Running outside of the install dir?

[mvelinder]

It'd be preferred to be able to run the tool outside of the install directory. Ie:

python ~/bin/StrVCTVRE.py -i input.vcf.gz -o output.vcf.gz -f vcf -p /path/to/hg38.phyloP100way.bw

The workaround I've found is to just softlink everything from the install dir to the current dir, but that's not ideal.

This is the error I get when trying to run outside of the install dir

ValueError: File "data/exons_Appris_featurized_transcript_Chr1-Y_loeuf.sorted.bed" does not exist

Thanks!

[andrewSharo]

Hi Mvelinder, Thank you for this suggestion. I agree that it's currently limiting to force StrVCTVRE to be run in the install directory. I will look into implementing this feature while still allowing StrVCTVRE to be easy to install. Hope to get back to you soon. Best, Andrew