Source code for pyscf.pbc.scf.kuhf

#!/usr/bin/env python
# Copyright 2014-2019 The PySCF Developers. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
# Author: Qiming Sun <osirpt.sun@gmail.com>
#

'''
Hartree-Fock for periodic systems with k-point sampling

See Also:
    hf.py : Hartree-Fock for periodic systems at a single k-point
'''

from functools import reduce
import numpy as np
import scipy.linalg
from pyscf.scf import hf as mol_hf
from pyscf.scf import uhf as mol_uhf
from pyscf.pbc.scf import khf
from pyscf.pbc.scf import uhf as pbcuhf
from pyscf import lib
from pyscf.lib import logger
from pyscf.pbc.scf import addons
from pyscf.pbc.scf import chkfile  # noqa
from pyscf import __config__

PRE_ORTH_METHOD = getattr(__config__, 'pbc_scf_analyze_pre_orth_method', 'ANO')
CHECK_COULOMB_IMAG = getattr(__config__, 'pbc_scf_check_coulomb_imag', True)


canonical_occ = canonical_occ_ = addons.canonical_occ_


[docs] def make_rdm1(mo_coeff_kpts, mo_occ_kpts, **kwargs): '''Alpha and beta spin one particle density matrices for all k-points. Returns: dm_kpts : (2, nkpts, nao, nao) ndarray ''' nkpts = len(mo_occ_kpts[0]) nao, nmo = mo_coeff_kpts[0][0].shape def make_dm(mos, occs): return [np.dot(mos[k]*occs[k], mos[k].T.conj()) for k in range(nkpts)] dm_kpts =(make_dm(mo_coeff_kpts[0], mo_occ_kpts[0]) + make_dm(mo_coeff_kpts[1], mo_occ_kpts[1])) dm = lib.asarray(dm_kpts).reshape(2,nkpts,nao,nao) return lib.tag_array(dm, mo_coeff=mo_coeff_kpts, mo_occ=mo_occ_kpts)
[docs] def get_fock(mf, h1e=None, s1e=None, vhf=None, dm=None, cycle=-1, diis=None, diis_start_cycle=None, level_shift_factor=None, damp_factor=None, fock_last=None): h1e_kpts, s_kpts, vhf_kpts, dm_kpts = h1e, s1e, vhf, dm if h1e_kpts is None: h1e_kpts = mf.get_hcore() if vhf_kpts is None: vhf_kpts = mf.get_veff(mf.cell, dm_kpts) f_kpts = h1e_kpts + vhf_kpts if cycle < 0 and diis is None: # Not inside the SCF iteration return f_kpts if diis_start_cycle is None: diis_start_cycle = mf.diis_start_cycle if level_shift_factor is None: level_shift_factor = mf.level_shift if damp_factor is None: damp_factor = mf.damp if s_kpts is None: s_kpts = mf.get_ovlp() if dm_kpts is None: dm_kpts = mf.make_rdm1() if isinstance(level_shift_factor, (tuple, list, np.ndarray)): shifta, shiftb = level_shift_factor else: shifta = shiftb = level_shift_factor if isinstance(damp_factor, (tuple, list, np.ndarray)): dampa, dampb = damp_factor else: dampa = dampb = damp_factor if 0 <= cycle < diis_start_cycle-1 and abs(dampa)+abs(dampb) > 1e-4 and fock_last is not None: f_a = [] f_b = [] for k in range(len(s_kpts)): f_a.append(mol_hf.damping(f_kpts[0][k], fock_last[0][k], dampa)) f_b.append(mol_hf.damping(f_kpts[1][k], fock_last[1][k], dampa)) f_kpts = [f_a, f_b] if diis and cycle >= diis_start_cycle: f_kpts = diis.update(s_kpts, dm_kpts, f_kpts, mf, h1e_kpts, vhf_kpts, f_prev=fock_last) if abs(level_shift_factor) > 1e-4: f_kpts =([mol_hf.level_shift(s, dm_kpts[0,k], f_kpts[0,k], shifta) for k, s in enumerate(s_kpts)], [mol_hf.level_shift(s, dm_kpts[1,k], f_kpts[1,k], shiftb) for k, s in enumerate(s_kpts)]) return lib.asarray(f_kpts)
[docs] def get_fermi(mf, mo_energy_kpts=None, mo_occ_kpts=None): '''A pair of Fermi level for spin-up and spin-down orbitals ''' if mo_energy_kpts is None: mo_energy_kpts = mf.mo_energy if mo_occ_kpts is None: mo_occ_kpts = mf.mo_occ # mo_energy_kpts and mo_occ_kpts are k-point UHF quantities assert (mo_energy_kpts[0][0].ndim == 1) assert (mo_occ_kpts[0][0].ndim == 1) nocca = sum(mo_occ.sum() for mo_occ in mo_occ_kpts[0]) noccb = sum(mo_occ.sum() for mo_occ in mo_occ_kpts[1]) # nocc may not be perfect integer when smearing is enabled nocca = int(nocca.round(3)) noccb = int(noccb.round(3)) fermi_a = np.sort(np.hstack(mo_energy_kpts[0]))[nocca-1] fermi_b = np.sort(np.hstack(mo_energy_kpts[1]))[noccb-1] for k, mo_e in enumerate(mo_energy_kpts[0]): mo_occ = mo_occ_kpts[0][k] if mo_occ[mo_e > fermi_a].sum() > 0.5: logger.warn(mf, 'Alpha occupied band above Fermi level: \n' 'k=%d, mo_e=%s, mo_occ=%s', k, mo_e, mo_occ) for k, mo_e in enumerate(mo_energy_kpts[1]): mo_occ = mo_occ_kpts[1][k] if mo_occ[mo_e > fermi_b].sum() > 0.5: logger.warn(mf, 'Beta occupied band above Fermi level: \n' 'k=%d, mo_e=%s, mo_occ=%s', k, mo_e, mo_occ) return (fermi_a, fermi_b)
[docs] def get_occ(mf, mo_energy_kpts=None, mo_coeff_kpts=None): '''Label the occupancies for each orbital for sampled k-points. This is a k-point version of scf.hf.SCF.get_occ ''' if mo_energy_kpts is None: mo_energy_kpts = mf.mo_energy nocc_a, nocc_b = mf.nelec mo_energy = np.sort(np.hstack(mo_energy_kpts[0])) fermi_a = mo_energy[nocc_a-1] mo_occ_kpts = [[], []] for mo_e in mo_energy_kpts[0]: mo_occ_kpts[0].append((mo_e <= fermi_a).astype(np.double)) if nocc_a < len(mo_energy): logger.info(mf, 'alpha HOMO = %.12g LUMO = %.12g', fermi_a, mo_energy[nocc_a]) else: logger.info(mf, 'alpha HOMO = %.12g (no LUMO because of small basis) ', fermi_a) if nocc_b > 0: mo_energy = np.sort(np.hstack(mo_energy_kpts[1])) fermi_b = mo_energy[nocc_b-1] for mo_e in mo_energy_kpts[1]: mo_occ_kpts[1].append((mo_e <= fermi_b).astype(np.double)) if nocc_b < len(mo_energy): logger.info(mf, 'beta HOMO = %.12g LUMO = %.12g', fermi_b, mo_energy[nocc_b]) else: logger.info(mf, 'beta HOMO = %.12g (no LUMO because of small basis) ', fermi_b) else: for mo_e in mo_energy_kpts[1]: mo_occ_kpts[1].append(np.zeros_like(mo_e)) if mf.verbose >= logger.DEBUG: np.set_printoptions(threshold=len(mo_energy)) logger.debug(mf, ' k-point alpha mo_energy') for k,kpt in enumerate(mf.cell.get_scaled_kpts(mf.kpts)): if (np.count_nonzero(mo_occ_kpts[0][k]) > 0 and np.count_nonzero(mo_occ_kpts[0][k] == 0) > 0): logger.debug(mf, ' %2d (%6.3f %6.3f %6.3f) %s %s', k, kpt[0], kpt[1], kpt[2], mo_energy_kpts[0][k][mo_occ_kpts[0][k]> 0], mo_energy_kpts[0][k][mo_occ_kpts[0][k]==0]) else: logger.debug(mf, ' %2d (%6.3f %6.3f %6.3f) %s', k, kpt[0], kpt[1], kpt[2], mo_energy_kpts[0][k]) logger.debug(mf, ' k-point beta mo_energy') for k,kpt in enumerate(mf.cell.get_scaled_kpts(mf.kpts)): if (np.count_nonzero(mo_occ_kpts[1][k]) > 0 and np.count_nonzero(mo_occ_kpts[1][k] == 0) > 0): logger.debug(mf, ' %2d (%6.3f %6.3f %6.3f) %s %s', k, kpt[0], kpt[1], kpt[2], mo_energy_kpts[1][k][mo_occ_kpts[1][k]> 0], mo_energy_kpts[1][k][mo_occ_kpts[1][k]==0]) else: logger.debug(mf, ' %2d (%6.3f %6.3f %6.3f) %s', k, kpt[0], kpt[1], kpt[2], mo_energy_kpts[1][k]) np.set_printoptions(threshold=1000) return mo_occ_kpts
[docs] def energy_elec(mf, dm_kpts=None, h1e_kpts=None, vhf_kpts=None): '''Following pyscf.scf.hf.energy_elec() ''' if dm_kpts is None: dm_kpts = mf.make_rdm1() if h1e_kpts is None: h1e_kpts = mf.get_hcore() if vhf_kpts is None: vhf_kpts = mf.get_veff(mf.cell, dm_kpts) nkpts = len(h1e_kpts) e1 = 1./nkpts * np.einsum('kij,kji', dm_kpts[0], h1e_kpts) e1+= 1./nkpts * np.einsum('kij,kji', dm_kpts[1], h1e_kpts) e_coul = 1./nkpts * np.einsum('kij,kji', dm_kpts[0], vhf_kpts[0]) * 0.5 e_coul+= 1./nkpts * np.einsum('kij,kji', dm_kpts[1], vhf_kpts[1]) * 0.5 mf.scf_summary['e1'] = e1.real mf.scf_summary['e2'] = e_coul.real logger.debug(mf, 'E1 = %s E_coul = %s', e1, e_coul) if CHECK_COULOMB_IMAG and abs(e_coul.imag > mf.cell.precision*10): logger.warn(mf, "Coulomb energy has imaginary part %s. " "Coulomb integrals (e-e, e-N) may not converge !", e_coul.imag) return (e1+e_coul).real, e_coul.real
def _make_rdm1_meta(cell, dm_ao_kpts, kpts, pre_orth_method, s): from pyscf.lo import orth from pyscf.pbc.tools import k2gamma kmesh = k2gamma.kpts_to_kmesh(cell, kpts-kpts[0]) nkpts, nao = dm_ao_kpts[0].shape[:2] scell, phase = k2gamma.get_phase(cell, kpts, kmesh) s_sc = k2gamma.to_supercell_ao_integrals(cell, kpts, s, kmesh=kmesh, force_real=False) orth_coeff = orth.orth_ao(scell, 'meta_lowdin', pre_orth_method, s=s_sc)[:,:nao] # cell 0 only c_inv = np.dot(orth_coeff.T.conj(), s_sc) c_inv = lib.einsum('aRp,Rk->kap', c_inv.reshape(nao,nkpts,nao), phase) dm_a = lib.einsum('kap,kpq,kbq->ab', c_inv, dm_ao_kpts[0], c_inv.conj()) dm_b = lib.einsum('kap,kpq,kbq->ab', c_inv, dm_ao_kpts[1], c_inv.conj()) return (dm_a, dm_b)
[docs] def mulliken_meta(cell, dm_ao_kpts, kpts, verbose=logger.DEBUG, pre_orth_method=PRE_ORTH_METHOD, s=None): '''A modified Mulliken population analysis, based on meta-Lowdin AOs. The results are equivalent to the corresponding supercell calculation. ''' log = logger.new_logger(cell, verbose) if s is None: s = khf.get_ovlp(None, cell=cell, kpts=kpts) dm_a, dm_b = _make_rdm1_meta(cell, dm_ao_kpts, kpts, pre_orth_method, s) log.note(' ** Mulliken pop alpha/beta on meta-lowdin orthogonal AOs **') return mol_uhf.mulliken_pop(cell, (dm_a,dm_b), np.eye(dm_a.shape[0]), log)
[docs] def mulliken_meta_spin(cell, dm_ao_kpts, kpts, verbose=logger.DEBUG, pre_orth_method=PRE_ORTH_METHOD, s=None): '''A modified Mulliken population analysis, based on meta-Lowdin AOs. ''' log = logger.new_logger(cell, verbose) if s is None: s = khf.get_ovlp(None, cell=cell, kpts=kpts) dm_a, dm_b = _make_rdm1_meta(cell, dm_ao_kpts, kpts, pre_orth_method, s) log.note(' ** Mulliken pop alpha/beta on meta-lowdin orthogonal AOs **') return mol_uhf.mulliken_spin_pop(cell, (dm_a,dm_b), np.eye(dm_a.shape[0]), log)
[docs] def canonicalize(mf, mo_coeff_kpts, mo_occ_kpts, fock=None): '''Canonicalization diagonalizes the UHF Fock matrix within occupied, virtual subspaces separatedly (without change occupancy). ''' if fock is None: dm = mf.make_rdm1(mo_coeff_kpts, mo_occ_kpts) fock = mf.get_fock(dm=dm) def eig_(fock, mo_coeff, idx, es, cs): if np.count_nonzero(idx) > 0: orb = mo_coeff[:,idx] f1 = reduce(np.dot, (orb.T.conj(), fock, orb)) e, c = scipy.linalg.eigh(f1) es[idx] = e cs[:,idx] = np.dot(orb, c) mo_coeff = [[], []] mo_energy = [[], []] for k, mo in enumerate(mo_coeff_kpts[0]): mo1 = np.empty_like(mo) mo_e = np.empty_like(mo_occ_kpts[0][k]) occidxa = mo_occ_kpts[0][k] == 1 viridxa = ~occidxa eig_(fock[0][k], mo, occidxa, mo_e, mo1) eig_(fock[0][k], mo, viridxa, mo_e, mo1) mo_coeff[0].append(mo1) mo_energy[0].append(mo_e) for k, mo in enumerate(mo_coeff_kpts[1]): mo1 = np.empty_like(mo) mo_e = np.empty_like(mo_occ_kpts[1][k]) occidxb = mo_occ_kpts[1][k] == 1 viridxb = ~occidxb eig_(fock[1][k], mo, occidxb, mo_e, mo1) eig_(fock[1][k], mo, viridxb, mo_e, mo1) mo_coeff[1].append(mo1) mo_energy[1].append(mo_e) return mo_energy, mo_coeff
[docs] def init_guess_by_chkfile(cell, chkfile_name, project=None, kpts=None): '''Read the KHF results from checkpoint file, then project it to the basis defined by ``cell`` Returns: Density matrix, 3D ndarray ''' from pyscf import gto chk_cell, scf_rec = chkfile.load_scf(chkfile_name) if project is None: project = not gto.same_basis_set(chk_cell, cell) if kpts is None: kpts = scf_rec['kpts'] if 'kpt' in scf_rec: chk_kpts = scf_rec['kpt'].reshape(-1,3) elif 'kpts' in scf_rec: chk_kpts = scf_rec['kpts'] else: chk_kpts = np.zeros((1,3)) mo = scf_rec['mo_coeff'] mo_occ = scf_rec['mo_occ'] if 'kpts' not in scf_rec: # gamma point or single k-point if mo.ndim == 2: mo = np.expand_dims(mo, axis=0) mo_occ = np.expand_dims(mo_occ, axis=0) else: # UHF mo = [np.expand_dims(mo[0], axis=0), np.expand_dims(mo[1], axis=0)] mo_occ = [np.expand_dims(mo_occ[0], axis=0), np.expand_dims(mo_occ[1], axis=0)] if project: s = cell.pbc_intor('int1e_ovlp', kpts=kpts) def fproj(mo, kpts): if project: mo = addons.project_mo_nr2nr(chk_cell, mo, cell, kpts) for k, c in enumerate(mo): norm = np.einsum('pi,pi->i', c.conj(), s[k].dot(c)) mo[k] /= np.sqrt(norm) return mo def makedm(mos, occs): moa, mob = mos mos = (fproj(moa, chk_kpts), fproj(mob, chk_kpts)) dm = make_rdm1(mos, occs) if kpts.shape != chk_kpts.shape or not np.allclose(kpts, chk_kpts): dm = [addons.project_dm_k2k(cell, dm[0], chk_kpts, kpts), addons.project_dm_k2k(cell, dm[1], chk_kpts, kpts)] return np.asarray(dm) if getattr(mo[0], 'ndim', None) == 2: # KRHF mo_occa = [(occ>1e-8).astype(np.double) for occ in mo_occ] mo_occb = [occ-mo_occa[k] for k,occ in enumerate(mo_occ)] dm = makedm((mo, mo), (mo_occa, mo_occb)) else: # KUHF dm = makedm(mo, mo_occ) # Real DM for gamma point if np.allclose(kpts, 0): dm = dm.real return dm
[docs] def dip_moment(cell, dm_kpts, unit='Debye', verbose=logger.NOTE, grids=None, rho=None, kpts=np.zeros((1,3))): ''' Dipole moment in the cell. Args: cell : an instance of :class:`Cell` dm_kpts (two lists of ndarrays) : KUHF density matrices of k-points Return: A list: the dipole moment on x, y and z components ''' dm_kpts = dm_kpts[0] + dm_kpts[1] return khf.dip_moment(cell, dm_kpts, unit, verbose, grids, rho, kpts)
get_rho = khf.get_rho
[docs] class KUHF(khf.KSCF): '''UHF class with k-point sampling. ''' conv_tol_grad = getattr(__config__, 'pbc_scf_KSCF_conv_tol_grad', None) init_guess_breaksym = getattr(__config__, 'scf_uhf_init_guess_breaksym', 1) _keys = {"init_guess_breaksym"} init_guess_by_1e = pbcuhf.UHF.init_guess_by_1e init_guess_by_minao = pbcuhf.UHF.init_guess_by_minao init_guess_by_atom = pbcuhf.UHF.init_guess_by_atom init_guess_by_huckel = pbcuhf.UHF.init_guess_by_huckel init_guess_by_mod_huckel = pbcuhf.UHF.init_guess_by_mod_huckel get_fock = get_fock get_fermi = get_fermi get_occ = get_occ energy_elec = energy_elec get_rho = get_rho analyze = khf.analyze canonicalize = canonicalize to_gpu = lib.to_gpu def __init__(self, cell, kpts=np.zeros((1,3)), exxdiv=getattr(__config__, 'pbc_scf_SCF_exxdiv', 'ewald')): khf.KSCF.__init__(self, cell, kpts, exxdiv) self.nelec = None @property def nelec(self): if self._nelec is not None: return self._nelec else: cell = self.cell nkpts = len(self.kpts) ne = cell.tot_electrons(nkpts) nalpha = (ne + cell.spin) // 2 nbeta = nalpha - cell.spin if nalpha + nbeta != ne: raise RuntimeError('Electron number %d and spin %d are not consistent\n' 'Note cell.spin = 2S = Nalpha - Nbeta, not 2S+1' % (ne, cell.spin)) return nalpha, nbeta @nelec.setter def nelec(self, x): self._nelec = x
[docs] def dump_flags(self, verbose=None): khf.KSCF.dump_flags(self, verbose) logger.info(self, 'number of electrons per cell ' 'alpha = %d beta = %d', *self.nelec) return self
[docs] def get_init_guess(self, cell=None, key='minao', s1e=None): if s1e is None: s1e = self.get_ovlp(cell) dm_kpts = mol_hf.SCF.get_init_guess(self, cell, key) assert dm_kpts.shape[0] == 2 nkpts = len(self.kpts) if dm_kpts.ndim != 4: # dm[spin,nao,nao] at gamma point -> dm_kpts[spin,nkpts,nao,nao] dm_kpts = np.repeat(dm_kpts[:,None,:,:], nkpts, axis=1) ne = lib.einsum('xkij,kji->x', dm_kpts, s1e).real nelec = np.asarray(self.nelec) if np.any(abs(ne - nelec) > 0.01*nkpts): logger.debug(self, 'Big error detected in the electron number ' 'of initial guess density matrix (Ne/cell = %g)!\n' ' This can cause huge error in Fock matrix and ' 'lead to instability in SCF for low-dimensional ' 'systems.\n DM is normalized wrt the number ' 'of electrons %s', ne.mean()/nkpts, nelec/nkpts) dm_kpts *= (nelec / ne).reshape(2,-1,1,1) return dm_kpts
[docs] def get_veff(self, cell=None, dm_kpts=None, dm_last=0, vhf_last=0, hermi=1, kpts=None, kpts_band=None): if dm_kpts is None: dm_kpts = self.make_rdm1() vj, vk = self.get_jk(cell, dm_kpts, hermi, kpts, kpts_band) vhf = vj[0] + vj[1] - vk return vhf
[docs] def get_grad(self, mo_coeff_kpts, mo_occ_kpts, fock=None): if fock is None: dm1 = self.make_rdm1(mo_coeff_kpts, mo_occ_kpts) fock = self.get_hcore(self.cell, self.kpts) + self.get_veff(self.cell, dm1) def grad(mo, mo_occ, fock): occidx = mo_occ > 0 viridx = ~occidx g = reduce(np.dot, (mo[:,viridx].T.conj(), fock, mo[:,occidx])) return g.ravel() nkpts = len(mo_occ_kpts[0]) grad_kpts = [grad(mo_coeff_kpts[0][k], mo_occ_kpts[0][k], fock[0][k]) for k in range(nkpts)] grad_kpts+= [grad(mo_coeff_kpts[1][k], mo_occ_kpts[1][k], fock[1][k]) for k in range(nkpts)] return np.hstack(grad_kpts)
[docs] def eig(self, h_kpts, s_kpts): e_a, c_a = khf.KSCF.eig(self, h_kpts[0], s_kpts) e_b, c_b = khf.KSCF.eig(self, h_kpts[1], s_kpts) return (e_a,e_b), (c_a,c_b)
[docs] def make_rdm1(self, mo_coeff_kpts=None, mo_occ_kpts=None, **kwargs): if mo_coeff_kpts is None: mo_coeff_kpts = self.mo_coeff if mo_occ_kpts is None: mo_occ_kpts = self.mo_occ return make_rdm1(mo_coeff_kpts, mo_occ_kpts, **kwargs)
[docs] def get_bands(self, kpts_band, cell=None, dm_kpts=None, kpts=None): '''Get energy bands at the given (arbitrary) 'band' k-points. Returns: mo_energy : (nmo,) ndarray or a list of (nmo,) ndarray Bands energies E_n(k) mo_coeff : (nao, nmo) ndarray or a list of (nao,nmo) ndarray Band orbitals psi_n(k) ''' if cell is None: cell = self.cell if dm_kpts is None: dm_kpts = self.make_rdm1() if kpts is None: kpts = self.kpts kpts_band = np.asarray(kpts_band) single_kpt_band = (kpts_band.ndim == 1) kpts_band = kpts_band.reshape(-1,3) fock = self.get_hcore(cell, kpts_band) fock = fock + self.get_veff(cell, dm_kpts, kpts=kpts, kpts_band=kpts_band) s1e = self.get_ovlp(cell, kpts_band) (e_a,e_b), (c_a,c_b) = self.eig(fock, s1e) if single_kpt_band: e_a = e_a[0] e_b = e_b[0] c_a = c_a[0] c_b = c_b[0] return (e_a,e_b), (c_a,c_b)
[docs] def init_guess_by_chkfile(self, chk=None, project=True, kpts=None): if chk is None: chk = self.chkfile if kpts is None: kpts = self.kpts return init_guess_by_chkfile(self.cell, chk, project, kpts)
[docs] @lib.with_doc(mulliken_meta.__doc__) def mulliken_meta(self, cell=None, dm=None, kpts=None, verbose=logger.DEBUG, pre_orth_method=PRE_ORTH_METHOD, s=None): if cell is None: cell = self.cell if dm is None: dm = self.make_rdm1() if kpts is None: kpts = self.kpts if s is None: s = self.get_ovlp(cell) return mulliken_meta(cell, dm, kpts, s=s, verbose=verbose, pre_orth_method=pre_orth_method)
[docs] @lib.with_doc(mulliken_meta_spin.__doc__) def mulliken_meta_spin(self, cell=None, dm=None, kpts=None, verbose=logger.DEBUG, pre_orth_method=PRE_ORTH_METHOD, s=None): if cell is None: cell = self.cell if dm is None: dm = self.make_rdm1() if kpts is None: kpts = self.kpts if s is None: s = self.get_ovlp(cell) return mulliken_meta_spin(cell, dm, kpts, s=s, verbose=verbose, pre_orth_method=pre_orth_method)
[docs] def mulliken_pop(self): raise NotImplementedError
[docs] @lib.with_doc(dip_moment.__doc__) def dip_moment(self, cell=None, dm=None, unit='Debye', verbose=logger.NOTE, **kwargs): if cell is None: cell = self.cell if dm is None: dm = self.make_rdm1() rho = kwargs.pop('rho', None) if rho is None: rho = self.get_rho(dm) return dip_moment(cell, dm, unit, verbose, rho=rho, kpts=self.kpts, **kwargs)
[docs] @lib.with_doc(mol_uhf.spin_square.__doc__) def spin_square(self, mo_coeff=None, s=None): '''Treating the k-point sampling wfn as a giant Slater determinant, the spin_square value is the <S^2> of the giant determinant. ''' nkpts = len(self.kpts) if mo_coeff is None: mo_a = [self.mo_coeff[0][k][:,self.mo_occ[0][k]>0] for k in range(nkpts)] mo_b = [self.mo_coeff[1][k][:,self.mo_occ[1][k]>0] for k in range(nkpts)] else: mo_a, mo_b = mo_coeff if s is None: s = self.get_ovlp() nelec_a = sum([mo_a[k].shape[1] for k in range(nkpts)]) nelec_b = sum([mo_b[k].shape[1] for k in range(nkpts)]) ssxy = (nelec_a + nelec_b) * .5 for k in range(nkpts): sij = reduce(np.dot, (mo_a[k].T.conj(), s[k], mo_b[k])) ssxy -= np.einsum('ij,ij->', sij.conj(), sij).real ssz = (nelec_b-nelec_a)**2 * .25 ss = ssxy + ssz s = np.sqrt(ss+.25) - .5 return ss, s*2+1
[docs] def stability(self, internal=getattr(__config__, 'pbc_scf_KSCF_stability_internal', True), external=getattr(__config__, 'pbc_scf_KSCF_stability_external', False), verbose=None): from pyscf.pbc.scf.stability import uhf_stability return uhf_stability(self, internal, external, verbose)
[docs] def nuc_grad_method(self): from pyscf.pbc.grad import kuhf return kuhf.Gradients(self)
[docs] def to_ks(self, xc='HF'): '''Convert to RKS object. ''' from pyscf.pbc import dft return self._transfer_attrs_(dft.KUKS(self.cell, self.kpts, xc=xc))
[docs] def convert_from_(self, mf): '''Convert given mean-field object to KUHF''' addons.convert_to_uhf(mf, self) return self