[Debian-med-packaging] BioPython unit tests: Mafft

[Andreas Tille]

Hi Peter,

On Wed, Sep 23, 2015 at 02:50:03PM +0100, Peter Cock wrote:
> I'm not seeing any moderation requests but the biopython
> lists are members only simply as otherwise we cannot cope
> with the spam volumes. CC'ing me is a quick solution if
> you prefer not to report issue on our GitHub.

If you ask me to rather report via GitHub I might consider this next
time.  This seems to be better than private e-mail.
 
> Here test_Mafft_simple.py appears to be invoking mafft and
> checking the teminal output to confirm it did something
> sensible.
> 
> It appears there has been a subtle change in the terminal output.
> We're looking for:
> 
> "Progressive alignment ..."
> 
> Instead there are lines:
> 
> "Progressive alignment 1/2..."
> 
> and:
> 
> "Progressive alignment 2/2..."
> 
> This looks like a simple change to use a regular expression,
> or just search for "Progressive alignment".
> 
> Which version of mafft are you using?

------------------------------------------------------------------------------
  MAFFT v7.245 (2015/07/22)
  http://mafft.cbrc.jp/alignment/software/
  MBE 30:772-780 (2013), NAR 30:3059-3066 (2002)
------------------------------------------------------------------------------

 
Thanks for your quick response

       Andreas. 

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