cheminee 0.1.12 → 0.1.14

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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
146
+ 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
166
+ 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
186
+ # @return [String] String presentation of the object
187
+ def to_s
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+ to_hash.to_s
189
+ end
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+
191
+ # to_body is an alias to to_hash (backward compatibility)
192
+ # @return [Hash] Returns the object in the form of hash
193
+ def to_body
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+ to_hash
195
+ 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 @@
6
6
  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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168
  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)
170
170
  end
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  end
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172
 
@@ -6,7 +6,7 @@
6
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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
11
  =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
168
168
  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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170
  end
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171
  end
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@@ -6,7 +6,7 @@
6
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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
11
  =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 @@
6
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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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@@ -168,7 +168,7 @@ module Cheminee
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168
  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 @@
1
+ =begin
2
+ #Cheminée
3
+
4
+ #Cheminée: The Chemical Structure Search Engine
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+
6
+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.3.0-SNAPSHOT
10
+
11
+ =end
12
+
13
+ require 'date'
14
+ require 'time'
15
+
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+ module Cheminee
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+ class QueryResponseError
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+ attr_accessor :error
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+
20
+ # Attribute mapping from ruby-style variable name to JSON key.
21
+ def self.attribute_map
22
+ {
23
+ :'error' => :'error'
24
+ }
25
+ end
26
+
27
+ # Returns all the JSON keys this model knows about
28
+ def self.acceptable_attributes
29
+ attribute_map.values
30
+ end
31
+
32
+ # Attribute type mapping.
33
+ def self.openapi_types
34
+ {
35
+ :'error' => :'String'
36
+ }
37
+ end
38
+
39
+ # List of attributes with nullable: true
40
+ def self.openapi_nullable
41
+ Set.new([
42
+ ])
43
+ end
44
+
45
+ # Initializes the object
46
+ # @param [Hash] attributes Model attributes in the form of hash
47
+ def initialize(attributes = {})
48
+ if (!attributes.is_a?(Hash))
49
+ fail ArgumentError, "The input argument (attributes) must be a hash in `Cheminee::QueryResponseError` initialize method"
50
+ end
51
+
52
+ # check to see if the attribute exists and convert string to symbol for hash key
53
+ attributes = attributes.each_with_object({}) { |(k, v), h|
54
+ if (!self.class.attribute_map.key?(k.to_sym))
55
+ 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
56
+ end
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+ h[k.to_sym] = v
58
+ }
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+
60
+ if attributes.key?(:'error')
61
+ self.error = attributes[:'error']
62
+ else
63
+ self.error = nil
64
+ end
65
+ 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?
73
+ invalid_properties.push('invalid value for "error", error cannot be nil.')
74
+ end
75
+
76
+ invalid_properties
77
+ end
78
+
79
+ # Check to see if the all the properties in the model are valid
80
+ # @return true if the model is valid
81
+ def valid?
82
+ warn '[DEPRECATED] the `valid?` method is obsolete'
83
+ return false if @error.nil?
84
+ true
85
+ end
86
+
87
+ # Checks equality by comparing each attribute.
88
+ # @param [Object] Object to be compared
89
+ def ==(o)
90
+ return true if self.equal?(o)
91
+ self.class == o.class &&
92
+ error == o.error
93
+ end
94
+
95
+ # @see the `==` method
96
+ # @param [Object] Object to be compared
97
+ def eql?(o)
98
+ 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
110
+ def self.build_from_hash(attributes)
111
+ return nil unless attributes.is_a?(Hash)
112
+ attributes = attributes.transform_keys(&:to_sym)
113
+ transformed_hash = {}
114
+ openapi_types.each_pair do |key, type|
115
+ if attributes.key?(attribute_map[key]) && attributes[attribute_map[key]].nil?
116
+ transformed_hash["#{key}"] = nil
117
+ elsif type =~ /\AArray<(.*)>/i
118
+ # check to ensure the input is an array given that the attribute
119
+ # is documented as an array but the input is not
120
+ if attributes[attribute_map[key]].is_a?(Array)
121
+ transformed_hash["#{key}"] = attributes[attribute_map[key]].map { |v| _deserialize($1, v) }
122
+ end
123
+ elsif !attributes[attribute_map[key]].nil?
124
+ transformed_hash["#{key}"] = _deserialize(type, attributes[attribute_map[key]])
125
+ end
126
+ end
127
+ new(transformed_hash)
128
+ end
129
+
130
+ # Deserializes the data based on type
131
+ # @param string type Data type
132
+ # @param string value Value to be deserialized
133
+ # @return [Object] Deserialized data
134
+ def self._deserialize(type, value)
135
+ case type.to_sym
136
+ when :Time
137
+ Time.parse(value)
138
+ when :Date
139
+ Date.parse(value)
140
+ when :String
141
+ value.to_s
142
+ when :Integer
143
+ value.to_i
144
+ when :Float
145
+ value.to_f
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+ when :Boolean
147
+ if value.to_s =~ /\A(true|t|yes|y|1)\z/i
148
+ true
149
+ else
150
+ false
151
+ end
152
+ when :Object
153
+ # generic object (usually a Hash), return directly
154
+ value
155
+ when /\AArray<(?<inner_type>.+)>\z/
156
+ inner_type = Regexp.last_match[:inner_type]
157
+ value.map { |v| _deserialize(inner_type, v) }
158
+ when /\AHash<(?<k_type>.+?), (?<v_type>.+)>\z/
159
+ k_type = Regexp.last_match[:k_type]
160
+ v_type = Regexp.last_match[:v_type]
161
+ {}.tap do |hash|
162
+ value.each do |k, v|
163
+ hash[_deserialize(k_type, k)] = _deserialize(v_type, v)
164
+ end
165
+ end
166
+ else # model
167
+ # models (e.g. Pet) or oneOf
168
+ klass = Cheminee.const_get(type)
169
+ klass.respond_to?(:openapi_any_of) || klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
170
+ end
171
+ end
172
+
173
+ # 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