AnnotSV returns error with a blank vcf

[xiucz]

Hi, In my pipline, I use AnnotSV to annotate a blank vcf (there is no varaint record in vcf, only the ## headers ), leading to an error:

SVinputFile (svaba.sv.vcf is empty, no SV to annotate -Exit without error.

How about AnnotSV returns a blank tsv file with headers when this situation occurs without pipeline breaking down?

[lgmgeo]

Hi xiucz,

AnnotSV doesn't return a blank tsv file with headers. But AnnotSV returns "exit 0 status" which should not break bioinformatics pipelines.

Best, Véronique