Sha256: 72ca2e0af5b129b04594499ef013af97f2ff10ced748a1addeb358355574bc2d
Contents?: true
Size: 899 Bytes
Versions: 9
Compression:
Stored size: 899 Bytes
Contents
module Bio
class SQL
class Location < DummyBase
#set_sequence_name "location_pk_seq"
belongs_to :seqfeature, :class_name => "Seqfeature"
belongs_to :dbxref, :class_name => "Dbxref"
belongs_to :term, :class_name => "Term"
has_many :location_qualifier_values, :class_name => "LocationQualifierValue"
def to_s
if strand==-1
str="complement("+start_pos.to_s+".."+end_pos.to_s+")"
else
str=start_pos.to_s+".."+end_pos.to_s
end
return str
end
def sequence
seq=""
unless self.seqfeature.bioentry.biosequence.seq.nil?
seq=Bio::Sequence::NA.new(self.seqfeature.bioentry.biosequence.seq[start_pos-1..end_pos-1])
seq.reverse_complement! if strand==-1
end
return seq
end
end
end #SQL
end #Bio
Version data entries
9 entries across 9 versions & 4 rubygems