Re: package bcftools dependencies for gff2gff.py and guess-ploidy.py cause bcftools to have 10x as many dependencies

Hi Giulio,

I'm forwarding this to the Debian Med team since as DPL I have basically
stalled my packaging work.

My gut feeling tells me that 500MB are not really much on a
bioinformatitions machine - specifically since python3-matplotlib seems
to be nearly a "default installation" on scientists computers.  But well,
maybe Recommends are fine and possibly some Test-Depends need to be
added (not checked!)

Kind regards
    Andreas.

Am Tue, Jun 18, 2024 at 02:37:48PM -0400 schrieb Giulio Genovese:
> Hi Andreas,
> 
> To address bug #1069234
> <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1069234> the bcftools
> package acquired, through commit a46c2e25
> <https://salsa.debian.org/med-team/bcftools/-/commit/a46c2e2567ffcbac0099f102c6bcac2568f100a8>,
> two new dependencies:
> - python3-gffutils
> - python3-matplotlib
> This causes the size of the package dependencies to explode from <50MB to
> >500MB.
> 
> As bcftools is mostly a C software, I believe the most appropriate approach
> is to have those dependencies as recommended dependencies, so that the
> package can be installed in a minimalistic fashion with the apt-get
> --no-install-recommends command while not affecting other use cases,
> similarly to how it was done for the bwa package in commit e3fef43e
> <https://salsa.debian.org/med-team/bwa/-/commit/e3fef43e17a26dd0c1c7d7ac81333a0e9c6367b3>
> where perl was demoted to a recommended dependency.
> 
> I hope this change can be included for the next release. Thank you!
> 
> Giulio

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