S3aSim
S3aSim is a sequence similarity search algorithm framework for testing
and evaluating various I/O strategies using MPI-IO. It has been
optimized for PVFS2 ROMIO hints, but can be augmented to use MPI-IO
hints for other file systems. S3aSim uses a master-slave parallel
programming model with database segmentation, which mimics the
mpiBLAST access pattern. A referring publication can be found here from HPDC 2006. Contact me
for any additional information and/or suggestions.
2007.05.20 - Download here
(s3asim-1.00.tar.gz). Added error checks to all arguments.
Improved documentation in the 'doc' directory and with the
README.
2007.04.19 - Download here
(s3asim-0.98.tar.gz). Cleaned up memory leaks. Fixed compiler
problems against mpich2-1.0.5p3. Changed MPI-IO hints to use the -H
option.
Parallel-Search Database Segmentation
