update default env to reflect new WASP version

aryarm / as_analysis

A complete Snakemake pipeline for detecting allele specific expression in RNA-seq

MIT License

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update default env to reflect new WASP version #41

Closed aryarm closed 6 years ago

aryarm commented 6 years ago

WASP has updated to v0.3.x

Let's change envs/default.yaml so that the new version of WASP can be used. Also, the new update will probably allow us to get rid of envs/pytables2.yaml.

aryarm commented 6 years ago

get_as_counts.py is not supported in the new WASP you should switch to using bam2h5.py instead but we need to figure out how to pass the --samples argument in the same way as we did when calling get_as_counts.py

let's submit a PR for bam2h5