search

nf-core / sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
https://nf-co.re/sarek
MIT License
387 stars 401 forks source link

Challenge with VEP Annotation in Offline Mode - --hgvs Disabled Due to Missing FASTA File #1626

Closed chumawinnie closed 1 week ago

maxulysse commented 3 weeks ago

Have you checked the https://nf-co.re/sarek/dev/parameters/#vep_include_fasta params?

chumawinnie commented 3 weeks ago

Have you checked the https://nf-co.re/sarek/dev/parameters/#vep_include_fasta params?

so this is what i found out, after reading above docuementation, i think i should add this parameter. --vep_include_fasta \

FriederikeHanssen commented 3 weeks ago

What is the error message?

maxulysse commented 1 week ago

I think this is OK to close. Can you reopen if you still have issues?