count-variants not runnable without specifying cosmicdb
Opened this issue · 1 comments
lincoln-harris commented
count-variants
module cannot be run without specifying a path to a cosmic database file
this is a relatively easy fix
ojziff commented
Yes @lincoln-harris, the instructions say optional but the help -h
states required:
--cosmicdb TEXT path to cosmic db file (.tsv) [required]
Please could you advise which cosmic tsv file is required? There are 18 different tsv's available to download from https://cancer.sanger.ac.uk/cosmic/download
Many thanks,
Oliver