first commit of doc directory
created template website
fixed typo
porting testing documentation to qcli from QIIME
Merge branch 'master' into add-doc
some edits to clean this code up

it is not currently working to generate rst from qcli/scripts, but it wasn't before these edits either. so, trying to figure out how to proceed here - this script needs to be completely re-written anyway, so i'm considering just leaving it broken for the short-term (at least for this commit).
ported scripting guidelines from PyCogent
copied from PyCogent scripting guidelines, with some edits
added another guideline pulled from the 'creating' document
first pass through this full document
cleaned up text and formatting
cleaned up text
updated some information in the example script
fixed typo
Merge pull request #12 from gregcaporaso/add-doc

first pass at documentation