class MgNu::Parser::Iprscan::Hit
Attributes
crc[RW]
date[RW]
db[RW]
db_description[RW]
db_id[RW]
evalue[RW]
from[RW]
go[RW]
ipr_description[RW]
ipr_id[RW]
length[RW]
query[RW]
status[RW]
to[RW]
Public Class Methods
new(line = nil)
click to toggle source
create a new Hit
object
# File lib/mgnu/parser/iprscan/hit.rb, line 12 def initialize(line = nil) @ipr_id = nil @ipr_description = nil @go = nil line.chomp! temp = line.split(/\t/) @query = temp.shift @crc = temp.shift @length = temp.shift.to_i @db = temp.shift @db_id = temp.shift @db_description = temp.shift @from = temp.shift.to_i @to = temp.shift.to_i @evalue = temp.shift.to_f if @db == "Seg" or @db == "TMHMM" or @db == "Coil" @evalue = "NA" end @status = temp.shift @date = temp.shift if temp.length > 0 @ipr_id = temp.shift if temp.length > 0 @ipr_description = temp.shift if temp.length > 0 @go = temp.shift end end end end
Public Instance Methods
match_length()
click to toggle source
# File lib/mgnu/parser/iprscan/hit.rb, line 57 def match_length @from < @to ? @to - @from : @from - @to end
summary()
click to toggle source
# File lib/mgnu/parser/iprscan/hit.rb, line 61 def summary string = "#{@db_description} (db=#{@db} db_id=#{@db_id}" string += " from=#{@from} to=#{@to}" string += " evalue=#{@evalue}" unless db == "Seg" or db == "TMHMM" string += " interpro_id=#{@ipr_id} interpro_description=#{@ipr_description}" unless @ipr_id == "NULL" string += " GO=#{@go}" unless @go.nil? string += ")" string end
to_s()
click to toggle source
# File lib/mgnu/parser/iprscan/hit.rb, line 45 def to_s str = "#{@query}\t#{@crc}\t#{@length}\t#{@db}\t#{@db_id}\t#{@db_description}\t" str += "#{@from}\t#{@to}\t#{@evalue}\t#{@status}\t#{@date}" unless @ipr_id.nil? str += "\t#{@ipr_id}\t#{@ipr_description}" unless @go.nil? str += "\t#{@go}" end end str end