alg/seq.hpp

   1 #ifndef SEQ_HPP_
   2 #define SEQ_HPP_
   3
   4 #include <string>
   5
   6 #include <boost/serialization/base_object.hpp>
   7 #include <boost/serialization/export.hpp>
   8 #include <boost/serialization/list.hpp>
   9 #include <boost/serialization/nvp.hpp>
  10 #include <boost/serialization/string.hpp>
  11 #include <boost/serialization/shared_ptr.hpp>
  12 #include <boost/serialization/utility.hpp>
  13 #include <boost/serialization/version.hpp>
  14 #include <boost/serialization/vector.hpp>
  15
  16 #include <boost/shared_ptr.hpp>
  17
  18 //! These classes provide for the internal implementation for the Sequence class
  19
  20 /** the only purpose of this class is that the shared_ptr template
  21  * functions need the serialization support to be in-class.
  22  */
  23 class SeqString : public std::string
  24 {
  25 public:
  26   typedef std::string::difference_type difference_type;
  27   typedef std::string::iterator iterator;
  28   typedef std::string::reverse_iterator reverse_iterator;
  29   typedef std::string::const_iterator const_iterator;
  30   typedef std::string::const_reverse_iterator const_reverse_iterator;
  31   typedef std::string::reference reference;
  32   typedef std::string::const_reference const_reference;
  33   typedef std::string::size_type size_type;
  34   typedef std::string::value_type value_type;
  35   static const size_type npos = std::string::npos;
  36
  37   SeqString() : std::string() {};
  38   SeqString(const std::string &s) : std::string(s) {};
  39
  40 private:
  41   friend class boost::serialization::access;
  42   template<class Archive>
  43   void serialize(Archive& ar, const unsigned int /*version*/) {
  44     //ar & BOOST_SERIALIZATION_BASE_OBJECT_NVP(std::string);
  45     ar & boost::serialization::make_nvp("bases",
  46      boost::serialization::base_object<std::string>(*this)
  47     );
  48   }
  49 };
  50 typedef boost::shared_ptr<SeqString> SeqStringRef;
  51
  52 #endif /*SEQ_HPP_*/