Revisit plotly analysis

[mogres]

Description

For 2D recipes, we have an option to visualize packing results with grid distances in the browser (see attached). However, all of these functionalities have been ported over to Simularium (see add_grid_data_to_scene), so we should consider removing the plotly visualization functionality.

Approach

• Remove functions related to plotly visualization and use simularium instead.
• Add option to visualize grid distances from the add_grid_data_to_scene in the config file.
• Simplify visualization options in the config loader (save_analyze_result, save_plot_figures, show_grid_plot, show_sphere_trees, show_progress_bar all do related things)

[mogres]

@meganrm would love to hear your thoughts on this one -- do we need to keep the plotly functions now that we have simularium working with these features?