py/mussa.cpp

   1 #include <boost/python.hpp>
   2
   3 using namespace boost::python;
   4
   5 #include "alg/mussa.hpp"
   6
   7 void export_mussa()
   8 {
   9   //BOOST_PYTHON_MEMBER_FUNCTION_OVERLOADS(mussa_analyze_overloads,
  10   //                                       &Mussa::analyze, 0, 4);
  11
  12   class_<Mussa>("Mussa")
  13     .def("save", &Mussa::save)
  14     .def("load", &Mussa::load, "Load previous run analysis")
  15     .def("load_mupa", &Mussa::load_mupa_file, "Load mussa parameter file")
  16     .def("clear", &Mussa::clear, "Clear the current analysis")
  17     .add_property("name", &Mussa::get_name, &Mussa::set_name)
  18     .def("size", &Mussa::size, "Number of sequences to be used "
  19                                "in this analysis")
  20     .add_property("window", &Mussa::get_window, &Mussa::set_window,
  21                   "the number of base pairs in the sliding window")
  22     .add_property("threshold", &Mussa::get_threshold, &Mussa::set_threshold,
  23                   "how many base pairs must match between two windows")
  24     .def("softThreshold", &Mussa::set_soft_thres)
  25     .add_property("analysisMode", &Mussa::get_analysis_mode,
  26                                    &Mussa::set_analysis_mode)
  27     .add_property("analysisModeName", &Mussa::get_analysis_mode_name)
  28     .def("analyze", &Mussa::analyze, "Run the analysis")
  29     .def("paths", &Mussa::paths, return_internal_reference<>())
  30     //.def("sequences", &Mussa::sequences)
  31     .def("addSequence", &Mussa::add_a_seq)  ;
  32
  33   enum_<Mussa::analysis_modes>("analysis_modes")
  34     .value("TransitiveNway", Mussa::TransitiveNway )
  35     .value("RadialNway", Mussa::RadialNway )
  36     .value("EntropyNway", Mussa::EntropyNway )
  37     .value("RecursiveNway", Mussa::RecursiveNway )
  38   ;
  39 }