11 #include "geneorder.h"
12 #include "modelidentifier.h"
13 #include "genesorter.h"
14 #include "sortaction.h"
15 #include "genealgorithms.h"
18 int main(int argc, char** argv){
20 string ann = "default.ann";
22 bool detectModel = true;
24 //Parse command line arguments
26 while ((opt = getopt(argc, argv, "m:n:h")) != -1) {
29 model = Model::modelFactory(optarg);
36 cout << "Usage: " << argv[0] << " [OPTION] [FILE]" << endl
37 << endl << " -m <model> Specifies which model to use for sorting: Whirl, X, Zipper, FatX or Cloud "
38 << endl << " -n <ann> Specifies which artificial neural network to use for identification. '" << ann << "' is used by default"
39 << endl << " -h Prints this help message"
41 << "With no FILE, or if FILE is '-', stdin will be used"
46 cerr << "Usage: " << argv[0] << " [-n <ann>] [-h] [FILE]" << endl;
54 if (optind == argc || *argv[optind] == '-'){
57 file.open(argv[optind]);
59 cerr << "Could not open file: '" << argv[optind] << "'" << endl;
65 //Parse the gene order permutation
67 copy(istream_iterator<int>(*in), istream_iterator<int>(),
69 GeneOrder go(g.begin(),g.end());
72 ModelIdentifier mi(ann);
73 priority_queue<pair<double,Model> > pq = mi.identify(go);
75 model = pq.top().second;
77 while (pq.size() > 0){
78 cout << "Model: " << pq.top().second.name() << " score: " << pq.top().first << endl;
81 cout << "Using model: " << model.name() << endl;
83 cout << "Distance: " << inversionDistance(go) << endl;
84 //copy(go.begin(), go.end(), ostream_iterator<int>(cout, " "));
89 GeneSorter::ActionList al = so.sort(go,model);
93 for (GeneSorter::ActionList::iterator sa = al.begin(); sa != al.end(); ++sa){
94 cout << "Action: " << sa->toString() << " model score: " << model.score(*sa,go) << endl;
95 score += model.score(*sa,go);
97 cout << "Avg score: " << score / al.size() << endl;