[Biopython-dev] Deprecating parts of Bio.PopGen.SimCoal

[Peter Cock]

Hi Tiago,

We've previously put a deprecation warning inside the __init__
method so anyone actually using the class will be warned.

Peter

On Tue, Mar 18, 2014 at 5:13 PM, Tiago Antao <tra at popgen.net> wrote:
> Hi,
>
> Currently we have went through the procedure of asking on the mailing
> lists about Simcoal deprecation (now that we have fastsimcoal)
>
> 3 proposals and a doubt:
>
> 1. Deprecate
> https://github.com/biopython/biopython/blob/master/Bio/PopGen/SimCoal/Async.py
> https://github.com/biopython/biopython/blob/master/Bio/PopGen/SimCoal/Cache.py
> 2. Delete the Simcoal tests
> 3. Amend the tutorial
>
> The doubt: I would like to deprecate a class inside
> https://github.com/biopython/biopython/blob/master/Bio/PopGen/SimCoal/Controller.py
> But not the whole Controller (the fastsimcoal code is there).
> Question: Is there a procedure for a partial deprecation?
>
> Thanks,
> T
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