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weigertlab / spotiflow

Accurate and efficient spot detection for microscopy data
BSD 3-Clause "New" or "Revised" License
46 stars 4 forks source link

Add bioconda/conda-forge support #8

Open migueLib opened 3 weeks ago

migueLib commented 3 weeks ago

I'm using and adding spotiflow as an NF-core module. I have already created a docker container for it and expanded the CLI.

nf-core best practices require the tool to be available via bioconda (ideally) or conda-forge + container. Do you have a timeline/plans to add spotiflow as a bioconda/conda-forge package.

Thanks, :)

AlbertDominguez commented 2 weeks ago

Hi Miguel,

I actually thought of putting up a conda package at some point rather soon :) Didn't have a specific channel in mind (thought of conda-forge mostly, but could be bioconda too). I'll check it out when I'm a bit more free, but I think I'll be able to do it in the following weeks. I'll let you know here when that happens :)

migueLib commented 2 weeks ago

Hi Albert,

Thank you very much for the response! I'm very much looking forward to it. Plese let me know how/if I can assist with this in any way! ;)

AlbertDominguez commented 6 days ago

Hi Miguel,

Some days ago I PR'd the conda-forge staged-recipes repo to add spotiflow (https://github.com/conda-forge/staged-recipes/pull/26670). Unfortunately I can't give an ETA on when it will be merged and available, but hopefully soon. Just informing so you know we went with conda-forge in the end, in case want to draft the conda-forge+container structure you were mentioning even though the release is not there yet :)

migueLib commented 4 days ago

Hi Albert,

Thanks a lot for pushing this forward! I also just did the PR for the extended CLI and added the Workflow for Docker.