bel_parser 1.0.0.alpha.1

Sign up to get free protection for your applications and to get access to all the features.
Files changed (182) hide show
  1. checksums.yaml +7 -0
  2. data/.gemspec +28 -0
  3. data/CHANGELOG.md +10 -0
  4. data/LICENSE +191 -0
  5. data/README.md +9 -0
  6. data/VERSION +1 -0
  7. data/bin/bel2_termcheck +39 -0
  8. data/lib/bel_parser.rb +17 -0
  9. data/lib/bel_parser/ast_filter.rb +27 -0
  10. data/lib/bel_parser/ast_generator.rb +86 -0
  11. data/lib/bel_parser/ast_validator.rb +40 -0
  12. data/lib/bel_parser/expression/parser.rb +42 -0
  13. data/lib/bel_parser/expression/term_semantics.rb +36 -0
  14. data/lib/bel_parser/language.rb +7 -0
  15. data/lib/bel_parser/language/function.rb +59 -0
  16. data/lib/bel_parser/language/quoting.rb +236 -0
  17. data/lib/bel_parser/language/semantic_ast.rb +604 -0
  18. data/lib/bel_parser/language/semantics/analyzer.rb +59 -0
  19. data/lib/bel_parser/language/signature.rb +39 -0
  20. data/lib/bel_parser/language/specification.rb +49 -0
  21. data/lib/bel_parser/language/syntax/expression/incomplete_node.rb +14 -0
  22. data/lib/bel_parser/language/syntax/expression/invalid_term_function.rb +22 -0
  23. data/lib/bel_parser/language/version1.rb +50 -0
  24. data/lib/bel_parser/language/version1/functions/abundance.rb +85 -0
  25. data/lib/bel_parser/language/version1/functions/biological_process.rb +85 -0
  26. data/lib/bel_parser/language/version1/functions/catalytic_activity.rb +110 -0
  27. data/lib/bel_parser/language/version1/functions/cell_secretion.rb +80 -0
  28. data/lib/bel_parser/language/version1/functions/cell_surface_expression.rb +80 -0
  29. data/lib/bel_parser/language/version1/functions/chaperone_activity.rb +110 -0
  30. data/lib/bel_parser/language/version1/functions/complex_abundance.rb +115 -0
  31. data/lib/bel_parser/language/version1/functions/composite_abundance.rb +80 -0
  32. data/lib/bel_parser/language/version1/functions/degradation.rb +80 -0
  33. data/lib/bel_parser/language/version1/functions/fusion.rb +302 -0
  34. data/lib/bel_parser/language/version1/functions/gene_abundance.rb +125 -0
  35. data/lib/bel_parser/language/version1/functions/gtp_bound_activity.rb +110 -0
  36. data/lib/bel_parser/language/version1/functions/kinase_activity.rb +110 -0
  37. data/lib/bel_parser/language/version1/functions/list.rb +115 -0
  38. data/lib/bel_parser/language/version1/functions/micro_rna_abundance.rb +85 -0
  39. data/lib/bel_parser/language/version1/functions/molecular_activity.rb +80 -0
  40. data/lib/bel_parser/language/version1/functions/pathology.rb +85 -0
  41. data/lib/bel_parser/language/version1/functions/peptidase_activity.rb +110 -0
  42. data/lib/bel_parser/language/version1/functions/phosphatase_activity.rb +110 -0
  43. data/lib/bel_parser/language/version1/functions/products.rb +80 -0
  44. data/lib/bel_parser/language/version1/functions/protein_abundance.rb +245 -0
  45. data/lib/bel_parser/language/version1/functions/protein_modification.rb +167 -0
  46. data/lib/bel_parser/language/version1/functions/reactants.rb +80 -0
  47. data/lib/bel_parser/language/version1/functions/reaction.rb +85 -0
  48. data/lib/bel_parser/language/version1/functions/ribosylation_activity.rb +110 -0
  49. data/lib/bel_parser/language/version1/functions/rna_abundance.rb +125 -0
  50. data/lib/bel_parser/language/version1/functions/substitution.rb +96 -0
  51. data/lib/bel_parser/language/version1/functions/transcriptional_activity.rb +110 -0
  52. data/lib/bel_parser/language/version1/functions/translocation.rb +100 -0
  53. data/lib/bel_parser/language/version1/functions/transport_activity.rb +110 -0
  54. data/lib/bel_parser/language/version1/functions/truncation.rb +82 -0
  55. data/lib/bel_parser/language/version1/return_types/abundance.rb +20 -0
  56. data/lib/bel_parser/language/version1/return_types/any.rb +74 -0
  57. data/lib/bel_parser/language/version1/return_types/biological_process.rb +17 -0
  58. data/lib/bel_parser/language/version1/return_types/catalytic_activity.rb +20 -0
  59. data/lib/bel_parser/language/version1/return_types/chaperone_activity.rb +20 -0
  60. data/lib/bel_parser/language/version1/return_types/complex_abundance.rb +17 -0
  61. data/lib/bel_parser/language/version1/return_types/fusion.rb +17 -0
  62. data/lib/bel_parser/language/version1/return_types/gene_abundance.rb +17 -0
  63. data/lib/bel_parser/language/version1/return_types/gtp_bound_activity.rb +20 -0
  64. data/lib/bel_parser/language/version1/return_types/kinase_activity.rb +20 -0
  65. data/lib/bel_parser/language/version1/return_types/list.rb +17 -0
  66. data/lib/bel_parser/language/version1/return_types/micro_rna_abundance.rb +17 -0
  67. data/lib/bel_parser/language/version1/return_types/molecular_activity.rb +20 -0
  68. data/lib/bel_parser/language/version1/return_types/pathology.rb +17 -0
  69. data/lib/bel_parser/language/version1/return_types/peptidase_activity.rb +20 -0
  70. data/lib/bel_parser/language/version1/return_types/phosphatase_activity.rb +20 -0
  71. data/lib/bel_parser/language/version1/return_types/products.rb +17 -0
  72. data/lib/bel_parser/language/version1/return_types/protein_abundance.rb +17 -0
  73. data/lib/bel_parser/language/version1/return_types/protein_modification.rb +17 -0
  74. data/lib/bel_parser/language/version1/return_types/reactants.rb +17 -0
  75. data/lib/bel_parser/language/version1/return_types/ribosylation_activity.rb +20 -0
  76. data/lib/bel_parser/language/version1/return_types/rna_abundance.rb +17 -0
  77. data/lib/bel_parser/language/version1/return_types/substitution.rb +17 -0
  78. data/lib/bel_parser/language/version1/return_types/transcriptional_activity.rb +20 -0
  79. data/lib/bel_parser/language/version1/return_types/transport_activity.rb +20 -0
  80. data/lib/bel_parser/language/version1/return_types/truncation.rb +17 -0
  81. data/lib/bel_parser/language/version2.rb +50 -0
  82. data/lib/bel_parser/language/version2/functions/abundance.rb +165 -0
  83. data/lib/bel_parser/language/version2/functions/activity.rb +115 -0
  84. data/lib/bel_parser/language/version2/functions/biological_process.rb +85 -0
  85. data/lib/bel_parser/language/version2/functions/cell_secretion.rb +80 -0
  86. data/lib/bel_parser/language/version2/functions/cell_surface_expression.rb +80 -0
  87. data/lib/bel_parser/language/version2/functions/complex_abundance.rb +190 -0
  88. data/lib/bel_parser/language/version2/functions/composite_abundance.rb +80 -0
  89. data/lib/bel_parser/language/version2/functions/degradation.rb +80 -0
  90. data/lib/bel_parser/language/version2/functions/fragment.rb +119 -0
  91. data/lib/bel_parser/language/version2/functions/from_location.rb +85 -0
  92. data/lib/bel_parser/language/version2/functions/fusion.rb +227 -0
  93. data/lib/bel_parser/language/version2/functions/gene_abundance.rb +195 -0
  94. data/lib/bel_parser/language/version2/functions/list.rb +115 -0
  95. data/lib/bel_parser/language/version2/functions/location.rb +85 -0
  96. data/lib/bel_parser/language/version2/functions/micro_rna_abundance.rb +165 -0
  97. data/lib/bel_parser/language/version2/functions/molecular_activity.rb +83 -0
  98. data/lib/bel_parser/language/version2/functions/pathology.rb +85 -0
  99. data/lib/bel_parser/language/version2/functions/products.rb +80 -0
  100. data/lib/bel_parser/language/version2/functions/protein_abundance.rb +285 -0
  101. data/lib/bel_parser/language/version2/functions/protein_modification.rb +167 -0
  102. data/lib/bel_parser/language/version2/functions/reactants.rb +80 -0
  103. data/lib/bel_parser/language/version2/functions/reaction.rb +85 -0
  104. data/lib/bel_parser/language/version2/functions/rna_abundance.rb +195 -0
  105. data/lib/bel_parser/language/version2/functions/to_location.rb +85 -0
  106. data/lib/bel_parser/language/version2/functions/translocation.rb +90 -0
  107. data/lib/bel_parser/language/version2/functions/variant.rb +83 -0
  108. data/lib/bel_parser/language/version2/return_types/abundance.rb +20 -0
  109. data/lib/bel_parser/language/version2/return_types/activity.rb +20 -0
  110. data/lib/bel_parser/language/version2/return_types/any.rb +74 -0
  111. data/lib/bel_parser/language/version2/return_types/biological_process.rb +17 -0
  112. data/lib/bel_parser/language/version2/return_types/complex_abundance.rb +17 -0
  113. data/lib/bel_parser/language/version2/return_types/fragment.rb +20 -0
  114. data/lib/bel_parser/language/version2/return_types/from_location.rb +20 -0
  115. data/lib/bel_parser/language/version2/return_types/fusion.rb +17 -0
  116. data/lib/bel_parser/language/version2/return_types/gene_abundance.rb +17 -0
  117. data/lib/bel_parser/language/version2/return_types/list.rb +17 -0
  118. data/lib/bel_parser/language/version2/return_types/location.rb +20 -0
  119. data/lib/bel_parser/language/version2/return_types/micro_rna_abundance.rb +17 -0
  120. data/lib/bel_parser/language/version2/return_types/molecular_activity.rb +20 -0
  121. data/lib/bel_parser/language/version2/return_types/pathology.rb +17 -0
  122. data/lib/bel_parser/language/version2/return_types/products.rb +17 -0
  123. data/lib/bel_parser/language/version2/return_types/protein_abundance.rb +17 -0
  124. data/lib/bel_parser/language/version2/return_types/protein_modification.rb +17 -0
  125. data/lib/bel_parser/language/version2/return_types/reactants.rb +17 -0
  126. data/lib/bel_parser/language/version2/return_types/rna_abundance.rb +17 -0
  127. data/lib/bel_parser/language/version2/return_types/to_location.rb +20 -0
  128. data/lib/bel_parser/language/version2/return_types/variant.rb +20 -0
  129. data/lib/bel_parser/mixin/line_continuator.rb +15 -0
  130. data/lib/bel_parser/mixin/line_mapping.rb +14 -0
  131. data/lib/bel_parser/parser.rb +54 -0
  132. data/lib/bel_parser/parsers/ast/mapped_traversal.rb +36 -0
  133. data/lib/bel_parser/parsers/ast/node.rb +705 -0
  134. data/lib/bel_parser/parsers/ast/sexp.rb +8 -0
  135. data/lib/bel_parser/parsers/ast/traversal.rb +21 -0
  136. data/lib/bel_parser/parsers/bel_script.rb +4 -0
  137. data/lib/bel_parser/parsers/bel_script/define_annotation.rb +5476 -0
  138. data/lib/bel_parser/parsers/bel_script/define_annotation.rl +141 -0
  139. data/lib/bel_parser/parsers/bel_script/define_namespace.rb +1780 -0
  140. data/lib/bel_parser/parsers/bel_script/define_namespace.rl +121 -0
  141. data/lib/bel_parser/parsers/bel_script/set.rb +4556 -0
  142. data/lib/bel_parser/parsers/bel_script/set.rl +116 -0
  143. data/lib/bel_parser/parsers/bel_script/unset.rb +706 -0
  144. data/lib/bel_parser/parsers/bel_script/unset.rl +95 -0
  145. data/lib/bel_parser/parsers/common.rb +5 -0
  146. data/lib/bel_parser/parsers/common/blank_line.rb +211 -0
  147. data/lib/bel_parser/parsers/common/blank_line.rl +81 -0
  148. data/lib/bel_parser/parsers/common/comment_line.rb +245 -0
  149. data/lib/bel_parser/parsers/common/comment_line.rl +97 -0
  150. data/lib/bel_parser/parsers/common/common.rb +7 -0
  151. data/lib/bel_parser/parsers/common/common.rl +13 -0
  152. data/lib/bel_parser/parsers/common/identifier.rb +289 -0
  153. data/lib/bel_parser/parsers/common/identifier.rl +106 -0
  154. data/lib/bel_parser/parsers/common/list.rb +2142 -0
  155. data/lib/bel_parser/parsers/common/list.rl +144 -0
  156. data/lib/bel_parser/parsers/common/string.rb +271 -0
  157. data/lib/bel_parser/parsers/common/string.rl +107 -0
  158. data/lib/bel_parser/parsers/expression.rb +7 -0
  159. data/lib/bel_parser/parsers/expression/comment.rb +239 -0
  160. data/lib/bel_parser/parsers/expression/comment.rl +97 -0
  161. data/lib/bel_parser/parsers/expression/parameter.rb +1506 -0
  162. data/lib/bel_parser/parsers/expression/parameter.rl +97 -0
  163. data/lib/bel_parser/parsers/expression/relationship.rb +254 -0
  164. data/lib/bel_parser/parsers/expression/relationship.rl +98 -0
  165. data/lib/bel_parser/parsers/expression/statement_nested.rb +17802 -0
  166. data/lib/bel_parser/parsers/expression/statement_nested.rl +141 -0
  167. data/lib/bel_parser/parsers/expression/statement_observed_term.rb +7291 -0
  168. data/lib/bel_parser/parsers/expression/statement_observed_term.rl +92 -0
  169. data/lib/bel_parser/parsers/expression/statement_simple.rb +10475 -0
  170. data/lib/bel_parser/parsers/expression/statement_simple.rl +112 -0
  171. data/lib/bel_parser/parsers/expression/term.rb +3989 -0
  172. data/lib/bel_parser/parsers/expression/term.rl +157 -0
  173. data/lib/bel_parser/parsers/line_parser.rb +92 -0
  174. data/lib/bel_parser/parsers/mixin/buffer.rb +10 -0
  175. data/lib/bel_parser/parsers/nonblocking_io_wrapper.rb +50 -0
  176. data/lib/bel_parser/script/parser.rb +49 -0
  177. data/lib/bel_parser/vendor/ast.rb +17 -0
  178. data/lib/bel_parser/vendor/ast/node.rb +254 -0
  179. data/lib/bel_parser/vendor/ast/processor.rb +12 -0
  180. data/lib/bel_parser/vendor/ast/processor/mixin.rb +282 -0
  181. data/lib/bel_parser/vendor/ast/sexp.rb +30 -0
  182. metadata +226 -0
@@ -0,0 +1,85 @@
1
+ require_relative '../../version1'
2
+ require_relative '../../function'
3
+ require_relative '../../signature'
4
+ require_relative '../../semantic_ast'
5
+
6
+ module BELParser
7
+ module Language
8
+ module Version2
9
+ module Functions
10
+ # BiologicalProcess: Denotes a process or population of events.
11
+ class BiologicalProcess
12
+ extend Function
13
+
14
+ SHORT = :bp
15
+ LONG = :biologicalProcess
16
+ RETURN_TYPE = BELParser::Language::Version2::ReturnTypes::BiologicalProcess
17
+ DESCRIPTION = 'Denotes a process or population of events.'.freeze
18
+
19
+ def self.short
20
+ SHORT
21
+ end
22
+
23
+ def self.long
24
+ LONG
25
+ end
26
+
27
+ def self.return_type
28
+ RETURN_TYPE
29
+ end
30
+
31
+ def self.description
32
+ DESCRIPTION
33
+ end
34
+
35
+ def self.signatures
36
+ SIGNATURES
37
+ end
38
+
39
+ module Signatures
40
+
41
+ class BiologicalProcessSignature
42
+ extend BELParser::Language::Signature
43
+
44
+ private_class_method :new
45
+
46
+ AST = BELParser::Language::Semantics::Builder.build do
47
+ term(
48
+ function(
49
+ identifier(
50
+ function_of(BiologicalProcess))),
51
+ argument(
52
+ parameter(
53
+ prefix(
54
+ identifier(
55
+ has_namespace,
56
+ namespace_of(:*))),
57
+ value(
58
+ value_type(
59
+ has_encoding,
60
+ encoding_of(:BiologicalProcess))))))
61
+ end
62
+ private_constant :AST
63
+
64
+ STRING_FORM = 'biologicalProcess(E:biologicalProcess)biologicalProcess'.freeze
65
+ private_constant :STRING_FORM
66
+
67
+ def self.semantic_ast
68
+ AST
69
+ end
70
+
71
+ def self.string_form
72
+ STRING_FORM
73
+ end
74
+ end
75
+
76
+ end
77
+
78
+ SIGNATURES = Signatures.constants.map do |const|
79
+ Signatures.const_get(const)
80
+ end.freeze
81
+ end
82
+ end
83
+ end
84
+ end
85
+ end
@@ -0,0 +1,80 @@
1
+ require_relative '../../version1'
2
+ require_relative '../../function'
3
+ require_relative '../../signature'
4
+ require_relative '../../semantic_ast'
5
+
6
+ module BELParser
7
+ module Language
8
+ module Version2
9
+ module Functions
10
+ # CellSecretion: Denotes the frequency or abundance of events in which members of an abundance move from cells to regions outside of the cells.
11
+ class CellSecretion
12
+ extend Function
13
+
14
+ SHORT = :sec
15
+ LONG = :cellSecretion
16
+ RETURN_TYPE = BELParser::Language::Version2::ReturnTypes::Abundance
17
+ DESCRIPTION = 'Denotes the frequency or abundance of events in which members of an abundance move from cells to regions outside of the cells.'.freeze
18
+
19
+ def self.short
20
+ SHORT
21
+ end
22
+
23
+ def self.long
24
+ LONG
25
+ end
26
+
27
+ def self.return_type
28
+ RETURN_TYPE
29
+ end
30
+
31
+ def self.description
32
+ DESCRIPTION
33
+ end
34
+
35
+ def self.signatures
36
+ SIGNATURES
37
+ end
38
+
39
+ module Signatures
40
+
41
+ class CellSecretionSignature
42
+ extend BELParser::Language::Signature
43
+
44
+ private_class_method :new
45
+
46
+ AST = BELParser::Language::Semantics::Builder.build do
47
+ term(
48
+ function(
49
+ identifier(
50
+ function_of(CellSecretion))),
51
+ argument(
52
+ term(
53
+ function(
54
+ identifier(
55
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Abundance))))))
56
+ end
57
+ private_constant :AST
58
+
59
+ STRING_FORM = 'cellSecretion(F:abundance)abundance'.freeze
60
+ private_constant :STRING_FORM
61
+
62
+ def self.semantic_ast
63
+ AST
64
+ end
65
+
66
+ def self.string_form
67
+ STRING_FORM
68
+ end
69
+ end
70
+
71
+ end
72
+
73
+ SIGNATURES = Signatures.constants.map do |const|
74
+ Signatures.const_get(const)
75
+ end.freeze
76
+ end
77
+ end
78
+ end
79
+ end
80
+ end
@@ -0,0 +1,80 @@
1
+ require_relative '../../version1'
2
+ require_relative '../../function'
3
+ require_relative '../../signature'
4
+ require_relative '../../semantic_ast'
5
+
6
+ module BELParser
7
+ module Language
8
+ module Version2
9
+ module Functions
10
+ # CellSurfaceExpression: Denotes the frequency or abundance of events in which members of an abundance move to the surface of cells.
11
+ class CellSurfaceExpression
12
+ extend Function
13
+
14
+ SHORT = :surf
15
+ LONG = :cellSurfaceExpression
16
+ RETURN_TYPE = BELParser::Language::Version2::ReturnTypes::Abundance
17
+ DESCRIPTION = 'Denotes the frequency or abundance of events in which members of an abundance move to the surface of cells.'.freeze
18
+
19
+ def self.short
20
+ SHORT
21
+ end
22
+
23
+ def self.long
24
+ LONG
25
+ end
26
+
27
+ def self.return_type
28
+ RETURN_TYPE
29
+ end
30
+
31
+ def self.description
32
+ DESCRIPTION
33
+ end
34
+
35
+ def self.signatures
36
+ SIGNATURES
37
+ end
38
+
39
+ module Signatures
40
+
41
+ class CellSurfaceExpressionSignature
42
+ extend BELParser::Language::Signature
43
+
44
+ private_class_method :new
45
+
46
+ AST = BELParser::Language::Semantics::Builder.build do
47
+ term(
48
+ function(
49
+ identifier(
50
+ function_of(CellSurfaceExpression))),
51
+ argument(
52
+ term(
53
+ function(
54
+ identifier(
55
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Abundance))))))
56
+ end
57
+ private_constant :AST
58
+
59
+ STRING_FORM = 'cellSurfaceExpression(F:abundance)abundance'.freeze
60
+ private_constant :STRING_FORM
61
+
62
+ def self.semantic_ast
63
+ AST
64
+ end
65
+
66
+ def self.string_form
67
+ STRING_FORM
68
+ end
69
+ end
70
+
71
+ end
72
+
73
+ SIGNATURES = Signatures.constants.map do |const|
74
+ Signatures.const_get(const)
75
+ end.freeze
76
+ end
77
+ end
78
+ end
79
+ end
80
+ end
@@ -0,0 +1,190 @@
1
+ require_relative '../../version1'
2
+ require_relative '../../function'
3
+ require_relative '../../signature'
4
+ require_relative '../../semantic_ast'
5
+
6
+ module BELParser
7
+ module Language
8
+ module Version2
9
+ module Functions
10
+ # ComplexAbundance: Denotes the abundance of a molecular complex.
11
+ class ComplexAbundance
12
+ extend Function
13
+
14
+ SHORT = :complex
15
+ LONG = :complexAbundance
16
+ RETURN_TYPE = BELParser::Language::Version2::ReturnTypes::ComplexAbundance
17
+ DESCRIPTION = 'Denotes the abundance of a molecular complex.'.freeze
18
+
19
+ def self.short
20
+ SHORT
21
+ end
22
+
23
+ def self.long
24
+ LONG
25
+ end
26
+
27
+ def self.return_type
28
+ RETURN_TYPE
29
+ end
30
+
31
+ def self.description
32
+ DESCRIPTION
33
+ end
34
+
35
+ def self.signatures
36
+ SIGNATURES
37
+ end
38
+
39
+ module Signatures
40
+
41
+ class NamedComplexAbundanceSignature
42
+ extend BELParser::Language::Signature
43
+
44
+ private_class_method :new
45
+
46
+ AST = BELParser::Language::Semantics::Builder.build do
47
+ term(
48
+ function(
49
+ identifier(
50
+ function_of(ComplexAbundance))),
51
+ argument(
52
+ parameter(
53
+ prefix(
54
+ identifier(
55
+ has_namespace,
56
+ namespace_of(:*))),
57
+ value(
58
+ value_type(
59
+ has_encoding,
60
+ encoding_of(:Abundance))))))
61
+ end
62
+ private_constant :AST
63
+
64
+ STRING_FORM = 'complexAbundance(E:abundance)complexAbundance'.freeze
65
+ private_constant :STRING_FORM
66
+
67
+ def self.semantic_ast
68
+ AST
69
+ end
70
+
71
+ def self.string_form
72
+ STRING_FORM
73
+ end
74
+ end
75
+
76
+ class NamedComplexAbundanceWithLocationSignature
77
+ extend BELParser::Language::Signature
78
+
79
+ private_class_method :new
80
+
81
+ AST = BELParser::Language::Semantics::Builder.build do
82
+ term(
83
+ function(
84
+ identifier(
85
+ function_of(ComplexAbundance))),
86
+ argument(
87
+ parameter(
88
+ prefix(
89
+ identifier(
90
+ has_namespace,
91
+ namespace_of(:*))),
92
+ value(
93
+ value_type(
94
+ has_encoding,
95
+ encoding_of(:Abundance))))),
96
+ argument(
97
+ term(
98
+ function(
99
+ identifier(
100
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Location))))))
101
+ end
102
+ private_constant :AST
103
+
104
+ STRING_FORM = 'complexAbundance(E:abundance,F:location)complexAbundance'.freeze
105
+ private_constant :STRING_FORM
106
+
107
+ def self.semantic_ast
108
+ AST
109
+ end
110
+
111
+ def self.string_form
112
+ STRING_FORM
113
+ end
114
+ end
115
+
116
+ class ComposedComplexAbundanceSignature
117
+ extend BELParser::Language::Signature
118
+
119
+ private_class_method :new
120
+
121
+ AST = BELParser::Language::Semantics::Builder.build do
122
+ term(
123
+ function(
124
+ identifier(
125
+ function_of(ComplexAbundance))),
126
+ variadic_arguments(
127
+ term(
128
+ function(
129
+ identifier(
130
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Abundance))))))
131
+ end
132
+ private_constant :AST
133
+
134
+ STRING_FORM = 'complexAbundance(F:abundance...)complexAbundance'.freeze
135
+ private_constant :STRING_FORM
136
+
137
+ def self.semantic_ast
138
+ AST
139
+ end
140
+
141
+ def self.string_form
142
+ STRING_FORM
143
+ end
144
+ end
145
+
146
+ class ComposedComplexAbundanceWithLocationSignature
147
+ extend BELParser::Language::Signature
148
+
149
+ private_class_method :new
150
+
151
+ AST = BELParser::Language::Semantics::Builder.build do
152
+ term(
153
+ function(
154
+ identifier(
155
+ function_of(ComplexAbundance))),
156
+ variadic_arguments(
157
+ term(
158
+ function(
159
+ identifier(
160
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Abundance))))),
161
+ argument(
162
+ term(
163
+ function(
164
+ identifier(
165
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Location))))))
166
+ end
167
+ private_constant :AST
168
+
169
+ STRING_FORM = 'complexAbundance(F:abundance...,F:location)complexAbundance'.freeze
170
+ private_constant :STRING_FORM
171
+
172
+ def self.semantic_ast
173
+ AST
174
+ end
175
+
176
+ def self.string_form
177
+ STRING_FORM
178
+ end
179
+ end
180
+
181
+ end
182
+
183
+ SIGNATURES = Signatures.constants.map do |const|
184
+ Signatures.const_get(const)
185
+ end.freeze
186
+ end
187
+ end
188
+ end
189
+ end
190
+ end
@@ -0,0 +1,80 @@
1
+ require_relative '../../version1'
2
+ require_relative '../../function'
3
+ require_relative '../../signature'
4
+ require_relative '../../semantic_ast'
5
+
6
+ module BELParser
7
+ module Language
8
+ module Version2
9
+ module Functions
10
+ # CompositeAbundance: Denotes the frequency or abundance of events in which members are present.
11
+ class CompositeAbundance
12
+ extend Function
13
+
14
+ SHORT = :composite
15
+ LONG = :compositeAbundance
16
+ RETURN_TYPE = BELParser::Language::Version2::ReturnTypes::Abundance
17
+ DESCRIPTION = 'Denotes the frequency or abundance of events in which members are present.'.freeze
18
+
19
+ def self.short
20
+ SHORT
21
+ end
22
+
23
+ def self.long
24
+ LONG
25
+ end
26
+
27
+ def self.return_type
28
+ RETURN_TYPE
29
+ end
30
+
31
+ def self.description
32
+ DESCRIPTION
33
+ end
34
+
35
+ def self.signatures
36
+ SIGNATURES
37
+ end
38
+
39
+ module Signatures
40
+
41
+ class CompositeAbundanceSignature
42
+ extend BELParser::Language::Signature
43
+
44
+ private_class_method :new
45
+
46
+ AST = BELParser::Language::Semantics::Builder.build do
47
+ term(
48
+ function(
49
+ identifier(
50
+ function_of(CompositeAbundance))),
51
+ variadic_arguments(
52
+ term(
53
+ function(
54
+ identifier(
55
+ return_type_of(BELParser::Language::Version2::ReturnTypes::Abundance))))))
56
+ end
57
+ private_constant :AST
58
+
59
+ STRING_FORM = 'compositeAbundance(F:abundance...)abundance'.freeze
60
+ private_constant :STRING_FORM
61
+
62
+ def self.semantic_ast
63
+ AST
64
+ end
65
+
66
+ def self.string_form
67
+ STRING_FORM
68
+ end
69
+ end
70
+
71
+ end
72
+
73
+ SIGNATURES = Signatures.constants.map do |const|
74
+ Signatures.const_get(const)
75
+ end.freeze
76
+ end
77
+ end
78
+ end
79
+ end
80
+ end