class Bio::Spidey::Report::SeqDesc

SeqDesc stores sequence information of query or subject.

Attributes

definition [R]

Definition of the sequence.

entry_id [R]

Identifier of the sequence.

len [R]

Length of the sequence.

Public Class Methods

new (seqid, seqdef, len)

Source

   # File lib/bio/appl/spidey/report.rb
84 def initialize(seqid, seqdef, len)
85   @entry_id   = seqid
86   @definition = seqdef
87   @len        = len
88 end

Creates a new SeqDesc object. It is designed to be called from Bio::Spidey::Report::* classes. Users shall not call it directly.

parse (str)

Source

    # File lib/bio/appl/spidey/report.rb
102 def self.parse(str)
103   /^(Genomic|mRNA)\:\s*(([^\s]*) (.+))\, (\d+) bp\s*$/ =~ str.to_s
104   seqid  = $3
105   seqdef = $2
106   len    = ($5 ? $5.to_i : nil)
107   self.new(seqid, seqdef, len)
108 end

Parses piece of Spidey result text and creates a new SeqDesc object. It is designed to be called from Bio::Spidey::Report::* classes. Users shall not call it directly.