NMD cleanup (exclude debug), nmd.avg.template.

Cleaned up the NMD files for general organization and ease of use. Elminated my temp
and strain loops to make more generic. Also added functionality for the final specED
to be sent to a singular plotting/processing folder. User should just have to edit
nmd.py for use, at least for conv lj so far. Other systems will have to be added as
needed.

Moreover, added nmd.avg.template. Still need to confirm that it works. Averages over
seeds, consolidates kslices, and takes advantage of cubic symmetries to reduce the specED.
Merge branch 'master' of ssh://kdphost.homelinux.org:3333/home/kevin/git/isostrain
Debugging complete (almost).

Seems like cleaning up the code and debuggin was successful. The averaging
file seems to also be functioning correctly (the peaks got cleaner, not dirtier
). However, some of the peaks seem to be missing (more in next commit of pics).
Added peak pics.

Some concerns. The peaks for 6.0 6.1 and 6.2 are nonexistant. Might be just because of
the short FFT window. Ill probably just have to check against the unaveraged data to
see if these peaks are nonexistant before the averaging or if its a bug in the averaging
script.