DBD::mysql required for VEP installation?

Hello!

Is DBD::mysql really required when working with VEP installation or am I fine without it, as long as I am just working offline?

Many thanks in advance!

vep perl

• 692 views • link

written 4.2 years ago by Filago •

0 answers

No answers yet.

More posts like this

Trouble Running VEP in Conda Environment Due to Perl DBD::mysql Error
written 2.5 years ago by qiuting •

Hello BioStars Community, I am currently facing issues with running the Variant Effect Predictor (VEP) and vcf2maf in a Conda environment due to a Perl-related …
VEP Could not get current species list - using predefined list instead
written 4.2 years ago by Filago •

Hello, when installing VEP cache file with INSTALL.pl, I receive the following error: "Could not get current species list - using predefined list instead" Any …
VEP tab/vcf - Different output
written 4.3 years ago by Filago •

Hello, I am using VEP to annotate a VCF file. I am generating tab and vcf output. However, when looking at the tab output, I …
VEP polypen humvar and humdiv
written 4.4 years ago by Filago •

Hello, is it possible to retrieve the Polyphen "humdiv" and "humvar" scores both in a single VEP run? Many thanks for your help!
VEP [E::fai_build3_core] Cannot index files compressed with gzip, please use bgzip
written 4.4 years ago by Filago •

Hello! I installed VEP with the INSTALL.pl script without any error, but when running it the following error occurs: [E::fai_build3_core] Cannot index files compressed with …
Loftee no splice site annotations
written 4.4 years ago by Filago •

Hello! I am using Loftee in my VEP pipeline and after some fights with my code everything works now, but the splice site annotations...meaning that …
VEP: MSG: ERROR: Cannot use format vcf without Bio::DB::HTS::Tabix module installed
written 4.9 years ago by Filago •

Hello everybody, I want to annotate a VCF file with vep (v. 104). I installed VEP and everything works fine. However, when using the --custom …
Get REVEL plugin started with VEP
written 5.1 years ago by Filago •

Hello, I am using the VEP tool (version 104) and already managed to annotate a VCF-file (hg19) with basic annotations and CADD. Furthermore I wanted …
DBD::SQLite::db prepare failed: no such table: phylocsf_summary
written 6.5 years ago by nikitavlassenko

I am trying to run loftee as a part of VEP with the following command: /vep/ensembl-tools-release-95/vep -i SF0637658_WES_CIDR.vcf --format vcf --json --everything --allele_number --no_stats --cache …
Perldbd-Mysql Error
written 13.0 years ago by yogi.bioinfo •

Hello all , i am working on orthomcl ..when i use the command [cdac@nbri bin]$ orthomclLoadBlast my_orthomcl/orthomcl.config my_orthomcl/similarSequence.txt it gives Can't load '/usr/lib64/perl5/vendor_perl/5.8.8/x86_64-linux-thread-multi/auto/DBD/mysql/mysql.so' for …