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# dataset.rb
# Loads libraries and webapps
# Author: Christoph Helma, Andreas Maunz
require 'roo'
require 'opentox-server'
require_relative 'helper.rb'
require_relative 'compound.rb'
# TODO: remove and find a better way to test task errors
require_relative 'test.rb'
# Library code
$logger.debug "Dataset booting: #{$dataset.collect{|k,v| "#{k}: '#{v}'"} }"
# Entry point
module OpenTox
class Application < Service
before "/#{SERVICE}/:id/:property" do
@uri = uri("/#{SERVICE}/#{params[:id]}")
end
# Create a new resource
post "/dataset/?" do
@uri = uri("/#{SERVICE}/#{SecureRandom.uuid}")
parse_put
end
=begin
get "/dataset/:id/?" do
case @accept
when "application/rdf+xml", "text/turtle", "text/plain", /html/
r = FourStore.get(@uri.split('?').first, @accept)
else
case @accept
when "text/csv"
r = to_csv
#when "application/vnd.ms-excel"
#to_spreadsheet Excel
#when "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet"
#to_xlsx
#when "application/vnd.oasis.opendocument.spreadsheet"
#to_spreadsheet Openoffice
#when "chemical/x-mdl-sdfile"
else
bad_request_error "'#{@accept}' is not a supported content type."
end
end
r
end
=end
# Create or update a resource
put "/dataset/:id/?" do
parse_put
end
# Get metadata of the dataset
# @return [application/rdf+xml] Metadata OWL-DL
get '/dataset/:id/metadata' do
render $mongo[SERVICE].find(:uri => @uri).first
#render $mongo[SERVICE].find(:uri => @uri).projection(:data_entries => 0).first
#case @accept
#when "application/rdf+xml", "text/turtle", "text/plain"
#else
# bad_request_error "'#{@accept}' is not a supported content type."
#end
end
# Get a list of all features
# @param [Header] Accept one of `application/rdf+xml, text/turtle, text/plain, text/uri-list` (default application/rdf+xml)
# @return [application/rdf+xml, text/turtle, text/plain, text/uri-list] Feature data
get '/dataset/:id/features' do
render $mongo[SERVICE].find(:uri => @uri).distinct(:feature)
end
# Get a list of all compounds
# @param [Header] Accept one of `application/rdf+xml, text/turtle, text/plain, text/uri-list` (default application/rdf+xml)
# @return [application/rdf+xml, text/turtle, text/plain, text/uri-list] Compound data
get '/dataset/:id/compounds' do
case @accept
when "application/json"
#when "application/rdf+xml", "text/turtle", "text/plain"
#sparql = "CONSTRUCT {?s ?p ?o.} FROM <#{@uri}> WHERE {?s <#{RDF.type}> <#{RDF::OT.Compound}>; ?p ?o. }"
when "text/uri-list"
#sparql = "SELECT ?s FROM <#{@uri}> WHERE {?s <#{RDF.type}> <#{RDF::OT.Compound}>. ?s <#{RDF::OLO.index}> ?idx } ORDER BY ?idx"
else
bad_request_error "'#{@accept}' is not a supported content type."
end
render $mongo[SERVICE].find(:uri => @uri).distinct(:compounds)
end
end
end
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