Moby Web Services

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Moby Web Services
MSc on Bioinformatics for Health Sciences May
2006

• Iván Párraga García

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What are moby webservices?

• Technologically they are standard webservices
• Define a new layer on the protocol stack to
• Have a well known data representation based on
  ontology
• Make easier the desired service discovery
• Make easier the construction of complex
  biological workflows (with support for error
  async handling)

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Moby Protocol Interactions
1) Service development
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The Registry Moby Central

• Moby project provides Moby Central as a Perl
  server
• It is a directory of services, datatypes and how
  to locate them

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Client Side

• There are different kind of clients
• Some of them allow the creation of workflows

Programmatic libraries
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Client Side MOWServ I

• Internet based client
• Discovery of services based on data type ontology
  or on service type ontology
• It allows to connect easily service outputs to
  service inputs
• Interface helps to the Moby object construction

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Client Side Mowserv II
Data types and service ontologies
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Client Side Mowserv III
6) Check results
5) Check execution status
1) Ontology browsing service selection
2) Input submission
3) Selection output name
4) Service submission
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Client Side Mowserv IV
Integrated HTML visualizer
Raw XML visualizer
Download MOBY object
List of available services for this datatype
object
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Client Side Taverna I

• Java based graphical integrated workbench
• It allows the construction of complex distributed
  workflows
• It can handle different kind of services (Moby
  and others)

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Client Side Taverna II
Processors Webservices
Inputs
Outputs
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Client Side Dashboard
1) Select client execution tab
2) Select service to execute
4) Execute service
3) Fill up input
5) Check output
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Client comparison
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Client info

• Taverna downloadable at
• http//taverna.sourceforge.net/
• MOWServ accessible at
• http//www.inab.org/MOWServ/
• Dashboard donwloadable (as part of jMoby) at
• http//biomoby.open-bio.org/CVS_CONTENT/moby-live/
  Java/docs/

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Server Side

• Moby provides libraries for easier service
  development in different platforms languages
  (Perl Java)

• These libraries provide an abstraction of the
  underlayer protocols. The developer does not need
  to handle internet connections or SOAP messages
  and he can concentrate on the biological problem

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Server Side jMoby

• For java development
• Hides totally underlayer protocols
• Automatic generation of code (developer just
  needs to concentrate on the biological problem)
• Include graphical tools for develop, testing,
  deploy and execution
• Dashboard is part of jMoby

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Moby on the web

• All the info accessible at the Moby homepage at
• http//www.biomoby.org/
• All the tools and libraries downloadable via CVS
  (check previous URL for details)

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Exercises