Outilne fabfile for deploying

It would be nice to use fab to deploy stuff instead of having to do it myself.
This is a basic script to do so. Needs some testing but this is the general
idea.
Add reset command

We should remove any uncommited changes before trying to pull. Otherwise
pulling may fail.
Outline Atom loading

We add some models and code to load atom level data to the db. It relies on the
fr3d python package, which will need to be included with this package.
Ignore .python-version
Add a basic requirements file

This is not complete but should help us track what is needed for the pipeline to
run.
Use full matrix for crossing number

The printing statement doesn't work with sparse matrix any more, this commit
fixes that.
Infer location of MotifAtlas path

No need to hard code it as it is always in the same directory as the setup.m
file and called MotifAtlas.
Make distances printable

The newer matlab doesn't support printing things in a sparse matrix. Thus we
convert it to a full and get the value in question to write the distances.