#include <boost/python/register_ptr_to_python.hpp>
using namespace boost::python;
+#include <boost/filesystem/path.hpp>
+namespace fs = boost::filesystem;
+
#include <boost/shared_ptr.hpp>
#include <string>
void export_sequence()
{
+ void (Sequence::*load_fasta_piii)(const fs::path, int, int, int) = &Sequence::load_fasta;
+
class_<Sequence>("Sequence")
.def(init<std::string>())
- .def("__str__", &Sequence::get_sequence, "cast to string")
- .def("__repr__", &Sequence::get_sequence, "display as string")
- .def("size", &Sequence::size, "return the length of the sequence")
.def("__len__", &Sequence::size, "return the length of the sequence")
- .def("clear", &Sequence::clear, "clear the sequence and its annotations")
- .add_property("header", &Sequence::get_fasta_header, &Sequence::set_fasta_header, "the fasta header")
- .add_property("species", &Sequence::get_species, &Sequence::set_species)
+ .def("__repr__", &Sequence::get_sequence, "display as string")
+ .def("__str__", &Sequence::get_sequence, "cast to string")
.def("add_annotation", &Sequence::add_annotation, "append an annotation")
//.def("annotations", &Sequence::annotations, "return list of annotations")
+ .def("add_motif", &Sequence::add_motif, "add a motif sequenence")
+ .def("clear", &Sequence::clear, "clear the sequence and its annotations")
+ .def("empty", &Sequence::empty, "Is the sequence empty")
+ .def("load_fasta", load_fasta_piii, "Load fasta")
+ .add_property("header", &Sequence::get_fasta_header, &Sequence::set_fasta_header, "the fasta header")
.def("rcseq", &Sequence::rev_comp, return_value_policy<return_by_value>())
+ .def("size", &Sequence::size, "return the length of the sequence")
+ .add_property("species", &Sequence::get_species, &Sequence::set_species)
+ .def("subseq", &Sequence::subseq, "return a subsequence")
;
register_ptr_to_python< boost::shared_ptr<Sequence> >();