[Biopython] code to be removed in the next release

[Michiel de Hoon]

Hi everybody,

The following parts of Biopython were deprecated in release 1.53, and are scheduled to be removed in the next release of Biopython. Please let us know if you have any objections against removal.

Bio.ExPASy
the cgi argument in get_sprot_raw

Bio.GFF
(old Bio.GFF for access to a MySQL GFF database)

Bio.Motif.Parsers.AlignAce
CompareAceParser
CompareAceScanner
CompareAceConsumer

Bio.SubsMat:
mat_type keyword in SeqMat
SeqMat.letter_sum
SeqMat.all_letters_sum


Best,
--Michiel.