[BioPython] Deprecating Bio.Saf (PredictProtein Simple Alignment Format)

[Peter]

I wrote:
>> Is anyone using Bio.Saf or PredictProtein's "Simple Alignment Format" (SAF)?
>>
>> Bio.Saf is one of the older parsers in Biopython.  It parses the
>> PredictProtein "Simple Alignment Format" (SAF), a fairly free-format
>> multiple sequence alignment file format described here:
>> http://www.predictprotein.org/Dexa/optin_saf.html
>
>...
>
>> If no one is using it, I would like to deprecate Bio.Saf in the next
>> release of Biopython.
>
> Still no objections?

As no-one has objected, I have marked Bio.Saf as deprecated in CVS.
As usual, the intention is to keep the deprecated module for a couple
more releases before removing it.

Peter