Ajout du début d'un script qui permettrai de retirer les motifs qui ne match qu'…

…avec leurs séquence d'origine

+#include <iostream>
+#include <sstream>
+#include <fstream>
+#include "/mnt/c/Users/natha/Documents/IBISC/biorseo2/biorseo/cppsrc/json.hpp"
+#include <typeinfo>
+#include <set>
+#include <algorithm>
+#include <cstdio>
+#include <vector>
+
+using namespace std;
+using json = nlohmann::json;
+
+/*
+That script will remove from the library all the pattern that match ONLY with the sequence from which it comes from.
+*/
+
+vector<string> get_list_pdb_benchmark(const string& benchmark) {
+
+    ifstream bm(benchmark);
+    vector<string> list_pdb;
+    if (bm.is_open()) {
+        string name;
+        string sequence;
+        string structure;
+        string contacts;
+
+        while (getline(bm, name)) {
+            int size = name.size();
+            name = name.substr(5,size-8); 
+            list_pdb.push_back(name);
+
+            getline(bm, sequence);
+            getline(bm, structure);
+            getline(bm, contacts);
+        }
+        bm.close();
+    }
+    return list_pdb;
+}
+
+string trim(string str) {
+    int size = str.size();
+    str = str.substr(1, size-2);
+    return str;
+}
+
+bool find_id_pattern(string& pdb_pattern, const string& benchmark) {
+    vector<string> l = get_list_pdb_benchmark(benchmark);
+    for (string pdb_bm : l) {
+        if (!pdb_bm.compare(pdb_pattern)) {
+            return true;
+        }
+    }
+    return false;
+}
+
+vector<pair<string, string>> find_id(const string& bibli, const string& benchmark) {
+    std::ifstream lib(bibli);
+    json js = json::parse(lib);
+
+    vector<pair<string, string>> association;
+    
+    for (auto it = js.begin(); it != js.end(); ++it) {  
+        string id = it.key();
+        for (auto it2 = js[id].begin(); it2 != js[id].end(); ++it2) { 
+            string field = it2.key();
+            if (!field.compare("pdb")) {
+                int n = js[id][field].size();
+                for (int i = 0; i < n ; i++) {
+                    ostringstream stream;
+                    stream << js[id][field][i];
+                    string pdb = trim(stream.str());
+                    if (find_id_pattern(pdb, benchmark)) {
+                        pair<string, string> p;
+                        p.first = pdb;
+                        p.second = id;
+                        association.push_back(p);
+                    }
+                }
+            }
+        }
+    }
+    
+    lib.close();
+    return association;
+}
+
+int main()
+{
+    string bibli = "/mnt/c/Users/natha/Documents/IBISC/biorseo2/biorseo/data/modules/ISAURE/Motifs_derniere_version/motifs_final.json";
+    string benchmark = "/mnt/c/Users/natha/Documents/IBISC/biorseo2/biorseo/data/modules/ISAURE/Motifs_version_initiale/benchmark.dbn";
+
+    vector<pair<string, string>> association = find_id(bibli, benchmark);
+    /*for (pair<string,string> p : association) {
+        cout << "<" << p.first << ", " << p.second << ">" << endl;
+    }*/
+
+    return 0;
+}
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