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deweylab / RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
http://deweylab.biostat.wisc.edu/rsem/
GNU General Public License v3.0
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Conda RSEM + DETONATE #121

Open lmfaber opened 5 years ago

lmfaber commented 5 years ago

When installing RSEM in combination with DETONATE via following command everything resolves just fine. conda install -c bioconda -c conda-forge rsem detonate

However when running rsem-calculate-expression the following error appears:

"getSAMTOOLS" is not exported by the rsem_perl_utils module
 "hasPolyA" is not exported by the rsem_perl_utils module
Can't continue after import errors at /home/lmfaber/miniconda3/envs/detonate/bin/rsem-calculate-expression line 8.
BEGIN failed--compilation aborted at /home/lmfaber/miniconda3/envs/detonate/bin/rsem-calculate-expression line 8.

I guess this is because both tools rely on a different rsem perl utils module. Any ideas on how to get those two programs working together in conda?