[Debian-med-packaging] Bug#1010568: busco: missing dependencies on hmmer and prodigal

[Andreas Tille]

Hi Andrius,

Am Thu, May 05, 2022 at 04:14:16PM +0300 schrieb Andrius Merkys:
> > Adding these is easy.  Would you mind adding either this fna file (or
> > some similar example) to the test suite enabling us to test that package
> > properly in autopkgtest?
> 
> Adding these surely are easy - thanks for doing so. Some maintainers
> prefer keeping nonessential dependencies as Recommends or Suggests and
> since this is my first encounter with busco I cannot say much about it.

I think in the field of bioinformatics there is no real point in beeing
sparse with dependencies.  I think a failure due to a missing program is
a pretty good reason to add a Depends.
 
> As for autopkgtest, busco has fna files under test_data/. Bit more
> problematic is that busco needs some data from BUSCO database [1] to
> calculate genome coverage. These could be downloaded and stored
> somewhere under debian/ for autopkgtest purpose, but I cannot find the
> licensing information.
> 
> > (And feel free to do a team upload if you are in that mood.)
> 
> Sure, I can upload if we decide that autopkgtest could wait.

I'm a big fan of fixing bugs quickly - so feel free to upload.
May be some wishlist bug that describes the problem of the
autopkgtest keeps a record about this issue.

Kind regards

      Andreas.

> [1] https://busco-data.ezlab.org/v5/data/lineages/
> 
> Best,
> Andrius
> 

-- 
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