE_BOUND;
-	save_data = false;
-	save_cluster_dist = false;
-	use_voltage_boundaries = false;
-	use_dual = false;
-	save_network = false;
-	save_crit_stress = false;
-	save_stress_field = false;
-	save_voltage_field = false;
-	save_damage = false;
-	save_damage_field = false;
-	save_conductivity = false;
-	save_toughness = false;
-
-
-	uint8_t bound_i;
-	char boundc2 = 'f';
-
-
-	// get commandline options
-
-	while ((opt = getopt(argc, argv, "n:L:b:B:dVcoNsCrtDSvel:")) != -1) {
-		switch (opt) {
-			case 'n':
-				N = atoi(optarg);
-				break;
-			case 'L':
-				L = atoi(optarg);
-				break;
-			case 'b':
-				beta = atof(optarg);
-				break;
-			case 'l':
-				crack_len = atof(optarg);
-				break;
-			case 'B':
-				bound_i = atoi(optarg);
-				switch (bound_i) {
-					case 0:
-						boundary = FREE_BOUND;
-						boundc2 = 'f';
-						break;
-					case 1:
-						boundary = CYLINDER_BOUND;
-						boundc2 = 'c';
-						break;
-					case 2:
-						boundary = TORUS_BOUND;
-						use_voltage_boundaries = true;
-						boundc2 = 't';
-						break;
-					case 3:
-						boundary = EMBEDDED_BOUND;
-						boundc2 = 'e';
-						use_dual = true;
-						use_voltage_boundaries = true;
-						break;
-					default:
-						printf("boundary specifier must be 0 (FREE_BOUND), 1 (CYLINDER_BOUND), or 2 (TORUS_BOUND).\n");
-						exit(EXIT_FAILURE);
-				}
-				break;
-			case 'd':
-				save_damage = true;
-				break;
-			case 'e':
-				save_damage_field = true;
-				break;
-			case 'V':
-				use_voltage_boundaries = true;
-				break;
-			case 'D':
-				use_dual = true;
-				break;
-			case 'c':
-				save_cluster_dist = true;
-				break;
-			case 'o':
-				save_data = true;
-				break;
-			case 'N':
-				save_network = true;
-				break;
-			case 's':
-				save_crit_stress = true;
-				break;
-			case 'S':
-				save_stress_field = true;
-				break;
-			case 'v':
-				save_voltage_field = true;
-				break;
-			case 'r':
-				save_conductivity = true;
-				//inf = 1;
-				break;
-			case 't':
-				save_toughness = true;
-				break;
-			default: /* '?' */
-				exit(EXIT_FAILURE);
-		}
-	}
-
-
-	char boundc;
-	if (use_voltage_boundaries) boundc = 'v';
-	else boundc = 'c';
-
-	FILE *data_out;
-	if (save_data) {
-		char *data_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(data_filename, filename_len, "data_v_%c_%c_%u_%g_%g.txt", boundc, boundc2, L, beta, crack_len);
-		data_out = fopen(data_filename, "a");
-		free(data_filename);
-	}
-
-	uint_t voronoi_max_verts, c_dist_size, a_dist_size;
-
-	voronoi_max_verts = 4 * pow(L, 2);
-	c_dist_size = voronoi_max_verts;
-	a_dist_size = voronoi_max_verts;
-
-	if (voronoi_max_verts > CINT_MAX) {
-		exit(EXIT_FAILURE);
-	}
-
-	// define arrays for saving cluster and avalanche distributions
-	uint32_t *cluster_size_dist;
-	uint32_t *avalanche_size_dist;
-	char *c_filename;
-	char *a_filename;
-	if (save_cluster_dist) {
-		cluster_size_dist =
-				(uint32_t *)malloc(c_dist_size * sizeof(uint32_t));
-		avalanche_size_dist =
-				(uint32_t *)malloc(a_dist_size * sizeof(uint32_t));
-
-		c_filename = (char *)malloc(filename_len * sizeof(char));
-		a_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(c_filename, filename_len, "cstr_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		snprintf(a_filename, filename_len, "avln_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-
-		FILE *cluster_out = fopen(c_filename, "rb");
-		FILE *avalanche_out = fopen(a_filename, "rb");
-
-		if (cluster_out != NULL) {
-			fread(cluster_size_dist, sizeof(uint32_t), c_dist_size, cluster_out);
-			fclose(cluster_out);
-		}
-		if (avalanche_out != NULL) {
-			fread(avalanche_size_dist, sizeof(uint32_t), a_dist_size, avalanche_out);
-			fclose(avalanche_out);
-		}
-	}
-
-	double *crit_stress;
-	if (save_crit_stress) {
-		crit_stress = (double *)malloc(N * sizeof(double));
-	}
-
-	double *stress_field;
-	unsigned int stress_pos = 0;
-	if (save_stress_field) {
-		stress_field = (double *)malloc(3 * N * voronoi_max_verts * sizeof(double));
-	}
-
-	double *voltage_field;
-	unsigned int voltage_pos = 0;
-	if (save_voltage_field) {
-		voltage_field = (double *)malloc(3 * N * voronoi_max_verts * sizeof(double));
-	}
-
-	double *damage_field;
-	unsigned int damage_pos = 0;
-	if (save_damage_field) {
-		damage_field = (double *)malloc(2 * N * voronoi_max_verts * sizeof(double));
-	}
-
-	double *conductivity;
-	if (save_conductivity) {
-		conductivity = (double *)malloc(N * sizeof(double));
-	}
-
-	// define arrays for saving damage distributions
-	uint32_t *damage;
-	char *d_filename;
-	if (save_damage) {
-		damage =
-				(uint32_t *)malloc(a_dist_size * sizeof(uint32_t));
-
-		d_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(d_filename, filename_len, "damg_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-
-		FILE *damage_out = fopen(d_filename, "rb");
-
-		if (damage_out != NULL) {
-			fread(damage, sizeof(uint32_t), a_dist_size, damage_out);
-			fclose(damage_out);
-		}
-	}
-
-	double *toughness;
-	if (save_toughness) {
-		toughness = (double *)malloc(N * sizeof(double));
-	}
-
-
-	// start cholmod
-	cholmod_common c;
-	CHOL_F(start)(&c);
-
-	/* if we use voltage boundary conditions, the laplacian matrix is positive
-	 * definite and we can use a supernodal LL decomposition.  otherwise we need
-	 * to use the simplicial LDL decomposition
-	 */
-	if (use_voltage_boundaries) {
-		//(&c)->supernodal = CHOLMOD_SUPERNODAL;
-		(&c)->supernodal = CHOLMOD_SIMPLICIAL;
-	} else {
-		(&c)->supernodal = CHOLMOD_SIMPLICIAL;
-	}
-
-
-	printf("\n");
-	for (uint32_t i = 0; i < N; i++) {
-		printf("\033[F\033[JFRACTURE: %0*d / %d\n", (uint8_t)log10(N) + 1, i + 1, N);
-
-		graph_t *g = ini_voro_graph(L, boundary, use_dual, genfunc_hyperuniform, &c);
-		net_t *net = net_create(g, inf, beta, crack_len, use_voltage_boundaries, &c);
-		net_t *tmp_net = net_copy(net, &c);
-		data_t *data = net_fracture(tmp_net, &c, cutoff);
-		net_free(tmp_net, &c);
-
-		uint_t max_pos = 0;
-		double max_val = 0;
-
-		for (uint_t j = 0; j < data->num_broken; j++) {
-			double val = data->extern_field[j];
-
-			if (val > max_val) {
-				max_pos = j;
-				max_val = val;
-			}
-		}
-
-		if (save_crit_stress) crit_stress[i] = data->extern_field[max_pos];
-
-		if (save_conductivity) conductivity[i] = data->conductivity[max_pos];
-
-		if (save_damage) damage[max_pos]++;
-
-		uint_t av_size = 0;
-		double cur_val = 0;
-		for (uint_t j = 0; j < max_pos; j++) {
-			break_edge(net, data->break_list[j], &c);
-
-			double val = data->extern_field[j];
-			if (save_cluster_dist) {
-				if (val < cur_val) {
-					av_size++;
-				}
-
-				if (val > cur_val) {
-					avalanche_size_dist[av_size]++;
-					av_size = 0;
-					cur_val = val;
-				}
-			}
-		}
-
-		if (save_stress_field || save_voltage_field) {
-			double *tmp_voltages = get_voltage(net, &c);
-			if (save_voltage_field) {
-				for (uint_t j = 0; j < g->nv; j++) {
-					voltage_field[3 * voltage_pos] = g->vx[2 * j];
-					voltage_field[3 * voltage_pos + 1] = g->vx[2 * j + 1];
-					voltage_field[3 * voltage_pos + 2] = tmp_voltages[j];
-					voltage_pos++;
-				}
-			}
-			if (save_stress_field) {
-				double *tmp_currents = get_current_v(net, tmp_voltages, &c);
-				for (uint_t j = 0; j < g->ne; j++) {
-					stress_field[3 * stress_pos] = g->ex[2 * j];
-					stress_field[3 * stress_pos + 1] = g->ex[2 * j + 1];
-					stress_field[3 * stress_pos + 2] = tmp_currents[j];
-					stress_pos++;
-				}
-				free(tmp_currents);
-			}
-			free(tmp_voltages);
-		}
-
-		if (save_damage_field) {
-			for (uint_t j = 0; j < max_pos; j++) {
-				damage_field[2 * damage_pos] = g->ex[2 * data->break_list[j]];
-				damage_field[2 * damage_pos + 1] = g->ex[2 * data->break_list[j] + 1];
-				damage_pos++;
-			}
-		}
-
-		if (save_toughness) {
-			double tmp_toughness = 0;
-			if (max_pos > 0) {
-				double sigma1 = data->extern_field[0];
-				double epsilon1 = sigma1 / data->conductivity[0];
-				for (uint_t j = 0; j < max_pos - 1; j++) {
-					double sigma2 = data->extern_field[j+1];
-					double epsilon2 = sigma2 / data->conductivity[j+1];
-					if (epsilon2 > epsilon1) {
-						tmp_toughness += (sigma1 + sigma2) * (epsilon2 - epsilon1) / 2;
-						sigma1 = sigma2; epsilon1 = epsilon2;
-					}
-				}
-			}
-			toughness[i] = tmp_toughness;
-		}
-
-		if (save_cluster_dist) {
-			uint_t *tmp_cluster_dist = get_cluster_dist(net, &c);
-			for (uint_t j = 0; j < g->dnv; j++) {
-				cluster_size_dist[j] += tmp_cluster_dist[j];
-			}
-			free(tmp_cluster_dist);
-		}
-
-		if (save_network) {
-			FILE *net_out = fopen("network.txt", "w");
-			for (uint_t j = 0; j < g->nv; j++) {
-				fprintf(net_out, "%f %f ", g->vx[2 * j],
-						g->vx[2 * j + 1]);
-			}
-			fprintf(net_out, "\n");
-			for (uint_t j = 0; j < g->ne; j++) {
-				fprintf(net_out, "%u %u ", g->ev[2 * j], g->ev[2 * j + 1]);
-			}
-			fprintf(net_out, "\n");
-			for (uint_t j = 0; j < g->dnv; j++) {
-				fprintf(net_out, "%f %f ", g->dvx[2 * j],
-						g->dvx[2 * j + 1]);
-			}
-			fprintf(net_out, "\n");
-			for (uint_t j = 0; j < g->ne; j++) {
-				fprintf(net_out, "%u %u ", g->dev[2 * j], g->dev[2 * j + 1]);
-			}
-			fprintf(net_out, "\n");
-			for (uint_t j = 0; j < g->ne; j++) {
-				fprintf(net_out, "%d ", net->fuses[j]);
-			}
-			fclose(net_out);
-		}
-
-		net_free(net, &c);
-		graph_free(g, &c);
-
-		if (save_data) {
-			for (uint_t j = 0; j < data->num_broken; j++) {
-				fprintf(data_out, "%u %g %g ", data->break_list[j],
-								data->extern_field[j], data->conductivity[j]);
-			}
-			fprintf(data_out, "\n");
-		}
-
-		free_break_data(data);
-	}
-
-	printf("\033[F\033[JFRACTURE: COMPLETE\n");
-
-	if (save_cluster_dist) {
-		FILE *cluster_out = fopen(c_filename, "wb");
-		FILE *avalanche_out = fopen(a_filename, "wb");
-
-		fwrite(cluster_size_dist, sizeof(uint32_t), c_dist_size, cluster_out);
-		fwrite(avalanche_size_dist, sizeof(uint32_t), a_dist_size, avalanche_out);
-
-		fclose(cluster_out);
-		fclose(avalanche_out);
-
-		free(c_filename);
-		free(a_filename);
-		free(cluster_size_dist);
-		free(avalanche_size_dist);
-	}
-
-	if (save_voltage_field) {
-		char *vfld_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(vfld_filename, filename_len, "vfld_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *vfld_file = fopen(vfld_filename, "ab");
-		fwrite(voltage_field, sizeof(double), 3 * voltage_pos, vfld_file);
-		fclose(vfld_file);
-		free(vfld_filename);
-		free(voltage_field);
-	}
-
-	if (save_stress_field) {
-		char *cfld_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(cfld_filename, filename_len, "cfld_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *cfld_file = fopen(cfld_filename, "ab");
-		fwrite(stress_field, sizeof(double), 3 * stress_pos, cfld_file);
-		fclose(cfld_file);
-		free(cfld_filename);
-		free(stress_field);
-	}
-
-	if (save_damage_field) {
-		char *dfld_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(dfld_filename, filename_len, "dfld_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *dfld_file = fopen(dfld_filename, "ab");
-		fwrite(damage_field, sizeof(double), 2 * damage_pos, dfld_file);
-		fclose(dfld_file);
-		free(dfld_filename);
-		free(damage_field);
-	}
-
-	if (save_conductivity) {
-		char *cond_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(cond_filename, filename_len, "cond_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *cond_file = fopen(cond_filename, "ab");
-		fwrite(conductivity, sizeof(double), N, cond_file);
-		fclose(cond_file);
-		free(cond_filename);
-		free(conductivity);
-	}
-
-	if (save_toughness) {
-		char *tough_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(tough_filename, filename_len, "tuff_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *tough_file = fopen(tough_filename, "ab");
-		fwrite(toughness, sizeof(double), N, tough_file);
-		fclose(tough_file);
-		free(tough_filename);
-		free(toughness);
-	}
-
-	if (save_damage) {
-		FILE *hdam_file = fopen(d_filename, "wb");
-		fwrite(damage, sizeof(uint32_t), a_dist_size, hdam_file);
-		fclose(hdam_file);
-		free(d_filename);
-		free(damage);
-	}
-
-	if (save_data) {
-		fclose(data_out);
-	}
-
-	if (save_crit_stress) {
-		char *str_filename = (char *)malloc(filename_len * sizeof(char));
-		snprintf(str_filename, filename_len, "strs_v_%c_%c_%d_%g_%g.dat", boundc, boundc2, L, beta, crack_len);
-		FILE *str_file = fopen(str_filename, "ab");
-		fwrite(crit_stress, sizeof(double), N, str_file);
-		fclose(str_file);
-		free(str_filename);
-		free(crit_stress);
-	}
-
-	CHOL_F(finish)(&c);
-
-	return 0;
-}