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algbio / themisto

Space-efficient pseudoalignment with a colored de Bruijn graph
GNU General Public License v2.0
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[Feature Request] Bioconda installation #42

Open jolespin opened 3 months ago

jolespin commented 3 months ago

I would like to add this package to some Nextflow yaml files and making this available on Conda would be much much easier to use for this purpose.

Are there any plans to add this support?

tmaklin commented 3 months ago

Hi, compiling Themisto currently requires GCC which we haven't found a solution for including in a conda recipe targeting macs (the default is clang which doesn't work for us). We have a recipe that works on Linux but haven't submitted this to bioconda because we'd also like to have mac support if Themisto is added to bioconda. I can add the linux only recipe though if that's enough for your use case.

We do supply precompiled binaries for Linux and mac if those are possible to include in a Nextflow pipeline: https://github.com/algbio/themisto/releases

jolespin commented 3 months ago

Awesome, thank you for the update. I'll mostly be using this on linux so having a bioconda installation would be very helpful.