Cannot parse VEP Mastermind CSQ tags which contains URL

[nswh]

Whet the annotated VCF has Mastermind URL in CSQ tags, vcf2db.py throw the following error:

Traceback (most recent call last): File "/opt/vcf2db/vcf2db.py", line 923, in impacts_extras=a.impacts_field, aok=a.a_ok) File "/opt/vcf2db/vcf2db.py", line 233, in init self.load() File "/opt/vcf2db/vcf2db.py", line 318, in load i = self._load(self.cache, create=True, start=1) File "/opt/vcf2db/vcf2db.py", line 311, in _load self.insert(variants, expanded, keys, i, create=create) File "/opt/vcf2db/vcf2db.py", line 340, in insert v in variants) File "/opt/vcf2db/vcf2db.py", line 809, in gene_info impacts.extend(cls(e, impacts_headers[k]) for e in dk) File "/opt/vcf2db/vcf2db.py", line 809, in impacts.extend(cls(e, impacts_headers[k]) for e in dk) File "/opt/conda/lib/python2.7/site-packages/geneimpacts/effect.py", line 530, in init assert not "=" in effect_string AssertionError

Script submitted is as below:

vcf2db.py \ ${VCF_IN} \ ${PED} \ ${DB_OUT} \ --expand gt_types \ --expand gt_ref_depths \ --expand gt_alt_depths

Input files attached. hg38validation_quartet.30t.vcf.gz

hg38validation_quartet.vcf.ped.txt

[brentp]

Hi, unfortunately, these annotations are not supported. I'd accept a pull-request to fix this.