pharmaobservatory 0.1.2 → 0.1.4

data/lib/pharmaobservatory/models/biomarker_evidence_row.rb

@@ -0,0 +1,421 @@
+=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 biomarker_evidence dataset: one row per evidence assertion. A grouped request returns the group columns and the measures instead, as additional properties.
+  class BiomarkerEvidenceRow
+    # The evidence assertion id.
+    attr_accessor :biomarker_evidence_id
+
+    # The biomarker route key of the gene this evidence is about (the gene symbol); the entry key for the biomarkers object type.
+    attr_accessor :route_key
+
+    # The gene symbol the evidence is about.
+    attr_accessor :gene_symbol
+
+    # The target's Ensembl gene id.
+    attr_accessor :target_id
+
+    # The UniProt accession.
+    attr_accessor :uniprot_accession
+
+    # The biomarker as the source names it (the gene or the variant).
+    attr_accessor :biomarker
+
+    # cancer_actionable_cgi, ot_association or trial_mention.
+    attr_accessor :evidence_type
+
+    # The source the assertion comes from.
+    attr_accessor :source
+
+    # The condition key.
+    attr_accessor :condition_id
+
+    # The condition as the source names it.
+    attr_accessor :condition_name
+
+    # The therapeutic area.
+    attr_accessor :therapeutic_area
+
+    # The drug as filed.
+    attr_accessor :drug_name
+
+    # The drug key.
+    attr_accessor :drug_id
+
+    # The molecule key. Null on every row: no evidence row carries a molecule.
+    attr_accessor :molecule_id
+
+    # The reported response (for example Responsive, Resistant).
+    attr_accessor :response
+
+    # The association score, for an Open Targets row.
+    attr_accessor :score
+
+    # Variants the assertion covers.
+    attr_accessor :variant_count
+
+    # The trial registry id, for a trial-mention row.
+    attr_accessor :trial_id
+
+    # The sample type, for a trial-mention row.
+    attr_accessor :sample_type
+
+    # Attribute mapping from ruby-style variable name to JSON key.
+    def self.attribute_map
+      {
+        :'biomarker_evidence_id' => :'biomarker_evidence_id',
+        :'route_key' => :'route_key',
+        :'gene_symbol' => :'gene_symbol',
+        :'target_id' => :'target_id',
+        :'uniprot_accession' => :'uniprot_accession',
+        :'biomarker' => :'biomarker',
+        :'evidence_type' => :'evidence_type',
+        :'source' => :'source',
+        :'condition_id' => :'condition_id',
+        :'condition_name' => :'condition_name',
+        :'therapeutic_area' => :'therapeutic_area',
+        :'drug_name' => :'drug_name',
+        :'drug_id' => :'drug_id',
+        :'molecule_id' => :'molecule_id',
+        :'response' => :'response',
+        :'score' => :'score',
+        :'variant_count' => :'variant_count',
+        :'trial_id' => :'trial_id',
+        :'sample_type' => :'sample_type'
+      }
+    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
+      {
+        :'biomarker_evidence_id' => :'String',
+        :'route_key' => :'String',
+        :'gene_symbol' => :'String',
+        :'target_id' => :'String',
+        :'uniprot_accession' => :'String',
+        :'biomarker' => :'String',
+        :'evidence_type' => :'String',
+        :'source' => :'String',
+        :'condition_id' => :'String',
+        :'condition_name' => :'String',
+        :'therapeutic_area' => :'String',
+        :'drug_name' => :'String',
+        :'drug_id' => :'String',
+        :'molecule_id' => :'String',
+        :'response' => :'String',
+        :'score' => :'Float',
+        :'variant_count' => :'Integer',
+        :'trial_id' => :'String',
+        :'sample_type' => :'String'
+      }
+    end
+
+    # List of attributes with nullable: true
+    def self.openapi_nullable
+      Set.new([
+        :'biomarker_evidence_id',
+        :'route_key',
+        :'gene_symbol',
+        :'target_id',
+        :'uniprot_accession',
+        :'biomarker',
+        :'evidence_type',
+        :'source',
+        :'condition_id',
+        :'condition_name',
+        :'therapeutic_area',
+        :'drug_name',
+        :'drug_id',
+        :'molecule_id',
+        :'response',
+        :'score',
+        :'variant_count',
+        :'trial_id',
+        :'sample_type'
+      ])
+    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::BiomarkerEvidenceRow` 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::BiomarkerEvidenceRow`. 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?(:'biomarker_evidence_id')
+        self.biomarker_evidence_id = attributes[:'biomarker_evidence_id']
+      end
+
+      if attributes.key?(:'route_key')
+        self.route_key = attributes[:'route_key']
+      end
+
+      if attributes.key?(:'gene_symbol')
+        self.gene_symbol = attributes[:'gene_symbol']
+      end
+
+      if attributes.key?(:'target_id')
+        self.target_id = attributes[:'target_id']
+      end
+
+      if attributes.key?(:'uniprot_accession')
+        self.uniprot_accession = attributes[:'uniprot_accession']
+      end
+
+      if attributes.key?(:'biomarker')
+        self.biomarker = attributes[:'biomarker']
+      end
+
+      if attributes.key?(:'evidence_type')
+        self.evidence_type = attributes[:'evidence_type']
+      end
+
+      if attributes.key?(:'source')
+        self.source = attributes[:'source']
+      end
+
+      if attributes.key?(:'condition_id')
+        self.condition_id = attributes[:'condition_id']
+      end
+
+      if attributes.key?(:'condition_name')
+        self.condition_name = attributes[:'condition_name']
+      end
+
+      if attributes.key?(:'therapeutic_area')
+        self.therapeutic_area = attributes[:'therapeutic_area']
+      end
+
+      if attributes.key?(:'drug_name')
+        self.drug_name = attributes[:'drug_name']
+      end
+
+      if attributes.key?(:'drug_id')
+        self.drug_id = attributes[:'drug_id']
+      end
+
+      if attributes.key?(:'molecule_id')
+        self.molecule_id = attributes[:'molecule_id']
+      end
+
+      if attributes.key?(:'response')
+        self.response = attributes[:'response']
+      end
+
+      if attributes.key?(:'score')
+        self.score = attributes[:'score']
+      end
+
+      if attributes.key?(:'variant_count')
+        self.variant_count = attributes[:'variant_count']
+      end
+
+      if attributes.key?(:'trial_id')
+        self.trial_id = attributes[:'trial_id']
+      end
+
+      if attributes.key?(:'sample_type')
+        self.sample_type = attributes[:'sample_type']
+      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 &&
+          biomarker_evidence_id == o.biomarker_evidence_id &&
+          route_key == o.route_key &&
+          gene_symbol == o.gene_symbol &&
+          target_id == o.target_id &&
+          uniprot_accession == o.uniprot_accession &&
+          biomarker == o.biomarker &&
+          evidence_type == o.evidence_type &&
+          source == o.source &&
+          condition_id == o.condition_id &&
+          condition_name == o.condition_name &&
+          therapeutic_area == o.therapeutic_area &&
+          drug_name == o.drug_name &&
+          drug_id == o.drug_id &&
+          molecule_id == o.molecule_id &&
+          response == o.response &&
+          score == o.score &&
+          variant_count == o.variant_count &&
+          trial_id == o.trial_id &&
+          sample_type == o.sample_type
+    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
+      [biomarker_evidence_id, route_key, gene_symbol, target_id, uniprot_accession, biomarker, evidence_type, source, condition_id, condition_name, therapeutic_area, drug_name, drug_id, molecule_id, response, score, variant_count, trial_id, sample_type].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