[Debian-med-packaging] Bug#1009118: python3-biopython: incompatible with muscle >= 5

[Étienne Mollier]

Hi Andrius,

Andrius Merkys, on 2022-04-22:
> The upstream has confirmed that command line wrappers are deprecated and
> will most likely be removed before bookworm freeze. Thus there is no
> need to patch this. I suggest keeping this issue open until bookworm
> release as a reminder to check this before the release.

I agree.  Let's close only once wrappers are effectively not
available anymore.

Forwarding the word from upstream, the solution is to make use
of the "subprocess" python3 module instead:
> Quoting https://github.com/biopython/biopython/blob/master/DEPRECATED.rst
>> *Bio.Application and the command line wrappers using it*
>> Declared obsolete in release 1.79. Please use the standard
>> library subprocess module directly instead.

Have a good evening,  :)
-- 
Étienne Mollier <emollier at emlwks999.eu>
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Sent from /dev/pts/2, please excuse my verbosity.
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