def lightcone_stats(s='',ht=''):
infile = setup_dirs.resultsdir()+'dbt_lightcone_smooth'+ht+'.bin'
zfile = open(setup_dirs.resultsdir()+'dbt_lightcone_redshifts.bin','rb')
meanfile = open(setup_dirs.resultsdir()+s+'_'+'mean'+'_'+ht+'lightcone.dat','w')
skewnessfile = open(setup_dirs.resultsdir()+s+'_'+'skewness'+'_'+ht+'lightcone.dat','w')
kurtosisfile = open(setup_dirs.resultsdir()+s+'_'+'kurtosis'+'_'+ht+'lightcone.dat','w')
rmsfile = open(setup_dirs.resultsdir()+s+'_'+'rms'+'_'+ht+'lightcone.dat','w')
redshiftfile = open(setup_dirs.resultsdir()+s+'_'+'zs'+'_'+ht+'.dat','w')
lc = np.load(infile)
zs = np.load(zfile)
ratio=4. #smoothing ratio
Lbox=244./0.7 #boxsize in cMpc
SLbox=Lbox/ratio #size of smoothing box
Nbox=250 #number of cells
SNbox=int(Nbox/ratio)+1 #new number of cells
print Lbox, SLbox, Nbox, SNbox
for i in range(len(zs)-SNbox/2-2,SNbox/2,-1):
mapfile=setup_dirs.resultsdir()+s+'_map_'+ht+str('%.3f'%zs[i])+'.bin'
print "Doing redshift: " + str(zs[i])
data,dims = c2t.get_lightcone_subvolume(lc,zs,zs[i],depth_mpc=SLbox,subtract_mean=False)
IO.writebin(data,mapfile)
redshiftfile.write(str(zs[i])+'\n')
meanfile.write(str(np.mean(data))+'\n')
rmsfile.write(str(np.sqrt(np.var(data)))+'\n')
skewnessfile.write(str(c2t.statistics.skewness(data.flatten()))+'\n')
kurtosisfile.write(str(c2t.statistics.kurtosis(data.flatten()))+'\n')
print "Written statistics"
def smoothed_lightcone_dbt(id="", ht=""):
infile = open(setup_dirs.resultsdir() + "dbt_lightcone" + ht + ".bin", "rb")
outfile = setup_dirs.resultsdir() + "dbt_lightcone_smooth" + ht + ".bin"
zfile = open(setup_dirs.resultsdir() + "dbt_lightcone_redshifts.bin", "rb")
dT_box = np.load(infile)
log = open("stats.dat", "w")
zs = np.load(zfile)
dT_box3 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
dT_box2 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
for z in range(len(dT_box[1, 1, :]) - 1, -1, -1):
wl = 0.21 * (1 + zs[z])
c = 299792.458
omm = 0.27
oml = 0.73
omr = 0.0
omk = 1.0 - omm - oml - omr
H0 = 70.0
def integrand(x, omm, oml, omr, omk):
return 1.0 / np.sqrt(omr * ((1 + x) ** 4) + omm * ((1 + x) ** 3) + oml + omk * ((1 + x) ** 2))
def dc(z, omm, oml, omr, omk):
return quad(integrand, 0, z, args=(omm, oml, omr, omk))[0] # /(1.0+z)
vec_dc = np.vectorize(dc)
bw_r = wl / (2.0e3) # radians
bw = bw_r * 3437.74677 # arcminutesi
log.write("Wavelength of 21-cm from redshift " + str(zs[z]) + " is " + str(wl) + "m\n")
log.write("At redshift: " + str(zs[z]) + " smoothing with a " + str(bw) + " arc minute beam.\n")
rc = bw_r * c / H0 * vec_dc(zs[z], omm, oml, omr, omk) # comoving Mpc
Hz = H0 * np.sqrt(omr * (1 + zs[z]) ** 4 + omm * (1 + zs[z]) ** 3 + oml + omk * (1 + zs[z]) ** 2)
log.write("rc = " + str(rc) + "\n")
# dnu=nu0*Hz*rc/(c*(1+zs[z])**2)
dz = rc * Hz / c
log.write("$\Delta$ z = " + str(dz) + "\n")
ncs = rc * 250.0 * 0.7 / 244.0
log.write(str(ncs) + " cells in the z direction\n")
log.write("\n")
# rc_h=rc/0.7 # comoving Mpc/h
# print "This corresponds to "+str(rc_h)+"Mpc/h on the sky"
dT_box2[:, :, z] = c2t.beam_convolve(dT_box[:, :, z], zs[z], 244.0, beam_w=bw)
if z > ncs and z + ncs < zs[len(zs) - 1]:
for x in range(len(dT_box2)):
for y in range(len(dT_box2)):
dT_box3[x, y, z] = np.mean(dT_box2[x, y, z - ncs / 2.0 : z + ncs / 2.0])
else:
print "..."
dT_box3[:, :, z] = dT_box2[:, :, z]
IO.writebin(dT_box3[:, :, z], setup_dirs.resultsdir() + "smoothed_map_dbt_" + ht + str("%.3f" % zs[z]) + ".bin")
IO.writebin(dT_box3, outfile)
print "Written map to " + outfile
def dbt_lightcone(ht=""):
filenames = ["" for x in range(len(redshifts))]
for i in range(0, len(redshifts)):
filenames[i] = setup_dirs.resultsdir() + "dbt" + ht + "/map_dbt_" + ht + str("%.3f" % redshifts[i]) + ".bin"
output = setup_dirs.resultsdir() + "dbt_lightcone" + ht + ".bin"
output2 = setup_dirs.resultsdir() + "dbt_lightcone_redshifts.bin"
lightcone, z = c2t.make_lightcone(filenames, redshifts[len(redshifts) - 1], redshifts[0], interpolation="linear")
lightcone2 = np.asarray(lightcone)
z2 = np.asarray(z)
IO.writebin(lightcone2, output)
IO.writebin(z2, output2)
print "written lightcone to " + output
def blurtemp():
for z in range(start,len(redshifts)):
print "Doing redshift " + str(redshifts[z])+"..."
temp_filename = setup_dirs.path() + 'Temper3D_'+str('%.3f' % redshifts[z]) + '.bin'
T = c2t.TemperFile(temp_filename).temper
Tb=np.zeros(10**3).reshape(10,10,10)
nobins=20
for i in range(len(T[:,1,1])):
for j in range(len(T[:,1,1])):
for k in range(len(T[:,1,1])):
Tb[i/20,j/20,k/20]=Tb[i/20,j/20,k/20]+T[i,j,k]
Tb=Tb/20**3
IO.writebin(Tb,"tests/blurred/temp_"+str(redshifts[z])+".bin")
print "written to tests/blurred/temp_"+str(redshifts[z])+".bin"
def smoothed_lightcone_dbt2(id="", ht=""):
print "hello"
infile = open(setup_dirs.resultsdir() + "dbt_lightcone" + ht + ".bin", "rb")
outfile = setup_dirs.resultsdir() + "dbt_lightcone_smooth" + ht + ".bin"
zfile = open(setup_dirs.resultsdir() + "dbt_lightcone_redshifts.bin", "rb")
dT_box = np.load(infile)
log = open("stats.dat", "w")
zs = np.load(zfile)
dT_box3 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
dT_box2 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
for z in range(len(dT_box[1, 1, :])):
wl = 0.21 * (1 + zs[z])
c = 299792.458
omm = 0.27
oml = 0.73
omr = 0.0
omk = 1.0 - omm - oml - omr
H0 = 70.0
print 1
def integrand(x, omm, oml, omr, omk):
return 1.0 / np.sqrt(omr * ((1 + x) ** 4) + omm * ((1 + x) ** 3) + oml + omk * ((1 + x) ** 2))
def dc(z, omm, oml, omr, omk):
return quad(integrand, 0, z, args=(omm, oml, omr, omk))[0] # /(1.0+z)
vec_dc = np.vectorize(dc)
print 2
bw_r = wl / (2.0e3) # radians
bw = bw_r * 3437.74677 # arcminutesi
stats.write("Wavelength of 21-cm from redshift " + str(zs[z]) + " is " + str(wl) + "m")
stats.write("At redshift: " + str(zs[z]) + " smoothing with a " + str(bw_r) + " radian beam")
stats.write("At redshift: " + str(zs[z]) + " smoothing with a " + str(bw) + " arc minute beam")
stats.write("\n")
print 3
dT_box2[:, :, z] = c2t.beam_convolve(dT_box[:, :, z], zs[z], 244.0, beam_w=bw)
print 4
dT_box3 = lightcone_smooth.frequency_direction_same(dT_box2, zs[0], 244.0, 2)
print 5
IO.writebin(dT_box3[:, :, z], setup_dirs.resultsdir() + "smoothed_map_dbt_" + ht + str("%.3f" % zs[z]) + ".bin")
IO.writebin(dT_box3, outfile)
print "Written map to " + outfile
def map_dbt():
for i in range(start, len(redshifts)):
filename = setup_dirs.resultsdir() + "map_dbt_" + str("%.3f" % redshifts[i]) + ".bin"
temp_filename = setup_dirs.path() + "Temper3D_" + str("%.3f" % redshifts[i]) + ".bin"
xfrac_filename = setup_dirs.path() + "xfrac3d_" + str("%.3f" % redshifts[i]) + ".bin"
if i % 2 == 0:
density_filename = (
"/research/prace/244Mpc_RT/244Mpc_f2_8.2pS_250/coarser_densities/"
+ str("%.3f" % redshifts[i])
+ "n_all.dat"
)
else:
density_filename = (
"/research/prace/244Mpc_RT/244Mpc_f2_8.2pS_250/coarser_densities/"
+ str("%.3f" % redshifts[i - 1])
+ "n_all.dat"
)
tfile = c2t.TemperFile(temp_filename)
xfile = c2t.XfracFile(xfrac_filename).xi
if ss != " ":
abu_he = 0.074
G_grav = 6.674e-11
pc = 3.086e16
Mpc = 1e6 * pc
H0 = 0.7 * 100.0 * 1.0e5 / Mpc
rho_crit_0 = 3.0 * H0 * H0 / (8.0 * np.pi * G_grav)
Omega_B = 0.044
mu = (1.0 - abu_he) + 4.0 * abu_he
m_p = 1.672661e-24
dfile = np.ones(ss ** 3).reshape(ss, ss, ss)
dfile = dfile * rho_crit_0 * Omega_B / (mu * m_p) * (1.0 + redshifts[i]) ** 3
dfile = dfile * 1.23581719037e-35
else:
dfile = c2t.DensityFile(density_filename).cgs_density
dT_box = c2t.calc_dt_full(xfile, tfile, dfile, redshifts[i])
# IO.writemap(dT_box,filename)
IO.writebin(dT_box, filename)
print "Written map to " + filename
def smoothed_coeval_box(ht=""):
log2 = open("coeval_stats.dat", "w")
for z in range(len(redshifts)):
infile = "map_dbt_" + ht + str("%0.3f" % redshifts[z]) + ".bin"
dT_box = IO.readbin(infile)
dT_box3 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
dT_box2 = np.zeros((len(dT_box[:, 1, 1]) / 2, len(dT_box[1, :, 1]) / 2, len(dT_box[1, 1, :])))
wl = 0.21 * (1 + redshifts[z])
c = 299792.458
omm = 0.27
oml = 0.73
omr = 0.0
omk = 1.0 - omm - oml - omr
H0 = 70.0
def integrand(x, omm, oml, omr, omk):
return 1.0 / np.sqrt(omr * ((1 + x) ** 4) + omm * ((1 + x) ** 3) + oml + omk * ((1 + x) ** 2))
def dc(z, omm, oml, omr, omk):
return quad(integrand, 0, z, args=(omm, oml, omr, omk))[0] # /(1.0+z)
vec_dc = np.vectorize(dc)
bw_r = wl / (2.0e3) # radians
bw = bw_r * 3437.74677 # arcminutesi
log2.write("Wavelength of 21-cm from redshift " + str(redshifts[z]) + " is " + str(wl) + "m\n")
log2.write("At redshift: " + str(redshifts[z]) + " smoothing with a " + str(bw) + " arc minute beam.\n")
rc = bw_r * c / H0 * vec_dc(redshifts[z], omm, oml, omr, omk) # comoving Mpc
Hz = H0 * np.sqrt(
omr * (1 + redshifts[z]) ** 4 + omm * (1 + redshifts[z]) ** 3 + oml + omk * (1 + redshifts[z]) ** 2
)
log2.write("rc = " + str(rc) + "\n")
dz = rc * Hz / c
log2.write("$\Delta$ z = " + str(dz) + "\n")
ncs = rc * 250.0 * 0.7 / 244.0
log2.write(str(ncs) + " cells in the z direction\n")
log2.write("\n")
for k in range(len(dT_box2[1, 1, :])):
dT_box2[:, :, k] = c2t.beam_convolve(dT_box[:, :, k], redshifts[z], 244.0, beam_w=bw)
for i in range(0): # len(dT_box2[:,1,1])):
for j in range(0): # len(dT_box2[1,:,1])):
for k in range(0): # len(dT_box2[1,1,:])):
L = len(dT_box2[1, 1, :])
if k - ncs / 2 > 0 and k + ncs / 2 < L:
dT_box3[i, j, k] = np.mean(dT_box2[i, j, k - ncs / 2.0 : k + ncs / 2.0])
if k + ncs / 2.0 - k + ncs / 2.0 != ncs:
print "Wrong smoothing width for tophat function!!"
elif (k - ncs) / 2 < 0:
if k + ncs / 2.0 + k - ncs / 2 != ncs:
print "Wrong smoothing width for tophat function!!"
dT_box3[i, j, k] = (
np.sum(dT_box2[i, j, 0 : (k + ncs / 2.0)]) + np.sum(dT_box2[i, j, L - ncs / 2 + k : L])
) / ncs
elif (k + ncs) / 2 > 10:
if L - k + ncs / 2 + L - k + ncs / 2 != ncs:
print "Wrong smoothing width for tophat function!!"
dT_box3[i, j, k] = (
np.sum(dT_box2[i, j, k - ncs / 2 : L]) + np.sum(dT_box2[i, j, L - k + ncs / 2 : L])
) / ncs
IO.writebin(
dT_box2, setup_dirs.resultsdir() + "smooth_coevalmap_dbt_" + ht + str("%.3f" % redshifts[z]) + ".bin"
)
print np.mean(dT_box2)
print "Written map"
