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grimbough / biomaRt

R package providing query functionality to BioMart instances like Ensembl
https://bioconductor.org/packages/biomaRt/
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Possibility to set cache location #45

Closed cruckert closed 3 years ago

cruckert commented 3 years ago

It would be nice to have the option to set the cache location. I am running getBM from apache web server as www-data user on Ubuntu. The home folder for www-data is /var/www which is not writeable for www-data by default so it cannot create the /var/www/.cache directory used by biomaRt.

grimbough commented 3 years ago

I don't think I've documented it, but you can use the environment variable BIOMART_CACHE to set the location of the cache.

I'll make a note to add some details to the vignette.

I guess not many people are using that if there's no documentation, so please let me know if you run into any issues.