Feed Assessment Tool (FEAST) data repository - Shiny download and visualisation applications

This repository hosts the R-Shiny code to download and visualise data stored in the FEAST Global Data Repository. There are two seperate applications for download and visualise functions.

CHANGELOG

Documentation

• Shiny server set-up
• Required packages
• Run the applications

Shiny server set-up

On an Ubuntu GNU/Linux system, install R (>4.0.0) and follow this guide

$ sudo apt install r-base
$ sudo su - -c "R -e \"install.packages('shiny', repos='https://cran.rstudio.com/')\""

Follow instructions in the Shiny-server wiki.

Run and test your Shiny-server implementation:

$ sudo systemctl start shiny-server

For troubleshooting, see the Shiny-server administrator's guide.

Required packages

Install R package dependencies

$ sudo apt install build-essential libfontconfig1-dev libcairo2-dev gfortran libcurl4-openssl-dev libssl-dev libgit2-dev libudunits2-dev libxt-dev gdal-bin libgdal-dev

Install R packages:

$ sudo su -
# R -e "install.packages(c('RMariaDB', 'DBI', 'pool', 'dplyr', 'ggplot2', 'DT', 'devtools', 'shinyjs', 'openxlsx', 'leaflet', 'wesanderson', 'ggthemes', 'ggsci', 'cowplot', 'plotly', 'shinydashboard', 'shinyWidgets', 'dbplyr', 'svglite', 'Cairo', 'jsonlite', 'raster', 'sf', 'readr', 'shinydisconnect'), repos='https://cran.rstudio.com/')"

Alternative to sf: exactextractr and geojsonsf (more efficient than sf_read).

Run the applications

Enter the database name, host, username and password in the two Global.R files.

Change file permissions recursively for www folders in Downloads and Visualise

Test application in R:

$ R
> library(shiny)
> runApp(/srv/Shiny/Download/, launch.browser = F)

Acknowledgement

This research was conducted as part of the CGIAR Research Program on Livestock and is supported by contributors to the CGIAR Trust Fund. CGIAR is a global research partnership for a food-secure future. Its science is carried out by 15 Research Centers in close collaboration with hundreds of partners across the globe.