VEP cache issues

VEP cache issues

1

Hello,
need some help with VEP cache files.
So, I downloaded cache file as written in this manual with www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#cache

with curl -O ftp.ensembl.org/pub/release-102/variation/vep/homo_sapiens_vep_102_GRCh38.tar.gz
I have file homo_sapiens_vep_102_GRCh38.tar.gz in my /.vep directory
However, when running script, I got the error

——————– EXCEPTION ——————– MSG: ERROR: Cache directory /mnt/home/baiba01/vep/homo_sapiens not found

STACK Bio::EnsEMBL::VEP::CacheDir::dir
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/CacheDir.pm:311 STACK
Bio::EnsEMBL::VEP::CacheDir::init
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/CacheDir.pm:227 STACK
Bio::EnsEMBL::VEP::CacheDir::new
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/CacheDir.pm:111 STACK
Bio::EnsEMBL::VEP::AnnotationSourceAdaptor::get_all_from_cache
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/AnnotationSourceAdaptor.pm:115
STACK Bio::EnsEMBL::VEP::AnnotationSourceAdaptor::get_all
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/AnnotationSourceAdaptor.pm:91
STACK Bio::EnsEMBL::VEP::BaseRunner::get_all_AnnotationSources
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/BaseRunner.pm:170
STACK Bio::EnsEMBL::VEP::Runner::init
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/Runner.pm:132 STACK
Bio::EnsEMBL::VEP::Runner::run
/opt/vep/src/ensembl-vep/modules/Bio/EnsEMBL/VEP/Runner.pm:203 STACK
toplevel /opt/vep/src/ensembl-vep/vep:228 Date (localtime) = Thu
Jan 28 13:16:06 2021 Ensembl API version = 101

How can I run that cache from /.vep?

Thank you!


software error


ensembl


vep

• 713 views

The file structure should be: .vep/homo_sapiens/102_GRCh38/..

You definitely need to unzip your cache (but don’t unzip any more of the zipped files in the cache), but I can’t remember if it makes the homo_sapiens folder for you or if you need to make it yourself.


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