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move strand into seqspan
[mussa.git]
/
alg
/
motif_parser.cpp
diff --git
a/alg/motif_parser.cpp
b/alg/motif_parser.cpp
index c59c2873e160d697ab46d2b08510d1d985f905cf..5ba355028f5fc699c23d991bde0a9caf706bef8b 100644
(file)
--- a/
alg/motif_parser.cpp
+++ b/
alg/motif_parser.cpp
@@
-57,7
+57,7
@@
void motif_parser::push_motif::operator()(
Iterator end) const
{
float red, green, blue, alpha;
Iterator end) const
{
float red, green, blue, alpha;
- Sequence seq(parsed->sequence,
nucleic_alphabet
);
+ Sequence seq(parsed->sequence,
dna_alphabet, SeqSpan::PlusStrand
);
seq.set_fasta_header(parsed->name);
alpha = 1.0;
seq.set_fasta_header(parsed->name);
alpha = 1.0;
@@
-94,7
+94,7
@@
motif_parser::ParsedMotifs::ParsedMotifs(
void motif_parser::ParsedMotifs::parse(const std::string &data)
{
void motif_parser::ParsedMotifs::parse(const std::string &data)
{
- const char *alphabet = Alphabet::
nucleic
_cstr;
+ const char *alphabet = Alphabet::
dna
_cstr;
// parse our string
spirit::parse_info<std::string::const_iterator> result;
// parse our string
spirit::parse_info<std::string::const_iterator> result;