class Bio::Blast::WU::Report::Iteration
Iteration class for WU-BLAST report. Though WU-BLAST does not iterate like PSI-BLAST, Bio::Blast::WU::Report::Iteration aims to keep compatibility with Bio::Blast::Default::Report::* classes. It may contain some Bio::Blast::WU::Report::Hit objects. Because it inherits Bio::Blast::Default::Report::Iteration, please also refer Bio::Blast::Default::Report::Iteration.
Public Class Methods
Source
# File lib/bio/appl/blast/wublast.rb 319 def initialize(data) 320 @f0stat = [] 321 @f0dbstat = Default::Report::AlwaysNil.instance 322 @f0hitlist = [] 323 @hits = [] 324 @num = 1 325 @f0message = [] 326 @f0warnings = [] 327 return unless r = data.first 328 return if /\AParameters\:$/ =~ r 329 return if /\AEXIT CODE *\d+/ =~ r 330 @f0hitlist << data.shift 331 return unless r = data.shift 332 unless /\*{3} +NONE +\*{3}/ =~ r then 333 @f0hitlist << r 334 while r = data.first and /^WARNING\: / =~ r 335 @f0warnings << data.shift 336 end 337 while r = data.first and /^\>/ =~ r 338 @hits << Hit.new(data) 339 end 340 end #unless 341 end
Creates a new Iteration object. It is designed to be called only internally from the Bio::Blast::WU::Report class. Users shall not use the method directly.
Public Instance Methods
Source
# File lib/bio/appl/blast/wublast.rb 344 def warnings 345 @f0warnings 346 end
Returns warning messages.