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Diffstat (limited to 'application.rb')
| -rw-r--r-- | application.rb | 233 |
1 files changed, 233 insertions, 0 deletions
diff --git a/application.rb b/application.rb new file mode 100644 index 0000000..54ced27 --- /dev/null +++ b/application.rb @@ -0,0 +1,233 @@ +## SETUP +[ 'rubygems', 'sinatra', 'sinatra/url_for', 'datamapper', 'dm-more', 'builder', 'api_key' ].each do |lib| + require lib +end + +# reload + +## MODELS + +class Dataset + include DataMapper::Resource + property :id, Serial + property :name, String, :unique => true + has n, :associations +end + +class Association + include DataMapper::Resource + property :id, Serial + property :compound_uri, URI + property :feature_uri, URI + belongs_to :dataset +end + +# automatically create the tables +configure :test do + DataMapper.setup(:default, 'sqlite3::memory:') + [Dataset, Association].each do |model| + model.auto_migrate! + end +end + +@db = "datasets.sqlite3" +configure :development, :production do + DataMapper::setup(:default, "sqlite3://#{Dir.pwd}/#{@db}") + unless FileTest.exists?("#{@db}") + [Dataset, Association].each do |model| + model.auto_migrate! + end + end + puts @db +end + +## Authentification +helpers do + + def protected! + response['WWW-Authenticate'] = %(Basic realm="Testing HTTP Auth") and \ + throw(:halt, [401, "Not authorized\n"]) and \ + return unless authorized? + end + + def authorized? + @auth ||= Rack::Auth::Basic::Request.new(request.env) + @auth.provided? && @auth.basic? && @auth.credentials && @auth.credentials == ['api', API_KEY] + end + +end + +## REST API + +get '/' do + Dataset.all.collect{ |d| url_for("/", :full) + d.id.to_s }.join("\n") +end + +get '/:id' do + begin + dataset = Dataset.get(params[:id]) + rescue + status 404 + "Dataset #{params[:id]} not found." + end + builder do |xml| + xml.instruct! + xml.dataset do + xml.uri url_for("/", :full) + dataset.id.to_s + xml.name dataset.name + dataset.associations.each do |a| + xml.association do + xml.compound_uri a.compound_uri + xml.feature_uri a.feature_uri + end + end + end + end +end + +get '/:id/name' do + begin + Dataset.get(params[:id]).name + rescue + status 404 + "Dataset #{params[:id]} not found." + end +end + +get '/:id/compounds' do + begin + Dataset.get(params[:id]).associations.collect{ |a| a.compound_uri }.uniq.join("\n") + rescue + status 404 + "Dataset #{params[:id]} not found." + end +end + +get '/:id/features' do + begin + Dataset.get(params[:id]).associations.collect{ |a| a.feature_uri }.uniq.join("\n") + rescue + status 404 + "Dataset #{params[:id]} not found." + end +end + +get '/:id/features/compounds' do + + begin + dataset = Dataset.get(params[:id]) + rescue + status 404 + "Dataset #{params[:id]} not found." + end + features = {} + dataset.associations.each do |a| + if features[a.feature_uri] + features[a.feature_uri] << a.compound_uri + else + features[a.feature_uri] = [a.compound_uri] + end + end + + builder do |xml| + xml.instruct! + xml.dataset do + features.each do |feature,compounds| + xml.feature do + xml.uri feature + compounds.each do |c| + xml.compound_uri c + end + end + end + end + end +end + +get '/:id/compounds/features' do + + begin + dataset = Dataset.get(params[:id]) + rescue + status 404 + "Dataset #{params[:id]} not found." + end + compounds = {} + dataset.associations.each do |a| + if compounds[a.compound_uri] + compounds[a.compound_uri] << a.feature_uri + else + compounds[a.compound_uri] = [a.feature_uri] + end + end + + builder do |xml| + xml.instruct! + xml.dataset do + compounds.each do |compound,features| + xml.compound do + xml.uri compound + features.each do |f| + xml.feature_uri f + end + end + end + end + end +end + +get '/:id/compound/*/features' do + compound_uri = params[:splat].first + Association.all(:dataset_id => params[:id], :compound_uri => compound_uri).collect { |a| a.feature_uri }.uniq.join("\n") +end + +get '/:id/feature/*/compounds' do + feature_uri = params[:splat].first + Association.all(:dataset_id => params[:id], :feature_uri => feature_uri).collect { |a| a.compound_uri }.uniq.join("\n") +end + +post '/' do + protected! + dataset = Dataset.find_or_create :name => params[:name] + url_for("/", :full) + dataset.id.to_s +end + +post '/:id' do + protected! + begin + dataset = Dataset.get params[:id] + rescue + status 404 + "Dataset #{params[:id]} not found." + end + compound_uri = params[:compound_uri] + feature_uri = params[:feature_uri] + Association.create(:compound_uri => compound_uri.to_s, :feature_uri => feature_uri.to_s, :dataset_id => dataset.id) + url_for("/", :full) + dataset.id.to_s +end + +delete '/:id' do + # dangerous, because other datasets might refer to it + protected! + begin + dataset = Dataset.get params[:id] + rescue + status 404 + "Dataset #{params[:id]} not found." + end + dataset.associations.each { |a| a.destroy } + dataset.destroy + "Successfully deleted dataset #{params[:id]}." +end + +delete '/:id/associations' do + protected! + begin + dataset = Dataset.get params[:id] + rescue + status 404 + "Dataset #{params[:id]} not found." + end + dataset.associations.each { |a| a.destroy } + "Associations for dataset #{params[:id]} successfully deleted." +end |