Some edits to the pair correlation paper.
Tested on paho-arch. Took 28:00.52.
more (final?) changes to water paper
Tested on knightley. Took 1:00.12.
fixed writing/reading off of arrays in neighbor tables
Tested on MAPHost. Took 1:11.89.
Merge branch 'master' of ssh://quipu.physics.oregonstate.edu/home/droundy/git/deft
Merge /home/perlinm/DeFT
Merge /home/paho/git/deft
fix test runner to collect stderr with stdout (shell bug)
Tested on darcy. Took 14:15.29.
fix bugs in new code generation and new fft implementation
Tested on darcy. Took 0:56.40.
fix bug in new code generation

Actually, the bug is in the ifft used by new new code generator, which
assumed that its input was not reused.  Actually, it assumed that
calling the "free" method on its input would ensure that the code
would crash if it tried to reuse the input.  This didn't work, and we
*were* reusing the input.  I now just use a scratch array, so we don't
trash our input.

Also added a new test, which now ensures out functional agrees with
the old code generator for homogeneous inputs at least.
Tested on darcy. Took 0:25.63.
edits in pair paper
Tested on bennet. Took 2:40.42.
edit of paper (very quick)
Tested on bennet. Took 0:16.12.
Added new 2d pair data, and updated the pair plots.
I have changed the orientation so that the 2d plot is on the left,
rather than above the 1d plot. Waiting on consensus for this layout
to make final tweaks.
Tested on paho-arch. Took 1:22.36.
More pair-correlation plot tweaks.
Tested on paho-arch. Took 0:51.95.
Tweaks to the dadz plots for pair-correlation.
Tested on paho-arch. Took 0:30.27.
fix pair plots to work on debian stable
Tested on darcy. Took 0:47.61.
remove date from colloquium slides
Tested on darcy. Took 0:23.54.
clear up 2d pair plots
Tested on darcy. Took 0:49.12.
More pair plot tweaks
Tested on paho-arch. Took 1:04.43.
finished w0(k) soft SFMT calculation and implemented it in the code and paper.
Tested on knightley. Took 5:11.57.
Merge /home/krebse/deft-soft