[Bioperl-l] RE: FASTA Smith-Waterman (Swat) implementation

[William R. Pearson]

There are no licensing issues (that I know of) in using Phil Green's
SWAT optimization in Smith-Waterman implementations.  I am not
actually using his code; I am using his insight.

Although the FASTA package is copyrighted, some of the code that I
mostly got from other people, such as the Smith-Waterman
implementation and linear space alignment code (from Webb Miller), I
have offered to other open source projects (EMBOSS) and I am happy to
have BioPerl use the code as well.

Some of Webb Miller's code for these things is available from:
http://globin.cse.psu.edu/ftp/dist/sim/
I believe that Webb has placed this code in the public domain.

Bill Pearson