chose a more explicit name for max cms size class member

src/CountMinSketch.hpp

@@ -24,7 +24,7 @@ typedef struct {
     int lambda;
     int kappa;
     int kappa_prime;
-    int filter_size; // max amount of RAM wanted for the CMS.
+    int max_filter_size; // max amount of RAM wanted for the CMS.
     int filter_PE_separately; // indicates whether PE reads must be treated as single by the cms. Indeed it may appear that 1 end contains useful k-mer but that other end contains k-mer such that "global" median is below threshold.
                              // In this case, read is rejected by the CMS (default behavior). We want to do an experimentation to see if keeping such reads wold lead to better results in assembling.
                                 // Values can be 0 (process PE as single),1 (process PE separately with strict implementation for kappa_prime) or 2 (process PE separately with lenient implementation for kappa prime).

src/ROCKparams.h

@@ -60,6 +60,7 @@ class ROCKparams{
     vector<PE_files> v_PE_files;
     int f_id;
     unsigned long cms_size;
+    //unsigned long total_machine_RAM;
     float expected_collision_proba;
 
 
@@ -109,14 +110,17 @@ public:
         cms_size=0;
         expected_collision_proba=0.0; //! collision probability that is computed at the beginning of ROCK from the expected number of distinct k-mers provided by the user.
         //min_correct_k_mers_in_read=0;
-        parms.filter_size=getNodePhysMemory()/100.0*90-defaultGRPMAXSize; // Prefer not to use all the machine's memory
-        if (parms.filter_size==0) throw EXIT_FAILURE;
+        //total_machine_RAM=getNodePhysMemory();
+        parms.max_filter_size=getNodePhysMemory()/100.0*90-defaultGRPMAXSize; // Prefer not to use all the machine's memory
+        if (parms.max_filter_size==0) throw EXIT_FAILURE;
     }
 
 
 
     void initFromMainOptsArgs(int argc,char ** argv);
 
+
+
     CMSparams getCMSparams() const {
         return parms;
     }