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Averages.py
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Averages.py
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#!/usr/bin/env python3
import os
import re
import h5py
import glob
import numpy as np
class avg2D:
def __init__(self, filename, symmetric = False):
f = h5py.File(filename, "r")
# Get the data
weight = f["weight"][:][0,:]
self.centerCoordinates = f["centerCoordinates"][:][0,:,:]
self.pressure_avg = f["pressure_avg"][:][0,:]
self.pressure_rms = f["pressure_rms"][:][0,:]
self.temperature_avg = f["temperature_avg"][:][0,:]
self.temperature_rms = f["temperature_rms"][:][0,:]
self.MolarFracs_avg = f["MolarFracs_avg"][:][0,:,:]
self.MolarFracs_rms = f["MolarFracs_rms"][:][0,:,:]
self.MassFracs_avg = f["MassFracs_avg"][:][0,:,:]
self.MassFracs_rms = f["MassFracs_rms"][:][0,:,:]
self.velocity_avg = f["velocity_avg"][:][0,:,:]
self.velocity_rms = f["velocity_rms"][:][0,:,:]
self.velocity_rey = f["velocity_rey"][:][0,:,:]
self.rho_avg = f["rho_avg"][:][0,:]
self.rho_rms = f["rho_rms"][:][0,:]
self.mu_avg = f["mu_avg"][:][0,:]
self.lam_avg = f["lam_avg"][:][0,:]
self.Di_avg = f["Di_avg"][:][0,:,:]
self.SoS_avg = f["SoS_avg"][:][0,:]
self.cp_avg = f["cp_avg"][:][0,:]
self.Ent_avg = f["Ent_avg"][:][0,:]
self.ProductionRates_avg = f["ProductionRates_avg"][:][0,:,:]
self.ProductionRates_rms = f["ProductionRates_rms"][:][0,:,:]
self.HeatReleaseRate_avg = f["HeatReleaseRate_avg"][:][0,:]
self.HeatReleaseRate_rms = f["HeatReleaseRate_rms"][:][0,:]
self.pressure_favg = f["pressure_favg"][:][0,:]
self.pressure_frms = f["pressure_frms"][:][0,:]
self.temperature_favg = f["temperature_favg"][:][0,:]
self.temperature_frms = f["temperature_frms"][:][0,:]
self.MolarFracs_favg = f["MolarFracs_favg"][:][0,:,:]
self.MolarFracs_frms = f["MolarFracs_frms"][:][0,:,:]
self.MassFracs_favg = f["MassFracs_favg"][:][0,:,:]
self.MassFracs_frms = f["MassFracs_frms"][:][0,:,:]
self.velocity_favg = f["velocity_favg"][:][0,:,:]
self.velocity_frms = f["velocity_frms"][:][0,:,:]
self.velocity_frey = f["velocity_frey"][:][0,:,:]
self.mu_favg = f["mu_favg"][:][0,:]
self.lam_favg = f["lam_favg"][:][0,:]
self.Di_favg = f["Di_favg"][:][0,:,:]
self.SoS_favg = f["SoS_favg"][:][0,:]
self.cp_favg = f["cp_favg"][:][0,:]
self.Ent_favg = f["Ent_favg"][:][0,:]
self.rhoUUv = f["rhoUUv"][:][0,:,:]
self.Up = f["Up"][:][0,:,:]
self.tau = f["tau"][:][0,:,:]
self.utau_y = f["utau_y"][:][0,:,:]
self.tauGradU = f["tauGradU"][:][0,:,:]
self.pGradU = f["pGradU"][:][0,:,:]
self.q = f["q"][:][0,:,:]
self.Pr = f["Pr"][:][0,:]
self.Pr_rms = f["Pr_rms"][:][0,:]
self.Ec = f["Ec"][:][0,:]
self.Ec_rms = f["Ec_rms"][:][0,:]
self.Ma = f["Ma"][:][0,:]
self.Sc = f["Sc"][:][0,:,:]
self.uT_avg = f["uT_avg"][:][0,:]
self.uYi_avg = f["uYi_avg"][:][0,:]
self.vYi_avg = f["vYi_avg"][:][0,:]
self.wYi_avg = f["wYi_avg"][:][0,:]
self.uT_favg = f["uT_favg"][:][0,:]
self.uYi_favg = f["uYi_favg"][:][0,:]
self.vYi_favg = f["vYi_favg"][:][0,:]
self.wYi_favg = f["wYi_favg"][:][0,:]
self.SpeciesNames = f.attrs.get("SpeciesNames")
if symmetric : self.avgYSymmetric()
# Complete average process
for i in range(3):
self.centerCoordinates[:,i] /= weight
self.pressure_avg /= weight
self.pressure_rms /= weight
self.temperature_avg /= weight
self.temperature_rms /= weight
for i in range(3):
self.velocity_avg[:,i] /= weight
self.velocity_rms[:,i] /= weight
self.velocity_rey[:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_avg[:,isp] /= weight
self.MolarFracs_rms[:,isp] /= weight
self.MassFracs_avg[ :,isp] /= weight
self.MassFracs_rms[ :,isp] /= weight
self.pressure_rms -= self.pressure_avg**2
self.temperature_rms -= self.temperature_avg**2
self.MolarFracs_rms -= self.MolarFracs_avg**2
self.MassFracs_rms -= self.MassFracs_avg**2
self.velocity_rms -= self.velocity_avg**2
self.velocity_rey[:,0] -= self.velocity_avg[:,0]*self.velocity_avg[:,1]
self.velocity_rey[:,1] -= self.velocity_avg[:,0]*self.velocity_avg[:,2]
self.velocity_rey[:,2] -= self.velocity_avg[:,1]*self.velocity_avg[:,2]
self.rho_avg /= weight
self.rho_rms /= weight
self.mu_avg /= weight
self.lam_avg /= weight
self.SoS_avg /= weight
self.cp_avg /= weight
self.Ent_avg /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Di_avg[:,isp] /= weight
self.rho_rms = self.rho_rms - self.rho_avg**2
self.HeatReleaseRate_avg /= weight
self.HeatReleaseRate_rms /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.ProductionRates_avg[:,isp] /= weight
self.ProductionRates_rms[:,isp] /= weight
self.ProductionRates_rms -= self.ProductionRates_avg**2
self.HeatReleaseRate_rms -= self.HeatReleaseRate_avg**2
self.pressure_favg /= weight
self.pressure_frms /= weight
self.temperature_favg /= weight
self.temperature_frms /= weight
for i in range(3):
self.velocity_favg[:,i] /= weight
self.velocity_frms[:,i] /= weight
self.velocity_frey[:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_favg[:,isp] /= weight
self.MolarFracs_frms[:,isp] /= weight
self.MassFracs_favg[ :,isp] /= weight
self.MassFracs_frms[ :,isp] /= weight
self.pressure_frms -= self.pressure_favg**2/self.rho_avg[:]
self.temperature_frms -= self.temperature_favg**2/self.rho_avg[:]
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_frms[:,isp] -= self.MolarFracs_favg[:,isp]**2/self.rho_avg[:]
self.MassFracs_frms[ :,isp] -= self.MassFracs_favg[ :,isp]**2/self.rho_avg[:]
for i in range(3):
self.velocity_frms[:,i] -= self.velocity_favg[:,i]**2/self.rho_avg[:]
self.velocity_frey[:,0] -= self.velocity_favg[:,0]*self.velocity_favg[:,1]/self.rho_avg[:]
self.velocity_frey[:,1] -= self.velocity_favg[:,0]*self.velocity_favg[:,2]/self.rho_avg[:]
self.velocity_frey[:,2] -= self.velocity_favg[:,1]*self.velocity_favg[:,2]/self.rho_avg[:]
self.mu_favg /= weight
self.lam_favg /= weight
self.SoS_favg /= weight
self.cp_favg /= weight
self.Ent_favg /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Di_favg[:,isp] /= weight
for i in range(3):
self.rhoUUv[:,i] /= weight
self.Up[:,i] /= weight
self.utau_y[:,i] /= weight
self.tauGradU[:,i] /= weight
self.pGradU[:,i] /= weight
for i in range(6):
self.tau[:,i] /= weight
for i in range(3):
self.q[:,i] /= weight
self.Pr /= weight
self.Pr_rms /= weight
self.Ec /= weight
self.Ec_rms /= weight
self.Ma /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Sc[:,isp] /= weight
self.Pr_rms -= self.Pr**2
self.Ec_rms -= self.Ec**2
for i in range(3):
self.uT_avg[:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.uYi_avg[:,isp] /= weight
self.vYi_avg[:,isp] /= weight
self.wYi_avg[:,isp] /= weight
for i in range(3):
self.uT_favg[:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.uYi_favg[:,isp] /= weight
self.vYi_favg[:,isp] /= weight
self.wYi_favg[:,isp] /= weight
def avgYSymmetric(self):
self.pressure_avg = 0.5*(self.pressure_avg + self.pressure_avg[::-1])
self.pressure_rms = 0.5*(self.pressure_rms + self.pressure_rms[::-1])
self.temperature_avg = 0.5*(self.temperature_avg + self.temperature_avg[::-1])
self.temperature_rms = 0.5*(self.temperature_rms + self.temperature_rms[::-1])
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_avg[:, isp] = 0.5*(self.MolarFracs_avg[:, isp] + self.MolarFracs_avg[::-1, isp])
self.MolarFracs_rms[:, isp] = 0.5*(self.MolarFracs_rms[:, isp] + self.MolarFracs_rms[::-1, isp])
self.MassFracs_avg[ :, isp] = 0.5*(self.MassFracs_avg[ :, isp] + self.MassFracs_avg[ ::-1, isp])
self.MassFracs_rms[ :, isp] = 0.5*(self.MassFracs_rms[ :, isp] + self.MassFracs_rms[ ::-1, isp])
self.velocity_avg[:,0] = 0.5*(self.velocity_avg[:,0] + self.velocity_avg[::-1,0])
self.velocity_avg[:,1] = 0.5*(self.velocity_avg[:,1] - self.velocity_avg[::-1,1])
self.velocity_avg[:,2] = 0.5*(self.velocity_avg[:,2] + self.velocity_avg[::-1,2])
self.velocity_rms = 0.5*(self.velocity_rms[:] + self.velocity_rms[::-1])
self.velocity_rey[:,0] = 0.5*(self.velocity_rey[:,0] - self.velocity_rey[::-1,0])
self.velocity_rey[:,1] = 0.5*(self.velocity_rey[:,1] + self.velocity_rey[::-1,1])
self.velocity_rey[:,2] = 0.5*(self.velocity_rey[:,2] - self.velocity_rey[::-1,2])
self.rho_avg = 0.5*(self.rho_avg + self.rho_avg [::-1])
self.rho_rms = 0.5*(self.rho_rms + self.rho_rms [::-1])
self.mu_avg = 0.5*(self.mu_avg + self.mu_avg [::-1])
self.lam_avg = 0.5*(self.lam_avg + self.lam_avg [::-1])
for isp, sp in enumerate(self.SpeciesNames):
self.Di_avg[:, isp] = 0.5*(self.Di_avg[:, isp] + self.Di_avg[::-1, isp])
self.SoS_avg = 0.5*(self.SoS_avg + self.SoS_avg [::-1])
self.cp_avg = 0.5*(self.cp_avg + self.cp_avg [::-1])
self.Ent_avg = 0.5*(self.Ent_avg + self.Ent_avg [::-1])
self.ProductionRates_avg = 0.5*(self.ProductionRates_avg + self.ProductionRates_avg[::-1])
self.ProductionRates_rms = 0.5*(self.ProductionRates_rms + self.ProductionRates_rms[::-1])
self.HeatReleaseRate_avg = 0.5*(self.HeatReleaseRate_avg + self.HeatReleaseRate_avg[::-1])
self.HeatReleaseRate_rms = 0.5*(self.HeatReleaseRate_rms + self.HeatReleaseRate_rms[::-1])
self.pressure_favg = 0.5*(self.pressure_favg + self.pressure_favg[ ::-1])
self.pressure_frms = 0.5*(self.pressure_frms + self.pressure_frms[ ::-1])
self.temperature_favg = 0.5*(self.temperature_favg + self.temperature_favg[::-1])
self.temperature_frms = 0.5*(self.temperature_frms + self.temperature_frms[::-1])
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_favg[:, isp] = 0.5*(self.MolarFracs_favg[:, isp] + self.MolarFracs_favg[::-1, isp])
self.MolarFracs_frms[:, isp] = 0.5*(self.MolarFracs_frms[:, isp] + self.MolarFracs_frms[::-1, isp])
self.MassFracs_favg[ :, isp] = 0.5*(self.MassFracs_favg[ :, isp] + self.MassFracs_favg[ ::-1, isp])
self.MassFracs_frms[ :, isp] = 0.5*(self.MassFracs_frms[ :, isp] + self.MassFracs_frms[ ::-1, isp])
self.velocity_favg[:,0] = 0.5*(self.velocity_favg[:,0] + self.velocity_favg[::-1,0])
self.velocity_favg[:,1] = 0.5*(self.velocity_favg[:,1] - self.velocity_favg[::-1,1])
self.velocity_favg[:,2] = 0.5*(self.velocity_favg[:,2] + self.velocity_favg[::-1,2])
self.velocity_frms = 0.5*(self.velocity_frms[:] + self.velocity_frms[::-1])
self.velocity_frey[:,0] = 0.5*(self.velocity_frey[:,0] - self.velocity_frey[::-1,0])
self.velocity_frey[:,1] = 0.5*(self.velocity_frey[:,1] + self.velocity_frey[::-1,1])
self.velocity_frey[:,2] = 0.5*(self.velocity_frey[:,2] - self.velocity_frey[::-1,2])
self.mu_favg = 0.5*(self.mu_favg + self.mu_favg [::-1])
self.lam_favg = 0.5*(self.lam_favg + self.lam_favg [::-1])
for isp, sp in enumerate(self.SpeciesNames):
self.Di_favg[:, isp] = 0.5*(self.Di_favg[:, isp] + self.Di_favg[::-1, isp])
self.SoS_favg = 0.5*(self.SoS_favg + self.SoS_favg [::-1])
self.cp_favg = 0.5*(self.cp_favg + self.cp_favg [::-1])
self.Ent_favg = 0.5*(self.Ent_favg + self.Ent_favg [::-1])
self.rhoUUv[:,:] = 0.5*( self.rhoUUv[:,:] - self.rhoUUv[::-1,:])
self.Up[:,0] = 0.5*( self.Up[:,0] + self.Up[::-1,0])
self.Up[:,1] = 0.5*( self.Up[:,1] - self.Up[::-1,1])
self.Up[:,2] = 0.5*( self.Up[:,2] + self.Up[::-1,2])
self.tau[:,0] = 0.5*( self.tau[:,0] + self.tau[::-1,0])
self.tau[:,1] = 0.5*( self.tau[:,1] + self.tau[::-1,1])
self.tau[:,2] = 0.5*( self.tau[:,2] + self.tau[::-1,2])
self.tau[:,3] = 0.5*( self.tau[:,3] - self.tau[::-1,3])
self.tau[:,4] = 0.5*( self.tau[:,4] - self.tau[::-1,4])
self.tau[:,5] = 0.5*( self.tau[:,5] + self.tau[::-1,5])
self.utau_y[:,0] = 0.5*( self.utau_y[:,0] - self.utau_y[::-1,0])
self.utau_y[:,1] = 0.5*( self.utau_y[:,1] - self.utau_y[::-1,1])
self.utau_y[:,2] = 0.5*( self.utau_y[:,2] - self.utau_y[::-1,2])
self.tauGradU[:,0] = 0.5*(self.tauGradU[:,0] + self.tauGradU[::-1,0])
self.tauGradU[:,1] = 0.5*(self.tauGradU[:,1] + self.tauGradU[::-1,1])
self.tauGradU[:,2] = 0.5*(self.tauGradU[:,2] + self.tauGradU[::-1,2])
self.pGradU[:,0] = 0.5*( self.pGradU[:,0] + self.pGradU[::-1,0])
self.pGradU[:,1] = 0.5*( self.pGradU[:,1] - self.pGradU[::-1,1])
self.pGradU[:,2] = 0.5*( self.pGradU[:,2] + self.pGradU[::-1,2])
self.q[:,0] = 0.5*(self.q[:,0] + self.q[::-1,0])
self.q[:,1] = 0.5*(self.q[:,1] - self.q[::-1,1])
self.q[:,2] = 0.5*(self.q[:,2] + self.q[::-1,2])
self.Pr = 0.5*(self.Pr + self.Pr [::-1])
self.Pr_rms = 0.5*(self.Pr_rms + self.Pr_rms[::-1])
self.Ec = 0.5*(self.Ec + self.Ec [::-1])
self.Ec_rms = 0.5*(self.Ec_rms + self.Ec_rms[::-1])
self.Ma = 0.5*(self.Ma + self.Ma [::-1])
for isp, sp in enumerate(self.SpeciesNames):
self.Sc[:, isp] = 0.5*(self.Sc[:, isp] + self.Sc[::-1, isp])
self.uT_avg [:,0] = 0.5*(self.uT_avg [:,0] + self.uT_avg [::-1,0])
self.uT_avg [:,1] = 0.5*(self.uT_avg [:,1] - self.uT_avg [::-1,1])
self.uT_avg [:,2] = 0.5*(self.uT_avg [:,2] + self.uT_avg [::-1,2])
self.uYi_avg[:,:] = 0.5*(self.uYi_avg[:,:] + self.uYi_avg[::-1,:])
self.vYi_avg[:,:] = 0.5*(self.vYi_avg[:,:] - self.vYi_avg[::-1,:])
self.wYi_avg[:,:] = 0.5*(self.wYi_avg[:,:] + self.wYi_avg[::-1,:])
self.uT_favg [:,0] = 0.5*(self.uT_favg [:,0] + self.uT_favg [::-1,0])
self.uT_favg [:,1] = 0.5*(self.uT_favg [:,1] - self.uT_favg [::-1,1])
self.uT_favg [:,2] = 0.5*(self.uT_favg [:,2] + self.uT_favg [::-1,2])
self.uYi_favg[:,:] = 0.5*(self.uYi_favg[:,:] + self.uYi_favg[::-1,:])
self.vYi_favg[:,:] = 0.5*(self.vYi_favg[:,:] - self.vYi_favg[::-1,:])
self.wYi_favg[:,:] = 0.5*(self.wYi_favg[:,:] + self.wYi_favg[::-1,:])
class avg1D:
def parseTiles(self, dirname, plane):
# read tiles and join them
self.tiles = glob.glob(os.path.join(dirname,"*,"+str(plane)+".hdf"))
assert(self.tiles != 0)
self.lo_bound = [] # array(len(tiles), array(2,int))
self.hi_bound = [] # array(len(tiles), array(2,int))
for i, t in enumerate(self.tiles):
base = os.path.basename(t)
m = re.match(r'([0-9]+),([0-9]+),([0-9]+)-([0-9]+),([0-9]+),([0-9]+).hdf',
base)
assert(m is not None)
assert(int(m.group(3)) == plane)
assert(int(m.group(6)) == plane)
self.lo_bound.append([int(m.group(1)), int(m.group(2))])
self.hi_bound.append([int(m.group(4)), int(m.group(5))])
# Sanity checks
all_lo = [None, None] # array(2, array(len(tiles),int))
all_hi = [None, None] # array(2, array(len(tiles),int))
# bounds must be contiguous
for k in range(2):
all_lo[k] = sorted(set([c[k] for c in self.lo_bound]))
all_hi[k] = sorted(set([c[k] for c in self.hi_bound]))
assert len(all_lo[k]) == len(all_hi[k])
for (prev_hi,next_lo) in zip(all_hi[k][:-1],all_lo[k][1:]):
assert prev_hi == next_lo - 1
# Check that we have the files for each combination of bounds
for (x_lo,x_hi) in zip(all_lo[0],all_hi[0]):
for (y_lo,y_hi) in zip(all_lo[1],all_hi[1]):
found = False
for i in range(len(self.tiles)):
if (self.lo_bound[i][0] == x_lo and self.hi_bound[i][0] == x_hi and
self.lo_bound[i][1] == y_lo and self.hi_bound[i][1] == y_hi):
found = True
break
assert found
# combine data in a single data structure
self.shape = (all_hi[1][-1] - all_lo[1][0] + 1,
all_hi[0][-1] - all_lo[0][0] + 1)
def __init__(self, dirname, plane):
# Parse input files
self.parseTiles(dirname, plane)
# Get the data
with h5py.File(self.tiles[0], "r") as fin:
self.SpeciesNames = fin.attrs.get("SpeciesNames")
self.nSpec = len(self.SpeciesNames)
# define data plane
weight = np.ndarray(self.shape)
self.centerCoordinates = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.pressure_avg = np.ndarray(self.shape)
self.pressure_rms = np.ndarray(self.shape)
self.temperature_avg = np.ndarray(self.shape)
self.temperature_rms = np.ndarray(self.shape)
self.MolarFracs_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MolarFracs_rms = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MassFracs_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MassFracs_rms = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.velocity_avg = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.velocity_rms = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.velocity_rey = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.rho_avg = np.ndarray(self.shape)
self.rho_rms = np.ndarray(self.shape)
self.mu_avg = np.ndarray(self.shape)
self.lam_avg = np.ndarray(self.shape)
self.Di_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.SoS_avg = np.ndarray(self.shape)
self.cp_avg = np.ndarray(self.shape)
self.Ent_avg = np.ndarray(self.shape)
self.ProductionRates_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.ProductionRates_rms = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.HeatReleaseRate_avg = np.ndarray(self.shape)
self.HeatReleaseRate_rms = np.ndarray(self.shape)
self.pressure_favg = np.ndarray(self.shape)
self.pressure_frms = np.ndarray(self.shape)
self.temperature_favg = np.ndarray(self.shape)
self.temperature_frms = np.ndarray(self.shape)
self.MolarFracs_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MolarFracs_frms = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MassFracs_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.MassFracs_frms = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.velocity_favg = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.velocity_frms = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.velocity_frey = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.mu_favg = np.ndarray(self.shape)
self.lam_favg = np.ndarray(self.shape)
self.Di_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.SoS_favg = np.ndarray(self.shape)
self.cp_favg = np.ndarray(self.shape)
self.Ent_favg = np.ndarray(self.shape)
self.rhoUUv = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.Up = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.tau = np.ndarray(self.shape, dtype=np.dtype("(6,)f8"))
self.utau_y = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.tauGradU = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.pGradU = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.q = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.Pr = np.ndarray(self.shape)
self.Pr_rms = np.ndarray(self.shape)
self.Ec = np.ndarray(self.shape)
self.Ec_rms = np.ndarray(self.shape)
self.Ma = np.ndarray(self.shape)
self.Sc = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.uT_avg = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.uYi_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.vYi_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.wYi_avg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.uT_favg = np.ndarray(self.shape, dtype=np.dtype("(3,)f8"))
self.uYi_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.vYi_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
self.wYi_favg = np.ndarray(self.shape, dtype=np.dtype("("+str(self.nSpec)+",)f8"))
for i, t in enumerate(self.tiles):
f = h5py.File(t, "r")
ind = (slice(self.lo_bound[i][1], self.hi_bound[i][1]+1),
slice(self.lo_bound[i][0], self.hi_bound[i][0]+1))
for t, n in enumerate(self.SpeciesNames):
assert(n == f.attrs.get("SpeciesNames")[t])
weight[ind] = f["weight"][:][0,:,:]
self.centerCoordinates[ind] = f["centerCoordinates"][:][0,:,:]
self.pressure_avg[ind] = f["pressure_avg"][:][0,:,:]
self.pressure_rms[ind] = f["pressure_rms"][:][0,:,:]
self.temperature_avg[ind] = f["temperature_avg"][:][0,:,:]
self.temperature_rms[ind] = f["temperature_rms"][:][0,:,:]
self.MolarFracs_avg[ind] = f["MolarFracs_avg"][:][0,:,:,:]
self.MolarFracs_rms[ind] = f["MolarFracs_rms"][:][0,:,:,:]
self.MassFracs_avg[ind] = f["MassFracs_avg"][:][0,:,:,:]
self.MassFracs_rms[ind] = f["MassFracs_rms"][:][0,:,:,:]
self.velocity_avg[ind] = f["velocity_avg"][:][0,:,:,:]
self.velocity_rms[ind] = f["velocity_rms"][:][0,:,:,:]
self.velocity_rey[ind] = f["velocity_rey"][:][0,:,:,:]
self.rho_avg[ind] = f["rho_avg"][:][0,:,:]
self.rho_rms[ind] = f["rho_rms"][:][0,:,:]
self.mu_avg[ind] = f["mu_avg"][:][0,:,:]
self.lam_avg[ind] = f["lam_avg"][:][0,:,:]
self.Di_avg[ind] = f["Di_avg"][:][0,:,:,:]
self.SoS_avg[ind] = f["SoS_avg"][:][0,:,:]
self.cp_avg[ind] = f["cp_avg"][:][0,:,:]
self.Ent_avg[ind] = f["Ent_avg"][:][0,:,:]
self.ProductionRates_avg[ind] = f["ProductionRates_avg"][:][0,:,:,:]
self.ProductionRates_rms[ind] = f["ProductionRates_rms"][:][0,:,:,:]
self.HeatReleaseRate_avg[ind] = f["HeatReleaseRate_avg"][:][0,:,:]
self.HeatReleaseRate_rms[ind] = f["HeatReleaseRate_rms"][:][0,:,:]
self.pressure_favg[ind] = f["pressure_favg"][:][0,:,:]
self.pressure_frms[ind] = f["pressure_frms"][:][0,:,:]
self.temperature_favg[ind] = f["temperature_favg"][:][0,:,:]
self.temperature_frms[ind] = f["temperature_frms"][:][0,:,:]
self.MolarFracs_favg[ind] = f["MolarFracs_favg"][:][0,:,:,:]
self.MolarFracs_frms[ind] = f["MolarFracs_frms"][:][0,:,:,:]
self.MassFracs_favg[ind] = f["MassFracs_favg"][:][0,:,:,:]
self.MassFracs_frms[ind] = f["MassFracs_frms"][:][0,:,:,:]
self.velocity_favg[ind] = f["velocity_favg"][:][0,:,:,:]
self.velocity_frms[ind] = f["velocity_frms"][:][0,:,:,:]
self.velocity_frey[ind] = f["velocity_frey"][:][0,:,:,:]
self.mu_favg[ind] = f["mu_favg"][:][0,:,:]
self.lam_favg[ind] = f["lam_favg"][:][0,:,:]
self.Di_favg[ind] = f["Di_favg"][:][0,:,:,:]
self.SoS_favg[ind] = f["SoS_favg"][:][0,:,:]
self.cp_favg[ind] = f["cp_favg"][:][0,:,:]
self.Ent_favg[ind] = f["Ent_favg"][:][0,:,:]
self.rhoUUv[ind] = f["rhoUUv"][:][0,:,:,:]
self.Up[ind] = f["Up"][:][0,:,:,:]
self.tau[ind] = f["tau"][:][0,:,:,:]
self.utau_y[ind] = f["utau_y"][:][0,:,:,:]
self.tauGradU[ind] = f["tauGradU"][:][0,:,:,:]
self.pGradU[ind] = f["pGradU"][:][0,:,:,:]
self.q[ind] = f["q"][:][0,:,:,:]
self.Pr[ind] = f["Pr"][:][0,:,:]
self.Pr_rms[ind] = f["Pr_rms"][:][0,:,:]
self.Ec[ind] = f["Ec"][:][0,:,:]
self.Ec_rms[ind] = f["Ec_rms"][:][0,:,:]
self.Ma[ind] = f["Ma"][:][0,:,:]
self.Sc[ind] = f["Sc"][:][0,:,:,:]
self.uT_avg[ind] = f["uT_avg"][:][0,:,:]
self.uYi_avg[ind] = f["uYi_avg"][:][0,:,:]
self.vYi_avg[ind] = f["vYi_avg"][:][0,:,:]
self.wYi_avg[ind] = f["wYi_avg"][:][0,:,:]
self.uT_favg[ind] = f["uT_favg"][:][0,:,:]
self.uYi_favg[ind] = f["uYi_favg"][:][0,:,:]
self.vYi_favg[ind] = f["vYi_favg"][:][0,:,:]
self.wYi_favg[ind] = f["wYi_favg"][:][0,:,:]
# Complete average process
for i in range(3):
self.centerCoordinates[:,:,i] /= weight[:,:]
self.pressure_avg /= weight
self.pressure_rms /= weight
self.temperature_avg /= weight
self.temperature_rms /= weight
for i in range(3):
self.velocity_avg[:,:,i] /= weight
self.velocity_rms[:,:,i] /= weight
self.velocity_rey[:,:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_avg[:,:,isp] /= weight
self.MolarFracs_rms[:,:,isp] /= weight
self.MassFracs_avg[ :,:,isp] /= weight
self.MassFracs_rms[ :,:,isp] /= weight
self.pressure_rms -= self.pressure_avg**2
self.temperature_rms -= self.temperature_avg**2
self.MolarFracs_rms -= self.MolarFracs_avg**2
self.MassFracs_rms -= self.MassFracs_avg**2
self.velocity_rms -= self.velocity_avg**2
self.velocity_rey[:,:,0] -= self.velocity_avg[:,:,0]*self.velocity_avg[:,:,1]
self.velocity_rey[:,:,1] -= self.velocity_avg[:,:,0]*self.velocity_avg[:,:,2]
self.velocity_rey[:,:,2] -= self.velocity_avg[:,:,1]*self.velocity_avg[:,:,2]
self.rho_avg /= weight
self.rho_rms /= weight
self.mu_avg /= weight
self.lam_avg /= weight
self.SoS_avg /= weight
self.cp_avg /= weight
self.Ent_avg /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Di_avg[:,:,isp] /= weight
self.rho_rms = self.rho_rms - self.rho_avg**2
self.HeatReleaseRate_avg /= weight
self.HeatReleaseRate_rms /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.ProductionRates_avg[:,:,isp] /= weight
self.ProductionRates_rms[:,:,isp] /= weight
self.ProductionRates_rms -= self.ProductionRates_avg**2
self.HeatReleaseRate_rms -= self.HeatReleaseRate_avg**2
self.pressure_favg /= weight
self.pressure_frms /= weight
self.temperature_favg /= weight
self.temperature_frms /= weight
for i in range(3):
self.velocity_favg[:,:,i] /= weight
self.velocity_frms[:,:,i] /= weight
self.velocity_frey[:,:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_favg[:,:,isp] /= weight
self.MolarFracs_frms[:,:,isp] /= weight
self.MassFracs_favg[ :,:,isp] /= weight
self.MassFracs_frms[ :,:,isp] /= weight
self.pressure_frms -= self.pressure_favg**2/self.rho_avg[:,:]
self.temperature_frms -= self.temperature_favg**2/self.rho_avg[:,:]
for isp, sp in enumerate(self.SpeciesNames):
self.MolarFracs_frms[:,:,isp] -= self.MolarFracs_favg[:,:,isp]**2/self.rho_avg[:,:]
self.MassFracs_frms[ :,:,isp] -= self.MassFracs_favg[ :,:,isp]**2/self.rho_avg[:,:]
for i in range(3):
self.velocity_frms[:,:,i] -= self.velocity_favg[:,:,i]**2/self.rho_avg[:,:]
self.velocity_frey[:,:,0] -= self.velocity_favg[:,:,0]*self.velocity_favg[:,:,1]/self.rho_avg[:,:]
self.velocity_frey[:,:,1] -= self.velocity_favg[:,:,0]*self.velocity_favg[:,:,2]/self.rho_avg[:,:]
self.velocity_frey[:,:,2] -= self.velocity_favg[:,:,1]*self.velocity_favg[:,:,2]/self.rho_avg[:,:]
self.mu_favg /= weight
self.lam_favg /= weight
self.SoS_favg /= weight
self.cp_favg /= weight
self.Ent_favg /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Di_favg[:,:,isp] /= weight
for i in range(3):
self.rhoUUv[:,:,i] /= weight
self.Up[:,:,i] /= weight
self.utau_y[:,:,i] /= weight
self.tauGradU[:,:,i] /= weight
self.pGradU[:,:,i] /= weight
for i in range(6):
self.tau[:,:,i] /= weight
for i in range(3):
self.q[:,:,i] /= weight
self.Pr /= weight
self.Pr_rms /= weight
self.Ec /= weight
self.Ec_rms /= weight
self.Ma /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.Sc[:,:,isp] /= weight
self.Pr_rms -= self.Pr**2
self.Ec_rms -= self.Ec**2
for i in range(3):
self.uT_avg[:,:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.uYi_avg[:,:,isp] /= weight
self.vYi_avg[:,:,isp] /= weight
self.wYi_avg[:,:,isp] /= weight
for i in range(3):
self.uT_favg[:,:,i] /= weight
for isp, sp in enumerate(self.SpeciesNames):
self.uYi_favg[:,:,isp] /= weight
self.vYi_favg[:,:,isp] /= weight
self.wYi_favg[:,:,isp] /= weight