[ensembl-dev] VEP version 2.7 performance is pitiful when providing parameters from a config file

[Will McLaren]

Hi Gregory,

You need a "1" after the cache and offline options in the config file,
otherwise that option will be ignored.

cache  1
offline  1

In fact, you don't need to specify both cache and offline, since cache is
implied by offline - just offline will do.

Regards and Merry Christmas!

Will McLaren
Ensembl Variation


On 21 December 2012 16:43, Dougherty, Gregory T. <Dougherty.Gregory at mayo.edu
> wrote:

>   If I use the attached config file with an installation that has the
> specified cache file, I get a performance of 1 variant / second on a
> specific vcf file.  If I run the exact same options from the command line,
> I get 150+ variants / second.
>
>  Why does the config file give such horrible performance?
>  --
> Gregory Dougherty
> Sr. Analyst/Programmer | Information Technology
> 41st Street Professional Building
> Ff 3-410-C
> (507) 284-8493 | dougherty.gregory at mayo.edu
>
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