def main(xbgfFile):
xbgfDir = '/'.join(xbgfFile.split('/')[:-1])
if xbgfDir == '':
xbgfDir = './'
elif xbgfDir[-1]!='/':
xbgfDir += '/'
print 'Slicing...'
sliced = slicing.sliceFile(xbgfDir,xbgfDir,xbgfFile.split('/')[-1].replace('.xbgf',''))
return
def main(xbgfFile):
xbgfDir = '/'.join(xbgfFile.split('/')[:-1])
if xbgfDir == '':
xbgfDir = './'
elif xbgfDir[-1] != '/':
xbgfDir += '/'
print 'Slicing...'
sliced = slicing.sliceFile(xbgfDir, xbgfDir,
xbgfFile.split('/')[-1].replace('.xbgf', ''))
return
def main(xbgfFile, bgfFile, xbgf, gdt, synch):
xbgfDir = '/'.join(xbgfFile.split('/')[:-1])
if xbgfDir == '':
xbgfDir = './'
elif xbgfDir[-1] != '/':
xbgfDir += '/'
print 'Slicing...'
sliced = slicing.sliceFile(xbgfDir, xbgfDir,
xbgfFile.split('/')[-1].replace('.xbgf', ''))
print 'Runnning...'
pnm, psm = mismatches.mismatches(gdt, bgfFile, synch)
print 'Mismatches originally:', pnm, '+', psm, '...', len(
sliced), 'steps to go'
cx = ''
for p in sliced:
run = xbgf + ' ' + xbgfDir + p + '.xbgf ' + bgfFile + cx + ' ' + bgfFile + cx + '_ | grep "XBGF"' #1> /dev/null 2> /dev/null'
if os.system(run):
print 'Error running', p, '!'
print run
sys.exit(2)
nm, sm = mismatches.mismatches(gdt, bgfFile + cx + '_', synch)
print 'Mismatches:', nm, '+', sm
if nm > pnm:
print 'Observed increase in name mismatches!'
if sm > psm:
print 'Observed increase in structural mismatches!'
if nm + sm > pnm + psm:
print 'The number of mismatches went up from', pnm + psm, 'to', nm + sm
sys.exit(3)
cx += '_'
pnm, psm = nm, sm
print 'Cleaning up...'
s = 'rm -f '
for c in range(1, len(cx)):
s += bgfFile + '_' * c + ' '
print s
s = 'rm -f '
for c in sliced:
s += xbgfDir + c + '.xbgf '
if os.system(s):
print 'Error cleaning up sliced XBGFs!'
return
def main(xbgfFile,bgfFile,xbgf,gdt,synch):
xbgfDir = '/'.join(xbgfFile.split('/')[:-1])
if xbgfDir == '':
xbgfDir = './'
elif xbgfDir[-1]!='/':
xbgfDir += '/'
print 'Slicing...'
sliced = slicing.sliceFile(xbgfDir,xbgfDir,xbgfFile.split('/')[-1].replace('.xbgf',''))
print 'Runnning...'
pnm,psm = mismatches.mismatches(gdt,bgfFile,synch)
print 'Mismatches originally:',pnm,'+',psm,'...',len(sliced),'steps to go'
cx = ''
for p in sliced:
run = xbgf+' '+xbgfDir+p+'.xbgf '+bgfFile+cx+' '+bgfFile+cx+'_ | grep "XBGF"'#1> /dev/null 2> /dev/null'
if os.system(run):
print 'Error running',p,'!'
print run
sys.exit(2)
nm,sm = mismatches.mismatches(gdt,bgfFile+cx+'_',synch)
print 'Mismatches:',nm,'+',sm
if nm>pnm:
print 'Observed increase in name mismatches!'
if sm>psm:
print 'Observed increase in structural mismatches!'
if nm+sm>pnm+psm:
print 'The number of mismatches went up from',pnm+psm,'to',nm+sm
sys.exit(3)
cx += '_'
pnm,psm=nm,sm
print 'Cleaning up...'
s = 'rm -f '
for c in range(1,len(cx)):
s += bgfFile+'_'*c+' '
print s
s = 'rm -f '
for c in sliced:
s += xbgfDir+c+'.xbgf '
if os.system(s):
print 'Error cleaning up sliced XBGFs!'
return