pharmaobservatory 0.1.6 → 0.1.7

data/lib/pharmaobservatory/models/drug_variants_row.rb

@@ -0,0 +1,333 @@
+=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
+  # One row of the drug_variants dataset: one row per molecule and folded member record. A grouped request returns the group columns and the measures instead, as additional properties.
+  class DrugVariantsRow
+    # The molecule key: the resolved drug a brand, a salt form or an investigational arm resolves to, and the entry key for the drugs object type. A member id (a salt or a folded trial arm) is not a value here; it redirects to its molecule.
+    attr_accessor :molecule_id
+
+    # The id of the folded drug record: the drug_id other datasets carry.
+    attr_accessor :member_id
+
+    # The folded record's display name.
+    attr_accessor :member_name
+
+    # single for a one-to-one fold; component_of_compound for a combination arm listing the molecule.
+    attr_accessor :role
+
+    # How the fold was made (for example rxnorm_synonym, unii_synonym, brand, override, registered_substance).
+    attr_accessor :method
+
+    # The resolver tier that made the fold (1 to 4); 4 is the model backstop.
+    attr_accessor :tier
+
+    # The resolver's confidence for the method, from 0 to 1.
+    attr_accessor :confidence
+
+    # Registered trials of the member record.
+    attr_accessor :member_trials
+
+    # The member's highest development phase.
+    attr_accessor :member_max_phase
+
+    # True when the member is approved somewhere.
+    attr_accessor :member_approved
+
+    # True when the member is a biologic substance.
+    attr_accessor :member_biologic
+
+    # Attribute mapping from ruby-style variable name to JSON key.
+    def self.attribute_map
+      {
+        :'molecule_id' => :'molecule_id',
+        :'member_id' => :'member_id',
+        :'member_name' => :'member_name',
+        :'role' => :'role',
+        :'method' => :'method',
+        :'tier' => :'tier',
+        :'confidence' => :'confidence',
+        :'member_trials' => :'member_trials',
+        :'member_max_phase' => :'member_max_phase',
+        :'member_approved' => :'member_approved',
+        :'member_biologic' => :'member_biologic'
+      }
+    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
+      {
+        :'molecule_id' => :'String',
+        :'member_id' => :'String',
+        :'member_name' => :'String',
+        :'role' => :'String',
+        :'method' => :'String',
+        :'tier' => :'Integer',
+        :'confidence' => :'Float',
+        :'member_trials' => :'Integer',
+        :'member_max_phase' => :'Integer',
+        :'member_approved' => :'Boolean',
+        :'member_biologic' => :'Boolean'
+      }
+    end
+
+    # List of attributes with nullable: true
+    def self.openapi_nullable
+      Set.new([
+        :'molecule_id',
+        :'member_id',
+        :'member_name',
+        :'role',
+        :'method',
+        :'tier',
+        :'confidence',
+        :'member_trials',
+        :'member_max_phase',
+        :'member_approved',
+        :'member_biologic'
+      ])
+    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::DrugVariantsRow` 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::DrugVariantsRow`. 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?(:'molecule_id')
+        self.molecule_id = attributes[:'molecule_id']
+      end
+
+      if attributes.key?(:'member_id')
+        self.member_id = attributes[:'member_id']
+      end
+
+      if attributes.key?(:'member_name')
+        self.member_name = attributes[:'member_name']
+      end
+
+      if attributes.key?(:'role')
+        self.role = attributes[:'role']
+      end
+
+      if attributes.key?(:'method')
+        self.method = attributes[:'method']
+      end
+
+      if attributes.key?(:'tier')
+        self.tier = attributes[:'tier']
+      end
+
+      if attributes.key?(:'confidence')
+        self.confidence = attributes[:'confidence']
+      end
+
+      if attributes.key?(:'member_trials')
+        self.member_trials = attributes[:'member_trials']
+      end
+
+      if attributes.key?(:'member_max_phase')
+        self.member_max_phase = attributes[:'member_max_phase']
+      end
+
+      if attributes.key?(:'member_approved')
+        self.member_approved = attributes[:'member_approved']
+      end
+
+      if attributes.key?(:'member_biologic')
+        self.member_biologic = attributes[:'member_biologic']
+      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
+      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'
+      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 &&
+          molecule_id == o.molecule_id &&
+          member_id == o.member_id &&
+          member_name == o.member_name &&
+          role == o.role &&
+          method == o.method &&
+          tier == o.tier &&
+          confidence == o.confidence &&
+          member_trials == o.member_trials &&
+          member_max_phase == o.member_max_phase &&
+          member_approved == o.member_approved &&
+          member_biologic == o.member_biologic
+    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
+      [molecule_id, member_id, member_name, role, method, tier, confidence, member_trials, member_max_phase, member_approved, member_biologic].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

data/lib/pharmaobservatory/models/drugs_record.rb

@@ -0,0 +1,385 @@
+=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 DrugsRecord
+    attr_accessor :object_type
+
+    attr_accessor :id
+
+    attr_accessor :record
+
+    attr_accessor :attributes
+
+    attr_accessor :datasets
+
+    attr_accessor :attribution
+
+    attr_accessor :source_credit
+
+    attr_accessor :freshness
+
+    attr_accessor :build
+
+    attr_accessor :build_state
+
+    attr_accessor :restriction
+
+    # Attribute mapping from ruby-style variable name to JSON key.
+    def self.attribute_map
+      {
+        :'object_type' => :'object_type',
+        :'id' => :'id',
+        :'record' => :'record',
+        :'attributes' => :'attributes',
+        :'datasets' => :'datasets',
+        :'attribution' => :'attribution',
+        :'source_credit' => :'source_credit',
+        :'freshness' => :'freshness',
+        :'build' => :'build',
+        :'build_state' => :'build_state',
+        :'restriction' => :'restriction'
+      }
+    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
+      {
+        :'object_type' => :'String',
+        :'id' => :'String',
+        :'record' => :'DrugsRow',
+        :'attributes' => :'DrugsRecordAttributes',
+        :'datasets' => :'Array<DatasetListing>',
+        :'attribution' => :'Array<DatasetAttribution>',
+        :'source_credit' => :'String',
+        :'freshness' => :'BiomarkerAssayEvidenceResponseFreshness',
+        :'build' => :'BiomarkerAssayEvidenceResponseBuild',
+        :'build_state' => :'DatasetBuildState',
+        :'restriction' => :'Hash<String, Object>'
+      }
+    end
+
+    # List of attributes with nullable: true
+    def self.openapi_nullable
+      Set.new([
+        :'restriction'
+      ])
+    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::DrugsRecord` 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::DrugsRecord`. 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?(:'object_type')
+        self.object_type = attributes[:'object_type']
+      else
+        self.object_type = nil
+      end
+
+      if attributes.key?(:'id')
+        self.id = attributes[:'id']
+      else
+        self.id = nil
+      end
+
+      if attributes.key?(:'record')
+        self.record = attributes[:'record']
+      else
+        self.record = nil
+      end
+
+      if attributes.key?(:'attributes')
+        self.attributes = attributes[:'attributes']
+      end
+
+      if attributes.key?(:'datasets')
+        if (value = attributes[:'datasets']).is_a?(Array)
+          self.datasets = value
+        end
+      else
+        self.datasets = nil
+      end
+
+      if attributes.key?(:'attribution')
+        if (value = attributes[:'attribution']).is_a?(Array)
+          self.attribution = value
+        end
+      end
+
+      if attributes.key?(:'source_credit')
+        self.source_credit = attributes[:'source_credit']
+      end
+
+      if attributes.key?(:'freshness')
+        self.freshness = attributes[:'freshness']
+      end
+
+      if attributes.key?(:'build')
+        self.build = attributes[:'build']
+      end
+
+      if attributes.key?(:'build_state')
+        self.build_state = attributes[:'build_state']
+      end
+
+      if attributes.key?(:'restriction')
+        if (value = attributes[:'restriction']).is_a?(Hash)
+          self.restriction = value
+        end
+      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 @object_type.nil?
+        invalid_properties.push('invalid value for "object_type", object_type cannot be nil.')
+      end
+
+      if @id.nil?
+        invalid_properties.push('invalid value for "id", id cannot be nil.')
+      end
+
+      if @record.nil?
+        invalid_properties.push('invalid value for "record", record cannot be nil.')
+      end
+
+      if @datasets.nil?
+        invalid_properties.push('invalid value for "datasets", datasets 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 @object_type.nil?
+      return false if @id.nil?
+      return false if @record.nil?
+      return false if @datasets.nil?
+      true
+    end
+
+    # Custom attribute writer method with validation
+    # @param [Object] object_type Value to be assigned
+    def object_type=(object_type)
+      if object_type.nil?
+        fail ArgumentError, 'object_type cannot be nil'
+      end
+
+      @object_type = object_type
+    end
+
+    # Custom attribute writer method with validation
+    # @param [Object] id Value to be assigned
+    def id=(id)
+      if id.nil?
+        fail ArgumentError, 'id cannot be nil'
+      end
+
+      @id = id
+    end
+
+    # Custom attribute writer method with validation
+    # @param [Object] record Value to be assigned
+    def record=(record)
+      if record.nil?
+        fail ArgumentError, 'record cannot be nil'
+      end
+
+      @record = record
+    end
+
+    # Custom attribute writer method with validation
+    # @param [Object] datasets Value to be assigned
+    def datasets=(datasets)
+      if datasets.nil?
+        fail ArgumentError, 'datasets cannot be nil'
+      end
+
+      @datasets = datasets
+    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 &&
+          object_type == o.object_type &&
+          id == o.id &&
+          record == o.record &&
+          attributes == o.attributes &&
+          datasets == o.datasets &&
+          attribution == o.attribution &&
+          source_credit == o.source_credit &&
+          freshness == o.freshness &&
+          build == o.build &&
+          build_state == o.build_state &&
+          restriction == o.restriction
+    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
+      [object_type, id, record, attributes, datasets, attribution, source_credit, freshness, build, build_state, restriction].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