cloud TODO

[mdsumner]

The latest image is "comic scrubbird"

• set the CRAN mirror (so that shell users install packages don't have to do it)
• check packages we need are installed anyway
• put the shell and R files needed in the VM (python stream has "/home/researcher/data-shell"
• update system
• update R packages
• install sqlite3
• install packages - ggplot2, plyr, gapminder, tidyr, dplyr
• save image

tick tickety tick

echo 'local({ r <- getOption("repos"); r["CRAN"] <- "https://cran.ms.unimelb.edu.au/";options(repos = r); })' >> /etc/R/Rprofile.site

Lessons

We start here at R for Reproducible Scientific Analysis:

http://swcarpentry.github.io/r-novice-gapminder/

http://swcarpentry.github.io/r-novice-gapminder/01-rstudio-intro/

http://swcarpentry.github.io/r-novice-gapminder/03-seeking-help/

[mdsumner]

users can create github account but not confirm the email

resbaz will request auth first time

user doesnt get anything CREATED

[mdsumner]

The Python image is "serene bristlebird", and Mike's instance of it is "affectionate moorhen"

[mdsumner]

need tidyverse, devtools, formatR, raster, rgdal, ncdf4, RNetCDF, sf, maptools, rworldmap, maps

spatial stuff, devtools:

apt-get install libnetcdf-dev netcdf-bin proj-bin libproj-dev libgdal-dev gdal-bin libgeos-dev libssl-dev

"elated finch" begat "empathetic kookaburra"

had to clean up

"empathetic kookaburra" begat "proud baza"

[mdsumner]

add roxygen2

put in the data/ directory
download.file("https://raw.githubusercontent.com/swcarpentry/r-novice-gapminder/gh-pages/_episodes_rmd/data/gapminder-FiveYearData.csv", destfile = "data/gapminder-FiveYearData.csv")

"proud baza" begat "flippant shelduck"

[mdsumner]

Be sure to delete the hidden directories created by RStudio, before you save them, these are called .config and .rstudio.

Otherwise, don't save images, just record the script to customize the original and do it that way!

:)