average value in plot

Hello Johnson,

there is no such option.
However, you can modify an auxiliary script plot_averages_into_images.py that can be used to generate plots.

The script is located in the MCell4 bundle here:
Blender-2.93-CellBlender/2.93/scripts/addons/cellblender/extensions/mcell/utils/plot_averages_into_images.py

So you can copy it to your location and modify it.

The mean is computed on line 214 here:

           df['means'] = data.iloc[:, 1:].mean(axis=1)

The '1:' data.iloc[:, 1:] says to select all columns (column 0 is time).

So you can select whichever columns you like (shown e.g. here: stackoverflow.com/questions/43464015/panda-loc-or-iloc-to-select-the-columns-from-a-dataset).

The columns won't be be sorted by the seed value, to do this you can modify the function get_mcell_observables_counts:


def get_mcell_observables_counts(dir):
   counts = {}
   seed_dirs = sorted(os.listdir(dir)) # sort directories by name
   ...


Hope this helps,
Adam

Hello Adam,

one more question. How can I run plot_averageinto images.py in cellblender?

Thank you in advance.

Johnson