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create_figs.md

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  1. Connect to wherever you will create the plots with X11 forwarding (eg: ssh -X morricone).
  2. Test that X11 forwarding is working by running xmessage test. You should get a popup on your desktop with the word "test".
  3. Check if orca is installed by running orca --help. If this runs without errors you are good to go. If the command is not found or returns an erorr instructions are here.
  4. Update the plots.R script with out.dir (a directory with output_matrices.RData and tmp.RData) and, if necessary, proj.dir.new (the location of a real-time-mcmc repo) and plot.dir (a directory to put the output plots).
  5. Make sure your working directory is this repo cd <path>/public-RTM-reports.
  6. Run Rscript plots.R.