Merge pull request #16 from TylerBackman/master

added ChemMine Web Tools .Rd man pages
added canonicalNumbering function and man page
Merge remote-tracking branch 'origin/master'

Conflicts:
	DESCRIPTION
add canonicalNumbering function to vignette
added missed man file, updated vignette to mention reading different formats
Testing commit to git
added .gitignore file
fixed knitcitations error
added functions to fetch compound id valeus and feature values
disable debug mode
fixed bad citation
added CITATION file
fixed bug in selectInBatches, fixed CITATION file
pushed .factor_to_vector into C code, added option to make atom pair names unique or not
bug fix in genAPDescriptors. resulted in bad descriptors being generated
change vignette to use knitr-bootstrap
added methods for ChemmineDrugs, but does not depend on ChemmineDrugs yet
fixed missing variable in vignette makefile
added sql query stuff to vignette as well as mentioning ChemmineDrugs
Update draw_sdf.r

Heavily revised my personal ChemmineR draw_sdf.r script. Next step is to push this repo to main.