Segmentation

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struct SegmentationParams ;

  struct SegmentationParams {
    //// default constructor
    SegmentationParams() : low_patch_thr(10.0), high_patch_thr(20.0), prune_thr(1.5), hotSpotFilter(0) {
      patches[0]=1;
      patches[1]=0;
      patches[2]=1;
    }
    //// read from parameter file
    bool add(const string str) {
      if(sscanf(str.c_str(), "%f %f %f %hd %hd %hd %hd", &low_patch_thr, &high_patch_thr,
		&prune_thr, &patches[0], &patches[1], &patches[2], &hotSpotFilter) != 7)
	return false;
      return true;
    }
////
    float low_patch_thr;
////
    float high_patch_thr;
////
    float prune_thr;
////
    short patches[3];
////
    short hotSpotFilter;
  };

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typedef vector< leda_node> Component;

  typedef vector< leda_node> Component;

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typedef vector< Component> Components;

  typedef vector< Component> Components;

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Segmentation(Net& net, NodeType nType);

  Segmentation(Net& net, NodeType nType);

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const SurfacePatches& getPatches() const ;

  const SurfacePatches& getPatches() const                     
;

Function is currently defined inline.

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void runAllSegmentationSteps(const SegmentationParams& segParams);

  void runAllSegmentationSteps(const SegmentationParams& segParams);

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int buildSegmentationNet();

  int buildSegmentationNet();

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int computeComponents(const SegmentationParams& segmentationParams);

  int computeComponents(const SegmentationParams& segmentationParams);

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void output2PDB(const char* type, ofstream& outputFile, bool interface );

  void output2PDB(const char* type, ofstream& outputFile, bool interface = false);

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void computeInterfaceComponents();

  void computeInterfaceComponents();

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void computeComponentsProperties();

  void computeComponentsProperties();

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void computeComponentsPropensities(const ChemMolecule& mol, FilterType filter);

  void computeComponentsPropensities(const ChemMolecule& mol, FilterType filter);

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void prunePatches(float thr);

  void prunePatches(float thr);

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void outputComponentsProperties(ostream& out, const ChemMolecule& mol);

  void outputComponentsProperties(ostream& out, const ChemMolecule& mol);

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