Analyze the results with built-in tools

Analyze output with mpetplot.py. Pass the output data directory, then use the optional plotting arguments. The options for mpetplot.py are:

  1. -pt for plotting types

  2. -t for saving output to text format

  3. -s for options to save the plot

  4. -c for color_map options that are used with plot type cbar_{full,c,a}

  5. -st to specify the smooth colormap used with plot type cbar_{full,c,a}

  1. Analyze output with plots using mpetplot.py. Pass output data directory, then use -pt [plottype] with one (or more) of the plot types listed below. Default is v. - e.g., voltage plot: mpetplot.py sim_output -pt v - other options (full, c, a indicate full cell, cathode, and anode):

  1. v or vt – voltage vs filling fraction or vs time

  2. curr – current vs time

  3. elytec{f} – electrolyte concentration (movie) or final snapshot with f

  4. elytep{f} – electrolyte potential (movie) or final snapshot with f

  5. elytei{f} – electrolyte current density (movie) or final snapshot with f

  6. surf_{c,a} – solid surface concentrations

  7. soc_{c,a} – overall utilization / state of charge of electrode

  8. csld_{c,a} – solid concentrations of particles in electrode (movie; used with solidType_{c,a} not homog)

  9. cbarLine_{c,a} – average concentration in each particle of electrode

  10. bulkp_{c,a} – macroscopic electrode solid phase potential (movie)

  11. cbar_{full,c,a} – average solid concentrations as changing colors (movie)

  • There are two options for the color map type that is used: smooth or discrete. This can be set with the -c option, e.g., mpetplot.py sim_output -pt cbar_full -c discrete. The default value is discrete.

  • When using the smooth color map option, the colors are selected from colormao_custom.npz, which includes three options (GnYlRd_1, GnYlRd_2, and GnYlRd_3) that can be selected with the st option, e.g., mpetplot.py sim_output -pt cbar_full -c discrete -st GnYlRd_1. The default value is GnYlRd_3.

2. Alternatively, convert the output to plain text (csv) format using : mpetplot.py sim_output text (or replace sim_output with any subfolder in the history folder). Then analyze using whatever tools you prefer. If you want to save output to a movie (or figure), add save as an extra argument to mpetplot.py: mpetplot.py sim_output cbar save.

Movie output requires that you have ffmpeg or mencoder (part of MPlayer) installed.