Merge pull request #490 from teharrison/develop

API and m5nr updates
Merge pull request #1 from MG-RAST/develop

sync
Change user count and link to tech report
Merge pull request #491 from mdsouza/develop

Change user count as well as link to tech report
Update preprocessing.r

edited version of preprocessing.r that includes removal of singletons as an option -- two new arguments:

remove_sg                   =TRUE, # boolean to remove singleton counts
                                  sg_threshold                = 1, # rows with a sum of counts equal to or less than this value will be removed if remove_sg=TRUE
Bug in solr query for users that are logged in and dont have star rights.
Merge pull request #492 from jaredbischof/develop

Bug in solr query for users that are logged in and dont have star rights...
applied parser fix
Merge branch 'develop' of github.com:MG-RAST/MG-RAST
Merge pull request #493 from paczian/master

api2html parser fix
default timeout set to 7 days
fixed cleanup in deny user request
fixed quoting error in barcharts
added double quote fix to previous fix
fixed clickable abundace cells in workbench table
Merge pull request #494 from paczian/master

minor bugfixes
fixed missing params from last update
Merge pull request #495 from paczian/master

fixed missing params from last update
add pipeline options to output
Merge branch 'develop' of github.com:MG-RAST/MG-RAST into develop