cheminee 0.1.12 → 0.1.14

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Files changed (43) hide show
  1. checksums.yaml +4 -4
  2. data/Gemfile.lock +7 -7
  3. data/README.md +10 -6
  4. data/cheminee.gemspec +2 -1
  5. data/docs/BulkRequestDoc.md +2 -2
  6. data/docs/DefaultApi.md +91 -20
  7. data/docs/IndexSchema.md +20 -0
  8. data/docs/QueryResponseError.md +18 -0
  9. data/docs/QuerySearchHit.md +22 -0
  10. data/docs/Smiles.md +18 -0
  11. data/docs/StandardizedSmiles.md +20 -0
  12. data/lib/cheminee/api/default_api.rb +99 -25
  13. data/lib/cheminee/api_client.rb +21 -20
  14. data/lib/cheminee/api_error.rb +1 -1
  15. data/lib/cheminee/configuration.rb +1 -1
  16. data/lib/cheminee/models/bulk_request.rb +2 -2
  17. data/lib/cheminee/models/bulk_request_doc.rb +13 -13
  18. data/lib/cheminee/models/create_index_error.rb +2 -2
  19. data/lib/cheminee/models/get_indexes_response_error.rb +2 -2
  20. data/lib/cheminee/models/index_meta.rb +2 -2
  21. data/lib/cheminee/models/index_schema.rb +233 -0
  22. data/lib/cheminee/models/list_index_response_err.rb +2 -2
  23. data/lib/cheminee/models/post_index_bulk_response_error.rb +2 -2
  24. data/lib/cheminee/models/post_index_bulk_response_ok.rb +2 -2
  25. data/lib/cheminee/models/post_index_bulk_response_ok_status.rb +2 -2
  26. data/lib/cheminee/models/query_response_error.rb +221 -0
  27. data/lib/cheminee/models/query_search_hit.rb +249 -0
  28. data/lib/cheminee/models/schema.rb +2 -2
  29. data/lib/cheminee/models/smiles.rb +221 -0
  30. data/lib/cheminee/models/standardized_smiles.rb +223 -0
  31. data/lib/cheminee/models/structure_response_error.rb +2 -2
  32. data/lib/cheminee/models/structure_search_hit.rb +2 -2
  33. data/lib/cheminee/version.rb +2 -2
  34. data/lib/cheminee.rb +6 -3
  35. data/pkg/cheminee-0.1.14.gem +0 -0
  36. data/spec/models/index_schema_spec.rb +42 -0
  37. data/spec/models/query_response_error_spec.rb +36 -0
  38. data/spec/models/query_search_hit_spec.rb +48 -0
  39. data/spec/models/smiles_spec.rb +36 -0
  40. data/spec/models/standardized_smiles_spec.rb +42 -0
  41. data/spec/spec_helper.rb +1 -1
  42. metadata +23 -3
  43. data/pkg/cheminee-0.1.12.gem +0 -0
@@ -0,0 +1,233 @@
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+ =begin
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+ #Cheminée
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+
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+ #Cheminée: The Chemical Structure Search Engine
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+
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+ The version of the OpenAPI document: 1.0
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+
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+ Generated by: https://openapi-generator.tech
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+ OpenAPI Generator version: 7.3.0-SNAPSHOT
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+
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+ =end
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+
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+ require 'date'
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+ require 'time'
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+
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+ module Cheminee
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+ class IndexSchema
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+ attr_accessor :index
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+
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+ attr_accessor :schema
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+
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+ # Attribute mapping from ruby-style variable name to JSON key.
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+ def self.attribute_map
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+ {
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+ :'index' => :'index',
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+ :'schema' => :'schema'
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+ }
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+ end
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+
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+ # Returns all the JSON keys this model knows about
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+ def self.acceptable_attributes
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+ attribute_map.values
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+ end
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+
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+ # Attribute type mapping.
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+ def self.openapi_types
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+ {
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+ :'index' => :'String',
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+ :'schema' => :'Object'
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+ }
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+ end
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+
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+ # List of attributes with nullable: true
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+ def self.openapi_nullable
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+ Set.new([
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+ :'schema'
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+ ])
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+ end
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+
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+ # Initializes the object
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+ # @param [Hash] attributes Model attributes in the form of hash
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+ def initialize(attributes = {})
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+ if (!attributes.is_a?(Hash))
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+ fail ArgumentError, "The input argument (attributes) must be a hash in `Cheminee::IndexSchema` initialize method"
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+ end
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+
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+ # check to see if the attribute exists and convert string to symbol for hash key
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+ attributes = attributes.each_with_object({}) { |(k, v), h|
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+ if (!self.class.attribute_map.key?(k.to_sym))
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+ fail ArgumentError, "`#{k}` is not a valid attribute in `Cheminee::IndexSchema`. Please check the name to make sure it's valid. List of attributes: " + self.class.attribute_map.keys.inspect
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+ end
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+ h[k.to_sym] = v
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+ }
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+
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+ if attributes.key?(:'index')
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+ self.index = attributes[:'index']
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+ else
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+ self.index = nil
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+ end
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+
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+ if attributes.key?(:'schema')
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+ self.schema = attributes[:'schema']
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+ else
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+ self.schema = nil
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+ end
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+ end
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+
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+ # Show invalid properties with the reasons. Usually used together with valid?
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+ # @return Array for valid properties with the reasons
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+ def list_invalid_properties
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+ warn '[DEPRECATED] the `list_invalid_properties` method is obsolete'
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+ invalid_properties = Array.new
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+ if @index.nil?
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+ invalid_properties.push('invalid value for "index", index cannot be nil.')
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+ end
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+
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+ invalid_properties
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+ end
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+
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+ # Check to see if the all the properties in the model are valid
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+ # @return true if the model is valid
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+ def valid?
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+ warn '[DEPRECATED] the `valid?` method is obsolete'
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+ return false if @index.nil?
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+ true
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+ end
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+
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+ # Checks equality by comparing each attribute.
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+ # @param [Object] Object to be compared
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+ def ==(o)
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+ return true if self.equal?(o)
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+ self.class == o.class &&
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+ index == o.index &&
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+ schema == o.schema
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+ end
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+
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+ # @see the `==` method
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+ # @param [Object] Object to be compared
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+ def eql?(o)
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+ self == o
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+ end
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+
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+ # Calculates hash code according to all attributes.
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+ # @return [Integer] Hash code
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+ def hash
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+ [index, schema].hash
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+ end
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+
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+ # Builds the object from hash
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+ # @param [Hash] attributes Model attributes in the form of hash
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+ # @return [Object] Returns the model itself
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+ def self.build_from_hash(attributes)
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+ return nil unless attributes.is_a?(Hash)
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+ attributes = attributes.transform_keys(&:to_sym)
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+ transformed_hash = {}
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+ openapi_types.each_pair do |key, type|
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+ if attributes.key?(attribute_map[key]) && attributes[attribute_map[key]].nil?
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+ transformed_hash["#{key}"] = nil
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+ elsif type =~ /\AArray<(.*)>/i
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+ # check to ensure the input is an array given that the attribute
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+ # is documented as an array but the input is not
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+ if attributes[attribute_map[key]].is_a?(Array)
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+ transformed_hash["#{key}"] = attributes[attribute_map[key]].map { |v| _deserialize($1, v) }
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+ end
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+ elsif !attributes[attribute_map[key]].nil?
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+ transformed_hash["#{key}"] = _deserialize(type, attributes[attribute_map[key]])
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+ end
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+ end
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+ new(transformed_hash)
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+ end
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+
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+ # Deserializes the data based on type
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+ # @param string type Data type
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+ # @param string value Value to be deserialized
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+ # @return [Object] Deserialized data
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+ def self._deserialize(type, value)
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+ case type.to_sym
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+ when :Time
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+ Time.parse(value)
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+ when :Date
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+ Date.parse(value)
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+ when :String
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+ value.to_s
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+ when :Integer
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+ value.to_i
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+ when :Float
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+ value.to_f
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+ when :Boolean
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+ if value.to_s =~ /\A(true|t|yes|y|1)\z/i
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+ true
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+ else
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+ false
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+ end
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+ when :Object
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+ # generic object (usually a Hash), return directly
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+ value
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+ when /\AArray<(?<inner_type>.+)>\z/
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+ inner_type = Regexp.last_match[:inner_type]
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+ value.map { |v| _deserialize(inner_type, v) }
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+ when /\AHash<(?<k_type>.+?), (?<v_type>.+)>\z/
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+ k_type = Regexp.last_match[:k_type]
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+ v_type = Regexp.last_match[:v_type]
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+ {}.tap do |hash|
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+ value.each do |k, v|
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+ hash[_deserialize(k_type, k)] = _deserialize(v_type, v)
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+ end
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+ end
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+ else # model
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+ # models (e.g. Pet) or oneOf
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+ klass = Cheminee.const_get(type)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ end
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+ end
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+
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+ # Returns the string representation of the object
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+ # @return [String] String presentation of the object
187
+ def to_s
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+ to_hash.to_s
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+ end
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+
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+ # to_body is an alias to to_hash (backward compatibility)
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+ # @return [Hash] Returns the object in the form of hash
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+ def to_body
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+ to_hash
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+ end
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+
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+ # Returns the object in the form of hash
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+ # @return [Hash] Returns the object in the form of hash
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+ def to_hash
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+ hash = {}
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+ self.class.attribute_map.each_pair do |attr, param|
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+ value = self.send(attr)
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+ if value.nil?
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+ is_nullable = self.class.openapi_nullable.include?(attr)
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+ next if !is_nullable || (is_nullable && !instance_variable_defined?(:"@#{attr}"))
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+ end
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+
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+ hash[param] = _to_hash(value)
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+ end
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+ hash
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+ end
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+
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+ # Outputs non-array value in the form of hash
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+ # For object, use to_hash. Otherwise, just return the value
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+ # @param [Object] value Any valid value
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+ # @return [Hash] Returns the value in the form of hash
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+ def _to_hash(value)
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+ if value.is_a?(Array)
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+ value.compact.map { |v| _to_hash(v) }
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+ elsif value.is_a?(Hash)
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+ {}.tap do |hash|
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+ value.each { |k, v| hash[k] = _to_hash(v) }
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+ end
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+ elsif value.respond_to? :to_hash
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+ value.to_hash
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+ else
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+ value
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+ end
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+ end
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+
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+ end
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+
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+ end
@@ -6,7 +6,7 @@
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  The version of the OpenAPI document: 1.0
7
7
 
8
8
  Generated by: https://openapi-generator.tech
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- OpenAPI Generator version: 7.1.0-SNAPSHOT
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
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10
 
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  =end
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@@ -166,7 +166,7 @@ module Cheminee
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  else # model
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  # models (e.g. Pet) or oneOf
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  klass = Cheminee.const_get(type)
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- klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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  end
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  end
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@@ -6,7 +6,7 @@
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  The version of the OpenAPI document: 1.0
7
7
 
8
8
  Generated by: https://openapi-generator.tech
9
- OpenAPI Generator version: 7.1.0-SNAPSHOT
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
10
10
 
11
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  =end
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@@ -166,7 +166,7 @@ module Cheminee
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  else # model
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  # models (e.g. Pet) or oneOf
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  klass = Cheminee.const_get(type)
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- klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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  end
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  end
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@@ -6,7 +6,7 @@
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  The version of the OpenAPI document: 1.0
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7
 
8
8
  Generated by: https://openapi-generator.tech
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- OpenAPI Generator version: 7.1.0-SNAPSHOT
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
10
10
 
11
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  =end
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@@ -168,7 +168,7 @@ module Cheminee
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  else # model
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  # models (e.g. Pet) or oneOf
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  klass = Cheminee.const_get(type)
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- klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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  end
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  end
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@@ -6,7 +6,7 @@
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  The version of the OpenAPI document: 1.0
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7
 
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  Generated by: https://openapi-generator.tech
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- OpenAPI Generator version: 7.1.0-SNAPSHOT
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
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  =end
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@@ -168,7 +168,7 @@ module Cheminee
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  else # model
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  # models (e.g. Pet) or oneOf
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  klass = Cheminee.const_get(type)
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- klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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  end
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  end
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@@ -0,0 +1,221 @@
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+ =begin
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+ #Cheminée
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+
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+ #Cheminée: The Chemical Structure Search Engine
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+
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+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
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+
11
+ =end
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+
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+ require 'date'
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+ require 'time'
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+
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+ module Cheminee
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+ class QueryResponseError
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+ attr_accessor :error
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+
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+ # Attribute mapping from ruby-style variable name to JSON key.
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+ def self.attribute_map
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+ {
23
+ :'error' => :'error'
24
+ }
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+ end
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+
27
+ # Returns all the JSON keys this model knows about
28
+ def self.acceptable_attributes
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+ attribute_map.values
30
+ end
31
+
32
+ # Attribute type mapping.
33
+ def self.openapi_types
34
+ {
35
+ :'error' => :'String'
36
+ }
37
+ end
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+
39
+ # List of attributes with nullable: true
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+ def self.openapi_nullable
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+ Set.new([
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+ ])
43
+ end
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+
45
+ # Initializes the object
46
+ # @param [Hash] attributes Model attributes in the form of hash
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+ def initialize(attributes = {})
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+ if (!attributes.is_a?(Hash))
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+ fail ArgumentError, "The input argument (attributes) must be a hash in `Cheminee::QueryResponseError` initialize method"
50
+ end
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+
52
+ # check to see if the attribute exists and convert string to symbol for hash key
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+ attributes = attributes.each_with_object({}) { |(k, v), h|
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+ if (!self.class.attribute_map.key?(k.to_sym))
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+ fail ArgumentError, "`#{k}` is not a valid attribute in `Cheminee::QueryResponseError`. Please check the name to make sure it's valid. List of attributes: " + self.class.attribute_map.keys.inspect
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+ end
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+ h[k.to_sym] = v
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+ }
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+
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+ if attributes.key?(:'error')
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+ self.error = attributes[:'error']
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+ else
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+ self.error = nil
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+ end
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+ end
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+
67
+ # Show invalid properties with the reasons. Usually used together with valid?
68
+ # @return Array for valid properties with the reasons
69
+ def list_invalid_properties
70
+ warn '[DEPRECATED] the `list_invalid_properties` method is obsolete'
71
+ invalid_properties = Array.new
72
+ if @error.nil?
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+ invalid_properties.push('invalid value for "error", error cannot be nil.')
74
+ end
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+
76
+ invalid_properties
77
+ end
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+
79
+ # Check to see if the all the properties in the model are valid
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+ # @return true if the model is valid
81
+ def valid?
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+ warn '[DEPRECATED] the `valid?` method is obsolete'
83
+ return false if @error.nil?
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+ true
85
+ end
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+
87
+ # Checks equality by comparing each attribute.
88
+ # @param [Object] Object to be compared
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+ def ==(o)
90
+ return true if self.equal?(o)
91
+ self.class == o.class &&
92
+ error == o.error
93
+ end
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+
95
+ # @see the `==` method
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+ # @param [Object] Object to be compared
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+ def eql?(o)
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+ self == o
99
+ end
100
+
101
+ # Calculates hash code according to all attributes.
102
+ # @return [Integer] Hash code
103
+ def hash
104
+ [error].hash
105
+ end
106
+
107
+ # Builds the object from hash
108
+ # @param [Hash] attributes Model attributes in the form of hash
109
+ # @return [Object] Returns the model itself
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+ def self.build_from_hash(attributes)
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+ return nil unless attributes.is_a?(Hash)
112
+ attributes = attributes.transform_keys(&:to_sym)
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+ transformed_hash = {}
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+ openapi_types.each_pair do |key, type|
115
+ if attributes.key?(attribute_map[key]) && attributes[attribute_map[key]].nil?
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+ transformed_hash["#{key}"] = nil
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+ elsif type =~ /\AArray<(.*)>/i
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+ # check to ensure the input is an array given that the attribute
119
+ # is documented as an array but the input is not
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+ if attributes[attribute_map[key]].is_a?(Array)
121
+ transformed_hash["#{key}"] = attributes[attribute_map[key]].map { |v| _deserialize($1, v) }
122
+ end
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+ elsif !attributes[attribute_map[key]].nil?
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+ transformed_hash["#{key}"] = _deserialize(type, attributes[attribute_map[key]])
125
+ end
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+ end
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+ new(transformed_hash)
128
+ end
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+
130
+ # Deserializes the data based on type
131
+ # @param string type Data type
132
+ # @param string value Value to be deserialized
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+ # @return [Object] Deserialized data
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+ def self._deserialize(type, value)
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+ case type.to_sym
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+ when :Time
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+ Time.parse(value)
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+ when :Date
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+ Date.parse(value)
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+ when :String
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+ value.to_s
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+ when :Integer
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+ value.to_i
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+ when :Float
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+ value.to_f
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+ when :Boolean
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+ if value.to_s =~ /\A(true|t|yes|y|1)\z/i
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+ true
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+ else
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+ false
151
+ end
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+ when :Object
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+ # generic object (usually a Hash), return directly
154
+ value
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+ when /\AArray<(?<inner_type>.+)>\z/
156
+ inner_type = Regexp.last_match[:inner_type]
157
+ value.map { |v| _deserialize(inner_type, v) }
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+ when /\AHash<(?<k_type>.+?), (?<v_type>.+)>\z/
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+ k_type = Regexp.last_match[:k_type]
160
+ v_type = Regexp.last_match[:v_type]
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+ {}.tap do |hash|
162
+ value.each do |k, v|
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+ hash[_deserialize(k_type, k)] = _deserialize(v_type, v)
164
+ end
165
+ end
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+ else # model
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+ # models (e.g. Pet) or oneOf
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+ klass = Cheminee.const_get(type)
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+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
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+ end
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+ end
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+
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+ # Returns the string representation of the object
174
+ # @return [String] String presentation of the object
175
+ def to_s
176
+ to_hash.to_s
177
+ end
178
+
179
+ # to_body is an alias to to_hash (backward compatibility)
180
+ # @return [Hash] Returns the object in the form of hash
181
+ def to_body
182
+ to_hash
183
+ end
184
+
185
+ # Returns the object in the form of hash
186
+ # @return [Hash] Returns the object in the form of hash
187
+ def to_hash
188
+ hash = {}
189
+ self.class.attribute_map.each_pair do |attr, param|
190
+ value = self.send(attr)
191
+ if value.nil?
192
+ is_nullable = self.class.openapi_nullable.include?(attr)
193
+ next if !is_nullable || (is_nullable && !instance_variable_defined?(:"@#{attr}"))
194
+ end
195
+
196
+ hash[param] = _to_hash(value)
197
+ end
198
+ hash
199
+ end
200
+
201
+ # Outputs non-array value in the form of hash
202
+ # For object, use to_hash. Otherwise, just return the value
203
+ # @param [Object] value Any valid value
204
+ # @return [Hash] Returns the value in the form of hash
205
+ def _to_hash(value)
206
+ if value.is_a?(Array)
207
+ value.compact.map { |v| _to_hash(v) }
208
+ elsif value.is_a?(Hash)
209
+ {}.tap do |hash|
210
+ value.each { |k, v| hash[k] = _to_hash(v) }
211
+ end
212
+ elsif value.respond_to? :to_hash
213
+ value.to_hash
214
+ else
215
+ value
216
+ end
217
+ end
218
+
219
+ end
220
+
221
+ end