e3bo / 2017distance

These files are available to reproduce the results for the manuscript "Estimating the distance to an epidemic threshold." The most important files are the R scripts that contain the code for all of the calculations. The Makefile shows the correct order to run the scripts in to generate all of the results. The packrat directory contains a packrat archive of all of the R packages used by the scripts. The Docker file gives the instructions for building a docker image in which the R scripts may be run. A Docker image built with this script is available on Docker Hub. So, on a system with Docker installed, running the bash script run-scripts from within the directory containing this README will pull down the image and run the Makefile inside of it to reproduce all of the results. The results will be placed in a time-stamped subdirectory. Reproducing the results takes less the 40 minutes on a workstation with 20 2.1GHz processors and 188 G of memory. The results themselves use up about 500M of disk.