bel_parser 1.0.0.alpha.46-java → 1.0.0.alpha.47-java

checksums.yaml

@@ -1,7 +1,7 @@
 ---
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-  data.tar.gz: 48d67bbc71f3661eb6f9dd352aa0a83fcad48404
+  metadata.gz: 4c2fddeaf52fe437892c924831ae99758ab14b95
+  data.tar.gz: 0e473e2c5900240e0e02e9e8831bfa41a043418e
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+  metadata.gz: 9913e3f53f9feec89720dac1fb43d78c2713e45b75da34a86e59d3a20f1831384ef13b1a13a2db34067e8b36bff4f7752e79d5774f48896ee3948ad7033a23d3
+  data.tar.gz: 16f4963203ecc695f70065a3320c147a32187ae86f7779d72edf39744d47ba8eefa5b34b111b894c083878f719081073a103aad2d308ba30653c486c769f15d6

data/VERSION

@@ -1 +1 @@
-1.0.0.alpha.46
+1.0.0.alpha.47

data/lib/bel_parser/expression/model/parameter.rb

@@ -93,7 +93,7 @@ module BELParser
             end
           Parameter.new(
             namespace,
-            unquote(value.children[0].string_literal))
+            value.children[0].string_literal)
         end
       end
     end

data/lib/bel_parser/expression/model/statement.rb

@@ -1,4 +1,3 @@
-require 'bel_parser/quoting'
 require 'bel_parser/language/relationship'
 
 module BELParser
@@ -114,7 +113,6 @@ module BELParser
       end
 
       module Converters
-        include BELParser::Quoting
         include BELParser::Parsers::AST
 
         def ast_to_statement(ast, spec, namespaces = {})

data/lib/bel_parser/expression/model/term.rb

@@ -1,5 +1,3 @@
-require 'bel_parser/quoting'
-
 module BELParser
   module Expression
     module Model

data/lib/bel_parser/language/apply_namespace_encoding.rb

@@ -60,7 +60,7 @@ module BELParser
         return prefix_node unless prefix_node.identifier
 
         @prefix         = prefix_node.identifier.string_literal
-        @type, @dataset = @namespace_hash[@prefix]
+        @type, @dataset = @namespace_hash[@prefix.downcase]
         return prefix_node unless @dataset
 
         prefix_node.namespace = @dataset

data/lib/bel_parser/language/semantics_ast.rb

@@ -1,4 +1,3 @@
-require 'bel_parser/quoting'
 require_relative 'semantics_match'
 require_relative 'semantics_result'
 require_relative 'semantics_ast_warnings'
@@ -739,14 +738,12 @@ module BELParser
         UNDETERMINED       = /[1?]_[?*]/
         UNKNOWN_START_STOP = '?'.freeze
 
-        include BELParser::Quoting
-
         def initialize(**properties)
           super(:is_amino_acid_range, [], properties)
         end
 
         def match(value_node, spec)
-          string_literal = unquote(value_node.children[0])
+          string_literal = value_node.children[0]
           case string_literal
           when START_STOP, UNDETERMINED, UNKNOWN_START_STOP
             success(value_node, spec)
@@ -758,14 +755,12 @@ module BELParser
 
       # AST node for IsSequencePosition is a semantic AST.
       class SemanticIsSequencePosition < SemanticASTNode
-        include BELParser::Quoting
-
         def initialize(**properties)
           super(:is_sequence_position, [], properties)
         end
 
         def match(value_node, spec)
-          string_literal = unquote(value_node.children[0].string_literal)
+          string_literal = value_node.children[0].string_literal
           integer_position =
             begin
               Integer(string_literal)

data/lib/bel_parser/language/syntax/undefined_namespace.rb

@@ -17,7 +17,7 @@ module BELParser
           return nil if prefix_identifier.nil?
 
           prefix = prefix_identifier.string_literal
-          unless namespaces[prefix]
+          unless namespaces[prefix.downcase]
             UndefinedNamespaceError.new(prefix_node, spec, prefix, namespaces)
           end
         end

data/lib/bel_parser/language/syntax/undefined_namespace_value.rb

@@ -1,5 +1,4 @@
 require 'bel_parser/parsers/ast/node'
-require 'bel_parser/quoting'
 
 module BELParser
   module Language
@@ -7,7 +6,6 @@ module BELParser
       # Undefined namespace value finds values that are missing from their
       # purported namespaces.
       class UndefinedNamespaceValue
-        extend BELParser::Quoting
         include SyntaxFunction
 
         private_class_method :new
@@ -17,7 +15,7 @@ module BELParser
           return nil unless value_node.namespace
 
           unless value_node.namespace_value
-            value = unquote(value_node.children[0].string_literal)
+            value = value_node.children[0].string_literal
             UndefinedNamespaceValueWarning.new(value_node, spec, value)
           end
         end

data/lib/bel_parser/script/nanopub_mapper.rb

@@ -1,4 +1,3 @@
-require 'bel_parser/quoting'
 require_relative '../parsers/serializer'
 
 module BELParser
@@ -7,7 +6,6 @@ module BELParser
     # nanopub hash objects.
     class NanopubMapper
       include BELParser::Parsers
-      include BELParser::Quoting
 
       STATEMENT_TYPES = [
         :simple_statement,
@@ -90,19 +88,19 @@ module BELParser
       def citation(citation)
         return nil unless citation
         citation.each do |field, value|
-          citation[field] = unquote(value)
+          citation[field] = value
         end
       end
 
       def support(support)
-        unquote(support)
+        support
       end
 
       def experiment_context(annotations)
         (annotations || []).map do |name, value|
           {
             name:  name,
-            value: unquote(value)
+            value: value
           }
         end
       end

data/lib/bel_parser/script/state/bel_version.rb

@@ -1,6 +1,5 @@
 require 'bel_parser/language'
 require 'bel_parser/parsers/ast/node'
-require 'bel_parser/quoting'
 require 'concurrent/hash'
 require_relative '../keywords'
 require_relative '../state_function'
@@ -10,7 +9,6 @@ module BELParser
     module State
       class BELVersion
         extend StateFunction
-        extend BELParser::Quoting
         extend Keyword
 
         TARGET_NODE         = BELParser::Parsers::AST::DocumentProperty
@@ -22,7 +20,7 @@ module BELParser
           name_string  = name.identifier.string_literal
           return unless is_bel_version?(name_string)
 
-          value_string = unquote(value.children[0].string_literal)
+          value_string = value.children[0].string_literal
           begin
             spec = BELParser::Language.specification(value_string)
           rescue ArgumentError

data/lib/bel_parser/script/state/document_property.rb

@@ -1,5 +1,4 @@
 require 'bel_parser/parsers/ast/node'
-require 'bel_parser/quoting'
 require 'concurrent/hash'
 require_relative '../state_function'
 
@@ -8,7 +7,6 @@ module BELParser
     module State
       class DocumentProperty
         extend StateFunction
-        extend BELParser::Quoting
 
         TARGET_NODE = BELParser::Parsers::AST::DocumentProperty
 
@@ -20,7 +18,7 @@ module BELParser
           if name && value
             name_string  = name.identifier.string_literal
             value_string = value.children[0].string_literal
-            hash[name_string] = unquote(value_string)
+            hash[name_string] = value_string
           end
         end
       end

data/lib/bel_parser/script/state/set.rb

@@ -1,5 +1,4 @@
 require 'bel_parser/language'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 require_relative '../keywords'
@@ -11,7 +10,6 @@ module BELParser
       class Set
         extend StateFunction
         extend BELParser::Script::Keyword
-        extend BELParser::Quoting
 
         TARGET_NODE = BELParser::Parsers::AST::Set
         LIST_NODE   = BELParser::Parsers::AST::List

data/lib/bel_parser/script/state/unset.rb

@@ -1,5 +1,4 @@
 require 'bel_parser/language'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 require_relative '../keywords'
@@ -11,7 +10,6 @@ module BELParser
       class Unset
         extend StateFunction
         extend BELParser::Script::Keyword
-        extend BELParser::Quoting
 
         TARGET_NODE = BELParser::Parsers::AST::Unset
 

data/lib/bel_parser/script/syntax/expression_validation.rb

@@ -2,7 +2,6 @@ require 'bel_parser/language'
 require 'bel_parser/language/expression_validator'
 require 'bel_parser/language/syntax_function'
 require 'bel_parser/language/syntax_warning'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 
@@ -11,7 +10,6 @@ module BELParser
     module Syntax
       class ExpressionValidation
         extend BELParser::Language::Syntax::SyntaxFunction
-        extend BELParser::Quoting
 
         TARGET_NODES = [
           BELParser::Parsers::AST::ObservedTerm,

data/lib/bel_parser/script/syntax/invalid_regex_pattern.rb

@@ -1,7 +1,6 @@
 require 'bel_parser/language'
 require 'bel_parser/language/syntax_function'
 require 'bel_parser/language/syntax_error'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 
@@ -10,13 +9,12 @@ module BELParser
     module Syntax
       class InvalidRegexPattern
         extend BELParser::Language::Syntax::SyntaxFunction
-        extend BELParser::Quoting
 
         TARGET_NODE = BELParser::Parsers::AST::Pattern
 
         def self.map(ast_node, script_context)
           return nil unless ast_node.is_a?(TARGET_NODE)
-          pattern = unquote(ast_node.string.string_literal)
+          pattern = ast_node.string.string_literal
           begin
             Regexp.new(pattern)
             nil

data/lib/bel_parser/script/syntax/undefined_annotation_value.rb

@@ -1,7 +1,6 @@
 require 'bel_parser/language'
 require 'bel_parser/language/syntax_function'
 require 'bel_parser/language/syntax_warning'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 require_relative '../keywords'
@@ -11,7 +10,6 @@ module BELParser
     module Syntax
       class UndefinedAnnotationValue
         extend BELParser::Language::Syntax::SyntaxFunction
-        extend BELParser::Quoting
         extend BELParser::Script::Keyword
 
         TARGET_NODE       = BELParser::Parsers::AST::Set
@@ -57,7 +55,6 @@ module BELParser
         end
 
         def self.map_value(ast_node, name_string, value_string, identifier, reader)
-          value_string = unquote(value_string)
           value = reader.retrieve_value_from_resource(identifier, value_string)
           UndefinedAnnotationValueWarning.new(
             ast_node,

data/lib/bel_parser/script/syntax/unsupported_bel_version.rb

@@ -1,7 +1,6 @@
 require 'bel_parser/language'
 require 'bel_parser/language/syntax_function'
 require 'bel_parser/language/syntax_error'
-require 'bel_parser/quoting'
 require 'bel_parser/parsers/ast/node'
 require 'concurrent/hash'
 require_relative '../keywords'
@@ -11,18 +10,17 @@ module BELParser
     module Syntax
       class UnsupportedBELVersion
         extend BELParser::Language::Syntax::SyntaxFunction
-        extend BELParser::Quoting
         extend Keyword
 
-        TARGET_NODE         = BELParser::Parsers::AST::DocumentProperty
+        TARGET_NODE = BELParser::Parsers::AST::DocumentProperty
 
         def self.map(ast_node, script_context)
           return nil unless ast_node.is_a?(TARGET_NODE)
           name, value = ast_node.children
-          name_string  = name.identifier.string_literal
+          name_string = name.identifier.string_literal
           return nil unless is_bel_version?(name_string)
 
-          value_string = unquote(value.children[0].string_literal)
+          value_string = value.children[0].string_literal
           begin
             BELParser::Language.specification(value_string)
             nil

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: bel_parser
 version: !ruby/object:Gem::Version
-  version: 1.0.0.alpha.46
+  version: 1.0.0.alpha.47
 platform: java
 authors:
 - Anthony Bargnesi