Class: BioRuby::MCP::Server::KEGGEnzymeTool

Inherits:
MCP::Tool
  • Object
show all
Defined in:
lib/bioruby/mcp/server/kegg_tools.rb

Overview

KEGG enzyme information tool

Constant Summary collapse

KEGG_REST_BASE = 
'http://rest.kegg.jp'

Class Method Summary collapse

Class Method Details

.call(enzyme_id:, server_context: nil) ⇒ Object 



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# File 'lib/bioruby/mcp/server/kegg_tools.rb', line 166

def call(enzyme_id:, server_context: nil)
  # Clean up enzyme ID if needed  
  enzyme_id = enzyme_id.gsub(/^(ec:|enzyme:)/, '')
  
  # Get enzyme entry from KEGG REST API
  enzyme_data = kegg_get_entry(enzyme_id)
  
  if enzyme_data.nil? || enzyme_data.empty?
    return ::MCP::Tool::Response.new([{
      type: 'text',
      text: "Enzyme not found: #{enzyme_id}"
    }])
  end

  # Parse the enzyme data using BioRuby
  enzyme = Bio::KEGG::ENZYME.new(enzyme_data)
  
  ::MCP::Tool::Response.new([{
    type: 'text',
    text: "KEGG Enzyme: #{enzyme_id}\n" \
          "Name: #{enzyme.name}\n" \
          "Class: #{enzyme.enzyme_class}\n" \
          "Reaction: #{enzyme.reaction}\n" \
          "Substrate: #{enzyme.substrate}\n" \
          "Product: #{enzyme.product}\n" \
          "Comment: #{enzyme.comment}"
  }])
rescue => e
  ::MCP::Tool::Response.new([{
    type: 'text',
    text: "Error retrieving enzyme info: #{e.message}"
  }])
end