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Distributed Computing in Life Science Research -Presenter: Yijian Yang 4-28-2003.
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Transcript of Distributed Computing in Life Science Research -Presenter: Yijian Yang 4-28-2003.
Distributed Computing in Life Science Research
-Presenter: Yijian Yang4-28-2003
Motivation
Huge computational task in life science research
Heterogeneous, distributed computing environment
Problem
Unix
Linux
Windows
CORBA
What is CORBA?
Common Object Request Broker Architecture.
CORBA (cont.)
It can be simply conceptualized as a communication bus for client-server object.
Object Request
Invoke function Run() on Z
ZRun()
IDL IDL
CORBA (cont.)
How to develop CORBA applications
1. Define interface
2. Write the .idl file
Module XXX{interface YYY{Method1();Method2();};};
3. Compile it with an idl compiler
4. Use the output to build the server and the client
Server
.idl specification file
Compilation
A package of empty source code for server skeleton
Implement the object
Create and register the object to CORBA server
Ready for client request
Client
Start locator service
Bind to CORBA server
Invoke remote method
Example
European Bioinformatics Institute: corba.ebi.ac.uk
For example: http://corba.ebi.ac.uk/idl/doc/nsdb.Embl.htmlTo get the access number of a sequence, the
corresponding function:getEmblSeq
EmblSeq getEmblSeq(in string bio_seq_id) raises(type::NoResult, Superceded);
Example (cont.)
In client program, if we want to use remote object Embl in EBI EMBL CORBA server, we should do:
1. org.omg.CORBA.ORB orb = org.omg.CORBA.ORB.init(); 2. Embl sample = EmblHelper.bind(orb, “Embl”) ; //bind to server orb3. sample.start(); 4. sample.getEmblSeq(arg[0]);
Example (cont.)
Other Method
Microsoft’s DCOM (Distributed Component Object Model)
Java RMI (Remote Method Invocation)
Conclusion
CORBA is a promising technology for distributed object computing in life science research and has provided pointers to further information.
Reference
http://bioinformer.ebi.ac.uk/newsletter/archives/3/lead_article.html
http://www.corba.org/
http://www.omg.org
http://corba.ebi.ac.uk/
Thanks