In this directory are the scripts used to generate figures 2, 3 and 4 of the
2020 cctbx newsletter article on dtmin.
They require mathematica, bash and python with scitbx. Mathematica 11.3 was 
used, and the one bash script is very simple so can be performed by hand after 
inspecting the script if necessary.

Figure 2 (test function plots)
  Open fig_2.nb
  Evaluate the notebook cell (click on any of the text and press shift-enter)
  the figures should appear in images/function_explanation

Figure 3 (minimization of the untwisted function)
  Run plot.sh (This deletes files containing the minimizations paths  of 
  previous minimization runs and generates fresh ones using the python scripts
  generate_scitbx_lbfgs_plot_paths.py and generate_scitbx_dtmin_plot_paths.py).
  Open fig_3.nb
  Evaluate the notebook cell (click on any of the text and press shift-enter)
  the figures should appear in images/minimization_paths/untwisted
   
Figure 4 (minimization of the twisted function)
  Run plot.sh (This deletes files containing the minimizations paths  of        
  previous minimization runs and generates fresh ones using the python scripts  
  generate_scitbx_lbfgs_plot_paths.py and generate_scitbx_dtmin_plot_paths.py). 
  Open fig_4.nb                                                                 
  Evaluate the notebook cell (click on any of the text and press shift-enter) 
  the figures should appear in images/minimization_paths/twisted