add memory usage for 1 kmer

sources/Results.md

+# Results
+
+## Indexing with k-mers of size 15 
+### Using phage_5kb_10percent.fa
+
+|      |   Time |  Resource usage |  Resource usage (1 k-mer) |
+|---    |:-:    |:-:    |:-:    |
+|   Naive version   |   4 seconds   |   842 Mo |   0.17 Ko |
+|   Robin Hood Hashtable <br/>& K_mer uint64_t   |   FACE WITH TEARS OF JOY  |   ```&#x1F602;``` |   ```&#128514;``` |
+|   Delta encoding   ||||
\ No newline at end of file

sources/index.cpp

@@ -43,6 +43,7 @@ void Index::index_fasta(const string& read_file, int k){
 
     umap hmap;
     uint32_t num_read = 0;
+    uint32_t num_kmers = 0;
     ifstream fichier(read_file, ios::in);
     if(fichier)
         {   
@@ -51,6 +52,7 @@ void Index::index_fasta(const string& read_file, int k){
                 getline(fichier,ligne);
                 if (ligne[0] != '>' && !ligne.empty()){ // ONLY GET SEQUENCES
                     for (long unsigned int i=0; i<=ligne.length()-k; i++){
+                        num_kmers ++;
                         string kmer = ligne.substr(i, k);
                         hmap[kmer].push_back(num_read); // CHECK IF THE KMER IS ALREADY IN THE HASHMAP AND INSERT
                     }
@@ -62,7 +64,7 @@ void Index::index_fasta(const string& read_file, int k){
     else{
         cerr << "Error opening the file." << endl;
     }
-    set_nb_kmers(num_read);
+    set_nb_kmers(num_kmers);
     set_index(hmap);
 }
 

sources/main.cpp

@@ -84,7 +84,9 @@ int main(int argc, char *argv[])
             }
         }
 
-        cout << "Resource usage : " << to_string(getMemorySelfMaxUsed()) << "Ko" << endl;
+        uint64_t memory_used = getMemorySelfMaxUsed();
+        cout << "Resource usage : " << memory_used << "Ko" << endl;
+        cout << "Resource usage (for 1 k-mer) : " << (double)memory_used/index.get_nb_kmers() << "Ko" << endl;
     }
     return 0;
 }