Sample A: Cover Page of Thesis, Project, or Dissertation Proposal

Appendix D
# Aggregate BaFL cleansed samples from the Aggregation.py file
# Individuals within the same disease class, if the sample size is large the population is
randomized and divided into sub-populations before intersecting the entire population, for
computational efficiency.
def StateIntersect(usr, pswd, db, logfile, rgr=4):
cur, conn= make_connect(usr, pswd, db)
states=get_unique_states(cur)
exp=get_exp(usr, pswd, db)
notes='intersection of '
fp=open(logfile, 'a')
for i in states:
k=i
pt=find(i,' ')
if pt>0:
k=i[:pt]+i[pt+1:]
msk, Lmsk, state, cel=get_inc_state(cur, i)
if len(msk)>50:
div=2
while len(msk)/div>30:
div+=1
cur, conn =splitIntersect(cur, conn, k, msk, div)
else:
tmp= 'create table Intersect_'+k+' as select '
+msk[0]+'_sr'+str(rgr)+'.probeset_id, '
+msk[0]+'_sr'+str(rgr)+'.pm_mm_other, '+msk[0]+'_sr'+str(rgr)+'.x,
'+msk[0]+'_sr'+str(rgr)+'.y, '+msk[0]+'_sr'+str(rgr)+'.probe_index, '
tmp= tmp+ msk[0]+'_sr'+str(rgr)+'.signalrawintensity
as '+msk[0]
for j in range(1, len(msk)):
tmp= tmp+ ',
'+msk[j]+'_sr'+str(rgr)+'.signalrawintensity as '+msk[j]
tmp= tmp +' from ' +msk[0]+'_sr'+str(rgr)+' inner
join '+msk[1]+'_sr'+str(rgr)+' on ('+msk[0]+'_sr'+str(rgr)+'.x =
'+msk[1]+'_sr'+str(rgr)+'.x and '+msk[0]+'_sr'+str(rgr)+'.y =
'+msk[1]+'_sr'+str(rgr)+'.y ) '
for j in range(2, len(msk)):
tmp=tmp+ 'inner join '+msk[j]+'_sr'+str(rgr)+'
on (' +msk[j]+'_sr'+str(rgr)+'.x = '+msk[j-1]+'_sr'+str(rgr)+'.x and
'+msk[j]+'_sr'+str(rgr)+'.y = '+msk[j-1]+'_sr'+str(rgr)+'.y ) '
tmp=tmp +' order by
'+msk[0]+'_sr'+str(rgr)+'.probeset_id,
'+msk[0]+'_sr'+str(rgr)+'.probe_index'
cur.execute(tmp)
conn.commit()
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