FEATURE REQUEST: Programatic access

[yaccos]

Currently, Shu works as a GUI application where the metabolic map is shown on the screen and the map can be exported afterwards. However, I would be interested in a programatic way to interact with Shu (most likely a CLI interface) where I would specify the map and data files to import, choose a specific condition, modify the visualisation settings and exporting the map in a SVG format. This would be particulary useful in cases where I want to create figures for a large number of strains and don't have any desire to look at each one interactively.

[carrascomj]

My vision is that there are three different features here:

• The user should be able to specify "theming" in the data file. This way, ggshu would have theme() or even scale_color_* functionalities that work as in ggplot2 or other grammar of graphics implementations.
• Shu should provide programmatic access in native builds, specifying map and data as CLI arguments.
• Shu should provide an entrypoint in WASM builds, to load map and data with javascript. This is implemented but it may require some changes to enable using shu in jupyter notebooks, which would be awesome.