cheminee 0.0.15 → 0.1.5

data/lib/cheminee/api/default_api.rb

@@ -6,7 +6,7 @@
 The version of the OpenAPI document: 1.0
 
 Generated by: https://openapi-generator.tech
-OpenAPI Generator version: 7.0.0-SNAPSHOT
+OpenAPI Generator version: 7.1.0-SNAPSHOT
 
 =end
 
@@ -19,27 +19,327 @@ module Cheminee
     def initialize(api_client = ApiClient.default)
       @api_client = api_client
     end
+    # @param [Hash] opts the optional parameters
+    # @return [Array<IndexMeta>]
+    def v1_indexes_get(opts = {})
+      data, _status_code, _headers = v1_indexes_get_with_http_info(opts)
+      data
+    end
+
+    # @param [Hash] opts the optional parameters
+    # @return [Array<(Array<IndexMeta>, Integer, Hash)>] Array<IndexMeta> data, response status code and response headers
+    def v1_indexes_get_with_http_info(opts = {})
+      if @api_client.config.debugging
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_indexes_get ...'
+      end
+      # resource path
+      local_var_path = '/v1/indexes'
+
+      # query parameters
+      query_params = opts[:query_params] || {}
+
+      # header parameters
+      header_params = opts[:header_params] || {}
+      # HTTP header 'Accept' (if needed)
+      header_params['Accept'] = @api_client.select_header_accept(['application/json; charset=utf-8'])
+
+      # form parameters
+      form_params = opts[:form_params] || {}
+
+      # http body (model)
+      post_body = opts[:debug_body]
+
+      # return_type
+      return_type = opts[:debug_return_type] || 'Array<IndexMeta>'
+
+      # auth_names
+      auth_names = opts[:debug_auth_names] || []
+
+      new_options = opts.merge(
+        :operation => :"DefaultApi.v1_indexes_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: DefaultApi#v1_indexes_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+      end
+      return data, status_code, headers
+    end
+
+    # @param index [String] 
+    # @param [Hash] opts the optional parameters
+    # @return [Array<IndexMeta>]
+    def v1_indexes_index_get(index, opts = {})
+      data, _status_code, _headers = v1_indexes_index_get_with_http_info(index, opts)
+      data
+    end
+
+    # @param index [String] 
+    # @param [Hash] opts the optional parameters
+    # @return [Array<(Array<IndexMeta>, Integer, Hash)>] Array<IndexMeta> data, response status code and response headers
+    def v1_indexes_index_get_with_http_info(index, opts = {})
+      if @api_client.config.debugging
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_indexes_index_get ...'
+      end
+      # verify the required parameter 'index' is set
+      if @api_client.config.client_side_validation && index.nil?
+        fail ArgumentError, "Missing the required parameter 'index' when calling DefaultApi.v1_indexes_index_get"
+      end
+      # resource path
+      local_var_path = '/v1/indexes/{index}'.sub('{' + 'index' + '}', CGI.escape(index.to_s))
+
+      # query parameters
+      query_params = opts[:query_params] || {}
+
+      # header parameters
+      header_params = opts[:header_params] || {}
+      # HTTP header 'Accept' (if needed)
+      header_params['Accept'] = @api_client.select_header_accept(['application/json; charset=utf-8'])
+
+      # form parameters
+      form_params = opts[:form_params] || {}
+
+      # http body (model)
+      post_body = opts[:debug_body]
+
+      # return_type
+      return_type = opts[:debug_return_type] || 'Array<IndexMeta>'
+
+      # auth_names
+      auth_names = opts[:debug_auth_names] || []
+
+      new_options = opts.merge(
+        :operation => :"DefaultApi.v1_indexes_index_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: DefaultApi#v1_indexes_index_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+      end
+      return data, status_code, headers
+    end
+
+    # @param index [String] 
+    # @param schema [String] 
+    # @param [Hash] opts the optional parameters
+    # @option opts [String] :sort_by 
+    # @return [IndexMeta]
+    def v1_indexes_index_post(index, schema, opts = {})
+      data, _status_code, _headers = v1_indexes_index_post_with_http_info(index, schema, opts)
+      data
+    end
+
+    # @param index [String] 
+    # @param schema [String] 
+    # @param [Hash] opts the optional parameters
+    # @option opts [String] :sort_by 
+    # @return [Array<(IndexMeta, Integer, Hash)>] IndexMeta data, response status code and response headers
+    def v1_indexes_index_post_with_http_info(index, schema, opts = {})
+      if @api_client.config.debugging
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_indexes_index_post ...'
+      end
+      # verify the required parameter 'index' is set
+      if @api_client.config.client_side_validation && index.nil?
+        fail ArgumentError, "Missing the required parameter 'index' when calling DefaultApi.v1_indexes_index_post"
+      end
+      # verify the required parameter 'schema' is set
+      if @api_client.config.client_side_validation && schema.nil?
+        fail ArgumentError, "Missing the required parameter 'schema' when calling DefaultApi.v1_indexes_index_post"
+      end
+      # resource path
+      local_var_path = '/v1/indexes/{index}'.sub('{' + 'index' + '}', CGI.escape(index.to_s))
+
+      # query parameters
+      query_params = opts[:query_params] || {}
+      query_params[:'schema'] = schema
+      query_params[:'sort_by'] = opts[:'sort_by'] if !opts[:'sort_by'].nil?
+
+      # header parameters
+      header_params = opts[:header_params] || {}
+      # HTTP header 'Accept' (if needed)
+      header_params['Accept'] = @api_client.select_header_accept(['application/json; charset=utf-8'])
+
+      # form parameters
+      form_params = opts[:form_params] || {}
+
+      # http body (model)
+      post_body = opts[:debug_body]
+
+      # return_type
+      return_type = opts[:debug_return_type] || 'IndexMeta'
+
+      # auth_names
+      auth_names = opts[:debug_auth_names] || []
+
+      new_options = opts.merge(
+        :operation => :"DefaultApi.v1_indexes_index_post",
+        :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(:POST, local_var_path, new_options)
+      if @api_client.config.debugging
+        @api_client.config.logger.debug "API called: DefaultApi#v1_indexes_index_post\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+      end
+      return data, status_code, headers
+    end
+
+    # @param index [String] 
+    # @param q [String] 
+    # @param [Hash] opts the optional parameters
+    # @return [Array<SubstructureSearchHit>]
+    def v1_indexes_index_search_substructure_get(index, q, opts = {})
+      data, _status_code, _headers = v1_indexes_index_search_substructure_get_with_http_info(index, q, opts)
+      data
+    end
+
+    # @param index [String] 
+    # @param q [String] 
+    # @param [Hash] opts the optional parameters
+    # @return [Array<(Array<SubstructureSearchHit>, Integer, Hash)>] Array<SubstructureSearchHit> data, response status code and response headers
+    def v1_indexes_index_search_substructure_get_with_http_info(index, q, opts = {})
+      if @api_client.config.debugging
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_indexes_index_search_substructure_get ...'
+      end
+      # verify the required parameter 'index' is set
+      if @api_client.config.client_side_validation && index.nil?
+        fail ArgumentError, "Missing the required parameter 'index' when calling DefaultApi.v1_indexes_index_search_substructure_get"
+      end
+      # verify the required parameter 'q' is set
+      if @api_client.config.client_side_validation && q.nil?
+        fail ArgumentError, "Missing the required parameter 'q' when calling DefaultApi.v1_indexes_index_search_substructure_get"
+      end
+      # resource path
+      local_var_path = '/v1/indexes/{index}/search/substructure'.sub('{' + 'index' + '}', CGI.escape(index.to_s))
+
+      # query parameters
+      query_params = opts[:query_params] || {}
+      query_params[:'q'] = q
+
+      # header parameters
+      header_params = opts[:header_params] || {}
+      # HTTP header 'Accept' (if needed)
+      header_params['Accept'] = @api_client.select_header_accept(['application/json; charset=utf-8'])
+
+      # form parameters
+      form_params = opts[:form_params] || {}
+
+      # http body (model)
+      post_body = opts[:debug_body]
+
+      # return_type
+      return_type = opts[:debug_return_type] || 'Array<SubstructureSearchHit>'
+
+      # auth_names
+      auth_names = opts[:debug_auth_names] || []
+
+      new_options = opts.merge(
+        :operation => :"DefaultApi.v1_indexes_index_search_substructure_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: DefaultApi#v1_indexes_index_search_substructure_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+      end
+      return data, status_code, headers
+    end
+
+    # @param [Hash] opts the optional parameters
+    # @return [Array<Schema>]
+    def v1_schemas_get(opts = {})
+      data, _status_code, _headers = v1_schemas_get_with_http_info(opts)
+      data
+    end
+
+    # @param [Hash] opts the optional parameters
+    # @return [Array<(Array<Schema>, Integer, Hash)>] Array<Schema> data, response status code and response headers
+    def v1_schemas_get_with_http_info(opts = {})
+      if @api_client.config.debugging
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_schemas_get ...'
+      end
+      # resource path
+      local_var_path = '/v1/schemas'
+
+      # query parameters
+      query_params = opts[:query_params] || {}
+
+      # header parameters
+      header_params = opts[:header_params] || {}
+      # HTTP header 'Accept' (if needed)
+      header_params['Accept'] = @api_client.select_header_accept(['application/json; charset=utf-8'])
+
+      # form parameters
+      form_params = opts[:form_params] || {}
+
+      # http body (model)
+      post_body = opts[:debug_body]
+
+      # return_type
+      return_type = opts[:debug_return_type] || 'Array<Schema>'
+
+      # auth_names
+      auth_names = opts[:debug_auth_names] || []
+
+      new_options = opts.merge(
+        :operation => :"DefaultApi.v1_schemas_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: DefaultApi#v1_schemas_get\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+      end
+      return data, status_code, headers
+    end
+
     # @param smile [Array<Smile>] 
     # @param [Hash] opts the optional parameters
     # @return [Array<StandardizedSmile>]
-    def standardize_post(smile, opts = {})
-      data, _status_code, _headers = standardize_post_with_http_info(smile, opts)
+    def v1_standardize_post(smile, opts = {})
+      data, _status_code, _headers = v1_standardize_post_with_http_info(smile, opts)
       data
     end
 
     # @param smile [Array<Smile>] 
     # @param [Hash] opts the optional parameters
     # @return [Array<(Array<StandardizedSmile>, Integer, Hash)>] Array<StandardizedSmile> data, response status code and response headers
-    def standardize_post_with_http_info(smile, opts = {})
+    def v1_standardize_post_with_http_info(smile, opts = {})
       if @api_client.config.debugging
-        @api_client.config.logger.debug 'Calling API: DefaultApi.standardize_post ...'
+        @api_client.config.logger.debug 'Calling API: DefaultApi.v1_standardize_post ...'
       end
       # verify the required parameter 'smile' is set
       if @api_client.config.client_side_validation && smile.nil?
-        fail ArgumentError, "Missing the required parameter 'smile' when calling DefaultApi.standardize_post"
+        fail ArgumentError, "Missing the required parameter 'smile' when calling DefaultApi.v1_standardize_post"
       end
       # resource path
-      local_var_path = '/standardize'
+      local_var_path = '/v1/standardize'
 
       # query parameters
       query_params = opts[:query_params] || {}
@@ -67,7 +367,7 @@ module Cheminee
       auth_names = opts[:debug_auth_names] || []
 
       new_options = opts.merge(
-        :operation => :"DefaultApi.standardize_post",
+        :operation => :"DefaultApi.v1_standardize_post",
         :header_params => header_params,
         :query_params => query_params,
         :form_params => form_params,
@@ -78,7 +378,7 @@ module Cheminee
 
       data, status_code, headers = @api_client.call_api(:POST, local_var_path, new_options)
       if @api_client.config.debugging
-        @api_client.config.logger.debug "API called: DefaultApi#standardize_post\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
+        @api_client.config.logger.debug "API called: DefaultApi#v1_standardize_post\nData: #{data.inspect}\nStatus code: #{status_code}\nHeaders: #{headers}"
       end
       return data, status_code, headers
     end

data/lib/cheminee/api_client.rb

@@ -6,7 +6,7 @@
 The version of the OpenAPI document: 1.0
 
 Generated by: https://openapi-generator.tech
-OpenAPI Generator version: 7.0.0-SNAPSHOT
+OpenAPI Generator version: 7.1.0-SNAPSHOT
 
 =end
 
@@ -17,6 +17,7 @@ require 'tempfile'
 require 'time'
 require 'typhoeus'
 
+
 module Cheminee
   class ApiClient
     # The Configuration object holding settings to be used in the API client.
@@ -221,7 +222,7 @@ module Cheminee
       return nil if body.nil? || body.empty?
 
       # return response body directly for String return type
-      return body if return_type == 'String'
+      return body.to_s if return_type == 'String'
 
       # ensuring a default content type
       content_type = response.headers['Content-Type'] || 'application/json'

data/lib/cheminee/api_error.rb

@@ -6,7 +6,7 @@
 The version of the OpenAPI document: 1.0
 
 Generated by: https://openapi-generator.tech
-OpenAPI Generator version: 7.0.0-SNAPSHOT
+OpenAPI Generator version: 7.1.0-SNAPSHOT
 
 =end
 

data/lib/cheminee/configuration.rb

@@ -6,7 +6,7 @@
 The version of the OpenAPI document: 1.0
 
 Generated by: https://openapi-generator.tech
-OpenAPI Generator version: 7.0.0-SNAPSHOT
+OpenAPI Generator version: 7.1.0-SNAPSHOT
 
 =end
 
@@ -151,7 +151,7 @@ module Cheminee
     def initialize
       @scheme = 'http'
       @host = 'localhost:3000'
-      @base_path = '/api/v1'
+      @base_path = '/api'
       @server_index = nil
       @server_operation_index = {}
       @server_variables = {}
@@ -222,8 +222,8 @@ module Cheminee
 
     # Gets access_token using access_token_getter or uses the static access_token
     def access_token_with_refresh
-        return access_token if access_token_getter.nil?
-        access_token_getter.call
+      return access_token if access_token_getter.nil?
+      access_token_getter.call
     end
 
     # Gets Basic Auth token string
@@ -241,7 +241,7 @@ module Cheminee
     def server_settings
       [
         {
-          url: "http://localhost:3000/api/v1",
+          url: "http://localhost:3000/api",
           description: "No description provided",
         }
       ]
@@ -286,5 +286,6 @@ module Cheminee
       url
     end
 
+
   end
 end

data/lib/cheminee/models/create_index_error.rb

@@ -0,0 +1,221 @@
+=begin
+#Cheminée
+
+#Cheminée: The Chemical Structure Search Engine
+
+The version of the OpenAPI document: 1.0
+
+Generated by: https://openapi-generator.tech
+OpenAPI Generator version: 7.1.0-SNAPSHOT
+
+=end
+
+require 'date'
+require 'time'
+
+module Cheminee
+  class CreateIndexError
+    attr_accessor :error
+
+    # Attribute mapping from ruby-style variable name to JSON key.
+    def self.attribute_map
+      {
+        :'error' => :'error'
+      }
+    end
+
+    # Returns all the JSON keys this model knows about
+    def self.acceptable_attributes
+      attribute_map.values
+    end
+
+    # Attribute type mapping.
+    def self.openapi_types
+      {
+        :'error' => :'String'
+      }
+    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 `Cheminee::CreateIndexError` initialize method"
+      end
+
+      # check to see if the attribute exists and convert string to symbol for hash key
+      attributes = attributes.each_with_object({}) { |(k, v), h|
+        if (!self.class.attribute_map.key?(k.to_sym))
+          fail ArgumentError, "`#{k}` is not a valid attribute in `Cheminee::CreateIndexError`. Please check the name to make sure it's valid. List of attributes: " + self.class.attribute_map.keys.inspect
+        end
+        h[k.to_sym] = v
+      }
+
+      if attributes.key?(:'error')
+        self.error = attributes[:'error']
+      else
+        self.error = 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 @error.nil?
+        invalid_properties.push('invalid value for "error", error 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 @error.nil?
+      true
+    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 &&
+          error == o.error
+    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
+      [error].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 = Cheminee.const_get(type)
+        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