Don't hardcode linclustv2 in setLinclustWorkflowDefaults

Author: milot-mirdita

src/commons/Parameters.cpp

@@ -2795,8 +2795,8 @@ void Parameters::setDefaults() {
     includeAdjacency = true;
     adjIteration = 3;
     clustHash = false;
-    linclustVersion = 2;
-    clusterVersion = 1;
+    linclustVersion = LINCLUST_VERSION2;
+    clusterVersion = CLUSTER_VERSION1;
 
     // result2stats
     stat = "";

src/commons/Parameters.h

@@ -100,6 +100,7 @@ class Parameters {
     static const int LINCLUST_VERSION2 = 2;
     static const int CLUSTER_VERSION1 = 1;
     static const int CLUSTER_VERSION2 = 2;
+
     static const int SEARCH_TYPE_AUTO = 0;
     static const int SEARCH_TYPE_PROTEIN = 1;
     static const int SEARCH_TYPE_TRANSLATED = 2;

src/workflow/Linclust.cpp

@@ -16,7 +16,6 @@ void setLinclustWorkflowDefaults(Parameters *p) {
     p->evalThr = 0.001;
     p->seqIdThr = 0.9;
     p->alignmentMode = Parameters::ALIGNMENT_MODE_SCORE_COV_SEQID; // set alignmentmode 3 as a default in linclust2
-    p->linclustVersion = Parameters::LINCLUST_VERSION2;
     p->clustHash = false;
 }