Class: BisearchEnzimHu::FpcrSubmitter

Inherits:
Object
  • Object
show all
Defined in:
lib/bisearch_enzim_hu/fpcr_submitter.rb

Instance Method Summary collapse

Constructor Details

#initialize(url = URL) ⇒ FpcrSubmitter

Returns a new instance of FpcrSubmitter.



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# File 'lib/bisearch_enzim_hu/fpcr_submitter.rb', line 8

def initialize(url=URL)
  @url = url
end

Instance Method Details

#run(hash, index) ⇒ Object 



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# File 'lib/bisearch_enzim_hu/fpcr_submitter.rb', line 13

def run(hash, index)
  fp   = hash[:fp] || hash[:line_a][:seq] # forward primer
  rp   = hash[:rp] || hash[:line_b][:seq] # reverse primer
  fpcr = "#{fp}!#{rp}"
  db   = "Homo sapiens"

  params = {
    "bis" => "on", # bisulfite
    "db" => db, # database
    "fp" => fp, # forward primer
    "fpcr" => fpcr, # 
    "fpcr_but.x" => "35",
    "fpcr_but.y" => "6",
    "mm" => "0000000011111111", # mismatches
    "npcrres" => "100", # PCR product to show
    "nprimerres" => "100", # Primer matches to show
    "prg" => "cgi/fpcr.cgi", 
    "rp" => rp # reverse primer
  }

  uri = URI(@url)
  puts "---> starting FPCR"
  t = Time.now
  page = Net::HTTP.post_form(uri, params)
  puts "---> FPCR completed (time: #{Time.now-t}s)"

  # puts "--- save result to file: fpcr_result_#{index}.html"
  # File.open("fpcr_result_#{index}.html", 'w') {|f| f.write page.body }
  
  result_page = BisearchEnzimHu::L2ResultPage.new(page.body)
  result_page.parse # return an hash
end