class Bio::GFF::GFF3::Record::Target

Bio:GFF::GFF3::Record::Target is a class to store data of “Target” attribute.

Attributes

end [RW]

end position

start [RW]

start position

strand [RW]

strand (optional). Normally, “+” or “-”, or nil.

target_id [RW]

target ID

Public Class Methods

new (target_id, start, endpos, strand = nil)

Source

     # File lib/bio/db/gff.rb
1205 def initialize(target_id, start, endpos, strand = nil)
1206   @target_id = target_id
1207   @start = start ? start.to_i : nil
1208   @end = endpos ? endpos.to_i : nil
1209   @strand = strand
1210 end

Creates a new Target object.

parse (str)

Source

     # File lib/bio/db/gff.rb
1228 def self.parse(str)
1229   target_id, start, endpos, strand =
1230     str.split(/ +/, 4).collect { |x| unescape(x) }
1231   self.new(target_id, start, endpos, strand)
1232 end

parses “target_id start end [strand]”-style string (for example, “ABC789 123 456 +”) and creates a new Target object.

Public Instance Methods

== (other)

Source

     # File lib/bio/db/gff.rb
1245 def ==(other)
1246   if other.class == self.class and
1247       other.target_id == self.target_id and
1248       other.start == self.start and
1249       other.end == self.end and
1250       other.strand == self.strand then
1251     true
1252   else
1253     false
1254   end
1255 end

Returns true if self == other. Otherwise, returns false.

to_s ()

Source

     # File lib/bio/db/gff.rb
1235 def to_s
1236   i = escape_seqid(column_to_s(@target_id))
1237   s = escape_attribute(column_to_s(@start))
1238   e = escape_attribute(column_to_s(@end))
1239   strnd = escape_attribute(@strand.to_s)
1240   strnd = " " + strnd unless strnd.empty?
1241   "#{i} #{s} #{e}#{strnd}"
1242 end

returns a string