Class Bio::GenBank::Locus
In: lib/bio/db/genbank/genbank.rb
Parent: Object

Parses the LOCUS line and returns contents of the LOCUS record as a Bio::GenBank::Locus object. Locus object is created automatically when Bio::GenBank#locus, entry_id etc. methods are called.

Methods

new  

Attributes

circular  [RW] 
date  [RW] 
division  [RW] 
entry_id  [RW] 
length  [RW] 
natype  [RW] 
strand  [RW] 

Public Class methods

new(locus_line)

[Source]

    # File lib/bio/db/genbank/genbank.rb, line 35
35:     def initialize(locus_line)
36:       if locus_line.empty?
37:         # do nothing (just for empty or incomplete entry string)
38:       elsif locus_line.length > 75                      # after Rel 126.0
39:         @entry_id = locus_line[12..27].strip
40:         @length   = locus_line[29..39].to_i
41:         @strand   = locus_line[44..46].strip
42:         @natype   = locus_line[47..52].strip
43:         @circular = locus_line[55..62].strip
44:         @division = locus_line[63..66].strip
45:         @date     = locus_line[68..78].strip
46:       else
47:         @entry_id = locus_line[12..21].strip
48:         @length   = locus_line[22..29].to_i
49:         @strand   = locus_line[33..35].strip
50:         @natype   = locus_line[36..39].strip
51:         @circular = locus_line[42..51].strip
52:         @division = locus_line[52..54].strip
53:         @date     = locus_line[62..72].strip
54:       end
55:     end

[Validate]