Ions1 = [Ion(c_Na, DNa, zNa, '$Na^+$'),
Ion(c_Cl, DCl, zCl, '$Cl^-$')] # correct diffusion coefficients
Ions2 = [Ion(c_Na, D, zNa, '$Na^+$'),
Ion(c_Cl, D, zCl, '$Cl^-$')] # same diffusion coefficient
# make exact solution of diffusion equation
c_exact_of_t = np.zeros((N_x, N_t))
for i in range(1, N_t + 1):
c_exact_of_t[:, i - 1] = c_0 + delta_c * np.exp(-i * delta_t / tau)
# plt.plot(x*1000, c_exact_of_t[:,N_t-1], label = 'c_exact1')
# plt.plot(Ions[1].c, label = 'Cl1')
# plotIons(Ions, x, 'two_ions1')
Phi_of_t1, c_of_t1 = solveEquation(Ions1, lambda_n, N_t, delta_t, N_x,
delta_x)
Phi_of_t2, c_of_t2 = solveEquation(Ions2, lambda_n, N_t, delta_t, N_x,
delta_x)
Phi_of_t1 = Phi_of_t1 * Psi * 1000
Phi_of_t2 = Phi_of_t2 * Psi * 1000
# plotIons(Ions, x, 'two_ions2')
# plt.plot(x*1000, c_of_t1[:,N_t-1], label = 'Na')
# plt.plot(x*1000, Ions[1].c, label = 'Cl')
# plt.legend()
# plt.show()
print(c_of_t2[:, N_t - 1] == Ions2[1].c)
print(c_of_t1[:, N_t - 1] - Ions1[1].c)
print(delta_t,
np.amax(np.abs(c_of_t1[N_x // 2, :] - c_of_t2[N_x // 2, :])))
'Gratiy2017')
# 3 Nicholson1987
# Gratiy2017 = ConcentrationProfile([0,5,10,15,20,25,30,35,40,45,50,60,70,75], [0,4.4,4.0,3.0,2.3, 1.7,1.3,1.,1.2,1.0, 0.8, 0.7,0.5, 0], delta_x, 150, 3, 'Nicholson1987')
for i in [0, 1, 10, 20, 50, 150, 250]: # set time constants here
Ions = [
Ion(Gratiy2017.c_Na, DNa, zNa, '$Na^+$'),
Ion(Gratiy2017.c_K, DK, zK, '$K^+$'),
Ion(Gratiy2017.c_Cl, DCl, zCl, '$Cl^-$')
]
Phi_of_t, c_of_t = solveEquation(Ions,
lambda_n,
N_t,
delta_t,
Gratiy2017.N_x,
delta_x,
tau=i)
Phi_of_t = Phi_of_t * Psi * 1000
# plotPhi(Phi_of_t, [N_t, delta_t, Gratiy2017.N_x, delta_x], 'tau')
# parameters = [N_t, delta_t, N_x, delta_x]
el_sum = electroneutrality(
Ions, Gratiy2017.N_x) # true = 'true' if you want to plot
assert np.amax(el_sum) < 1.e-13 # unit test
f, psd, location = makePSD(Phi_of_t, N_t, delta_t)
if i == 0: # tau = 0 corresponds to the electrodiffusive model
plt.plot(np.log10(f[1:-1]),
t,x = makeAkses(parameters) # ----------------------------------------------------------------------------- # initialize ions Ions = [Ion(Profiles[choose_profile].c_Na,DNa,zNa,'$Na^+$'),Ion(Profiles[choose_profile].c_K, DK, zK,'$K^+$' ),Ion(Profiles[choose_profile].c_Cl, DCl, zCl,'$Cl^-$' )] # check electroneutrality el_sum = electroneutrality(Ions, N_x) # plot = 'true' if you want to plot assert np.amax(el_sum) < 1.e-14 # unit test # plot initial ion concentration print(Profiles[choose_profile].c_values) plotIons(Ions, x, Profiles[choose_profile].name, Profiles[choose_profile].c_values, Profiles[choose_profile].x_values/100) # solve the equation Phi_of_t, c_of_t = solveEquation(Ions, lambda_n, N_t, delta_t, N_x, delta_x) # Phi_of_t is dimensionless, needs to be multiplied with Psi = RT/F = 0.0267 V # to get Phi_of_t in mV: *1000 Phi_of_t = Phi_of_t*1000*Psi # Check electroneutrality el_sum = electroneutrality(Ions, N_x, plot = 'true') # true = 'true' if you want to plot assert np.amax(el_sum) < 1.e-13 # unit test # plot final ion concentration # plotIons(Ions, x, Profiles[choose_profile].name + '_final') # save Phi(x,t) np.save( Profiles[choose_profile].name + "_Phi_of_t.npy" , Phi_of_t)