updated to handle different versions of QIIME (1.5 - 1.7)
Merge pull request #197 from teharrison/master

updated to handle different versions of QIIME (1.5 - 1.7)
awe wrapper for qc stage
Merge pull request #198 from wtangiit/master

awe wrapper for qc stage
Updates to submit job to AWE with a token.
Syntax error fixed.
Merge branch 'master' of github.com:MG-RAST/pipeline
Merge pull request #199 from jaredbischof/master

Updates to submit job to AWE with a token.
Piping sims2annotation errors to file
Piping sims2annotation_less_sorting errors to file
Merge pull request #200 from jaredbischof/master

Piping sims2annotation errors to file
Saving stderr and stdout from sims2annotation call
Merge pull request #201 from jaredbischof/master

Saving stderr and stdout from sims2annotation call
ignoring all negative values here
Merge pull request #202 from jaredbischof/master

ignoring all negative values here
fix variable name
Merge pull request #203 from teharrison/master

fix variable name
Added shock parameter for overriding the Shock URL that the job results should be downloaded from.
Merge pull request #204 from jaredbischof/master

Added shock parameter for overriding the Shock URL that the job results ...
Upadtes to help text.