Contents

#{{{ FINDER
finder = Finder.new
if ENV['RBBT_FINDER']
  organism = Organism.default_code("Hsa")
  finder.add_instance(KEGG.pathways, :grep => '^hsa\|^#', :fields => ["Pathway Name"], :namespace => organism, :fix => Proc.new{|l| l.sub(/ - Homo sapiens.*/,'')}) if defined? KEGG
  finder.add_instance(Organism.lexicon(organism), :persist => true, :namespace => organism, :grep => Organism.blacklist_genes(organism).list, :invert_grep => true) if defined? Organism

  mutation_hash = {"Genomic Mutation" => /\w+:\d+:[ACTG\-\+]+/}
  finder.add_instance(mutation_hash, :namespace => organism) 

  organism_hash = {"organism" => /[A-Z][a-z]{2}(?:\/[a-z]{3}20\d\d)?/}
  finder.add_instance(organism_hash, :namespace => organism) 
end
set :finder, finder
Log.debug("Finder started with: #{finder.instances.length} instances")

Version data entries

10 entries across 10 versions & 1 rubygems

Version	Path
rbbt-util-5.17.71	etc/app.d/finder.rb
rbbt-util-5.17.70	etc/app.d/finder.rb
rbbt-util-5.17.69	etc/app.d/finder.rb
rbbt-util-5.17.68	etc/app.d/finder.rb
rbbt-util-5.17.67	etc/app.d/finder.rb
rbbt-util-5.17.66	etc/app.d/finder.rb
rbbt-util-5.17.65	etc/app.d/finder.rb
rbbt-util-5.17.64	etc/app.d/finder.rb
rbbt-util-5.17.63	etc/app.d/finder.rb
rbbt-util-5.17.62	etc/app.d/finder.rb