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aryarm / WASP

WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery
Apache License 2.0
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create conda package for WASP #16

Open aryarm opened 4 years ago

aryarm commented 4 years ago

it would make it a lot easier to install with the allele specific expression pipeline

and it really shouldn't be too hard, considering the few number of dependencies WASP has

the challenge will be creating a script entrypoint for all of the python scripts

aryarm commented 4 years ago

Update (8/29/20): more motivation for getting this done I ran into a bug with the allele specific expression pipeline where I couldn't run WASP on Google Cloud because it wasn't packaged. Basically, all of the pipeline's dependencies are installed afresh by snakemake via conda in every container, and since WASP is just a collection of scripts, it wasn't installed. I had to add it as part of my working directory files, instead.

So I'd like to try to fix this soon. This will simplify the allele specific expression pipeline and make it easier to use with WASP on the cloud.