cheminee 0.1.9 → 0.1.11

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data/Gemfile.lock CHANGED
@@ -1,7 +1,7 @@
1
1
  PATH
2
2
  remote: .
3
3
  specs:
4
- cheminee (0.1.9)
4
+ cheminee (0.1.11)
5
5
  typhoeus (~> 1.0, >= 1.0.1)
6
6
 
7
7
  GEM
data/README.md CHANGED
@@ -7,7 +7,7 @@ Cheminée: The Chemical Structure Search Engine
7
7
  This SDK is automatically generated by the [OpenAPI Generator](https://openapi-generator.tech) project:
8
8
 
9
9
  - API version: 1.0
10
- - Package version: 0.1.9
10
+ - Package version: 0.1.11
11
11
  - Build package: org.openapitools.codegen.languages.RubyClientCodegen
12
12
  For more information, please visit [https://github.com/rdkit-rs/cheminee](https://github.com/rdkit-rs/cheminee)
13
13
 
@@ -24,16 +24,16 @@ gem build cheminee.gemspec
24
24
  Then either install the gem locally:
25
25
 
26
26
  ```shell
27
- gem install ./cheminee-0.1.9.gem
27
+ gem install ./cheminee-0.1.11.gem
28
28
  ```
29
29
 
30
- (for development, run `gem install --dev ./cheminee-0.1.9.gem` to install the development dependencies)
30
+ (for development, run `gem install --dev ./cheminee-0.1.11.gem` to install the development dependencies)
31
31
 
32
32
  or publish the gem to a gem hosting service, e.g. [RubyGems](https://rubygems.org/).
33
33
 
34
34
  Finally add this to the Gemfile:
35
35
 
36
- gem 'cheminee', '~> 0.1.9'
36
+ gem 'cheminee', '~> 0.1.11'
37
37
 
38
38
  ### Install from Git
39
39
 
@@ -98,7 +98,8 @@ Class | Method | HTTP request | Description
98
98
  - [Cheminee::Schema](docs/Schema.md)
99
99
  - [Cheminee::Smile](docs/Smile.md)
100
100
  - [Cheminee::StandardizedSmile](docs/StandardizedSmile.md)
101
- - [Cheminee::SubstructureSearchHit](docs/SubstructureSearchHit.md)
101
+ - [Cheminee::StructureResponseError](docs/StructureResponseError.md)
102
+ - [Cheminee::StructureSearchHit](docs/StructureSearchHit.md)
102
103
 
103
104
 
104
105
  ## Documentation for Authorization
data/docs/DefaultApi.md CHANGED
@@ -268,7 +268,7 @@ No authorization required
268
268
 
269
269
  ## v1_indexes_index_search_substructure_get
270
270
 
271
- > <Array<SubstructureSearchHit>> v1_indexes_index_search_substructure_get(index, q)
271
+ > <Array<StructureSearchHit>> v1_indexes_index_search_substructure_get(index, smile, opts)
272
272
 
273
273
  Perform substructure search against index
274
274
 
@@ -280,11 +280,15 @@ require 'cheminee'
280
280
 
281
281
  api_instance = Cheminee::DefaultApi.new
282
282
  index = 'index_example' # String |
283
- q = 'q_example' # String |
283
+ smile = 'smile_example' # String |
284
+ opts = {
285
+ result_limit: 56, # Integer |
286
+ tautomer_limit: 56 # Integer |
287
+ }
284
288
 
285
289
  begin
286
290
  # Perform substructure search against index
287
- result = api_instance.v1_indexes_index_search_substructure_get(index, q)
291
+ result = api_instance.v1_indexes_index_search_substructure_get(index, smile, opts)
288
292
  p result
289
293
  rescue Cheminee::ApiError => e
290
294
  puts "Error when calling DefaultApi->v1_indexes_index_search_substructure_get: #{e}"
@@ -295,15 +299,15 @@ end
295
299
 
296
300
  This returns an Array which contains the response data, status code and headers.
297
301
 
298
- > <Array(<Array<SubstructureSearchHit>>, Integer, Hash)> v1_indexes_index_search_substructure_get_with_http_info(index, q)
302
+ > <Array(<Array<StructureSearchHit>>, Integer, Hash)> v1_indexes_index_search_substructure_get_with_http_info(index, smile, opts)
299
303
 
300
304
  ```ruby
301
305
  begin
302
306
  # Perform substructure search against index
303
- data, status_code, headers = api_instance.v1_indexes_index_search_substructure_get_with_http_info(index, q)
307
+ data, status_code, headers = api_instance.v1_indexes_index_search_substructure_get_with_http_info(index, smile, opts)
304
308
  p status_code # => 2xx
305
309
  p headers # => { ... }
306
- p data # => <Array<SubstructureSearchHit>>
310
+ p data # => <Array<StructureSearchHit>>
307
311
  rescue Cheminee::ApiError => e
308
312
  puts "Error when calling DefaultApi->v1_indexes_index_search_substructure_get_with_http_info: #{e}"
309
313
  end
@@ -314,11 +318,13 @@ end
314
318
  | Name | Type | Description | Notes |
315
319
  | ---- | ---- | ----------- | ----- |
316
320
  | **index** | **String** | | |
317
- | **q** | **String** | | |
321
+ | **smile** | **String** | | |
322
+ | **result_limit** | **Integer** | | [optional] |
323
+ | **tautomer_limit** | **Integer** | | [optional] |
318
324
 
319
325
  ### Return type
320
326
 
321
- [**Array&lt;SubstructureSearchHit&gt;**](SubstructureSearchHit.md)
327
+ [**Array&lt;StructureSearchHit&gt;**](StructureSearchHit.md)
322
328
 
323
329
  ### Authorization
324
330
 
@@ -0,0 +1,18 @@
1
+ # Cheminee::StructureResponseError
2
+
3
+ ## Properties
4
+
5
+ | Name | Type | Description | Notes |
6
+ | ---- | ---- | ----------- | ----- |
7
+ | **error** | **String** | | |
8
+
9
+ ## Example
10
+
11
+ ```ruby
12
+ require 'cheminee'
13
+
14
+ instance = Cheminee::StructureResponseError.new(
15
+ error: null
16
+ )
17
+ ```
18
+
@@ -0,0 +1,26 @@
1
+ # Cheminee::StructureSearchHit
2
+
3
+ ## Properties
4
+
5
+ | Name | Type | Description | Notes |
6
+ | ---- | ---- | ----------- | ----- |
7
+ | **extra_data** | **Object** | | |
8
+ | **smiles** | **String** | | |
9
+ | **score** | **Float** | | |
10
+ | **query** | **String** | | |
11
+ | **used_tautomers** | **Boolean** | | |
12
+
13
+ ## Example
14
+
15
+ ```ruby
16
+ require 'cheminee'
17
+
18
+ instance = Cheminee::StructureSearchHit.new(
19
+ extra_data: null,
20
+ smiles: null,
21
+ score: null,
22
+ query: null,
23
+ used_tautomers: null
24
+ )
25
+ ```
26
+
@@ -280,20 +280,24 @@ module Cheminee
280
280
 
281
281
  # Perform substructure search against index
282
282
  # @param index [String]
283
- # @param q [String]
283
+ # @param smile [String]
284
284
  # @param [Hash] opts the optional parameters
285
- # @return [Array<SubstructureSearchHit>]
286
- def v1_indexes_index_search_substructure_get(index, q, opts = {})
287
- data, _status_code, _headers = v1_indexes_index_search_substructure_get_with_http_info(index, q, opts)
285
+ # @option opts [Integer] :result_limit
286
+ # @option opts [Integer] :tautomer_limit
287
+ # @return [Array<StructureSearchHit>]
288
+ def v1_indexes_index_search_substructure_get(index, smile, opts = {})
289
+ data, _status_code, _headers = v1_indexes_index_search_substructure_get_with_http_info(index, smile, opts)
288
290
  data
289
291
  end
290
292
 
291
293
  # Perform substructure search against index
292
294
  # @param index [String]
293
- # @param q [String]
295
+ # @param smile [String]
294
296
  # @param [Hash] opts the optional parameters
295
- # @return [Array<(Array<SubstructureSearchHit>, Integer, Hash)>] Array<SubstructureSearchHit> data, response status code and response headers
296
- def v1_indexes_index_search_substructure_get_with_http_info(index, q, opts = {})
297
+ # @option opts [Integer] :result_limit
298
+ # @option opts [Integer] :tautomer_limit
299
+ # @return [Array<(Array<StructureSearchHit>, Integer, Hash)>] Array<StructureSearchHit> data, response status code and response headers
300
+ def v1_indexes_index_search_substructure_get_with_http_info(index, smile, opts = {})
297
301
  if @api_client.config.debugging
298
302
  @api_client.config.logger.debug 'Calling API: DefaultApi.v1_indexes_index_search_substructure_get ...'
299
303
  end
@@ -301,16 +305,18 @@ module Cheminee
301
305
  if @api_client.config.client_side_validation && index.nil?
302
306
  fail ArgumentError, "Missing the required parameter 'index' when calling DefaultApi.v1_indexes_index_search_substructure_get"
303
307
  end
304
- # verify the required parameter 'q' is set
305
- if @api_client.config.client_side_validation && q.nil?
306
- fail ArgumentError, "Missing the required parameter 'q' when calling DefaultApi.v1_indexes_index_search_substructure_get"
308
+ # verify the required parameter 'smile' is set
309
+ if @api_client.config.client_side_validation && smile.nil?
310
+ fail ArgumentError, "Missing the required parameter 'smile' when calling DefaultApi.v1_indexes_index_search_substructure_get"
307
311
  end
308
312
  # resource path
309
313
  local_var_path = '/v1/indexes/{index}/search/substructure'.sub('{' + 'index' + '}', CGI.escape(index.to_s))
310
314
 
311
315
  # query parameters
312
316
  query_params = opts[:query_params] || {}
313
- query_params[:'q'] = q
317
+ query_params[:'smile'] = smile
318
+ query_params[:'result_limit'] = opts[:'result_limit'] if !opts[:'result_limit'].nil?
319
+ query_params[:'tautomer_limit'] = opts[:'tautomer_limit'] if !opts[:'tautomer_limit'].nil?
314
320
 
315
321
  # header parameters
316
322
  header_params = opts[:header_params] || {}
@@ -324,7 +330,7 @@ module Cheminee
324
330
  post_body = opts[:debug_body]
325
331
 
326
332
  # return_type
327
- return_type = opts[:debug_return_type] || 'Array<SubstructureSearchHit>'
333
+ return_type = opts[:debug_return_type] || 'Array<StructureSearchHit>'
328
334
 
329
335
  # auth_names
330
336
  auth_names = opts[:debug_auth_names] || []
@@ -0,0 +1,221 @@
1
+ =begin
2
+ #Cheminée
3
+
4
+ #Cheminée: The Chemical Structure Search Engine
5
+
6
+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.1.0-SNAPSHOT
10
+
11
+ =end
12
+
13
+ require 'date'
14
+ require 'time'
15
+
16
+ module Cheminee
17
+ class StructureResponseError
18
+ attr_accessor :error
19
+
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::StructureResponseError` 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::StructureResponseError`. Please check the name to make sure it's valid. List of attributes: " + self.class.attribute_map.keys.inspect
56
+ end
57
+ h[k.to_sym] = v
58
+ }
59
+
60
+ if attributes.key?(:'error')
61
+ self.error = attributes[:'error']
62
+ else
63
+ self.error = nil
64
+ end
65
+ end
66
+
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
146
+ 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_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
@@ -0,0 +1,281 @@
1
+ =begin
2
+ #Cheminée
3
+
4
+ #Cheminée: The Chemical Structure Search Engine
5
+
6
+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.1.0-SNAPSHOT
10
+
11
+ =end
12
+
13
+ require 'date'
14
+ require 'time'
15
+
16
+ module Cheminee
17
+ class StructureSearchHit
18
+ attr_accessor :extra_data
19
+
20
+ attr_accessor :smiles
21
+
22
+ attr_accessor :score
23
+
24
+ attr_accessor :query
25
+
26
+ attr_accessor :used_tautomers
27
+
28
+ # Attribute mapping from ruby-style variable name to JSON key.
29
+ def self.attribute_map
30
+ {
31
+ :'extra_data' => :'extra_data',
32
+ :'smiles' => :'smiles',
33
+ :'score' => :'score',
34
+ :'query' => :'query',
35
+ :'used_tautomers' => :'used_tautomers'
36
+ }
37
+ end
38
+
39
+ # Returns all the JSON keys this model knows about
40
+ def self.acceptable_attributes
41
+ attribute_map.values
42
+ end
43
+
44
+ # Attribute type mapping.
45
+ def self.openapi_types
46
+ {
47
+ :'extra_data' => :'Object',
48
+ :'smiles' => :'String',
49
+ :'score' => :'Float',
50
+ :'query' => :'String',
51
+ :'used_tautomers' => :'Boolean'
52
+ }
53
+ end
54
+
55
+ # List of attributes with nullable: true
56
+ def self.openapi_nullable
57
+ Set.new([
58
+ :'extra_data',
59
+ ])
60
+ end
61
+
62
+ # Initializes the object
63
+ # @param [Hash] attributes Model attributes in the form of hash
64
+ def initialize(attributes = {})
65
+ if (!attributes.is_a?(Hash))
66
+ fail ArgumentError, "The input argument (attributes) must be a hash in `Cheminee::StructureSearchHit` initialize method"
67
+ end
68
+
69
+ # check to see if the attribute exists and convert string to symbol for hash key
70
+ attributes = attributes.each_with_object({}) { |(k, v), h|
71
+ if (!self.class.attribute_map.key?(k.to_sym))
72
+ fail ArgumentError, "`#{k}` is not a valid attribute in `Cheminee::StructureSearchHit`. Please check the name to make sure it's valid. List of attributes: " + self.class.attribute_map.keys.inspect
73
+ end
74
+ h[k.to_sym] = v
75
+ }
76
+
77
+ if attributes.key?(:'extra_data')
78
+ self.extra_data = attributes[:'extra_data']
79
+ else
80
+ self.extra_data = nil
81
+ end
82
+
83
+ if attributes.key?(:'smiles')
84
+ self.smiles = attributes[:'smiles']
85
+ else
86
+ self.smiles = nil
87
+ end
88
+
89
+ if attributes.key?(:'score')
90
+ self.score = attributes[:'score']
91
+ else
92
+ self.score = nil
93
+ end
94
+
95
+ if attributes.key?(:'query')
96
+ self.query = attributes[:'query']
97
+ else
98
+ self.query = nil
99
+ end
100
+
101
+ if attributes.key?(:'used_tautomers')
102
+ self.used_tautomers = attributes[:'used_tautomers']
103
+ else
104
+ self.used_tautomers = nil
105
+ end
106
+ end
107
+
108
+ # Show invalid properties with the reasons. Usually used together with valid?
109
+ # @return Array for valid properties with the reasons
110
+ def list_invalid_properties
111
+ warn '[DEPRECATED] the `list_invalid_properties` method is obsolete'
112
+ invalid_properties = Array.new
113
+ if @smiles.nil?
114
+ invalid_properties.push('invalid value for "smiles", smiles cannot be nil.')
115
+ end
116
+
117
+ if @score.nil?
118
+ invalid_properties.push('invalid value for "score", score cannot be nil.')
119
+ end
120
+
121
+ if @query.nil?
122
+ invalid_properties.push('invalid value for "query", query cannot be nil.')
123
+ end
124
+
125
+ if @used_tautomers.nil?
126
+ invalid_properties.push('invalid value for "used_tautomers", used_tautomers cannot be nil.')
127
+ end
128
+
129
+ invalid_properties
130
+ end
131
+
132
+ # Check to see if the all the properties in the model are valid
133
+ # @return true if the model is valid
134
+ def valid?
135
+ warn '[DEPRECATED] the `valid?` method is obsolete'
136
+ return false if @smiles.nil?
137
+ return false if @score.nil?
138
+ return false if @query.nil?
139
+ return false if @used_tautomers.nil?
140
+ true
141
+ end
142
+
143
+ # Checks equality by comparing each attribute.
144
+ # @param [Object] Object to be compared
145
+ def ==(o)
146
+ return true if self.equal?(o)
147
+ self.class == o.class &&
148
+ extra_data == o.extra_data &&
149
+ smiles == o.smiles &&
150
+ score == o.score &&
151
+ query == o.query &&
152
+ used_tautomers == o.used_tautomers
153
+ end
154
+
155
+ # @see the `==` method
156
+ # @param [Object] Object to be compared
157
+ def eql?(o)
158
+ self == o
159
+ end
160
+
161
+ # Calculates hash code according to all attributes.
162
+ # @return [Integer] Hash code
163
+ def hash
164
+ [extra_data, smiles, score, query, used_tautomers].hash
165
+ end
166
+
167
+ # Builds the object from hash
168
+ # @param [Hash] attributes Model attributes in the form of hash
169
+ # @return [Object] Returns the model itself
170
+ def self.build_from_hash(attributes)
171
+ return nil unless attributes.is_a?(Hash)
172
+ attributes = attributes.transform_keys(&:to_sym)
173
+ transformed_hash = {}
174
+ openapi_types.each_pair do |key, type|
175
+ if attributes.key?(attribute_map[key]) && attributes[attribute_map[key]].nil?
176
+ transformed_hash["#{key}"] = nil
177
+ elsif type =~ /\AArray<(.*)>/i
178
+ # check to ensure the input is an array given that the attribute
179
+ # is documented as an array but the input is not
180
+ if attributes[attribute_map[key]].is_a?(Array)
181
+ transformed_hash["#{key}"] = attributes[attribute_map[key]].map { |v| _deserialize($1, v) }
182
+ end
183
+ elsif !attributes[attribute_map[key]].nil?
184
+ transformed_hash["#{key}"] = _deserialize(type, attributes[attribute_map[key]])
185
+ end
186
+ end
187
+ new(transformed_hash)
188
+ end
189
+
190
+ # Deserializes the data based on type
191
+ # @param string type Data type
192
+ # @param string value Value to be deserialized
193
+ # @return [Object] Deserialized data
194
+ def self._deserialize(type, value)
195
+ case type.to_sym
196
+ when :Time
197
+ Time.parse(value)
198
+ when :Date
199
+ Date.parse(value)
200
+ when :String
201
+ value.to_s
202
+ when :Integer
203
+ value.to_i
204
+ when :Float
205
+ value.to_f
206
+ when :Boolean
207
+ if value.to_s =~ /\A(true|t|yes|y|1)\z/i
208
+ true
209
+ else
210
+ false
211
+ end
212
+ when :Object
213
+ # generic object (usually a Hash), return directly
214
+ value
215
+ when /\AArray<(?<inner_type>.+)>\z/
216
+ inner_type = Regexp.last_match[:inner_type]
217
+ value.map { |v| _deserialize(inner_type, v) }
218
+ when /\AHash<(?<k_type>.+?), (?<v_type>.+)>\z/
219
+ k_type = Regexp.last_match[:k_type]
220
+ v_type = Regexp.last_match[:v_type]
221
+ {}.tap do |hash|
222
+ value.each do |k, v|
223
+ hash[_deserialize(k_type, k)] = _deserialize(v_type, v)
224
+ end
225
+ end
226
+ else # model
227
+ # models (e.g. Pet) or oneOf
228
+ klass = Cheminee.const_get(type)
229
+ klass.respond_to?(:openapi_one_of) ? klass.build(value) : klass.build_from_hash(value)
230
+ end
231
+ end
232
+
233
+ # Returns the string representation of the object
234
+ # @return [String] String presentation of the object
235
+ def to_s
236
+ to_hash.to_s
237
+ end
238
+
239
+ # to_body is an alias to to_hash (backward compatibility)
240
+ # @return [Hash] Returns the object in the form of hash
241
+ def to_body
242
+ to_hash
243
+ end
244
+
245
+ # Returns the object in the form of hash
246
+ # @return [Hash] Returns the object in the form of hash
247
+ def to_hash
248
+ hash = {}
249
+ self.class.attribute_map.each_pair do |attr, param|
250
+ value = self.send(attr)
251
+ if value.nil?
252
+ is_nullable = self.class.openapi_nullable.include?(attr)
253
+ next if !is_nullable || (is_nullable && !instance_variable_defined?(:"@#{attr}"))
254
+ end
255
+
256
+ hash[param] = _to_hash(value)
257
+ end
258
+ hash
259
+ end
260
+
261
+ # Outputs non-array value in the form of hash
262
+ # For object, use to_hash. Otherwise, just return the value
263
+ # @param [Object] value Any valid value
264
+ # @return [Hash] Returns the value in the form of hash
265
+ def _to_hash(value)
266
+ if value.is_a?(Array)
267
+ value.compact.map { |v| _to_hash(v) }
268
+ elsif value.is_a?(Hash)
269
+ {}.tap do |hash|
270
+ value.each { |k, v| hash[k] = _to_hash(v) }
271
+ end
272
+ elsif value.respond_to? :to_hash
273
+ value.to_hash
274
+ else
275
+ value
276
+ end
277
+ end
278
+
279
+ end
280
+
281
+ end
@@ -11,5 +11,5 @@ OpenAPI Generator version: 7.1.0-SNAPSHOT
11
11
  =end
12
12
 
13
13
  module Cheminee
14
- VERSION = '0.1.9'
14
+ VERSION = '0.1.11'
15
15
  end
data/lib/cheminee.rb CHANGED
@@ -29,7 +29,8 @@ require 'cheminee/models/post_index_bulk_response_ok_status'
29
29
  require 'cheminee/models/schema'
30
30
  require 'cheminee/models/smile'
31
31
  require 'cheminee/models/standardized_smile'
32
- require 'cheminee/models/substructure_search_hit'
32
+ require 'cheminee/models/structure_response_error'
33
+ require 'cheminee/models/structure_search_hit'
33
34
 
34
35
  # APIs
35
36
  require 'cheminee/api/default_api'
Binary file
@@ -0,0 +1,36 @@
1
+ =begin
2
+ #Cheminée
3
+
4
+ #Cheminée: The Chemical Structure Search Engine
5
+
6
+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.1.0-SNAPSHOT
10
+
11
+ =end
12
+
13
+ require 'spec_helper'
14
+ require 'json'
15
+ require 'date'
16
+
17
+ # Unit tests for Cheminee::StructureResponseError
18
+ # Automatically generated by openapi-generator (https://openapi-generator.tech)
19
+ # Please update as you see appropriate
20
+ describe Cheminee::StructureResponseError do
21
+ let(:instance) { Cheminee::StructureResponseError.new }
22
+
23
+ describe 'test an instance of StructureResponseError' do
24
+ it 'should create an instance of StructureResponseError' do
25
+ # uncomment below to test the instance creation
26
+ #expect(instance).to be_instance_of(Cheminee::StructureResponseError)
27
+ end
28
+ end
29
+
30
+ describe 'test attribute "error"' do
31
+ it 'should work' do
32
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
33
+ end
34
+ end
35
+
36
+ end
@@ -0,0 +1,60 @@
1
+ =begin
2
+ #Cheminée
3
+
4
+ #Cheminée: The Chemical Structure Search Engine
5
+
6
+ The version of the OpenAPI document: 1.0
7
+
8
+ Generated by: https://openapi-generator.tech
9
+ OpenAPI Generator version: 7.1.0-SNAPSHOT
10
+
11
+ =end
12
+
13
+ require 'spec_helper'
14
+ require 'json'
15
+ require 'date'
16
+
17
+ # Unit tests for Cheminee::StructureSearchHit
18
+ # Automatically generated by openapi-generator (https://openapi-generator.tech)
19
+ # Please update as you see appropriate
20
+ describe Cheminee::StructureSearchHit do
21
+ let(:instance) { Cheminee::StructureSearchHit.new }
22
+
23
+ describe 'test an instance of StructureSearchHit' do
24
+ it 'should create an instance of StructureSearchHit' do
25
+ # uncomment below to test the instance creation
26
+ #expect(instance).to be_instance_of(Cheminee::StructureSearchHit)
27
+ end
28
+ end
29
+
30
+ describe 'test attribute "extra_data"' do
31
+ it 'should work' do
32
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
33
+ end
34
+ end
35
+
36
+ describe 'test attribute "smiles"' do
37
+ it 'should work' do
38
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
39
+ end
40
+ end
41
+
42
+ describe 'test attribute "score"' do
43
+ it 'should work' do
44
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
45
+ end
46
+ end
47
+
48
+ describe 'test attribute "query"' do
49
+ it 'should work' do
50
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
51
+ end
52
+ end
53
+
54
+ describe 'test attribute "used_tautomers"' do
55
+ it 'should work' do
56
+ # assertion here. ref: https://rspec.info/features/3-12/rspec-expectations/built-in-matchers/
57
+ end
58
+ end
59
+
60
+ end
metadata CHANGED
@@ -1,14 +1,14 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: cheminee
3
3
  version: !ruby/object:Gem::Version
4
- version: 0.1.9
4
+ version: 0.1.11
5
5
  platform: ruby
6
6
  authors:
7
7
  - Xavier Lange
8
8
  autorequire:
9
9
  bindir: bin
10
10
  cert_chain: []
11
- date: 2023-10-19 00:00:00.000000000 Z
11
+ date: 2023-10-20 00:00:00.000000000 Z
12
12
  dependencies:
13
13
  - !ruby/object:Gem::Dependency
14
14
  name: typhoeus
@@ -75,6 +75,8 @@ files:
75
75
  - docs/Schema.md
76
76
  - docs/Smile.md
77
77
  - docs/StandardizedSmile.md
78
+ - docs/StructureResponseError.md
79
+ - docs/StructureSearchHit.md
78
80
  - docs/SubstructureSearchHit.md
79
81
  - git_push.sh
80
82
  - lib/cheminee.rb
@@ -94,11 +96,13 @@ files:
94
96
  - lib/cheminee/models/schema.rb
95
97
  - lib/cheminee/models/smile.rb
96
98
  - lib/cheminee/models/standardized_smile.rb
99
+ - lib/cheminee/models/structure_response_error.rb
100
+ - lib/cheminee/models/structure_search_hit.rb
97
101
  - lib/cheminee/models/substructure_search_hit.rb
98
102
  - lib/cheminee/version.rb
99
103
  - openapi-generator-config.json
100
104
  - openapi.json
101
- - pkg/cheminee-0.1.9.gem
105
+ - pkg/cheminee-0.1.11.gem
102
106
  - spec/api/default_api_spec.rb
103
107
  - spec/api_client_spec.rb
104
108
  - spec/configuration_spec.rb
@@ -114,6 +118,8 @@ files:
114
118
  - spec/models/schema_spec.rb
115
119
  - spec/models/smile_spec.rb
116
120
  - spec/models/standardized_smile_spec.rb
121
+ - spec/models/structure_response_error_spec.rb
122
+ - spec/models/structure_search_hit_spec.rb
117
123
  - spec/models/substructure_search_hit_spec.rb
118
124
  - spec/spec_helper.rb
119
125
  homepage: https://github.com/rdkit-rs/cheminee-ruby
@@ -147,12 +153,14 @@ test_files:
147
153
  - spec/models/post_index_bulk_response_error_spec.rb
148
154
  - spec/models/standardized_smile_spec.rb
149
155
  - spec/models/smile_spec.rb
156
+ - spec/models/structure_response_error_spec.rb
150
157
  - spec/models/get_indexes_response_error_spec.rb
151
158
  - spec/models/bulk_request_spec.rb
152
159
  - spec/models/substructure_search_hit_spec.rb
153
160
  - spec/models/bulk_request_doc_spec.rb
154
161
  - spec/models/post_index_bulk_response_ok_status_spec.rb
155
162
  - spec/models/schema_spec.rb
163
+ - spec/models/structure_search_hit_spec.rb
156
164
  - spec/models/list_index_response_err_spec.rb
157
165
  - spec/models/index_meta_spec.rb
158
166
  - spec/models/create_index_error_spec.rb
Binary file