High Performance Computing on an IBM Cell Processor Bioinformatics

fleagoldfishBiotechnology

Oct 2, 2013 (4 years and 9 days ago)

80 views

High Performance Computing
on an IBM Cell Processor


Bioinformatics


Team Members

Kyle Byerly

Shannon McCormick

Matt Rohlf

Bryan Venteicher


Advisor

Dr. Zhao Zhang




Problem Statement and
Solution


Increased data
amount to process


Exponentially
growing data sets


Limited budgets





Cell Broadband
Engine


Inexpensive


Uniquely suited for
the data sets


Block Diagram


System Description


Cell Broadband Engine


1 PPE, up to 8 SPE


PPE is a dual core PowerPC processor


SPE is vector processor



BioPerf


Suite of bioinformatics applications used for
benchmarking

Operating Environment


Linux


PlayStation 3


Room temperature


Dry

User Interface


root@ps3:/#

Functional Requirements


Ported applications shall run on the Cell/B.E.


Ported applications shall return the same
results as the original applications


Ported applications shall return their running
time for comparisons

Non
-
functional Requirements


Performance

Market Survey


'Exploring the Viability of the Cell Broadband
Engine for Bioinformatics Applications' by
Sachdeva, Kistler, Speight, and Tzeng


Jinxu Ding, graduate student at ISU


Risk: A group completes all BioPerf
applications before we do

Deliverables


Source code to two ported BioPerf
applications


Benchmarks

Work Breakdown Structure


Resource Requirements


PlayStation 3


Algorithms books


Bioinformatics information

Project Schedule

Questions?