Cleanup before doc merge

[nneveu]

Summary of Changes:

• Moved older documentation to sphinx source location
• Cleaned up formatting and imports
• Added Sphinx to requirements.txt
• Removed constants in data analysis directory
• Removed uneeded directories in matlab2py dir

Notes

These small changes were made in preparation for the bigger documentation changes in PR #120

[nneveu]

Of course I forgot to run the tests. Fixing those now.

[nneveu]

Test are now cleaned up too.

[eloiseyang]

I appreciate how you simplified the file structure here. Thank you for getting a start on translating Matlab to Python, I think this will be a really good tool for the HLA team. I just left one minor comment on the naming convention cor_plot vs corr_plot, but I feel these changes could be merged as is.

[phys-cgarnier]

I see that this file was removed, is the plan not to add it in the data analysis folder or are we deprecating it?

[nneveu]

I want to deprecate it. This test file mostly has bare bones test set up/template and two bucket tests. I'm not sure these fit into the new structure/image code that was written. This is a good comment though, I'm going to go back and double check the original file to see if there are any functions we should keep.

[nneveu]

Yea after a second look, I still want to remove these. Some of the functions are in your new fitting tool, some can be replaced with functions in scipy (peak finding), the rest are specific to some image processing tricks. We can always look at this on old hashes/commit if we decide we want a piece of it.

[phys-cgarnier]

Hi, I just wanted to verify that those deleted files are no longer needed, everything else looks good.