"+title+"

require "base64" class Object # An object is blank if it's false, empty, or a whitespace string. # For example, "", " ", +nil+, [], and {} are all blank. def blank? respond_to?(:empty?) ? empty? : !self end def numeric? true if Float(self) rescue false end end module Enumerable # @return [Array] only the duplicates of an enumerable def duplicates inject({}) {|h,v| h[v]=h[v].to_i+1; h}.reject{|k,v| v==1}.keys end end class String # @return [String] converts camel-case to underscore-case (OpenTox::SuperModel -> open_tox/super_model) def underscore self.gsub(/::/, '/'). gsub(/([A-Z]+)([A-Z][a-z])/,'\1_\2'). gsub(/([a-z\d])([A-Z])/,'\1_\2'). tr("-", "_"). downcase end # convert strings to boolean values # @return [TrueClass,FalseClass] true or false def to_boolean return true if self == true || self =~ (/(true|t|yes|y|1)$/i) return false if self == false || self.nil? || self =~ (/(false|f|no|n|0)$/i) bad_request_error "invalid value for Boolean: \"#{self}\"" end # encloses URI in text with with link tag # @return [String] new text with marked links def link_urls self.gsub(/(?i)http(s?):\/\/[^\r\n\s']*/, '\0') end # produces a html page for making web services browser friendly # format of text (=string params) is preserved (e.g. line breaks) # urls are marked as links # # @param related_links [optional,String] uri on related resources # @param description [optional,String] general info # @param png_image [optional,String] imagename # @return [String] html page def to_html(related_links=nil, description=nil, png_image=nil ) # TODO add title as parameter title = nil #$sinatra.to($sinatra.request.env['PATH_INFO'], :full) if $sinatra html = "" html << ""+title+"" if title #html += "

<\/img>" html << "

Description

"+description.link_urls+"

" if description html << "

Content

" if description || related_links html << "

"
    html << "\n" if png_image
    html << self.link_urls
    html << "

" html end def uri? URI.valid?(self) end end module URI def self.compound? uri uri =~ /compound/ and URI.valid? uri end def self.task? uri uri =~ /task/ and URI.valid? uri end def self.dataset? uri uri =~ /dataset/ and URI.accessible? uri end def self.model? uri uri =~ /model/ and URI.accessible? uri end def self.ssl? uri URI.parse(uri).instance_of? URI::HTTPS end # @return [Boolean] checks if resource exists by making a HEAD-request def self.accessible?(uri) parsed_uri = URI.parse(uri + (OpenTox::RestClientWrapper.subjectid ? "?subjectid=#{CGI.escape OpenTox::RestClientWrapper.subjectid}" : "")) http_code = URI.task?(uri) ? 600 : 400 http = Net::HTTP.new(parsed_uri.host, parsed_uri.port) unless (URI.ssl? uri) == true http = Net::HTTP.new(parsed_uri.host, parsed_uri.port) request = Net::HTTP::Head.new(parsed_uri.request_uri) http.request(request).code.to_i < http_code else http = Net::HTTP.new(parsed_uri.host, parsed_uri.port) http.use_ssl = true http.verify_mode = OpenSSL::SSL::VERIFY_NONE request = Net::HTTP::Head.new(parsed_uri.request_uri) http.request(request).code.to_i < http_code end rescue false end def self.valid? uri u = URI.parse(uri) u.scheme!=nil and u.host!=nil rescue URI::InvalidURIError false end end class File # @return [String] mime_type including charset using linux cmd command def mime_type `file -ib '#{self.path}'`.chomp end end module Kernel # overwrite backtick operator to catch system errors # Override raises an error if _cmd_ returns a non-zero exit status. CH: I do not understand this comment # Returns stdout if _cmd_ succeeds. Note that these are simply concatenated; STDERR is not inline. CH: I do not understand this comment def ` cmd stdout, stderr = '' status = Open4::popen4(cmd) do |pid, stdin_stream, stdout_stream, stderr_stream| stdout = stdout_stream.read stderr = stderr_stream.read end internal_server_error "`" + cmd + "` failed.\n" + stdout + stderr unless status.success? return stdout rescue internal_server_error $!.message end # @return [String] uri of task result, if task fails, an error according to task is raised def wait_for_task uri if URI.task?(uri) t = OpenTox::Task.new uri t.wait unless t.completed? error = OpenTox::RestClientWrapper.known_errors.select{|error| error[:code] == t.code}.first error_method = error ? error[:method] : :internal_server_error report = t.error_report error_message = report ? report[RDF::OT.message] : $!.message error_cause = report ? report[RDF::OT.errorCause] : nil Object.send(error_method,error_message,t.uri,error_cause) end uri = t.resultURI end uri end end class Array # Sum up the size of single arrays in an array of arrays # @param [Array] Array of arrays # @return [Integer] Sum of size of array elements def sum_size self.inject(0) { |s,a| if a.respond_to?('size') s+=a.size else internal_server_error "No size available: #{a.inspect}" end } end # For symbolic features # @param [Array] Array to test. # @return [Boolean] Whether the array has just one unique value. def zero_variance? return self.uniq.size == 1 end end

Description

Related links

Content