broadinstitute/cms

scans.py calls incorrect binary to perform normalization with selscan

josephvitti opened this issue · 1 comments

scans.py calls the "selscan" binary when it should call the "norm" binary. It looks like this is where that happens, but I'm unsure how to correct it -- @tomkinsc, can you please advise?

e.g., if I input
python cms/cms/scans.py selscan_norm_ihs {files...}
the following gets executed:
/Users/vitti/miniconda3/envs/cms-env3/bin/selscan --ihs --files {...}
whereas it should execute
/Users/vitti/miniconda3/envs/cms-env3/bin/norm --ihs --files {...}