Closed nuno-agostinho closed 4 months ago
Fixes #1617: when inputting short variants in region format, VEP prints a warning message:
region
WARNING: line 1 skipped (12:9079672-9079672:C): C type is not supported
Also, unknown SV types in region format are incorrectly returned with no warning.
This PR does the following:
Ensure that running VEP with the following variants works without warnings[^1]:
12:9079672-9079672:C 12:9079672-9079672:DUP 12:9079672-9079672:INS:ME 12:9079672-9079672:INS:ME:LINE1
Ensure that running VEP with the following variants does not print output (only warnings):
12:9079672-9079672:RANDOM 12:9079672-9079672:DELTEST
[^1]: The last two examples require https://github.com/Ensembl/ensembl-variation/pull/1071
Merged into main and release/112
Fixes #1617: when inputting short variants in
region
format, VEP prints a warning message:Also, unknown SV types in
region
format are incorrectly returned with no warning.Changelog
This PR does the following:
region
formatTesting
Ensure that running VEP with the following variants works without warnings[^1]:
Ensure that running VEP with the following variants does not print output (only warnings):
[^1]: The last two examples require https://github.com/Ensembl/ensembl-variation/pull/1071