conda package for flair

[brookslabucsc]

conda package for flair

[mmiladi]

So now FLAIR is available on bioconda!
The users should be able to conda install flair, then pip install kerneltree. And start using it out of the box.
Please feel free to make PR to bioconda in case of upgrades or missing dependencies.

[belgravia]

Hi,

This is a great idea! I've never made a conda package before so I will try making one. It should definitely help more users with installation :)

-Alison

[belgravia]

Well I wrote a conda environment! It works on my macos and on centos, so hopefully it will work for other people too. It's in misc/flair_conda_env.yaml. There's a link to the installation instructions in the readme.
-Alison

[mmiladi]

Wonderful! Thanks Alison. This now makes it also easier to create a bioconda recipe for flair itself. Would you like to have this option, i.e. having something like conda install flair?
I can try setting it up.

[belgravia]

Hmm... you are welcome to try it, or coach me if you know how to do it. I want to do this but I also don't know enough about how to make one. Would I have to substantially rewrite or restructure flair? It's currently a bunch of separate python scripts bound together by the flair.py wrapper.

-Alison

[mmiladi]

Conda recipes are fairly straightforward. I have now added a PR to the bioconda : bioconda/bioconda-recipes#17245

A missing part is the kerneltree dependency. Since it's not available in conda and seems to be deprecated (?). However the ncls is available. But I don't think it would be compatible.

The other (minor) issue is that the main .py file needed to be executable, so I added a patch, Then the flair in conda would need to be invoked directly as flair.py (without python)

Also it might be useful if you could add a license file to the repo for the future releases.

--Milad

[Jeltje]

We have updated bioconda flair with the latest release and will continue to do so.
Thanks for getting us started @mmiladi !