pharmaobservatory 0.1.1 → 0.1.3

data/lib/pharmaobservatory/api/api_v1_trial_api.rb

@@ -1,321 +0,0 @@
-=begin
-#Pharma Observatory Public REST API
-
-#Read-only REST API over the Pharma Observatory biomedical data platform. Reference: https://pharmaobservatory.com/api-reference
-
-The version of the OpenAPI document: 1.0.0
-
-Generated by: https://openapi-generator.tech
-Generator version: 7.13.0
-
-=end
-
-require 'cgi'
-
-module PharmaObservatory
-  class ApiV1TrialApi
-    attr_accessor :api_client
-
-    def initialize(api_client = ApiClient.default)
-      @api_client = api_client
-    end
-    # discontinuation_reasons
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @return [ApiV1TrialsDiscontinuationReasonsGet200Response]
-    def api_v1_trials_discontinuation_reasons_get(opts = {})
-      data, _status_code, _headers = api_v1_trials_discontinuation_reasons_get_with_http_info(opts)
-      data
-    end
-
-    # discontinuation_reasons
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @return [Array<(ApiV1TrialsDiscontinuationReasonsGet200Response, Integer, Hash)>] ApiV1TrialsDiscontinuationReasonsGet200Response data, response status code and response headers
-    def api_v1_trials_discontinuation_reasons_get_with_http_info(opts = {})
-      if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: ApiV1TrialApi.api_v1_trials_discontinuation_reasons_get ...'
-      end
-      # resource path
-      local_var_path = '/api/v1/trials/discontinuation-reasons'
-
-      # query parameters
-      query_params = opts[:query_params] || {}
-      query_params[:'condition_id'] = opts[:'condition_id'] if !opts[:'condition_id'].nil?
-
-      # header parameters
-      header_params = opts[:header_params] || {}
-      # HTTP header 'Accept' (if needed)
-      header_params['Accept'] = @api_client.select_header_accept(['application/json']) unless header_params['Accept']
-
-      # form parameters
-      form_params = opts[:form_params] || {}
-
-      # http body (model)
-      post_body = opts[:debug_body]
-
-      # return_type
-      return_type = opts[:debug_return_type] || 'ApiV1TrialsDiscontinuationReasonsGet200Response'
-
-      # auth_names
-      auth_names = opts[:debug_auth_names] || ['ApiBearerJwt']
-
-      new_options = opts.merge(
-        :operation => :"ApiV1TrialApi.api_v1_trials_discontinuation_reasons_get",
-        :header_params => header_params,
-        :query_params => query_params,
-        :form_params => form_params,
-        :body => post_body,
-        :auth_names => auth_names,
-        :return_type => return_type
-      )
-
-      data, status_code, headers = @api_client.call_api(:GET, local_var_path, new_options)
-      if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: ApiV1TrialApi#api_v1_trials_discontinuation_reasons_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
-      end
-      return data, status_code, headers
-    end
-
-    # eligibility_generalizability_scan
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @option opts [Integer] :limit 
-    # @option opts [Array<String>] :nct_ids 
-    # @return [ApiV1TrialsEligibilityGeneralizabilityScanGet200Response]
-    def api_v1_trials_eligibility_generalizability_scan_get(opts = {})
-      data, _status_code, _headers = api_v1_trials_eligibility_generalizability_scan_get_with_http_info(opts)
-      data
-    end
-
-    # eligibility_generalizability_scan
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @option opts [Integer] :limit 
-    # @option opts [Array<String>] :nct_ids 
-    # @return [Array<(ApiV1TrialsEligibilityGeneralizabilityScanGet200Response, Integer, Hash)>] ApiV1TrialsEligibilityGeneralizabilityScanGet200Response data, response status code and response headers
-    def api_v1_trials_eligibility_generalizability_scan_get_with_http_info(opts = {})
-      if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: ApiV1TrialApi.api_v1_trials_eligibility_generalizability_scan_get ...'
-      end
-      # resource path
-      local_var_path = '/api/v1/trials/eligibility-generalizability-scan'
-
-      # query parameters
-      query_params = opts[:query_params] || {}
-      query_params[:'condition_id'] = opts[:'condition_id'] if !opts[:'condition_id'].nil?
-      query_params[:'limit'] = opts[:'limit'] if !opts[:'limit'].nil?
-      query_params[:'nct_ids'] = @api_client.build_collection_param(opts[:'nct_ids'], :multi) if !opts[:'nct_ids'].nil?
-
-      # header parameters
-      header_params = opts[:header_params] || {}
-      # HTTP header 'Accept' (if needed)
-      header_params['Accept'] = @api_client.select_header_accept(['application/json']) unless header_params['Accept']
-
-      # form parameters
-      form_params = opts[:form_params] || {}
-
-      # http body (model)
-      post_body = opts[:debug_body]
-
-      # return_type
-      return_type = opts[:debug_return_type] || 'ApiV1TrialsEligibilityGeneralizabilityScanGet200Response'
-
-      # auth_names
-      auth_names = opts[:debug_auth_names] || ['ApiBearerJwt']
-
-      new_options = opts.merge(
-        :operation => :"ApiV1TrialApi.api_v1_trials_eligibility_generalizability_scan_get",
-        :header_params => header_params,
-        :query_params => query_params,
-        :form_params => form_params,
-        :body => post_body,
-        :auth_names => auth_names,
-        :return_type => return_type
-      )
-
-      data, status_code, headers = @api_client.call_api(:GET, local_var_path, new_options)
-      if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: ApiV1TrialApi#api_v1_trials_eligibility_generalizability_scan_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
-      end
-      return data, status_code, headers
-    end
-
-    # history_and_prediction
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :nct_id 
-    # @return [ApiV1TrialsHistoryAndPredictionGet200Response]
-    def api_v1_trials_history_and_prediction_get(opts = {})
-      data, _status_code, _headers = api_v1_trials_history_and_prediction_get_with_http_info(opts)
-      data
-    end
-
-    # history_and_prediction
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :nct_id 
-    # @return [Array<(ApiV1TrialsHistoryAndPredictionGet200Response, Integer, Hash)>] ApiV1TrialsHistoryAndPredictionGet200Response data, response status code and response headers
-    def api_v1_trials_history_and_prediction_get_with_http_info(opts = {})
-      if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: ApiV1TrialApi.api_v1_trials_history_and_prediction_get ...'
-      end
-      # resource path
-      local_var_path = '/api/v1/trials/history-and-prediction'
-
-      # query parameters
-      query_params = opts[:query_params] || {}
-      query_params[:'nct_id'] = opts[:'nct_id'] if !opts[:'nct_id'].nil?
-
-      # header parameters
-      header_params = opts[:header_params] || {}
-      # HTTP header 'Accept' (if needed)
-      header_params['Accept'] = @api_client.select_header_accept(['application/json']) unless header_params['Accept']
-
-      # form parameters
-      form_params = opts[:form_params] || {}
-
-      # http body (model)
-      post_body = opts[:debug_body]
-
-      # return_type
-      return_type = opts[:debug_return_type] || 'ApiV1TrialsHistoryAndPredictionGet200Response'
-
-      # auth_names
-      auth_names = opts[:debug_auth_names] || ['ApiBearerJwt']
-
-      new_options = opts.merge(
-        :operation => :"ApiV1TrialApi.api_v1_trials_history_and_prediction_get",
-        :header_params => header_params,
-        :query_params => query_params,
-        :form_params => form_params,
-        :body => post_body,
-        :auth_names => auth_names,
-        :return_type => return_type
-      )
-
-      data, status_code, headers = @api_client.call_api(:GET, local_var_path, new_options)
-      if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: ApiV1TrialApi#api_v1_trials_history_and_prediction_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
-      end
-      return data, status_code, headers
-    end
-
-    # records
-    # @param [Hash] opts the optional parameters
-    # @option opts [Boolean] :include_extracted 
-    # @option opts [Array<String>] :nct_ids 
-    # @return [ApiV1TrialsRecordsGet200Response]
-    def api_v1_trials_records_get(opts = {})
-      data, _status_code, _headers = api_v1_trials_records_get_with_http_info(opts)
-      data
-    end
-
-    # records
-    # @param [Hash] opts the optional parameters
-    # @option opts [Boolean] :include_extracted 
-    # @option opts [Array<String>] :nct_ids 
-    # @return [Array<(ApiV1TrialsRecordsGet200Response, Integer, Hash)>] ApiV1TrialsRecordsGet200Response data, response status code and response headers
-    def api_v1_trials_records_get_with_http_info(opts = {})
-      if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: ApiV1TrialApi.api_v1_trials_records_get ...'
-      end
-      # resource path
-      local_var_path = '/api/v1/trials/records'
-
-      # query parameters
-      query_params = opts[:query_params] || {}
-      query_params[:'include_extracted'] = opts[:'include_extracted'] if !opts[:'include_extracted'].nil?
-      query_params[:'nct_ids'] = @api_client.build_collection_param(opts[:'nct_ids'], :multi) if !opts[:'nct_ids'].nil?
-
-      # header parameters
-      header_params = opts[:header_params] || {}
-      # HTTP header 'Accept' (if needed)
-      header_params['Accept'] = @api_client.select_header_accept(['application/json']) unless header_params['Accept']
-
-      # form parameters
-      form_params = opts[:form_params] || {}
-
-      # http body (model)
-      post_body = opts[:debug_body]
-
-      # return_type
-      return_type = opts[:debug_return_type] || 'ApiV1TrialsRecordsGet200Response'
-
-      # auth_names
-      auth_names = opts[:debug_auth_names] || ['ApiBearerJwt']
-
-      new_options = opts.merge(
-        :operation => :"ApiV1TrialApi.api_v1_trials_records_get",
-        :header_params => header_params,
-        :query_params => query_params,
-        :form_params => form_params,
-        :body => post_body,
-        :auth_names => auth_names,
-        :return_type => return_type
-      )
-
-      data, status_code, headers = @api_client.call_api(:GET, local_var_path, new_options)
-      if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: ApiV1TrialApi#api_v1_trials_records_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
-      end
-      return data, status_code, headers
-    end
-
-    # reporting_completeness
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @return [ApiV1TrialsReportingCompletenessGet200Response]
-    def api_v1_trials_reporting_completeness_get(opts = {})
-      data, _status_code, _headers = api_v1_trials_reporting_completeness_get_with_http_info(opts)
-      data
-    end
-
-    # reporting_completeness
-    # @param [Hash] opts the optional parameters
-    # @option opts [String] :condition_id 
-    # @return [Array<(ApiV1TrialsReportingCompletenessGet200Response, Integer, Hash)>] ApiV1TrialsReportingCompletenessGet200Response data, response status code and response headers
-    def api_v1_trials_reporting_completeness_get_with_http_info(opts = {})
-      if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: ApiV1TrialApi.api_v1_trials_reporting_completeness_get ...'
-      end
-      # resource path
-      local_var_path = '/api/v1/trials/reporting-completeness'
-
-      # query parameters
-      query_params = opts[:query_params] || {}
-      query_params[:'condition_id'] = opts[:'condition_id'] if !opts[:'condition_id'].nil?
-
-      # header parameters
-      header_params = opts[:header_params] || {}
-      # HTTP header 'Accept' (if needed)
-      header_params['Accept'] = @api_client.select_header_accept(['application/json']) unless header_params['Accept']
-
-      # form parameters
-      form_params = opts[:form_params] || {}
-
-      # http body (model)
-      post_body = opts[:debug_body]
-
-      # return_type
-      return_type = opts[:debug_return_type] || 'ApiV1TrialsReportingCompletenessGet200Response'
-
-      # auth_names
-      auth_names = opts[:debug_auth_names] || ['ApiBearerJwt']
-
-      new_options = opts.merge(
-        :operation => :"ApiV1TrialApi.api_v1_trials_reporting_completeness_get",
-        :header_params => header_params,
-        :query_params => query_params,
-        :form_params => form_params,
-        :body => post_body,
-        :auth_names => auth_names,
-        :return_type => return_type
-      )
-
-      data, status_code, headers = @api_client.call_api(:GET, local_var_path, new_options)
-      if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: ApiV1TrialApi#api_v1_trials_reporting_completeness_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
-      end
-      return data, status_code, headers
-    end
-  end
-end

data/lib/pharmaobservatory/models/api_v1_biomarker_assay_screen_get200_response.rb

@@ -1,343 +0,0 @@
-=begin
-#Pharma Observatory Public REST API
-
-#Read-only REST API over the Pharma Observatory biomedical data platform. Reference: https://pharmaobservatory.com/api-reference
-
-The version of the OpenAPI document: 1.0.0
-
-Generated by: https://openapi-generator.tech
-Generator version: 7.13.0
-
-=end
-
-require 'date'
-require 'time'
-
-module PharmaObservatory
-  class ApiV1BiomarkerAssayScreenGet200Response
-    attr_accessor :filters
-
-    attr_accessor :matched_count
-
-    attr_accessor :confidence_caveat
-
-    attr_accessor :evidence
-
-    attr_accessor :build_state
-
-    # Attribute mapping from ruby-style variable name to JSON key.
-    def self.attribute_map
-      {
-        :'filters' => :'filters',
-        :'matched_count' => :'matched_count',
-        :'confidence_caveat' => :'confidence_caveat',
-        :'evidence' => :'evidence',
-        :'build_state' => :'build_state'
-      }
-    end
-
-    # Returns attribute mapping this model knows about
-    def self.acceptable_attribute_map
-      attribute_map
-    end
-
-    # Returns all the JSON keys this model knows about
-    def self.acceptable_attributes
-      acceptable_attribute_map.values
-    end
-
-    # Attribute type mapping.
-    def self.openapi_types
-      {
-        :'filters' => :'ApiV1BiomarkerAssayScreenGet200ResponseFilters',
-        :'matched_count' => :'Integer',
-        :'confidence_caveat' => :'String',
-        :'evidence' => :'Array<ApiV1BiomarkerAssayScreenGet200ResponseEvidenceInner>',
-        :'build_state' => :'ApiV1BiomarkerAssayScreenGet200ResponseBuildState'
-      }
-    end
-
-    # List of attributes with nullable: true
-    def self.openapi_nullable
-      Set.new([
-      ])
-    end
-
-    # Initializes the object
-    # @param [Hash] attributes Model attributes in the form of hash
-    def initialize(attributes = {})
-      if (!attributes.is_a?(Hash))
-        fail ArgumentError, "The input argument (attributes) must be a hash in `PharmaObservatory::ApiV1BiomarkerAssayScreenGet200Response` initialize method"
-      end
-
-      # check to see if the attribute exists and convert string to symbol for hash key
-      acceptable_attribute_map = self.class.acceptable_attribute_map
-      attributes = attributes.each_with_object({}) { |(k, v), h|
-        if (!acceptable_attribute_map.key?(k.to_sym))
-          fail ArgumentError, "`#{k}` is not a valid attribute in `PharmaObservatory::ApiV1BiomarkerAssayScreenGet200Response`. Please check the name to make sure it's valid. List of attributes: " + acceptable_attribute_map.keys.inspect
-        end
-        h[k.to_sym] = v
-      }
-
-      if attributes.key?(:'filters')
-        self.filters = attributes[:'filters']
-      else
-        self.filters = nil
-      end
-
-      if attributes.key?(:'matched_count')
-        self.matched_count = attributes[:'matched_count']
-      else
-        self.matched_count = nil
-      end
-
-      if attributes.key?(:'confidence_caveat')
-        self.confidence_caveat = attributes[:'confidence_caveat']
-      else
-        self.confidence_caveat = nil
-      end
-
-      if attributes.key?(:'evidence')
-        if (value = attributes[:'evidence']).is_a?(Array)
-          self.evidence = value
-        end
-      else
-        self.evidence = nil
-      end
-
-      if attributes.key?(:'build_state')
-        self.build_state = attributes[:'build_state']
-      else
-        self.build_state = nil
-      end
-    end
-
-    # Show invalid properties with the reasons. Usually used together with valid?
-    # @return Array for valid properties with the reasons
-    def list_invalid_properties
-      warn '[DEPRECATED] the `list_invalid_properties` method is obsolete'
-      invalid_properties = Array.new
-      if @filters.nil?
-        invalid_properties.push('invalid value for "filters", filters cannot be nil.')
-      end
-
-      if @matched_count.nil?
-        invalid_properties.push('invalid value for "matched_count", matched_count cannot be nil.')
-      end
-
-      if @confidence_caveat.nil?
-        invalid_properties.push('invalid value for "confidence_caveat", confidence_caveat cannot be nil.')
-      end
-
-      if @evidence.nil?
-        invalid_properties.push('invalid value for "evidence", evidence cannot be nil.')
-      end
-
-      if @build_state.nil?
-        invalid_properties.push('invalid value for "build_state", build_state cannot be nil.')
-      end
-
-      invalid_properties
-    end
-
-    # Check to see if the all the properties in the model are valid
-    # @return true if the model is valid
-    def valid?
-      warn '[DEPRECATED] the `valid?` method is obsolete'
-      return false if @filters.nil?
-      return false if @matched_count.nil?
-      return false if @confidence_caveat.nil?
-      return false if @evidence.nil?
-      return false if @build_state.nil?
-      true
-    end
-
-    # Custom attribute writer method with validation
-    # @param [Object] filters Value to be assigned
-    def filters=(filters)
-      if filters.nil?
-        fail ArgumentError, 'filters cannot be nil'
-      end
-
-      @filters = filters
-    end
-
-    # Custom attribute writer method with validation
-    # @param [Object] matched_count Value to be assigned
-    def matched_count=(matched_count)
-      if matched_count.nil?
-        fail ArgumentError, 'matched_count cannot be nil'
-      end
-
-      @matched_count = matched_count
-    end
-
-    # Custom attribute writer method with validation
-    # @param [Object] confidence_caveat Value to be assigned
-    def confidence_caveat=(confidence_caveat)
-      if confidence_caveat.nil?
-        fail ArgumentError, 'confidence_caveat cannot be nil'
-      end
-
-      @confidence_caveat = confidence_caveat
-    end
-
-    # Custom attribute writer method with validation
-    # @param [Object] evidence Value to be assigned
-    def evidence=(evidence)
-      if evidence.nil?
-        fail ArgumentError, 'evidence cannot be nil'
-      end
-
-      @evidence = evidence
-    end
-
-    # Custom attribute writer method with validation
-    # @param [Object] build_state Value to be assigned
-    def build_state=(build_state)
-      if build_state.nil?
-        fail ArgumentError, 'build_state cannot be nil'
-      end
-
-      @build_state = build_state
-    end
-
-    # Checks equality by comparing each attribute.
-    # @param [Object] Object to be compared
-    def ==(o)
-      return true if self.equal?(o)
-      self.class == o.class &&
-          filters == o.filters &&
-          matched_count == o.matched_count &&
-          confidence_caveat == o.confidence_caveat &&
-          evidence == o.evidence &&
-          build_state == o.build_state
-    end
-
-    # @see the `==` method
-    # @param [Object] Object to be compared
-    def eql?(o)
-      self == o
-    end
-
-    # Calculates hash code according to all attributes.
-    # @return [Integer] Hash code
-    def hash
-      [filters, matched_count, confidence_caveat, evidence, build_state].hash
-    end
-
-    # Builds the object from hash
-    # @param [Hash] attributes Model attributes in the form of hash
-    # @return [Object] Returns the model itself
-    def self.build_from_hash(attributes)
-      return nil unless attributes.is_a?(Hash)
-      attributes = attributes.transform_keys(&:to_sym)
-      transformed_hash = {}
-      openapi_types.each_pair do |key, type|
-        if attributes.key?(attribute_map[key]) && attributes[attribute_map[key]].nil?
-          transformed_hash["#{key}"] = nil
-        elsif type =~ /\AArray<(.*)>/i
-          # check to ensure the input is an array given that the attribute
-          # is documented as an array but the input is not
-          if attributes[attribute_map[key]].is_a?(Array)
-            transformed_hash["#{key}"] = attributes[attribute_map[key]].map { |v| _deserialize($1, v) }
-          end
-        elsif !attributes[attribute_map[key]].nil?
-          transformed_hash["#{key}"] = _deserialize(type, attributes[attribute_map[key]])
-        end
-      end
-      new(transformed_hash)
-    end
-
-    # Deserializes the data based on type
-    # @param string type Data type
-    # @param string value Value to be deserialized
-    # @return [Object] Deserialized data
-    def self._deserialize(type, value)
-      case type.to_sym
-      when :Time
-        Time.parse(value)
-      when :Date
-        Date.parse(value)
-      when :String
-        value.to_s
-      when :Integer
-        value.to_i
-      when :Float
-        value.to_f
-      when :Boolean
-        if value.to_s =~ /\A(true|t|yes|y|1)\z/i
-          true
-        else
-          false
-        end
-      when :Object
-        # generic object (usually a Hash), return directly
-        value
-      when /\AArray<(?<inner_type>.+)>\z/
-        inner_type = Regexp.last_match[:inner_type]
-        value.map { |v| _deserialize(inner_type, v) }
-      when /\AHash<(?<k_type>.+?), (?<v_type>.+)>\z/
-        k_type = Regexp.last_match[:k_type]
-        v_type = Regexp.last_match[:v_type]
-        {}.tap do |hash|
-          value.each do |k, v|
-            hash[_deserialize(k_type, k)] = _deserialize(v_type, v)
-          end
-        end
-      else # model
-        # models (e.g. Pet) or oneOf
-        klass = PharmaObservatory.const_get(type)
-        klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
-      end
-    end
-
-    # Returns the string representation of the object
-    # @return [String] String presentation of the object
-    def to_s
-      to_hash.to_s
-    end
-
-    # to_body is an alias to to_hash (backward compatibility)
-    # @return [Hash] Returns the object in the form of hash
-    def to_body
-      to_hash
-    end
-
-    # Returns the object in the form of hash
-    # @return [Hash] Returns the object in the form of hash
-    def to_hash
-      hash = {}
-      self.class.attribute_map.each_pair do |attr, param|
-        value = self.send(attr)
-        if value.nil?
-          is_nullable = self.class.openapi_nullable.include?(attr)
-          next if !is_nullable || (is_nullable && !instance_variable_defined?(:"@#{attr}"))
-        end
-
-        hash[param] = _to_hash(value)
-      end
-      hash
-    end
-
-    # Outputs non-array value in the form of hash
-    # For object, use to_hash. Otherwise, just return the value
-    # @param [Object] value Any valid value
-    # @return [Hash] Returns the value in the form of hash
-    def _to_hash(value)
-      if value.is_a?(Array)
-        value.compact.map { |v| _to_hash(v) }
-      elsif value.is_a?(Hash)
-        {}.tap do |hash|
-          value.each { |k, v| hash[k] = _to_hash(v) }
-        end
-      elsif value.respond_to? :to_hash
-        value.to_hash
-      else
-        value
-      end
-    end
-
-  end
-
-end