
###################
#Set folder locations etc in this file
#
#
##################

BATCHNUM = 'x4'

EMAILAD = 'someemailaddress@test.com'

SCPPATH = 'server address for transferring'

MYPATH = '/home/genomescratch1/'
RAWPATH = '/home/genomescratch1/raw/'
STAGE1 =  '/home/genomescratch1/stage1/'
PREBAM = '/home/genomescratch1/stage2/pre_'
STAGE2 =  '/home/genomescratch1/stage2/'
STAGE3 =  '/home/genomescratch1/stage3/'
STAGE4 =  '/home/genomescratch1/stage4/'
STAGE5 =  '/home/genomescratch1/stage5/'
STAGE6 =  '/home/genomescratch1/stage6/'
STAGE7 =  '/home/genomescratch1/stage7/'
STAGE8 =  '/home/genomescratch1/stage8/'
STAGE9 =  '/home/genomescratch1/stage9/'






