search

tleonardi / nanocompore

RNA modifications detection from Nanopore dRNA-Seq data
https://nanocompore.rna.rocks
GNU General Public License v3.0
80 stars 12 forks source link

Conda packages for Nanocompore and NanopolishComp #131

Closed mmiladi closed 4 years ago

mmiladi commented 4 years ago

Hi @a-slide and @tleonardi ,

We have prepared an initial version of conda packages for Nanocompore and NanopolishComp. They can be found here https://anaconda.org/bioconda/nanocompore and and here https://anaconda.org/bioconda/nanopolishcomp .

There were a few challenges for pinning to the proper dependencies and the versioning are quite relax. So this might make the conda package using another version of libraries than the pip version. It could be that we have missed some critical constraints on the versions. It would be nice if you could check the recipes and/or test the conda packages to see if something needs to change. The recipes can be found here https://github.com/bioconda/bioconda-recipes/blob/master/recipes/nanocompore/meta.yaml and https://github.com/bioconda/bioconda-recipes/blob/master/recipes/nanopolishcomp/meta.yaml

Best, Milad

a-slide commented 4 years ago

Hi @mmiladi , Thanks a lot, I will give it a try as soon as I can.

Adrien

tleonardi commented 4 years ago

Hi @mmiladi, thanks a lot, this is great!! I'll retry it as well as we will get back to you.

thanks tom

tleonardi commented 4 years ago

Hi @mmiladi, sorry about the delay. I've tested the installation of the conda packages and they work like a charm! Thanks!

mmiladi commented 4 years ago

Wonderful. I have noticed that the scikit version has some impacts on the output messages and the results. If you think some restrictions might be needed, we can add it. Cheers, Milad