segmentation / netmets

Commit 9e6d89eb998bf0233eded23152c0b91b17cfa8d6

Authored by David Mayerich
1 parent d1ab3c93

minor changes with Jack

Showing 1 changed file with 6 additions and 17 deletions   Show diff stats
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main.cpp
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... ... @@ -210,39 +210,26 @@ void compare(float sigma){
210 210 }
211 211  
212 212 // writes features of the networks i.e average segment length, tortuosity, branching index, contraction, fractal dimension, number of end and branch points to a csv file
213   -void features(){
  213 +// Pranathi wrote this - saves network features to a CSV file
  214 +void features(std::string filename){
214 215 double avgL_t, avgL_gt, avgT_t, avgT_gt, avgB_t, avgB_gt, avgC_t, avgC_gt, avgFD_t, avgFD_gt;
215 216 unsigned int e_t, e_gt, b_gt, b_t;
216 217 avgL_gt = GT.Lengths();
217 218 avgT_gt = GT.Tortuosities();
218   - //std::cout<<avgL_gt<<"---average segment length in the ground truth network"<<std::endl;
219   - //std::cout<<avgT_gt<<"---average segment tortuosity in the ground truth network"<<std::endl;
220 219 avgL_t = T.Lengths();
221 220 avgT_t = T.Tortuosities();
222   - //std::cout<<avgL_t<<"---average segment length in the truth network"<<std::endl;
223   - //std::cout<<avgT_t<<"---average segment tortuosity in the truth network"<<std::endl;
224 221 avgB_gt = GT.BranchingIndex();
225   - //std::cout<<avgB_gt<<"---average branching index in the ground truth"<<std::endl;
226 222 avgB_t = T.BranchingIndex();
227   - //std::cout<<avgB_t<<"---average branching index in the truth case"<<std::endl;
228 223 avgC_gt = GT.Contractions();
229 224 avgFD_gt = GT.FractalDimensions();
230   - //std::cout<<avgC_gt<<"---average segment contraction in the ground truth network"<<std::endl;
231   - //std::cout<<avgFD_gt<<"---average segment fractal dimension in the ground truth network"<<std::endl;
232 225 avgC_t = T.Contractions();
233 226 avgFD_t = T.FractalDimensions();
234   - //std::cout<<avgC_t<<"---average segment contraction in the truth network"<<std::endl;
235   - //std::cout<<avgFD_t<<"---average segment fractal dimension in the truth network"<<std::endl;
236 227 e_gt = GT.EndP();
237   - //std::cout<<e_gt<<"---Number of tips in the ground truth"<<std::endl;
238 228 e_t = T.EndP();
239   - //std::cout<<e_t<<"---Number of tips in the truth case"<<std::endl;
240 229 b_gt = GT.BranchP();
241   - //std::cout<<b_gt<<"---Number of branch points in the ground truth"<<std::endl;
242 230 b_t = T.BranchP();
243   - //std::cout<<b_t<<"---Number of branch points in the truth case"<<std::endl;
244 231 std::ofstream myfile;
245   - myfile.open ("features.csv");
  232 + myfile.open (filename.c_str());
246 233 myfile << "Length, Tortuosity, Contraction, Fractal Dimension, Branch Points, End points, Branching Index, \n";
247 234 myfile << avgL_gt << "," << avgT_gt << "," << avgC_gt << "," << avgFD_gt << "," << b_gt << "," << e_gt << "," << avgB_gt <<std::endl;
248 235 myfile << avgL_t << "," << avgT_t << "," << avgC_t << "," << avgFD_t << "," << b_t << "," << e_t << "," << avgB_t <<std::endl;
... ... @@ -273,6 +260,7 @@ int main(int argc, char* argv[])
273 260 args.add("help", "prints this help");
274 261 args.add("sigma", "force a sigma value to specify the tolerance of the network comparison", "10");
275 262 args.add("gui", "display the network or network comparison using OpenGL");
  263 + args.add("features", "save features to a CSV file, specify file name");
276 264  
277 265 args.parse(argc, argv); //parse the user arguments
278 266  
... ... @@ -292,7 +280,8 @@ int main(int argc, char* argv[])
292 280 num_nets = 2; //set the number of networks to two
293 281 float sigma = args["sigma"].as_float(); //get the sigma value from the user
294 282 T.load_obj(args.arg(1)); //load the second (test) network
295   - features();
  283 + if(args["features"].is_set()) //if the user wants to save features
  284 + features(args["features"].as_string());
296 285 GT = GT.resample(resample_rate * sigma); //resample both networks based on the sigma value
297 286 T = T.resample(resample_rate * sigma);
298 287 compare(sigma); //run the comparison algorithm
... ...