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databio / LOLAweb

An interactive Shiny web application for genomic interval enrichment analysis using LOLA.
http://lolaweb.databio.org/
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setup instructions incomplete #106

Open malger opened 4 years ago

malger commented 4 years ago

in the readme there is not described where to download the regionDBs. if i want to download the core package which files should one download, how should the folder structure look like?

if one runs the shinyApp directly from R you don't mention to setup system env variable "LWREF", otherwise the relative directory will default to "/mnt/q/shefflab/LOLAweb/databases/"

refDir = getEnv("LWREF", "/mnt/q/shefflab/LOLAweb/")

from misc.R

this of course will lead to an error and no analysis will be performed

nsheff commented 4 years ago

Hi malger, you can find the instructions here:

https://github.com/databio/LOLAweb/tree/master/docker

I think we would need to just copy the relevant sections over to the shiny instructions (without docker), is that right?

steph-e commented 4 years ago

Hi I am also facing this issue of getting the analysis to be performed when running through a shinyApp in R. I have setup system env variable "LWREF", to my directory however it is still not running I'm also unable to see the options in the drop down lists to run LOLA