Merged with latest seqfindr

It seems to think there are line changes where lines just have trailing white space...

* Added Ability to use amino acid sequences as Virulence factors
 * Added helper method to automatically detect type of sequence file (nucl or pro)
 * Added commandline override option for above auto-detection ( -R )
 * Replaced a number of system calls and pathnames with cross  platform  friendly alternatives
 * Added support for fasta file extensions .fna, .fas, .fa; rather than just
   .fas (For query sequences)


	modified:   SeqFindR.py