add awe wrapper for qiime_uclust
Merge pull request #77 from jaredbischof/master

 Temporarily disabling analysisDB update in pipeline_redo_simseq and not removing the index files to copy them out manually and update the job_md5s tables more quickly.
Merge branch 'master' of https://github.com/MG-RAST/pipeline
update awe_qiime_uclust.pl
Merge pull request #76 from wtangiit/master

add awe wrapper for qiime_uclust
add AWE wrapper awe_bowtie_screen.pl
Merge branch 'master' of https://github.com/MG-RAST/pipeline
add AWE wrapper awe_genecalling.pl
add AWE wrapper awe_cluster_paralle.pl
update awe_genecalling.pl usage
Merge pull request #78 from wtangiit/master

updates in awecmd directory
Update awecmd/awe_superblat.sh
add awe wrapper awe_blat.py
fix in awe_bowtie_screen.pl
Merge pull request #79 from wtangiit/master

add awe wrapper awe_blat.py
awe_preprocess.pl involking seq_length_stats.py (no need for perl module)
Merge pull request #80 from wtangiit/master

update in awe_preprocess.pl
Changed how parallel clustering files were being counted and named so that cluster ID's are no longer colliding.  Process number was not being updated correctly by python threads so that part was replaced.