Hi,

It’s me again 😉  I wondered how I can add a help page to a re-usable ChimeraX script that is run  via runscript.

I saved the following script in my ChimeraX presets:

#Required arguments: first is the uniprot ID, second is the model ID that will be used for mapping!

alphafold fetch $1

#get the missense data

open $1 fromDatabase alpha_missense format amiss

#associate missense data to structure

mutationscores structure $2

#label each residue with matric

mutationscores label #1 amiss height 3

#define a new score called avg by avergaing over all substitution scores

mutationscores define avg fromScore amiss setAttribute true combine mean

#color by avg missense score

color byattribute r:avg $2 target csab palette palette bluered range full

#scale cartoon by acg missense score

cartoon byattribute r:avg #!$2

and then defined an alias in my startup commands so I don’t need to type the full path

alias map_missense runscript /Users/matthias.vorlaender/Documents/ChimeraX_presets/map_missense.cxc $1 $2

Is there a way to display the expected user inputs when the script is called without arguments?

Cheers,

Matthias