Class Bio::Spidey::Report::SeqDesc
In: lib/bio/appl/spidey/report.rb
Parent: Object

SeqDesc stores sequence information of query or subject.

Methods

new   parse  

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)

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

[Source]

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

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.

[Source]

     # File lib/bio/appl/spidey/report.rb, line 102
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

[Validate]