[Biopython] Fasta.index_file: functionality removed?

[Cedar McKay]

On Jun 17, 2009, at 6:13 PM, Michiel de Hoon wrote:
> For the short term, the easiest solution for you is probably to pick  
> up Bio.Fasta from an older version of Biopython. For the long term,  
> it's probably best to integrate the indexing functionality in some  
> way in Bio.SeqIO. Do you have some suggestions on how (from a user's  
> perspective) this functionality should look like?

Ideally, it would look almost exactly like SeqIO.to_dict to the user,  
except that instead of being in-memory it would transparently create  
index files. Perhaps the user could pass optional parameters to  
specify the name/location of the index file, and maybe another flag  
could indicate whether the index files should persist, or are  
automatically cleaned up when the user was finished and the dictionary- 
like instance was destroyed.

best,
Cedar