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

def Driver(usr, pswd, db, logfile, lwr=200, uppr=20000):
# first step when combines chip and cel info
cur, conn= make_connect(usr, pswd, db)
tables=get_tables(cur)
msk, msk_tab, Lmsk, state=get_mask2(cur)
#print len(msk), len(tables), len(msk_tab)
t = datetime.datetime.now()
EpochSeconds=time.mktime(t.timetuple())
now = datetime.datetime.fromtimestamp(EpochSeconds)
fp=open(logfile, 'a')
fp.write('\tTABLE CREATIONS LOGFILE\n\n')
fp.write(now.ctime())
fp.write('\nChip to .cel file mappings, -Missing Seq, +Linear
Range:\n')
conn.close()
exec_mapping(usr, pswd, db, tables, msk, msk_tab, fp, lwr, uppr)
def snp_filter(usr, pswd, db, msk, msk_tab, fp):
cur, conn= make_connect(usr, pswd, db)
exp=get_exp(usr, pswd, db)
notes='linear range samples w/o SNPs'
k=0
#print 'Map length ', len(map), map[k]
pid_tbles=[]
#fp=open(logfile,'a')
for i in msk:
trl= 'CREATE table ' +msk[k]+ '_snp as select '
trl=trl+ msk[k] +'_pid.x, '+ msk[k] +'_pid.y from '+
msk[k]+ '_pid except select snp_list.x, snp_list.y from snp_list'
cur.execute(trl)
conn.commit()
#print trl, '\n\n'
fp.write('\tTable '), fp.write(msk[k]+ '_snp '), fp.write('
created.\n')
pid_tbles.append(msk[k]+ '_snp')
cur, conn=UpdateWorkReg(cur, conn, msk[k]+'_snp', exp,
'snp_filter', usr, msk[k]+'_pid', 'snp_list', notes)
k+=1
onto='select * from '+msk[k-1]+'_snp'
cur.execute(onto)
desc=cur.description
conn.close()
fp=UpdateOntology2(usr, pswd, db, desc, exp, 'snp_filter',
'_snp', notes, '', fp)
fp.close()
def DriverSNP(usr, pswd, db, logfile):
# first step when combines chip and cel info
cur, conn= make_connect(usr, pswd, db)
msk, msk_tab, Lmsk, state=get_mask2(cur)
#print len(msk), len(tables), len(msk_tab)
t = datetime.datetime.now()
EpochSeconds=time.mktime(t.timetuple())
now = datetime.datetime.fromtimestamp(EpochSeconds)
133