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end
</source>
== Measure the backgorund noise "RMSD" in each of the .ft2 files ==
There exist two ways to get the background RMSD noise
# For whole spectrum: http://www.cgl.ucsf.edu/home/sparky/manual/views.html#Noise
# For a region: http://www.cgl.ucsf.edu/home/sparky/manual/extensions.html#RegionRMSD <br>
We take the full background noise, to save time. <br>
<source lang="bash">
sparky 0.fid/test.ucsf
</source>
Then '''st''' and recompute for '''10000''' points.<br>
It should give valuee of order: 2.47e+03 or similar. <br>
Add the values to ncyc.txt in next column.
== Prepare directory for relax run ==
