Conda release of vtools 3.0 beta

vatlab / varianttools

software tool for the manipulation, annotation, selection, and analysis of variants in the context of next-gen sequencing analysis

https://vatlab.github.io/vat-docs/

GNU General Public License v3.0

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Conda release of vtools 3.0 beta #80

Closed BoPeng closed 5 years ago

BoPeng commented 6 years ago

Should we wait for a more stable version of vtools before we make a binary release for conda, or should we go ahead and release 3.0 beta for conda now?

gaow commented 6 years ago

Well, my #79 issue is not just about slowness. There are still non-pipeline related commands that do not run for the new genotype DB when I tried earlier this morning. Not sure if it is reproducible on your end. I guess it would be good to fix that. Would be even better to look into the performance issue, because otherwise it would be very difficult to operate over genotypes.

I noticed pypi still has version 2.7 and I take that it is intentional -- prevent users from pip install to the unstable version? Or we can make it under a different package name?

BoPeng commented 6 years ago

Yes we could release vtools under the name of vat.

gaow commented 5 years ago

I was just testing out this on a docker image:

conda install -c https://conda.binstar.org/bpeng variant_tools

it does not completely work unless i also add

conda install scipy pytables

in the docker file. Can we include scipy and pytables in the conda recipe for vtools?