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Contents
module SequenceServer
# Define BLAST::Hit.
module BLAST
# Hit Object to store all the hits per Query.
Hit = Struct.new(:query, :number, :id, :accession, :title,
:length, :hsps) do
include Links
def initialize(*args)
args[1] = args[1].to_i
args[4] = '' if args[4] == 'No definition line'
args[5] = args[5].to_i
super
end
# Hit evalue is the minimum evalue of all HSP(s).
def evalue
hsps.map(&:evalue).min
end
# Hit score is the sum of bit scores of all HSP(s).
def score
hsps.map(&:bit_score).reduce(:+)
end
def links
links = Links.instance_methods.map { |m| send m }
links.compact!
links.sort_by { |link| [link[:order], link[:title]] }
end
# Returns an array of database objects which contain the queried sequence
# id.
#
# NOTE:
# This function may return more than one database object for a single
# sequence id.
#
# e.g., which_blastdb('SI_2.2.23') => [<Database: ...>, ...]
def whichdb
querydb.select { |db| db.include? id }
end
def report
query.report
end
def querydb
report.querydb
end
end
end
end
Version data entries
11 entries across 11 versions & 1 rubygems