Class: OpenBEL::Routes::Expressions::SequenceVariationFunctionHasLocationPredicate

Inherits:
Object
  • Object
show all
Includes:
BEL::LibBEL
Defined in:
app/openbel/api/routes/expressions.rb

Constant Summary collapse

SEQUENCE_VARIATION_FX = 
[
  'fus', 'fusion',
  'pmod', 'proteinModification',
  'sub', 'substitution',
  'trunc', 'truncation'
]

Instance Method Summary collapse

Instance Method Details

#call(ast_node) ⇒ Object 



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# File 'app/openbel/api/routes/expressions.rb', line 300

def call(ast_node)
  # check if AST node is a TERM
  if !ast_node.is_a?(BelAstNodeToken) || ast_node.token_type != :BEL_TOKEN_TERM
    return false
  end

  # check if AST node is a pmod TERM
  if !SEQUENCE_VARIATION_FX.include?(ast_node.left.to_typed_node.value)
    return false
  end

  # walk arg AST nodes until terminal
  arg_node = ast_node.right.to_typed_node
  while !(arg_node.left.pointer.null? && arg_node.right.pointer.null?)
    # check if NV token child
    arg_token = arg_node.left.to_typed_node

    if arg_token.token_type == :BEL_TOKEN_NV
      # true if namespace value is an integer
      node_value = arg_token.right.to_typed_node.value
      if integer?(node_value)
        return true
      end
    end

    # advance to the next ARG
    arg_node = arg_node.right.to_typed_node
  end

  return false
end