SCF optimization#
Let us implement the presented Hartree–Fock SCF procedure. We will use the water molecule as an example and, as reference, we will first compute the Hartree–Fock energy using the built-in compute method in VeloxChem.
Setting up the system#
import numpy as np
import veloxchem as vlx
import matplotlib.pyplot as plt
mol_str = """3
O 0.000000000000 0.000000000000 0.000000000000
H 0.000000000000 0.740848095288 0.582094932012
H 0.000000000000 -0.740848095288 0.582094932012
"""
molecule = vlx.Molecule.from_xyz_string(mol_str)
basis = vlx.MolecularBasis.read(molecule, "cc-pVDZ")
You appear to be running in JupyterLab (or JavaScript failed to load for some other reason). You need to install the 3dmol extension:
jupyter labextension install jupyterlab_3dmol
norb = basis.get_dimensions_of_basis(molecule)
nocc = molecule.number_of_electrons() // 2
V_nuc = molecule.nuclear_repulsion_energy()
print("Number of contracted basis functions:", norb)
print("Number of doubly occupied molecular orbitals:", nocc)
print(f"Nuclear repulsion energy (in a.u.): {V_nuc : 14.12f}")
Number of contracted basis functions: 24
Number of doubly occupied molecular orbitals: 5
Nuclear repulsion energy (in a.u.): 9.343638157670
Reference calculation#
Let us first perform an reference calculation using the restricted closed-shell SCF driver in VeloxChem.
scf_drv = vlx.ScfRestrictedDriver()
scf_results = scf_drv.compute(molecule, basis)
print(f"Final HF energy: {scf_drv.get_scf_energy() : 12.8f} Hartree")
Final HF energy: -76.02698419 Hartree
Getting integrals in AO basis#
# overlap matrix
overlap_drv = vlx.OverlapIntegralsDriver()
S = overlap_drv.compute(molecule, basis).to_numpy()
# one-electron Hamiltonian
kinetic_drv = vlx.KineticEnergyIntegralsDriver()
T = kinetic_drv.compute(molecule, basis).to_numpy()
nucpot_drv = vlx.NuclearPotentialIntegralsDriver()
V = -nucpot_drv.compute(molecule, basis).to_numpy()
h = T + V
# two-electron Hamiltonian
eri_drv = vlx.ElectronRepulsionIntegralsDriver()
g = np.zeros((norb, norb, norb, norb))
eri_drv.compute_in_memory(molecule, basis, g)
Orthogonalization of the AO basis#
We first retrieve an orthogonal AO (OAO) basis by means of a non-unitary transformation matrix \(\mathbf{X}\) such that
and
In the absence of linear dependencies in the AO basis, the overlap matrix is symmetric (and positive-definite) and it can first be diagonalized by a unitary transformation
where \(\boldsymbol{\sigma}\) is a diagonal matrix collecting the eigenvalues. It is then straightforward to construct explicit forms of \(\mathbf{X}\). There exist two common choices:
symmetric form |
canonical form |
|---|---|
\(\mathbf{X} = \mathbf{U} \boldsymbol{\sigma}^{-\frac{1}{2}} \mathbf{U}^\dagger\) |
\(\mathbf{X} = \mathbf{U} \boldsymbol{\sigma}^{-\frac{1}{2}}\) |
We can readily verify that both expressions satisfy \(\mathbf{X}^\dagger \mathbf{S X} = \mathbf{I}\).
The expression for the associated transformation of MO coefficients is determined from the relation
We identify
or
# symmetric transformation
sigma, U = np.linalg.eigh(S)
X = np.einsum("ik,k,jk->ij", U, 1 / np.sqrt(sigma), U)
Solving the Hartree–Fock equation#
For a given Fock matrix, we solve the Hartree–Fock equation by the following steps:
transform the Fock matrix to the OAO basis
diagonalize the Fock matrix
transform the MO coefficients back to AO basis
def get_MO_coeff(F):
F_OAO = np.einsum("ki,kl,lj->ij", X, F, X)
epsilon, C_OAO = np.linalg.eigh(F_OAO)
C = np.einsum("ik,kj->ij", X, C_OAO)
return C
SCF iterations#
We form an initial guess for the density based on the core Hamiltonian and thereafter enter the SCF iterations. As a measure of convergence, we adopt the norm of the following matrix in AO basis
It is convenient to scatter the elements of this matrix into the format of a vector and which we refer to as the error vector. During the course of the SCF iterations, we form a sequence of error vectors, \(\mathbf{e}_i\).
The choice of convergence metric may at first appear unintuitive but becomes less so in the MO basis
where it is seen to correspond to vanishing occupied—virtual blocks in the Fock matrix.
max_iter = 50
conv_thresh = 1e-6
E_RH = []
# initial guess from core Hamiltonian
C = get_MO_coeff(h)
print("iter SCF energy Error norm")
for iter in range(max_iter):
D = np.einsum("ik,jk->ij", C[:, :nocc], C[:, :nocc])
J = np.einsum("ijkl,kl->ij", g, D)
K = np.einsum("ilkj,kl->ij", g, D)
F = h + 2 * J - K
E = np.einsum("ij,ij->", h + F, D) + V_nuc
# compute convergence metric
e_mat = np.linalg.multi_dot([F, D, S]) - np.linalg.multi_dot([S, D, F])
e_vec = e_mat.reshape(-1)
error = np.linalg.norm(e_vec)
print(f"{iter:>2d} {E:16.8f} {error:10.2e}")
E_RH.append(error)
if error < conv_thresh:
print("SCF iterations converged!")
break
C = get_MO_coeff(F)
iter SCF energy Error norm
0 -68.84975229 3.09e+00
1 -69.95937641 2.88e+00
2 -73.34743276 2.83e+00
3 -73.46688910 2.23e+00
4 -74.74058933 2.18e+00
5 -75.55859127 1.41e+00
6 -75.86908635 8.26e-01
7 -75.97444165 4.82e-01
8 -76.00992921 2.74e-01
9 -76.02143957 1.57e-01
10 -76.02519173 8.89e-02
11 -76.02640379 5.06e-02
12 -76.02679653 2.88e-02
13 -76.02692347 1.64e-02
14 -76.02696455 9.31e-03
15 -76.02697784 5.30e-03
16 -76.02698213 3.01e-03
17 -76.02698352 1.71e-03
18 -76.02698397 9.74e-04
19 -76.02698412 5.54e-04
20 -76.02698416 3.15e-04
21 -76.02698418 1.79e-04
22 -76.02698418 1.02e-04
23 -76.02698419 5.80e-05
24 -76.02698419 3.30e-05
25 -76.02698419 1.88e-05
26 -76.02698419 1.07e-05
27 -76.02698419 6.07e-06
28 -76.02698419 3.45e-06
29 -76.02698419 1.96e-06
30 -76.02698419 1.12e-06
31 -76.02698419 6.35e-07
SCF iterations converged!
Convergence acceleration#
Direct inversion iterative subspace#
The Rothaan–Hall scheme suffer from poor numerical convergence and in practice some version of convergence acceleration is adopted. In the method of direct inversion of the iterative subspace (DIIS) [Pul80, Pul82, Sel93] information is used from not only the present but also previous iterations to form an averaged effective one-electron Hamiltonian, or Fock matrix, according to
where \(\mathbf{F}_i\) is the Fock matrix generated in SCF iteration \(i\), \(n\) is present iteration, and the weights, \(w_i\), are to be determined. To guarantee that the one-electron Hamiltonian is preserved in the effective Fock operator, we impose the condition
Under the assumption of a strict linearity between Fock matrices and error vectors, the error vector of the averaged Fock matrix would equal
As the molecular orbitals change from one iteration to the next, this is not strictly the case but it is a good approximation. We can then determine the weights by minimizing the squared norm of this error vector under the imposed constraint. The squared norm becomes equal to
and the constrained minimization is achieved by introducing a Lagrangian
where the factor of \(-2\) multiplying the Lagrange multiplier \(\lambda\) is a mere convention as to arrive at an explicit matrix equation of the form
We solve this equation for the weights, \(w_i\), and then determine the averaged Fock matrix, \(\mathbf{F}_n^\mathrm{DIIS}\).
def c1diis(F_mats, e_vecs):
n = len(e_vecs)
# build DIIS matrix
B = -np.ones((n + 1, n + 1))
B[n, n] = 0
for i in range(n):
for j in range(n):
B[i, j] = np.dot(e_vecs[i], e_vecs[j])
b = np.zeros(n + 1)
b[n] = -1
w = np.matmul(np.linalg.inv(B), b)
F_diis = np.zeros((norb, norb))
for i in range(n):
F_diis += w[i] * F_mats[i]
return F_diis
SCF iterations#
In principle, the only needed modification in the SCF module to implement the DIIS scheme is to replace the original Fock matrix with the weighted averaged counterpart before the determination of the new MO coefficients. But it is also required to save Fock matrices and error vectors from previous SCF iterations. In practice, this extra storage requirement does not severely hamper applications, and in particular so as an optimum stabilitity in the DIIS scheme is experienced with the use of information from a limited number (about 10) of the previous iterations.
e_vecs = []
F_mats = []
E_DIIS = []
# initial guess from core Hamiltonian
C = get_MO_coeff(h)
print("iter SCF energy Error norm")
for iter in range(max_iter):
D = np.einsum("ik,jk->ij", C[:, :nocc], C[:, :nocc])
J = np.einsum("ijkl,kl->ij", g, D)
K = np.einsum("ilkj,kl->ij", g, D)
F = h + 2 * J - K
F_mats.append(F)
E = np.einsum("ij,ij->", h + F, D) + V_nuc
# compute convergence metric
e_mat = np.linalg.multi_dot([F, D, S]) - np.linalg.multi_dot([S, D, F])
e_vecs.append(e_mat.reshape(-1))
error = np.linalg.norm(e_vecs[-1])
print(f"{iter:>2d} {E:16.8f} {error:10.2e}")
E_DIIS.append(error)
if error < conv_thresh:
print("SCF iterations converged!")
break
F = c1diis(F_mats, e_vecs)
C = get_MO_coeff(F)
iter SCF energy Error norm
0 -68.84975229 3.09e+00
1 -69.95937641 2.88e+00
2 -75.88501761 8.37e-01
3 -75.97016719 5.18e-01
4 -76.01483442 2.34e-01
5 -76.02676704 3.29e-02
6 -76.02698021 3.32e-03
7 -76.02698392 8.01e-04
8 -76.02698418 2.04e-04
9 -76.02698419 6.97e-05
10 -76.02698419 2.06e-06
11 -76.02698419 5.43e-07
SCF iterations converged!
plt.figure(figsize=(6,4))
plt.plot(E_RH)
plt.plot(E_DIIS)
plt.plot([0,len(E_RH)],[1e-6,1e-6],'k--')
plt.legend(('Roothan--Hall','DIIS'))
plt.yscale('log')
plt.xlabel('Iteration')
plt.ylabel(r'Error norm')
plt.tight_layout()
plt.show()
