Module: Annotations::Genes::Genecodis::Local

Defined in:

lib/MARQ/annotations.rb

Class Method Summary

• .analysis(org, list, slim = false) ⇒ Object

Class Method Details

.analysis(org, list, slim = false) ⇒ Object

# File 'lib/MARQ/annotations.rb', line 406

def self.analysis(org,list, slim = false)
  require 'genecodis'

  gc_org = ORGS[org.to_s]
  if slim
    groups = ['GOSlim_Process']
  else
    groups = ['GO_Biological_Process']
  end

  job_id = Object::Genecodis.analyze(gc_org,2,0,-1,3,list,groups,nil)
  return [] if job_id.nil?

  while (stat = Object::Genecodis.status(job_id)) == 1
    sleep 0.5
  end

  if stat < 0
    return []
  else
    res =  Object::Genecodis.results(job_id)
    return [] if res.nil?
    lines = res.collect{|l| l.chomp}
    lines.shift
    lines.collect{|l| Hash[*FIELDS.zip(l.chomp.split(/\t/)).flatten]}
  end
rescue
  puts $!.message
  puts $!.backtrace
end