Add virtual destructors

Author: Itolstoganov

src/common/auxiliary_graphs/contracted_graph/contracted_graph_helper.hpp

@@ -15,13 +15,8 @@ class ContractedGraphFactoryHelper {
  public:
     typedef debruijn_graph::VertexId VertexId;
     typedef debruijn_graph::Graph Graph;
-
-    explicit ContractedGraphFactoryHelper(const debruijn_graph::Graph &g) : g_(g) {}
-
+    
     std::shared_ptr<ContractedGraph> ExtractContractedSubgraph(const ContractedGraph &other,
                                                                const std::unordered_set<VertexId> &vertices) const;
-
-  private:
-    const Graph& g_;
 };
 }

src/common/auxiliary_graphs/scaffold_graph/scaffold_vertex_index.hpp

@@ -68,6 +68,8 @@ class ScaffoldVertexIndexInfoExtractor {
 public:
     typedef typename scaffold_graph::ScaffoldVertex ScaffoldVertex;
 
+    virtual ~ScaffoldVertexIndexInfoExtractor() = default;
+
 public:
     virtual size_t GetHeadSize(const ScaffoldVertex &vertex) const = 0;
     virtual size_t GetTailSize(const ScaffoldVertex &vertex) const = 0;

src/common/auxiliary_graphs/scaffold_graph/scaffold_vertex_index_builder.hpp

@@ -15,11 +15,13 @@ namespace barcode_index {
     template <class EdgeEntryT>
     class AbstractScaffoldVertexEntryExtractor {
      public:
+        virtual ~AbstractScaffoldVertexEntryExtractor() = default;
         virtual EdgeEntryT ExtractEntry(const scaffold_graph::ScaffoldVertex &vertex) const = 0;
     };
 
     class TailThresholdGetter {
      public:
+        virtual ~TailThresholdGetter() = default;
         virtual size_t GetTailThreshold(const scaffold_graph::ScaffoldVertex &vertex) const = 0;
     };
 
@@ -213,7 +215,6 @@ namespace barcode_index {
                                                      const ContainerT& vertex_container, size_t count_threshold,
                                                      size_t max_threads) {
             const size_t length_threshold = 1000;
-            const size_t linkage_distance = 10;
             const double EDGE_LENGTH_FRACTION = 0.5;
             auto threshold_getter = std::make_shared<barcode_index::FractionTailThresholdGetter>(g, EDGE_LENGTH_FRACTION);
             auto split_scaffold_vertex_index = ConstructScaffoldVertexIndex(g, extractor,

src/common/barcode_index/barcode_info_extractor.hpp

@@ -32,6 +32,8 @@ namespace barcode_index {
         BarcodeIndexInfoExtractor(const BarcodeIndexT &index, const Graph &g) :
                 index_(index), g_(g) {}
 
+        virtual ~BarcodeIndexInfoExtractor() = default;
+
         /**
          *
          * @param edge

src/common/modules/path_extend/scaffolder2015/scaffold_graph_constructor.hpp

@@ -31,6 +31,7 @@ class ScaffoldGraphConstructor {
 public:
     typedef scaffold_graph::ScaffoldGraph ScaffoldGraph;
 
+    virtual ~ScaffoldGraphConstructor() = default;
     virtual std::shared_ptr<ScaffoldGraph> Construct() = 0;
 };