AutoGeneration of Moby Services

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Auto-Generation of Moby Services

• Michael Ng

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BioMOBY Project Overview

• MOBY is a system through which a client will be
  able to interact with multiple sources of
  biological data regardless of the underlying
  format or schema. The system also allows for the
  dynamic identification of new relationships
  between data from different sources.

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Overview of MOBY-S Transactions
Moby Object
Moby Object
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MOBY Services Construction

• Procedures
• Good Understanding in MOBY API Object Ontology
• Design your own MOBY objects
• Register your Objects in the MOBY-S Object/Class
  Ontology
• Register your new Service type ontology term in
  the MOBY-S Service Ontology
• Register a new Namespace in the MOBY-S Namespace
  Ontology
• Write MOBY-S Services Source Code
• Register your new MOBY-S Service in the registry

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MOBY Services Construction

• Perl Script
• Estimated Construction Time
• ???
• Solution Build a Moby Code-Generator

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Program Overview

• To make your life easier
• To automate the MOBY Services Building Process
• Auto-generator will also automatically register
  your web service

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Programming Language Used

• Using CGI Perl to provide the logic and
  interface
• Using Phrasebook design pattern to separate logic
  and code generated
• SQL XML

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Approach

• Users with some knowledge to write MOBY web
  services
• Step by Step Guide
• Build a User-Friendly interface

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Versions

• Code-Generator0.5.cgi (by Clarence Kwan)
• SQL Query
• Register and Deregister Web Services
• Code-Generator0.6.cgi
• All Functionalities of V0.5
• HTML Wrapper Command Line
• Advance Input/Output Mapping System

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MOBY-S HTML Wrapper Transactions
Moby Object
Result
Moby Object
Input Parameter
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Word_to_Search
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HTML Input Mapping

• In our example
• Names of the Input parameters
• Word_to_Search (Dynamic)
• Field, Format, Npp (Static)
• Moby Object Object
• ltObject namespaceNCBI_gi' id56'gt
• lt/Objectgt
• Mappings
• Word_to_Search -gt id
• Others -gt Default Values

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Progress

• Successfully able to create web services with
  HTML Wrapper and SQL query
• Command Line is still under construction

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Acknowledgement

• Dr. Mark Wilkinson
• Clarence Kwan
• And
• All others _at_ Dry Lab

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Thank you

• For more Information on BioMOBY
• http//www.biomoby.org
• For the latest version Code-Generator
• http//bioinfo.icapture.ubc.ca/mng

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Question?