While addressing some automated code complexity warnings over on #168 I noticed that the check for variation_type for ClinVar is correctly executed but there is no following continue instruction that would lead to filtering out non-SNV variants:
However, it appears likely that they are not included either way, because there is another filter earlier in the pipeline, when the mutations are mapped with annovar:
While addressing some automated code complexity warnings over on #168 I noticed that the check for
variation_typefor ClinVar is correctly executed but there is no followingcontinueinstruction that would lead to filtering out non-SNV variants:https://github.com/reimandlab/ActiveDriverDB/blob/5e9d2c370f9a2609d95283b90a56385a836f084a/website/imports/mutations/clinvar.py#L257-L261
However, it appears likely that they are not included either way, because there is another filter earlier in the pipeline, when the mutations are mapped with annovar:
https://github.com/reimandlab/ActiveDriverDB/blob/cc4873af2f839a37b4e8fd5b6aa4781f1cef38db/website/data/mutations/annotate_clinvar.sh#L10
It would be good to investigate this further. For now, I will add a TODO note in the code to highlight this issue.