Small speedup

Author: dhdegroot

ecmtool/helpers.py

@@ -647,7 +647,6 @@ def process_all_from_mplrs(network, linearities=None, make_unique=True, output_f
  # Prepare some variables for parsing
  parsedRayCount = 0
  zeroRay = np.repeat(to_fractions(np.zeros(shape=(1, 1))), d)
- zeroFrac = Fraction(0)
  if make_unique:
  ecmsHashSet = set()
  ecmsHashSet.add(hash(','.join([str(float(num)) for num in zeroRay]) + '\n'))
@@ -691,17 +690,14 @@ def process_all_from_mplrs(network, linearities=None, make_unique=True, output_f
 
  # We intialize the ecms with all zeros
  ecm = zeroRay.copy()
- # For normalizing we keep track of the sum of absolute values
- sumEcm = zeroFrac
  # First column of mplrs-output is useless
  croppedLine = line.replace('\n', '').split()[1:]
 
  for column, value in enumerate(croppedLine):
  if value != '0':
  fracVal = Fraction(value)
  ecm[metabIndToNewInd[column]] += fracVal
- for value in ecm:
- sumEcm += abs(value)
+ sumEcm = np.sum(np.abs(ecm))
 
  # Normalise row
  nonZero = sumEcm > 0