Merge pull request #16 from paczian/master

cutoff adjust
Merge pull request #17 from paczian/master

helper functions
removed duplicate lib
update to seed / genbank function compairison script
added default value
added options for m5nr version, source, and accession input
changed search code to be like search script - use terms from list and iterate through paginated results
renamed script
Merge pull request #18 from teharrison/master

updates and renaming
added error message when invalid options combo used
Merge pull request #19 from teharrison/master

added error message when invalid options combo used
take arguments from command line
Merge branch 'master' of github.com:MG-RAST/MG-RAST-Tools
return BIOM format
Merge pull request #20 from wgerlach/master

take arguments from command line
Adding Shock repo as submodule so we can use Shock libraries
Merge pull request #21 from jaredbischof/master

Adding Shock repo as submodule so we can use Shock libraries
readme update
Merge branch 'master' of github.com:MG-RAST/MG-RAST-Tools
add md5 to search list