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



Hi,

On 2024-06-18 21:37, Giulio Genovese wrote:
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.

Would it be possible to split off the tools requiring this many dependencies to a separate binary package? Then users could choose between a minimalistic installation and a fully fledged one.

Best,
Andrius


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