Integrate dynophore generation and visualization

[dominiquesydow]

Description

Enable combined dynophore generation and visualization from CLI.

Todos

Notable points that this PR has either accomplished or will accomplish.

• Restructure CLI entirely (rename CLI command from dynoviz to dynophore
  • dynophore create: Generate and visualize dynophore data (visualization in Jupyter notebook)
  • dynophore visualize: Visualize already generated dynophore data (set up notebook)
  • dynophore demo: Show demo visualization (set up example notebook)
• Add heavy lifting to dynophores.api module; call functions from there in dynophores.cli
• Do not open notebook automatically; instead, print at the very end the command to the console that the user needs to type to load the notebook
• Update CLI instructions in documentation
• Update CLI-related tests (use test code from teachopencadd)
• Enable file downloads from any OS (at the moment we are using wget (only pip installable, and I think only for Linux; check!) > use standard library urllib

Questions

• Dynophore output paths have time-stamps; that complicates the generation>visualization; can we maybe loose the time tag? > keep this for now; I am searching for the latest file
• At the moment the console output is quite a zoo due to the two packages that are run; clean that up!

Status

• Ready to go