Source code for psi4.driver.driver_cbs

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import math
import re
import sys
from typing import Callable, List

import numpy as np

from psi4 import core
from psi4.driver import qcdb
from psi4.driver import p4util
from psi4.driver import driver_util
from psi4.driver import psifiles as psif
from psi4.driver.p4util.exceptions import *
from psi4.driver.procrouting.interface_cfour import cfour_psivar_list

zeta_values = 'dtq5678'
_zeta_val2sym = {k + 2: v for k, v in enumerate(zeta_values)}
_zeta_sym2val = {v: k for k, v in _zeta_val2sym.items()}
_addlremark = {'energy': '', 'gradient': ', GRADIENT', 'hessian': ', HESSIAN'}
_lmh_labels = {
    1: ['HI'],
    2: ['LO', 'HI'],
    3: ['LO', 'MD', 'HI'],
    4: ['LO', 'MD', 'M2', 'HI'],
    5: ['LO', 'MD', 'M2', 'M3', 'HI']
}


def _expand_bracketed_basis(basisstring: str, molecule=None):
    """Function to transform and validate basis series specification for cbs().

    Parameters
    ----------
    basisstring
        A string containing the basis sets to be expanded.
        A basis set with no paired square brackets is passed through
        with zeta level 0 (e.g., ``'6-31+G(d,p)'`` is returned as
        ``(["6-31+G(d,p)"], [0])``). A basis set with square brackets is checked
        for sensible sequence and returned as separate basis sets
        (e.g., ``'cc-pV[Q5]Z'` is returned as ``(["cc-pVQZ", "cc-pV5Z"], [4, 5])``).
        Allows out-of-order zeta specification (e.g., ``[qtd]``) and numeral for
        number (e.g., ``[23]``). Does not allow skipped zetas (e.g., ``[dq]``), zetas
        outside the [2,8] range, non-Dunning, non-Ahlrichs, or non-Jensen sets,
        or non-findable .gbs sets.
    molecule : qcdb.molecule or psi4.core.Molecule
        This function checks that the basis is valid by trying to build
        the qcdb.BasisSet object for *molecule* or for H2 if None.

    Returns
    -------
    tuple
        Tuple in the ``([basis set names], [basis set zetas])`` format.

    """
    BSET = []
    ZSET = []
    legit_compound_basis = re.compile(
        r'^(?P<pre>.*cc-.*|def2-|.*pcs+eg-|.*)\[(?P<zeta>[dtq2345678,s1]*)\](?P<post>.*z.*|)$', re.IGNORECASE)
    pc_basis = re.compile(r'.*pcs+eg-$', re.IGNORECASE)
    def2_basis = re.compile(r'def2-', re.IGNORECASE)
    zapa_basis = re.compile(r'.*zapa.*', re.IGNORECASE)

    if legit_compound_basis.match(basisstring):
        basisname = legit_compound_basis.match(basisstring)
        # handle def2-svp* basis sets as double-zeta
        if def2_basis.match(basisname.group('pre')):
            bn_gz = basisname.group('zeta').replace("s", "d")
        # handle pc-n basis set polarisation -> zeta conversion
        elif pc_basis.match(basisname.group('pre')):
            bn_gz = basisname.group('zeta').replace("4", "5").replace("3", "4").replace("2", "3").replace("1", "2")
        else:
            bn_gz = basisname.group('zeta')
        # filter out commas and be forgiving of e.g., t5q or 3q
        zetas = [z for z in zeta_values if (z in bn_gz or str(zeta_values.index(z) + 2) in bn_gz)]
        for b in zetas:
            if ZSET and (int(ZSET[len(ZSET) - 1]) - zeta_values.index(b)) != 1:
                raise ValidationError("""Basis set '%s' has skipped zeta level '%s'.""" %
                                      (basisstring, _zeta_val2sym[_zeta_sym2val[b] - 1]))
            # reassemble def2-svp* properly instead of def2-dzvp*
            if def2_basis.match(basisname.group('pre')) and b == "d":
                BSET.append(basisname.group('pre') + "s" + basisname.group('post')[1:])
            # reassemble pc-n basis sets properly
            elif pc_basis.match(basisname.group('pre')):
                BSET.append(basisname.group('pre') + "{0:d}".format(_zeta_sym2val[b] - 1))
            # assemble nZaPa basis sets
            elif zapa_basis.match(basisname.group('post')):
                bzapa = b.replace("d", "2").replace("t", "3").replace("q", "4")
                BSET.append(basisname.group('pre') + bzapa + basisname.group('post'))
            else:
                BSET.append(basisname.group('pre') + b + basisname.group('post'))
            ZSET.append(zeta_values.index(b) + 2)
    elif re.match(r'.*\[.*\].*$', basisstring, flags=re.IGNORECASE):
        raise ValidationError(
            """Basis series '%s' invalid. Specify a basis series matching"""
            """ '*cc-*[dtq2345678,]*z*'. or 'def2-[sdtq]zvp*' or '*pcs[s]eg-[1234]' or '[1234567]ZaPa' """ %
            (basisstring))
    else:
        BSET.append(basisstring)
        ZSET.append(0)

    if molecule is None:
        molecule = """\nH\nH 1 1.00\n"""
    elif isinstance(molecule, core.Molecule):
        molecule = qcdb.Molecule(molecule.to_dict())

    for basis in BSET:
        try:
            qcdb.BasisSet.pyconstruct(molecule, "BASIS", basis)
        except qcdb.BasisSetNotFound:
            e = sys.exc_info()[1]
            raise ValidationError(f"""Basis set '{basis}' not available for molecule.""")

    return (BSET, ZSET)


def _contract_bracketed_basis(basisarray: List):
    """Function to reform a bracketed basis set string from a sequential series
    of basis sets. Essentially the inverse of _expand_bracketed_basis(). Used to
    print a nicely formatted basis set string in the results table.

    Parameters
    ----------
    basisarray
        Basis set names, differing by zeta level, e.g. ``["cc-pvqz", "cc-pv5z"]``.

    Returns
    -------
    string
        A nicely formatted basis set string, e.g. ``"cc-pv[q5]z"`` for the above example.

    """

    if len(basisarray) == 1:
        return basisarray[0]

    else:
        zetaindx = [i for i in range(len(basisarray[0])) if basisarray[0][i] != basisarray[1][i]][0]
        ZSET = [bas[zetaindx] for bas in basisarray]

        pre = basisarray[1][:zetaindx]
        post = basisarray[1][zetaindx + 1:]
        basisstring = pre + '[' + ''.join(ZSET) + ']' + post
        return basisstring


[docs]def xtpl_highest_1(functionname: str, zHI: int, valueHI: float, verbose: bool = True, **kwargs): r"""Scheme for total or correlation energies with a single basis or the highest zeta-level among an array of bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zHI Zeta-level, only used for printing. valueHI Value of the CBS component. Returns ------- float Returns :math:`E_{total}^{\infty}` which is equal to valueHI. Notes ----- .. math:: E_{total}^X = E_{total}^{\infty} """ if isinstance(valueHI, float): if verbose: # Output string with extrapolation parameters cbsscheme = '' cbsscheme += """\n ==> %s <==\n\n""" % (functionname.upper()) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) core.print_out(cbsscheme) return valueHI elif isinstance(valueHI, (core.Matrix, core.Vector)): if verbose > 2: core.print_out(""" HI-zeta (%s) Total Energy:\n""" % (str(zHI))) valueHI.print_out() return valueHI
[docs]def scf_xtpl_helgaker_2(functionname: str, zLO: int, valueLO: float, zHI: int, valueHI: float, verbose: bool = True, alpha: float = None): r"""Extrapolation scheme using exponential form for reference energies with two adjacent zeta-level bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zLO Lower zeta level. valueLO Lower value used for extrapolation. zHI Higher zeta level. Should be equal to zLO + 1. valueHI Higher value used for extrapolation. alpha Overrides the default :math:`\alpha = 1.63` Returns ------- float Returns :math:`E_{total}^{\infty}`, see below. Notes ----- The extrapolation is calculated according to [1]_: :math:`E_{total}^X = E_{total}^{\infty} + \beta e^{-\alpha X}, \alpha = 1.63` References ---------- .. [1] Halkier, Helgaker, Jorgensen, Klopper, & Olsen, Chem. Phys. Lett. 302 (1999) 437-446, DOI: 10.1016/S0009-2614(99)00179-7 """ if type(valueLO) != type(valueHI): raise ValidationError( "scf_xtpl_helgaker_2: Inputs must be of the same datatype! (%s, %s)" % (type(valueLO), type(valueHI))) if alpha is None: alpha = 1.63 beta_division = 1 / (math.exp(-1 * alpha * zLO) * (math.exp(-1 * alpha) - 1)) beta_mult = math.exp(-1 * alpha * zHI) if isinstance(valueLO, float): beta = (valueHI - valueLO) * beta_division value = valueHI - beta * beta_mult if verbose: # Output string with extrapolation parameters cbsscheme = '' cbsscheme += """\n ==> Helgaker 2-point exponential SCF extrapolation for method: %s <==\n\n""" % ( functionname.upper()) cbsscheme += """ LO-zeta (%s) Energy: % 16.12f\n""" % (str(zLO), valueLO) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) cbsscheme += """ Alpha (exponent) Value: % 16.12f\n""" % (alpha) cbsscheme += """ Beta (coefficient) Value: % 16.12f\n\n""" % (beta) name_str = "%s/(%s,%s)" % (functionname.upper(), _zeta_val2sym[zLO].upper(), _zeta_val2sym[zHI].upper()) cbsscheme += """ @Extrapolated """ cbsscheme += name_str + ':' cbsscheme += " " * (18 - len(name_str)) cbsscheme += """% 16.12f\n\n""" % value core.print_out(cbsscheme) return value elif isinstance(valueLO, (core.Matrix, core.Vector)): beta = valueHI.clone() beta.name = 'Helgaker SCF (%s, %s) beta' % (zLO, zHI) beta.subtract(valueLO) beta.scale(beta_division) beta.scale(beta_mult) value = valueHI.clone() value.subtract(beta) value.name = 'Helgaker SCF (%s, %s) data' % (zLO, zHI) if verbose > 2: core.print_out("""\n ==> Helgaker 2-point exponential SCF extrapolation for method: %s <==\n\n""" % (functionname.upper())) core.print_out(""" LO-zeta (%s)""" % str(zLO)) core.print_out(""" LO-zeta Data""") valueLO.print_out() core.print_out(""" HI-zeta (%s)""" % str(zHI)) core.print_out(""" HI-zeta Data""") valueHI.print_out() core.print_out(""" Extrapolated Data:\n""") value.print_out() core.print_out(""" Alpha (exponent) Value: %16.8f\n""" % (alpha)) core.print_out(""" Beta Data:\n""") beta.print_out() return value else: raise ValidationError("scf_xtpl_helgaker_2: datatype is not recognized '%s'." % type(valueLO))
[docs]def scf_xtpl_truhlar_2(functionname: str, zLO: int, valueLO: float, zHI: int, valueHI: float, verbose: bool = True, alpha: float = None): r"""Extrapolation scheme using power form for reference energies with two adjacent zeta-level bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zLO Lower zeta level. valueLO Lower value used for extrapolation. zHI Higher zeta level. Should be equal to zLO + 1. valueHI Higher value used for extrapolation. alpha Overrides the default :math:`\alpha = 3.4` Returns ------- float Returns :math:`E_{total}^{\infty}`, see below. Notes ----- The extrapolation is calculated according to [2]_: :math:`E_{total}^X = E_{total}^{\infty} + \beta X^{-\alpha}, \alpha = 3.4` References ---------- .. [2] Truhlar, Chem. Phys. Lett. 294 (1998) 45-48, DOI: 10.1016/S0009-2614(98)00866-5 """ if type(valueLO) != type(valueHI): raise ValidationError( "scf_xtpl_truhlar_2: Inputs must be of the same datatype! (%s, %s)" % (type(valueLO), type(valueHI))) if alpha is None: alpha = 3.40 beta_division = 1 / (zHI**(-1 * alpha) - zLO**(-1 * alpha)) beta_mult = zHI**(-1 * alpha) if isinstance(valueLO, float): beta = (valueHI - valueLO) * beta_division value = valueHI - beta * beta_mult if verbose: # Output string with extrapolation parameters cbsscheme = '' cbsscheme += """\n ==> Truhlar 2-point power form SCF extrapolation for method: %s <==\n\n""" % ( functionname.upper()) cbsscheme += """ LO-zeta (%s) Energy: % 16.12f\n""" % (str(zLO), valueLO) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) cbsscheme += """ Alpha (exponent) Value: % 16.12f\n""" % (alpha) cbsscheme += """ Beta (coefficient) Value: % 16.12f\n\n""" % (beta) name_str = "%s/(%s,%s)" % (functionname.upper(), _zeta_val2sym[zLO].upper(), _zeta_val2sym[zHI].upper()) cbsscheme += """ @Extrapolated """ cbsscheme += name_str + ':' cbsscheme += " " * (18 - len(name_str)) cbsscheme += """% 16.12f\n\n""" % value core.print_out(cbsscheme) return value elif isinstance(valueLO, (core.Matrix, core.Vector)): beta = valueHI.clone() beta.name = 'Truhlar SCF (%s, %s) beta' % (zLO, zHI) beta.subtract(valueLO) beta.scale(beta_division) beta.scale(beta_mult) value = valueHI.clone() value.subtract(beta) value.name = 'Truhlar SCF (%s, %s) data' % (zLO, zHI) if verbose > 2: core.print_out("""\n ==> Truhlar 2-point power from SCF extrapolation for method: %s <==\n\n""" % (functionname.upper())) core.print_out(""" LO-zeta (%s)""" % str(zLO)) core.print_out(""" LO-zeta Data""") valueLO.print_out() core.print_out(""" HI-zeta (%s)""" % str(zHI)) core.print_out(""" HI-zeta Data""") valueHI.print_out() core.print_out(""" Extrapolated Data:\n""") value.print_out() core.print_out(""" Alpha (exponent) Value: %16.8f\n""" % (alpha)) core.print_out(""" Beta Data:\n""") beta.print_out() return value else: raise ValidationError("scf_xtpl_truhlar_2: datatype is not recognized '%s'." % type(valueLO))
[docs]def scf_xtpl_karton_2(functionname: str, zLO: int, valueLO: float, zHI: int, valueHI: float, verbose: bool = True, alpha: float = None): r"""Extrapolation scheme using root-power form for reference energies with two adjacent zeta-level bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zLO Lower zeta level. valueLO Lower value used for extrapolation. zHI Higher zeta level. Should be equal to zLO + 1. valueHI Higher value used for extrapolation. alpha Overrides the default :math:`\alpha = 6.3` Returns ------- float Returns :math:`E_{total}^{\infty}`, see below. Notes ----- The extrapolation is calculated according to [3]_: :math:`E_{total}^X = E_{total}^{\infty} + \beta e^{-\alpha\sqrt{X}}, \alpha = 6.3` References ---------- .. [3] Karton, Martin, Theor. Chem. Acc. 115 (2006) 330-333, DOI: 10.1007/s00214-005-0028-6 """ if type(valueLO) != type(valueHI): raise ValidationError( "scf_xtpl_karton_2: Inputs must be of the same datatype! (%s, %s)" % (type(valueLO), type(valueHI))) if alpha is None: alpha = 6.30 beta_division = 1 / (math.exp(-1 * alpha) * (math.exp(math.sqrt(zHI)) - math.exp(math.sqrt(zLO)))) beta_mult = math.exp(-1 * alpha * math.sqrt(zHI)) if isinstance(valueLO, float): beta = (valueHI - valueLO) * beta_division value = valueHI - beta * beta_mult if verbose: # Output string with extrapolation parameters cbsscheme = '' cbsscheme += """\n ==> Karton 2-point power form SCF extrapolation for method: %s <==\n\n""" % ( functionname.upper()) cbsscheme += """ LO-zeta (%s) Energy: % 16.12f\n""" % (str(zLO), valueLO) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) cbsscheme += """ Alpha (exponent) Value: % 16.12f\n""" % (alpha) cbsscheme += """ Beta (coefficient) Value: % 16.12f\n\n""" % (beta) name_str = "%s/(%s,%s)" % (functionname.upper(), _zeta_val2sym[zLO].upper(), _zeta_val2sym[zHI].upper()) cbsscheme += """ @Extrapolated """ cbsscheme += name_str + ':' cbsscheme += " " * (18 - len(name_str)) cbsscheme += """% 16.12f\n\n""" % value core.print_out(cbsscheme) return value elif isinstance(valueLO, (core.Matrix, core.Vector)): beta = valueHI.clone() beta.name = 'Karton SCF (%s, %s) beta' % (zLO, zHI) beta.subtract(valueLO) beta.scale(beta_division) beta.scale(beta_mult) value = valueHI.clone() value.subtract(beta) value.name = 'Karton SCF (%s, %s) data' % (zLO, zHI) if verbose > 2: core.print_out("""\n ==> Karton 2-point power from SCF extrapolation for method: %s <==\n\n""" % (functionname.upper())) core.print_out(""" LO-zeta (%s)""" % str(zLO)) core.print_out(""" LO-zeta Data""") valueLO.print_out() core.print_out(""" HI-zeta (%s)""" % str(zHI)) core.print_out(""" HI-zeta Data""") valueHI.print_out() core.print_out(""" Extrapolated Data:\n""") value.print_out() core.print_out(""" Alpha (exponent) Value: %16.8f\n""" % (alpha)) core.print_out(""" Beta Data:\n""") beta.print_out() return value else: raise ValidationError("scf_xtpl_Karton_2: datatype is not recognized '%s'." % type(valueLO))
[docs]def scf_xtpl_helgaker_3(functionname: str, zLO: int, valueLO: float, zMD: int, valueMD: float, zHI: int, valueHI: float, verbose: bool = True, alpha: float = None): r"""Extrapolation scheme for reference energies with three adjacent zeta-level bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zLO Lower zeta level. valueLO Lower value used for extrapolation. zMD Intermediate zeta level. Should be equal to zLO + 1. valueMD Intermediate value used for extrapolation. zHI Higher zeta level. Should be equal to zLO + 2. valueHI Higher value used for extrapolation. alpha Not used. Returns ------- float Returns :math:`E_{total}^{\infty}`, see below. Notes ----- The extrapolation is calculated according to [4]_: :math:`E_{total}^X = E_{total}^{\infty} + \beta e^{-\alpha X}, \alpha = 3.0` References ---------- .. [4] Halkier, Helgaker, Jorgensen, Klopper, & Olsen, Chem. Phys. Lett. 302 (1999) 437-446, DOI: 10.1016/S0009-2614(99)00179-7 """ if (type(valueLO) != type(valueMD)) or (type(valueMD) != type(valueHI)): raise ValidationError("scf_xtpl_helgaker_3: Inputs must be of the same datatype! (%s, %s, %s)" % (type(valueLO), type(valueMD), type(valueHI))) if isinstance(valueLO, float): ratio = (valueHI - valueMD) / (valueMD - valueLO) alpha = -1 * math.log(ratio) beta = (valueHI - valueMD) / (math.exp(-1 * alpha * zMD) * (ratio - 1)) value = valueHI - beta * math.exp(-1 * alpha * zHI) if verbose: # Output string with extrapolation parameters cbsscheme = '' cbsscheme += """\n ==> Helgaker 3-point SCF extrapolation for method: %s <==\n\n""" % ( functionname.upper()) cbsscheme += """ LO-zeta (%s) Energy: % 16.12f\n""" % (str(zLO), valueLO) cbsscheme += """ MD-zeta (%s) Energy: % 16.12f\n""" % (str(zMD), valueMD) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) cbsscheme += """ Alpha (exponent) Value: % 16.12f\n""" % (alpha) cbsscheme += """ Beta (coefficient) Value: % 16.12f\n\n""" % (beta) name_str = "%s/(%s,%s,%s)" % (functionname.upper(), _zeta_val2sym[zLO].upper(), _zeta_val2sym[zMD].upper(), _zeta_val2sym[zHI].upper()) cbsscheme += """ @Extrapolated """ cbsscheme += name_str + ':' cbsscheme += " " * (18 - len(name_str)) cbsscheme += """% 16.12f\n\n""" % value core.print_out(cbsscheme) return value elif isinstance(valueLO, (core.Matrix, core.Vector)): valueLO = np.array(valueLO) valueMD = np.array(valueMD) valueHI = np.array(valueHI) nonzero_mask = np.abs(valueHI) > 1.e-14 top = (valueHI - valueMD)[nonzero_mask] bot = (valueMD - valueLO)[nonzero_mask] ratio = top / bot alpha = -1 * np.log(np.abs(ratio)) beta = top / (np.exp(-1 * alpha * zMD) * (ratio - 1)) np_value = valueHI.copy() np_value[nonzero_mask] -= beta * np.exp(-1 * alpha * zHI) np_value[~nonzero_mask] = 0.0 # Build and set from numpy routines value = core.Matrix(*valueHI.shape) value_view = np.asarray(value) value_view[:] = np_value return value else: raise ValidationError("scf_xtpl_helgaker_3: datatype is not recognized '%s'." % type(valueLO))
#def corl_xtpl_helgaker_2(functionname, valueSCF, zLO, valueLO, zHI, valueHI, verbose=True):
[docs]def corl_xtpl_helgaker_2(functionname: str, zLO: int, valueLO: float, zHI: int, valueHI: float, verbose: bool = True, alpha: float = None): r"""Extrapolation scheme for correlation energies with two adjacent zeta-level bases. Used by :py:func:`~psi4.cbs`. Parameters ---------- functionname Name of the CBS component. zLO Lower zeta level. valueLO Lower value used for extrapolation. zHI Higher zeta level. Should be equal to zLO + 1. valueHI Higher value used for extrapolation. alpha Overrides the default :math:`\alpha = 3.0` Returns ------- float Returns :math:`E_{total}^{\infty}`, see below. Notes ----- The extrapolation is calculated according to [5]_: :math:`E_{corl}^X = E_{corl}^{\infty} + \beta X^{-alpha}` References ---------- .. [5] Halkier, Helgaker, Jorgensen, Klopper, Koch, Olsen, & Wilson, Chem. Phys. Lett. 286 (1998) 243-252, DOI: 10.1016/S0009-2614(99)00179-7 """ if type(valueLO) != type(valueHI): raise ValidationError( "corl_xtpl_helgaker_2: Inputs must be of the same datatype! (%s, %s)" % (type(valueLO), type(valueHI))) if alpha is None: alpha = 3.0 if isinstance(valueLO, float): value = (valueHI * zHI**alpha - valueLO * zLO**alpha) / (zHI**alpha - zLO**alpha) beta = (valueHI - valueLO) / (zHI**(-alpha) - zLO**(-alpha)) # final = valueSCF + value final = value if verbose: # Output string with extrapolation parameters cbsscheme = """\n\n ==> Helgaker 2-point correlated extrapolation for method: %s <==\n\n""" % ( functionname.upper()) # cbsscheme += """ HI-zeta (%1s) SCF Energy: % 16.12f\n""" % (str(zHI), valueSCF) cbsscheme += """ LO-zeta (%s) Energy: % 16.12f\n""" % (str(zLO), valueLO) cbsscheme += """ HI-zeta (%s) Energy: % 16.12f\n""" % (str(zHI), valueHI) cbsscheme += """ Alpha (exponent) Value: % 16.12f\n""" % alpha cbsscheme += """ Extrapolated Energy: % 16.12f\n\n""" % value #cbsscheme += """ LO-zeta (%s) Correlation Energy: % 16.12f\n""" % (str(zLO), valueLO) #cbsscheme += """ HI-zeta (%s) Correlation Energy: % 16.12f\n""" % (str(zHI), valueHI) #cbsscheme += """ Beta (coefficient) Value: % 16.12f\n""" % beta #cbsscheme += """ Extrapolated Correlation Energy: % 16.12f\n\n""" % value name_str = "%s/(%s,%s)" % (functionname.upper(), _zeta_val2sym[zLO].upper(), _zeta_val2sym[zHI].upper()) cbsscheme += """ @Extrapolated """ cbsscheme += name_str + ':' cbsscheme += " " * (19 - len(name_str)) cbsscheme += """% 16.12f\n\n""" % final core.print_out(cbsscheme) return final elif isinstance(valueLO, (core.Matrix, core.Vector)): beta = valueHI.clone() beta.subtract(valueLO) beta.scale(1 / (zHI**(-alpha) - zLO**(-alpha))) beta.name = 'Helgaker Corl (%s, %s) beta' % (zLO, zHI) value = valueHI.clone() value.scale(zHI**alpha) tmp = valueLO.clone() tmp.scale(zLO**alpha) value.subtract(tmp) value.scale(1 / (zHI**alpha - zLO**alpha)) value.name = 'Helgaker Corr (%s, %s) data' % (zLO, zHI) if verbose > 2: core.print_out("""\n ==> Helgaker 2-point correlated extrapolation for """ """method: %s <==\n\n""" % (functionname.upper())) core.print_out(""" LO-zeta (%s) Data\n""" % (str(zLO))) valueLO.print_out() core.print_out(""" HI-zeta (%s) Data\n""" % (str(zHI))) valueHI.print_out() core.print_out(""" Extrapolated Data:\n""") value.print_out() core.print_out(""" Alpha (exponent) Value: %16.8f\n""" % alpha) core.print_out(""" Beta Data:\n""") beta.print_out() # value.add(valueSCF) return value else: raise ValidationError("corl_xtpl_helgaker_2: datatype is not recognized '%s'." % type(valueLO))
def return_energy_components(): """Define some quantum chemical knowledge, namely what methods are subsumed in others.""" # yapf: disable VARH = {} VARH['scf'] = { 'scf': 'SCF TOTAL ENERGY'} VARH['hf'] = { 'hf': 'HF TOTAL ENERGY'} VARH['mp2'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY'} VARH['mp2d'] = { 'hf': 'HF TOTAL ENERGY', 'mp2d': 'MP2D TOTAL ENERGY'} VARH['mp2.5'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY'} VARH['mp3'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY'} VARH['mp4(sdq)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY', 'mp4(sdq)': 'MP4(SDQ) TOTAL ENERGY'} VARH['mp4'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY', 'mp4(sdq)': 'MP4(SDQ) TOTAL ENERGY', 'mp4': 'MP4 TOTAL ENERGY'} VARH['omp2'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'omp2': 'OMP2 TOTAL ENERGY'} VARH['omp2.5'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'omp2.5': 'OMP2.5 TOTAL ENERGY'} VARH['omp3'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY', 'omp3': 'OMP3 TOTAL ENERGY'} VARH['olccd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'olccd': 'OLCCD TOTAL ENERGY'} VARH['lccd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'lccd': 'LCCD TOTAL ENERGY'} VARH['lccsd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'lccsd': 'LCCSD TOTAL ENERGY'} VARH['cepa(0)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'cepa(0)': 'CEPA(0) TOTAL ENERGY'} VARH['cepa(1)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'cepa(1)': 'CEPA(1) TOTAL ENERGY'} VARH['cepa(3)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'cepa(3)': 'CEPA(3) TOTAL ENERGY'} VARH['acpf'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'acpf': 'ACPF TOTAL ENERGY'} VARH['aqcc'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'aqcc': 'AQCC TOTAL ENERGY'} VARH['qcisd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY', 'mp4(sdq)': 'MP4(SDQ) TOTAL ENERGY', 'qcisd': 'QCISD TOTAL ENERGY'} VARH['cc2'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'cc2': 'CC2 TOTAL ENERGY'} VARH['ccsd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'ccsd': 'CCSD TOTAL ENERGY'} VARH['bccd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'bccd': 'CCSD TOTAL ENERGY'} VARH['cc3'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'cc3': 'CC3 TOTAL ENERGY'} VARH['fno-ccsd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'fno-ccsd': 'CCSD TOTAL ENERGY'} VARH['fno-ccsd(t)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'fno-ccsd': 'CCSD TOTAL ENERGY', 'fno-ccsd(t)': 'CCSD(T) TOTAL ENERGY'} VARH['qcisd(t)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mp2.5': 'MP2.5 TOTAL ENERGY', 'mp3': 'MP3 TOTAL ENERGY', 'mp4(sdq)': 'MP4(SDQ) TOTAL ENERGY', 'qcisd': 'QCISD TOTAL ENERGY', 'qcisd(t)': 'QCISD(T) TOTAL ENERGY'} VARH['ccsd(t)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'ccsd': 'CCSD TOTAL ENERGY', 'ccsd(t)': 'CCSD(T) TOTAL ENERGY'} VARH['ccsd(at)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'ccsd': 'CCSD TOTAL ENERGY', 'ccsd(at)': 'CCSD(AT) TOTAL ENERGY'} VARH["a-ccsd(t)"] = VARH["ccsd(at)"] VARH['bccd(t)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'ccsd': 'CCSD TOTAL ENERGY', 'bccd(t)': 'CCSD(T) TOTAL ENERGY'} VARH['cisd'] = { 'hf': 'HF TOTAL ENERGY', 'cisd': 'CISD TOTAL ENERGY'} VARH['cisdt'] = { 'hf': 'HF TOTAL ENERGY', 'cisdt': 'CISDT TOTAL ENERGY'} VARH['cisdtq'] = { 'hf': 'HF TOTAL ENERGY', 'cisdtq': 'CISDTQ TOTAL ENERGY'} VARH['fci'] = { 'hf': 'HF TOTAL ENERGY', 'fci': 'FCI TOTAL ENERGY'} VARH['mrccsd'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mrccsd': 'CCSD TOTAL ENERGY'} VARH['mrccsd(t)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mrccsd': 'CCSD TOTAL ENERGY', 'mrccsd(t)': 'CCSD(T) TOTAL ENERGY'} VARH['mrccsdt'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mrccsdt': 'CCSDT TOTAL ENERGY'} VARH['mrccsdt(q)'] = { 'hf': 'HF TOTAL ENERGY', 'mp2': 'MP2 TOTAL ENERGY', 'mrccsdt': 'CCSDT TOTAL ENERGY', 'mrccsdt(q)': 'CCSDT(Q) TOTAL ENERGY'} for cilevel in range(2, 99): VARH[f'ci{cilevel}'] = { 'hf': 'HF TOTAL ENERGY', f'ci{cilevel}': 'CI TOTAL ENERGY'} for mplevel in range(5, 99): VARH[f'mp{mplevel}'] = { 'hf': 'HF TOTAL ENERGY', f'mp{mplevel}': f'MP{mplevel} TOTAL ENERGY'} for mplevel2 in range(2, mplevel): VARH[f'mp{mplevel}'][f'mp{mplevel2}'] = f'MP{mplevel2} TOTAL ENERGY' # Integrate CFOUR methods VARH.update(cfour_psivar_list()) return VARH # yapf: enable VARH = return_energy_components()
[docs]def _get_default_xtpl(nbasis: int, xtpl_type: str) -> Callable: """ A helper function to determine default extrapolation type. Parameters ---------- nbasis Number of basis sets xtpl_type {'scf', 'corl'} Extrapolation type: 'scf' for the total energy, 'corl' for just the correlation component. Returns ------- Callable Extrapolation function to be used. """ if nbasis == 1 and xtpl_type in ["scf", "corl"]: return xtpl_highest_1 elif xtpl_type == "scf": if nbasis == 2: return scf_xtpl_helgaker_2 elif nbasis == 3: return scf_xtpl_helgaker_3 else: raise ValidationError(f"Wrong number of basis sets supplied to scf_xtpl: {nbasis}") elif xtpl_type == "corl": if nbasis == 2: return corl_xtpl_helgaker_2 else: raise ValidationError(f"Wrong number of basis sets supplied to corl_xtpl: {nbasis}") else: raise ValidationError(f"Stage treatment must be 'corl' or 'scf', not '{xtpl_type}'")
def _validate_cbs_inputs(cbs_metadata, molecule): """ A helper function which validates the ``cbs_metadata`` format, expands basis sets, and provides sensible defaults for optional arguments. Parameters ---------- cbs_metadata : list List of dicts containing CBS stage keywords. molecule : qcdb.molecule or psi4.core.Molecule Molecule to be passed to _expand_bracketed_basis() Returns ------- list Validated list of dictionaries, with each item consisting of an extrapolation stage. All validation takes place here. """ metadata = [] for iitem, item in enumerate(cbs_metadata): # 1a) all items must have wfn if "wfn" not in item: raise ValidationError(f"Stage {iitem} doesn't have defined level of theory!") # 1b) all items must have basis set if "basis" not in item: raise ValidationError(f"Stage {iitem} doesn't have defined basis sets!") # 2a) process required stage parameters and assign defaults stage = {} stage["wfn"] = item["wfn"].lower() stage["basis"] = _expand_bracketed_basis(item["basis"].lower(), molecule) # 2b) if first item is not HF, generate it if len(metadata) == 0 and stage["wfn"] not in ["hf", "c4-hf", "scf", "c4-scf"]: scf = {} if stage["wfn"].startswith("c4"): scf["wfn"] = "c4-hf" else: scf["wfn"] = "hf" scf["basis"] = ([stage["basis"][0][-1]], [stage["basis"][1][-1]]) scf["treatment"] = "scf" scf["stage"] = "scf" scf["scheme"] = _get_default_xtpl(len(scf["basis"][1]), scf["treatment"]) scf["alpha"] = None scf["options"] = False scf["options_lo"] = False metadata.append(scf) # 2c) keep processing current stage stage["treatment"] = item.get("treatment", "scf" if len(metadata) == 0 else "corl") stage["stage"] = item.get("stage", False) if not stage["stage"]: if len(metadata) == 0: stage["stage"] = "scf" elif len(metadata) == 1: stage["stage"] = "corl" else: stage["stage"] = f"delta{len(metadata) - 1}" stage["scheme"] = item.get("scheme", _get_default_xtpl(len(stage["basis"][1]), stage["treatment"])) if len(metadata) > 0: stage["wfn_lo"] = item.get("wfn_lo", metadata[-1].get("wfn")).lower() stage["basis_lo"] = _expand_bracketed_basis(item.get("basis_lo", item["basis"]).lower(), molecule) if len(stage["basis"][0]) != len(stage["basis_lo"][0]): raise ValidationError("""Number of basis sets inconsistent between high ({}) and low ({}) levels.""".format( len(stage["basis"][0]), len(stage["basis_lo"][0]))) stage["alpha"] = item.get("alpha", None) stage["options"] = item.get("options", False) stage["options_lo"] = item.get("options_lo", False) metadata.append(stage) return (metadata) def _process_cbs_kwargs(kwargs): """ A helper function which translates supplied kwargs into the ``cbs_metadata`` format and passes it for validation. Parameters ---------- kwargs : dict kwargs containing the CBS function specification. Returns ------- list List of dictionaries, with each item consisting of an extrapolation stage. All validation takes place here. """ molecule = kwargs.get('molecule', core.get_active_molecule()) if "cbs_metadata" in kwargs: # if we passed in a dict, validate it right away cbs_metadata = kwargs["cbs_metadata"] else: # if we passed in options, check for consecutive correlations first if "delta_wfn" in kwargs and "corl_wfn" not in kwargs: raise ValidationError("Delta function supplied without corl_wfn defined.") if "delta2_wfn" in kwargs and "delta_wfn" not in kwargs: raise ValidationError("Second delta function supplied without delta_wfn defined.") cbs_metadata = [] possible_stages = ["scf", "corl"] while len(possible_stages) > 0: sn = possible_stages.pop(0) if f"{sn}_wfn" in kwargs and f"{sn}_basis" in kwargs: # either both *_wfn and *_basis have to be specified stage = {"wfn": kwargs[f"{sn}_wfn"], "basis": kwargs[f"{sn}_basis"]} elif sn == "scf" and f"{sn}_basis" in kwargs: # or we're at a scf stage which can be implied with a provided scf_basis stage = {"wfn": "hf", "basis": kwargs[f"{sn}_basis"]} else: # otherwise go to the next possible stage continue # if we made it here, stage exists - parse other keywords if f"{sn}_scheme" in kwargs: stage["scheme"] = kwargs[f"{sn}_scheme"] if f"{sn}_wfn_lesser" in kwargs: stage["wfn_lo"] = kwargs[f"{sn}_wfn_lesser"] if f"cbs_{sn}_alpha" in kwargs: stage["alpha"] = kwargs[f"cbs_{sn}_alpha"] elif f"{sn}_alpha" in kwargs: stage["alpha"] = kwargs[f"{sn}_alpha"] cbs_metadata.append(stage) if sn == "corl": possible_stages.append("delta") elif sn == "delta": possible_stages.append("delta2") return _validate_cbs_inputs(cbs_metadata, molecule) ################################### ## Start of Complete Basis Set ## ###################################
[docs]def cbs(func, label, **kwargs): r"""Function to define a multistage energy method from combinations of basis set extrapolations and delta corrections and condense the components into a minimum number of calculations. :aliases: complete_basis_set() :returns: (*float*) -- Total electronic energy in Hartrees :PSI variables: .. hlist:: :columns: 1 * :psivar:`CBS TOTAL ENERGY` * :psivar:`CBS REFERENCE ENERGY` * :psivar:`CBS CORRELATION ENERGY` * :psivar:`CURRENT ENERGY` * :psivar:`CURRENT REFERENCE ENERGY` * :psivar:`CURRENT CORRELATION ENERGY` .. caution:: Some features are not yet implemented. Buy a developer a coffee. - No way to tell function to boost fitting basis size for all calculations. - Need to add more extrapolation schemes As represented in the equation below, a CBS energy method is defined in several sequential stages (scf, corl, delta1, delta2, ... ) covering treatment of the reference total energy, the correlation energy, a delta correction to the correlation energy, and a second delta correction, etc.. Each is activated by its stage_wfn keyword, or as a field in the ```cbs_metadata``` list, and is only allowed if all preceding stages are active. .. include:: /cbs_eqn.rst * Energy Methods The presence of a stage_wfn keyword is the indicator to incorporate (and check for stage_basis and stage_scheme keywords) and compute that stage in defining the CBS energy. The cbs() function requires, at a minimum, ``name='scf'`` and ``scf_basis`` keywords to be specified for reference-step only jobs and ``name`` and ``corl_basis`` keywords for correlated jobs. The following energy methods have been set up for cbs(). .. hlist:: :columns: 5 * scf * hf * mp2 * mp2.5 * mp3 * mp4(sdq) * mp4 * mp\ *n* * omp2 * omp2.5 * omp3 * olccd * lccd * lccsd * cepa(0) * cepa(1) * cepa(3) * acpf * aqcc * qcisd * cc2 * ccsd * fno-ccsd * bccd * cc3 * qcisd(t) * ccsd(t) * fno-ccsd(t) * bccd(t) * cisd * cisdt * cisdtq * ci\ *n* * fci * mrccsd * mrccsd(t) * mrccsdt * mrccsdt(q) :type name: str :param name: ``'scf'`` || ``'ccsd'`` || etc. First argument, usually unlabeled. Indicates the computational method for the correlation energy, unless only reference step to be performed, in which case should be ``'scf'``. Overruled if stage_wfn keywords supplied. :type scf_wfn: str :param scf_wfn: |dl| ``'scf'`` |dr| || ``'c4-scf'`` || etc. Indicates the energy method for which the reference energy is to be obtained. Generally unnecessary, as 'scf' is *the* scf in |PSIfour| but can be used to direct lone scf components to run in |PSIfour| or Cfour in a mixed-program composite method. :type corl_wfn: str :param corl_wfn: ``'mp2'`` || ``'ccsd(t)'`` || etc. Indicates the energy method for which the correlation energy is to be obtained. Can also be specified with ``name`` or as the unlabeled first argument to the function. :type delta_wfn: str :param delta_wfn: ``'ccsd'`` || ``'ccsd(t)'`` || etc. Indicates the (superior) energy method for which a delta correction to the correlation energy is to be obtained. :type delta_wfn_lesser: str :param delta_wfn_lesser: |dl| ``corl_wfn`` |dr| || ``'mp2'`` || etc. Indicates the inferior energy method for which a delta correction to the correlation energy is to be obtained. :type delta2_wfn: str :param delta2_wfn: ``'ccsd'`` || ``'ccsd(t)'`` || etc. Indicates the (superior) energy method for which a second delta correction to the correlation energy is to be obtained. :type delta2_wfn_lesser: str :param delta2_wfn_lesser: |dl| ``delta_wfn`` |dr| || ``'ccsd(t)'`` || etc. Indicates the inferior energy method for which a second delta correction to the correlation energy is to be obtained. * Basis Sets Currently, the basis set set through ``set`` commands have no influence on a cbs calculation. :type scf_basis: :ref:`basis string <apdx:basisElement>` :param scf_basis: |dl| ``corl_basis`` |dr| || ``'cc-pV[TQ]Z'`` || ``'jun-cc-pv[tq5]z'`` || ``'6-31G*'`` || etc. Indicates the sequence of basis sets employed for the reference energy. If any correlation method is specified, ``scf_basis`` can default to ``corl_basis``. :type corl_basis: :ref:`basis string <apdx:basisElement>` :param corl_basis: ``'cc-pV[TQ]Z'`` || ``'jun-cc-pv[tq5]z'`` || ``'6-31G*'`` || etc. Indicates the sequence of basis sets employed for the correlation energy. :type delta_basis: :ref:`basis string <apdx:basisElement>` :param delta_basis: ``'cc-pV[TQ]Z'`` || ``'jun-cc-pv[tq5]z'`` || ``'6-31G*'`` || etc. Indicates the sequence of basis sets employed for the delta correction to the correlation energy. :type delta2_basis: :ref:`basis string <apdx:basisElement>` :param delta2_basis: ``'cc-pV[TQ]Z'`` || ``'jun-cc-pv[tq5]z'`` || ``'6-31G*'`` || etc. Indicates the sequence of basis sets employed for the second delta correction to the correlation energy. * Schemes Transformations of the energy through basis set extrapolation for each stage of the CBS definition. A complaint is generated if number of basis sets in stage_basis does not exactly satisfy requirements of stage_scheme. An exception is the default, ``'xtpl_highest_1'``, which uses the best basis set available. See :ref:`sec:cbs_xtpl` for all available schemes. :type scf_scheme: Callable :param scf_scheme: |dl| ``xtpl_highest_1`` |dr| || ``scf_xtpl_helgaker_3`` || etc. Indicates the basis set extrapolation scheme to be applied to the reference energy. Defaults to :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_3` if three valid basis sets present in ``psi4.driver.driver_cbs.scf_basis``, :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_2` if two valid basis sets present in ``scf_basis``, and :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` otherwise. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_3` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_2` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_truhlar_2` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_karton_2` :type corl_scheme: Callable :param corl_scheme: |dl| ``xtpl_highest_1`` |dr| || ``corl_xtpl_helgaker_2`` || etc. Indicates the basis set extrapolation scheme to be applied to the correlation energy. Defaults to :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` if two valid basis sets present in ``corl_basis`` and :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` otherwise. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` * :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` :type delta_scheme: Callable :param delta_scheme: |dl| ``xtpl_highest_1`` |dr| || ``corl_xtpl_helgaker_2`` || etc. Indicates the basis set extrapolation scheme to be applied to the delta correction to the correlation energy. Defaults to :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` if two valid basis sets present in ``delta_basis`` and :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` otherwise. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` * :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` :type delta2_scheme: Callable :param delta2_scheme: |dl| ``xtpl_highest_1`` |dr| || ``corl_xtpl_helgaker_2`` || etc. Indicates the basis set extrapolation scheme to be applied to the second delta correction to the correlation energy. Defaults to :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` if two valid basis sets present in ``delta2_basis`` and :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` otherwise. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` * :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` :type scf_alpha: float :param scf_alpha: |dl| ``1.63`` |dr| Overrides the default \alpha parameter used in the listed SCF extrapolation procedures. Has no effect on others, including :py:func:`~psi4.driver.driver_cbs.xtpl_highest_1` and :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_3`. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_helgaker_2` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_truhlar_2` * :py:func:`~psi4.driver.driver_cbs.scf_xtpl_karton_2` :type corl_alpha: float :param corl_alpha: |dl| ``3.00`` |dr| Overrides the default \alpha parameter used in the listed :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` correlation extrapolation to the corl stage. The supplied \alpha does not impact delta or any further stages. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` :type delta_alpha: float :param delta_alpha: |dl| ``3.00`` |dr| Overrides the default \alpha parameter used in the listed :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` correlation extrapolation for the delta correction. Useful when delta correction is performed using smaller basis sets for which a different \alpha might be more appropriate. .. hlist:: :columns: 1 * :py:func:`~psi4.driver.driver_cbs.corl_xtpl_helgaker_2` * Combined interface :type cbs_metadata: List[Dict] :param cbs_metadata: |dl| autogenerated from above keywords |dr| || ``[{"wfn": "hf", "basis": "cc-pv[TQ5]z"}]`` || etc. This is the interface to which all of the above calls are internally translated. The first item in the array is always defining the SCF contribution to the total energy. The required items in the dictionary are: * ```wfn```: typically ```HF```, which is subsumed in correlated methods anyway. * ```basis```: basis set, can be in a bracketed form (eg. ```cc-pv[tq]z```) | Other supported arguments for the first dictionary are: * ```scheme```: scf extrapolation scheme function, by default it is worked out from the number of basis sets (1 - 3) supplied as ```basis```. * ```alpha```: alpha for the above scheme, if the default is to be overriden * ```options```: if special options are required for a step, they should be entered as a dict here. If some options should be used for both parts of the stage, they should be entered in both ```options``` and ```options_lo```. This is helpful for calculating all electron corrections in otherwise frozen core calculations, or relativistic (DKH) Hamiltionian corrections for otherwise nonrelativistic. * ```options_lo```: special options for lower method in a given stage. This is useful to calculate a direct stage in an otherwise density-fitted calculation, or similar. * ```treatment```: treat extrapolation stage as ```scf``` or ```corl```, by default only the first stage is ```scf``` and every later one is ```corl```. * ```stage```: tag for the stage used in tables. | The next items in the ```cbs_metadata``` array extrapolate correlation. All of the above parameters are available, with only the ```wfn``` and ```basis``` keywords required. Other supported parameters are: * ```wfn_lo```: the lower method from which the delta correction is to be calculated. By default, it is set to ```wfn``` from the previous field in the ```cbs_metadata``` array. * ```basis_lo```: basis set to be used for the delta correction. By default, it is the same as the ```basis``` specified above. * Others :type molecule: :ref:`molecule <op_py_molecule>` :param molecule: ``h2o`` || etc. The target molecule, if not the last molecule defined. :examples: >>> # [1] replicates with cbs() the simple model chemistry scf/cc-pVDZ: set basis cc-pVDZ energy('scf') >>> energy(cbs, scf_wfn='scf', scf_basis='cc-pVDZ') >>> # [2] replicates with cbs() the simple model chemistry mp2/jun-cc-pVDZ: set basis jun-cc-pVDZ energy('mp2') >>> energy(cbs, corl_wfn='mp2', corl_basis='jun-cc-pVDZ') >>> # [3] DTQ-zeta extrapolated scf reference energy >>> energy(cbs, scf_wfn='scf', scf_basis='cc-pV[DTQ]Z', scf_scheme=scf_xtpl_helgaker_3) >>> # [4] DT-zeta extrapolated mp2 correlation energy atop a T-zeta reference >>> energy(cbs, corl_wfn='mp2', corl_basis='cc-pv[dt]z', corl_scheme=corl_xtpl_helgaker_2) >>> # [5] a DT-zeta extrapolated coupled-cluster correction atop a TQ-zeta extrapolated mp2 correlation energy atop a Q-zeta reference (both equivalent) >>> energy(cbs, corl_wfn='mp2', corl_basis='aug-cc-pv[tq]z', delta_wfn='ccsd(t)', delta_basis='aug-cc-pv[dt]z') >>> energy(cbs, corl_wfn='mp2', corl_basis='aug-cc-pv[tq]z', corl_scheme=corl_xtpl_helgaker_2, delta_wfn='ccsd(t)', delta_basis='aug-cc-pv[dt]z', delta_scheme=corl_xtpl_helgaker_2) >>> # [6] a D-zeta ccsd(t) correction atop a DT-zeta extrapolated ccsd cluster correction atop a TQ-zeta extrapolated mp2 correlation energy atop a Q-zeta reference >>> energy(cbs, corl_wfn='mp2', corl_basis='aug-cc-pv[tq]z', corl_scheme=corl_xtpl_helgaker_2, delta_wfn='ccsd', delta_basis='aug-cc-pv[dt]z', delta_scheme=corl_xtpl_helgaker_2, delta2_wfn='ccsd(t)', delta2_wfn_lesser='ccsd', delta2_basis='aug-cc-pvdz') >>> # [7] a Q5-zeta MP2 calculation, corrected by CCSD(T) at the TQ-zeta extrapolated level, and all-electron CCSD(T) correlation at T-zeta level >>> energy(cbs, cbs_metadata=[{"wfn": "hf", "basis": "cc-pv5z"}, {"wfn": "mp2", "basis": "cc-pv[q5]z"}, {"wfn": "ccsd(t)", "basis": "cc-pv[tq]z"}, {"wfn": "ccsd(t)", "basis": "cc-pvtz", "options": {"freeze_core": "False"}}]) >>> # [8] cbs() coupled with database() >>> TODO database('mp2', 'BASIC', subset=['h2o','nh3'], symm='on', func=cbs, corl_basis='cc-pV[tq]z', corl_scheme=corl_xtpl_helgaker_2, delta_wfn='ccsd(t)', delta_basis='sto-3g') >>> # [9] cbs() coupled with optimize() >>> TODO optimize('mp2', corl_basis='cc-pV[DT]Z', corl_scheme=corl_xtpl_helgaker_2, func=cbs) """ kwargs = p4util.kwargs_lower(kwargs) metadata = _process_cbs_kwargs(kwargs) return_wfn = kwargs.pop('return_wfn', False) verbose = kwargs.pop('verbose', 0) ptype = kwargs.pop('ptype') if ptype not in ['energy', 'gradient', 'hessian']: raise ValidationError("""Wrapper complete_basis_set is unhappy to be calling function '%s' instead of 'energy', 'gradient' or 'hessian'.""" % ptype) optstash = p4util.OptionsState(['BASIS'], ['WFN'], ['WRITER_FILE_LABEL']) # Define some quantum chemical knowledge, namely what methods are subsumed in others user_writer_file_label = core.get_global_option('WRITER_FILE_LABEL') # Make sure the molecule the user provided is the active one molecule = kwargs.pop('molecule', core.get_active_molecule()) molecule.update_geometry() natom = molecule.natom() if metadata[0]["wfn"] not in VARH.keys(): raise ValidationError( """Requested SCF method '%s' is not recognized. Add it to VARH in wrapper.py to proceed.""" % (metadata[0]["wfn"])) if len(metadata) > 1: for delta in metadata[1:]: if delta["wfn"] not in VARH.keys(): raise ValidationError( """Requested higher %s method '%s' is not recognized. Add it to VARH in wrapper.py to proceed.""" % (delta["treatment"], delta["wfn"])) if delta["wfn_lo"] not in VARH.keys(): raise ValidationError( """Requested lesser %s method '%s' is not recognized. Add it to VARH in wrapper.py to proceed.""" % (delta["treatment"], delta["wfn_lo"])) # Build string of title banner instructions = "\n" + p4util.banner(f" CBS Setup{':' + label if label else ''} ", strNotOutfile=True) + "\n" core.print_out(instructions) # Call schemes for each portion of total energy to 'place orders' for calculations needed d_fields = [ 'd_stage', 'd_scheme', 'd_basis', 'd_wfn', 'd_need', 'd_coef', 'd_energy', 'd_gradient', 'd_hessian', 'd_alpha' ] f_fields = ['f_wfn', 'f_basis', 'f_zeta', 'f_energy', 'f_gradient', 'f_hessian', 'f_options'] GRAND_NEED = [] MODELCHEM = [] NEED = _expand_scheme_orders(metadata[0]["scheme"], metadata[0]["basis"][0], metadata[0]["basis"][1], metadata[0]["wfn"], metadata[0]["options"], natom) GRAND_NEED.append( dict( zip(d_fields, [ 'scf', metadata[0]["scheme"], _contract_bracketed_basis(metadata[0]["basis"][0]), metadata[0]["wfn"], NEED, +1, 0.0, None, None, metadata[0]["alpha"] ]))) if len(metadata) > 1: for delta in metadata[1:]: NEED = _expand_scheme_orders(delta["scheme"], delta["basis"][0], delta["basis"][1], delta["wfn"], delta["options"], natom) GRAND_NEED.append( dict( zip(d_fields, [ delta["stage"], delta["scheme"], _contract_bracketed_basis(delta["basis"][0]), delta["wfn"], NEED, +1, 0.0, None, None, delta["alpha"] ]))) NEED = _expand_scheme_orders(delta["scheme"], delta["basis_lo"][0], delta["basis_lo"][1], delta["wfn_lo"], delta["options_lo"], natom) GRAND_NEED.append( dict( zip(d_fields, [ delta["stage"], delta["scheme"], _contract_bracketed_basis(delta["basis_lo"][0]), delta["wfn_lo"], NEED, -1, 0.0, None, None, delta["alpha"] ]))) for stage in GRAND_NEED: for lvl in stage['d_need'].items(): MODELCHEM.append(lvl[1]) # Apply chemical reasoning to choose the minimum computations to run JOBS = MODELCHEM[:] addlremark = {'energy': '', 'gradient': ', GRADIENT', 'hessian': ', HESSIAN'} instructions = '' instructions += """ Naive listing of computations required.\n""" for mc in JOBS: instructions += """ %12s / %-24s for %s%s\n""" % \ (mc['f_wfn'], mc['f_basis'] + " + options"*bool(mc['f_options']), VARH[mc['f_wfn']][mc['f_wfn']], addlremark[ptype]) # Remove duplicate modelchem portion listings for mc in MODELCHEM: dups = -1 for indx_job, job in enumerate(JOBS): if (job['f_wfn'] == mc['f_wfn']) and (job['f_basis'] == mc['f_basis']) and \ (job['f_options'] == mc['f_options']): dups += 1 if dups >= 1: del JOBS[indx_job] # Remove chemically subsumed modelchem portion listings if ptype == 'energy': for mc in MODELCHEM: for wfn in VARH[mc['f_wfn']]: for indx_job, job in enumerate(JOBS): if (VARH[mc['f_wfn']][wfn] == VARH[job['f_wfn']][job['f_wfn']]) and \ (mc['f_basis'] == job['f_basis']) and not \ (mc['f_wfn'] == job['f_wfn']) and \ (mc['f_options'] == False): del JOBS[indx_job] instructions += """\n Enlightened listing of computations required.\n""" for mc in JOBS: instructions += """ %12s / %-24s for %s%s\n""" % \ (mc['f_wfn'], mc['f_basis'] + " + options"*bool(mc['f_options']), VARH[mc['f_wfn']][mc['f_wfn']], addlremark[ptype]) # Expand listings to all that will be obtained JOBS_EXT = [] for job in JOBS: for wfn in VARH[job['f_wfn']]: JOBS_EXT.append( dict( zip(f_fields, [ wfn, job['f_basis'], job['f_zeta'], 0.0, core.Matrix(natom, 3), core.Matrix(3 * natom, 3 * natom), job['f_options'] ]))) instructions += """\n Full listing of computations to be obtained (required and bonus).\n""" for mc in JOBS_EXT: instructions += """ %12s / %-24s for %s%s\n""" % \ (mc['f_wfn'], mc['f_basis'] + " + options"*bool(mc['f_options']), VARH[mc['f_wfn']][mc['f_wfn']], addlremark[ptype]) core.print_out(instructions) psioh = core.IOManager.shared_object() psioh.set_specific_retention(psif.PSIF_SCF_MOS, True) # projection across point groups not allowed and cbs() usually a mix of symm-enabled and symm-tol calls # needs to be communicated to optimize() so reset by that optstash core.set_local_option('SCF', 'GUESS_PERSIST', True) Njobs = 0 # Run necessary computations for mc in JOBS: kwargs['name'] = mc['f_wfn'] # Build string of title banner cbsbanners = '' cbsbanners += """core.print_out('\\n')\n""" cbsbanners += """p4util.banner(' CBS Computation: %s / %s%s ')\n""" % \ (mc['f_wfn'].upper(), mc['f_basis'].upper() + " + opts."*bool(mc['f_options']), addlremark[ptype]) cbsbanners += """core.print_out('\\n')\n\n""" exec(cbsbanners) # Build string of molecule and commands that are dependent on the database commands = '\n' commands += """\ncore.set_global_option('BASIS', '%s')\n""" % (mc['f_basis']) commands += """core.set_global_option('WRITER_FILE_LABEL', '%s')\n""" % \ (user_writer_file_label + ('' if user_writer_file_label == '' else '-') + mc['f_wfn'].lower() + '-' + mc['f_basis'].lower().replace('*', 's')) exec(commands) # Stash and set options if any if mc["f_options"]: optionstash = p4util.OptionsState(*[[opt] for opt in list(mc["f_options"])]) for k, v, in mc["f_options"].items(): core.set_global_option(k.upper(), v) else: optionstash = False # Make energy(), etc. call response = func(molecule=molecule, **kwargs) if ptype == 'energy': mc['f_energy'] = response elif ptype == 'gradient': mc['f_gradient'] = response mc['f_energy'] = core.variable('CURRENT ENERGY') if verbose > 1: mc['f_gradient'].print_out() elif ptype == 'hessian': mc['f_hessian'] = response mc['f_energy'] = core.variable('CURRENT ENERGY') if verbose > 1: mc['f_hessian'].print_out() Njobs += 1 if verbose > 1: core.print_out("\nCURRENT ENERGY: %14.16f\n" % mc['f_energy']) # Restore modified options if optionstash: optionstash.restore() # Fill in energies for subsumed methods if ptype == 'energy': for wfn in VARH[mc['f_wfn']]: for job in JOBS_EXT: if (wfn == job['f_wfn']) and (mc['f_basis'] == job['f_basis']) and \ (mc['f_options'] == job['f_options']): job['f_energy'] = core.variable(VARH[wfn][wfn]) if verbose > 1: core.print_variables() core.clean_variables() core.clean() # Copy data from 'run' to 'obtained' table for mce in JOBS_EXT: if (mc['f_wfn'] == mce['f_wfn']) and (mc['f_basis'] == mce['f_basis']) and \ (mc['f_options'] == mce['f_options']): mce['f_energy'] = mc['f_energy'] mce['f_gradient'] = mc['f_gradient'] mce['f_hessian'] = mc['f_hessian'] psioh.set_specific_retention(psif.PSIF_SCF_MOS, False) # Build string of title banner instructions = "\n" + p4util.banner(f" CBS Results{':' + label if label else ''} ", strNotOutfile=True) + "\n" core.print_out(instructions) # Insert obtained energies into the array that stores the cbs stages for stage in GRAND_NEED: for lvl in stage['d_need'].items(): MODELCHEM.append(lvl[1]) for job in JOBS_EXT: # Dont ask if (((lvl[1]['f_wfn'] == job['f_wfn']) or ((lvl[1]['f_wfn'][3:] == job['f_wfn']) and lvl[1]['f_wfn'].startswith('c4-')) or ((lvl[1]['f_wfn'] == job['f_wfn'][3:]) and job['f_wfn'].startswith('c4-')) or (('c4-' + lvl[1]['f_wfn']) == job['f_wfn']) or (lvl[1]['f_wfn'] == ('c4-' + job['f_wfn']))) and (lvl[1]['f_basis'] == job['f_basis']) and (lvl[1]['f_options'] == job['f_options'])): lvl[1]['f_energy'] = job['f_energy'] lvl[1]['f_gradient'] = job['f_gradient'] lvl[1]['f_hessian'] = job['f_hessian'] # Make xtpl() call finalenergy = 0.0 finalgradient = core.Matrix(natom, 3) finalhessian = core.Matrix(3 * natom, 3 * natom) for stage in GRAND_NEED: hiloargs = {'alpha': stage['d_alpha']} hiloargs.update(_contract_scheme_orders(stage['d_need'], 'f_energy')) stage['d_energy'] = stage['d_scheme'](**hiloargs) finalenergy += stage['d_energy'] * stage['d_coef'] if ptype == 'gradient': hiloargs.update(_contract_scheme_orders(stage['d_need'], 'f_gradient')) stage['d_gradient'] = stage['d_scheme'](**hiloargs) work = stage['d_gradient'].clone() work.scale(stage['d_coef']) finalgradient.add(work) elif ptype == 'hessian': hiloargs.update(_contract_scheme_orders(stage['d_need'], 'f_hessian')) stage['d_hessian'] = stage['d_scheme'](**hiloargs) work = stage['d_hessian'].clone() work.scale(stage['d_coef']) finalhessian.add(work) # Build string of results table table_delimit = ' ' + '-' * 105 + '\n' tables = '' tables += """\n ==> %s <==\n\n""" % ('Components') tables += table_delimit tables += """ %6s %20s %1s %-26s %3s %16s %-s\n""" % ('', 'Method', '/', 'Basis', 'Rqd', 'Energy [Eh]', 'Variable') tables += table_delimit for job in JOBS_EXT: star = '' for mc in MODELCHEM: if (job['f_wfn'] == mc['f_wfn']) and (job['f_basis'] == mc['f_basis']): star = '*' tables += """ %6s %20s %1s %-27s %2s %16.8f %-s\n""" % ( '', job['f_wfn'], '/', job['f_basis'] + " + options" * bool(job['f_options']), star, job['f_energy'], VARH[job['f_wfn']][job['f_wfn']]) tables += table_delimit tables += """\n ==> %s <==\n\n""" % ('Stages') tables += table_delimit tables += """ %6s %20s %1s %-27s %2s %16s %-s\n""" % ('Stage', 'Method', '/', 'Basis', 'Wt', 'Energy [Eh]', 'Scheme') tables += table_delimit for stage in GRAND_NEED: tables += """ %6s %20s %1s %-27s %2d %16.8f %-s\n""" % (stage['d_stage'], stage['d_wfn'], '/', stage['d_basis'], stage['d_coef'], stage['d_energy'], stage['d_scheme'].__name__) tables += table_delimit tables += """\n ==> %s <==\n\n""" % ('CBS') tables += table_delimit tables += """ %6s %20s %1s %-27s %2s %16s %-s\n""" % ('Stage', 'Method', '/', 'Basis', '', 'Energy [Eh]', 'Scheme') tables += table_delimit tables += """ %6s %20s %1s %-27s %2s %16.8f %-s\n""" % ( GRAND_NEED[0]['d_stage'], GRAND_NEED[0]['d_wfn'], '/', GRAND_NEED[0]['d_basis'], '', GRAND_NEED[0]['d_energy'], GRAND_NEED[0]['d_scheme'].__name__) if len(metadata) > 1: tables += """ %6s %20s %1s %-27s %2s %16.8f %-s\n""" % ( GRAND_NEED[1]['d_stage'], GRAND_NEED[1]['d_wfn'], '/', GRAND_NEED[1]['d_basis'], '', GRAND_NEED[1]['d_energy'] - GRAND_NEED[2]['d_energy'], GRAND_NEED[1]['d_scheme'].__name__) if len(metadata) > 2: dc = 3 for delta in metadata[2:]: deltaE_total = GRAND_NEED[dc]['d_energy'] - GRAND_NEED[dc + 1]['d_energy'] tables += """ %6s %20s %1s %-27s %2s %16.8f %-s\n""" % ( GRAND_NEED[dc]['d_stage'], GRAND_NEED[dc]['d_wfn'] + ' - ' + GRAND_NEED[dc + 1]['d_wfn'], '/', GRAND_NEED[dc]['d_basis'], '', deltaE_total, GRAND_NEED[dc]['d_scheme'].__name__) core.set_variable(f"CBS {GRAND_NEED[dc]['d_stage'].upper()} TOTAL ENERGY", deltaE_total) dc += 2 tables += """ %6s %20s %1s %-27s %2s %16.8f %-s\n""" % ('total', 'CBS', '', '', '', finalenergy, '') tables += table_delimit core.print_out(tables) core.set_variable('CBS REFERENCE ENERGY', GRAND_NEED[0]['d_energy']) core.set_variable('CBS CORRELATION ENERGY', finalenergy - GRAND_NEED[0]['d_energy']) core.set_variable('CBS TOTAL ENERGY', finalenergy) core.set_variable('CURRENT REFERENCE ENERGY', GRAND_NEED[0]['d_energy']) core.set_variable('CURRENT CORRELATION ENERGY', finalenergy - GRAND_NEED[0]['d_energy']) core.set_variable('CURRENT ENERGY', finalenergy) core.set_variable('CBS NUMBER', Njobs) # new skeleton wavefunction w/mol, highest-SCF basis (just to choose one), & not energy basis = core.BasisSet.build(molecule, "ORBITAL", 'def2-svp') wfn = core.Wavefunction(molecule, basis) optstash.restore() if ptype == 'energy': finalquantity = finalenergy elif ptype == 'gradient': finalquantity = finalgradient wfn.set_gradient(finalquantity) if finalquantity.rows(0) < 20: core.print_out('CURRENT GRADIENT') finalquantity.print_out() elif ptype == 'hessian': finalquantity = finalhessian wfn.set_gradient(finalgradient) wfn.set_hessian(finalquantity) if finalquantity.rows(0) < 20: core.print_out('CURRENT HESSIAN') finalquantity.print_out() if return_wfn: return (finalquantity, wfn) else: return finalquantity
######### COMPUTE / ASSEMBLE ######### ASSEMBLE / REPORT def _expand_scheme_orders(scheme, basisname, basiszeta, wfnname, options, natom): """Check that the length of *basiszeta* array matches the implied degree of extrapolation in *scheme* name. Return a dictionary of same length as basiszeta, with *basisname* and *basiszeta* distributed therein. """ Nxtpl = len(basiszeta) if int(scheme.__name__.split('_')[-1]) != Nxtpl: raise ValidationError("""Call to '%s' not valid with '%s' basis sets.""" % (scheme.__name__, len(basiszeta))) f_fields = ['f_wfn', 'f_basis', 'f_zeta', 'f_energy', 'f_gradient', 'f_hessian', 'f_options'] NEED = {} for idx in range(Nxtpl): NEED[_lmh_labels[Nxtpl][idx]] = dict( zip(f_fields, [ wfnname, basisname[idx], basiszeta[idx], 0.0, core.Matrix(natom, 3), core.Matrix(3 * natom, 3 * natom), options ])) return NEED def _contract_scheme_orders(needdict, datakey='f_energy'): """Prepared named arguments for extrapolation functions by extracting zetas and values (which one determined by *datakey*) out of *needdict* and returning a dictionary whose keys are constructed from _lmh_labels. """ largs = {} largs['functionname'] = needdict['HI']['f_wfn'] Nxtpl = len(needdict) zlabels = _lmh_labels[Nxtpl] # e.g., ['LO', 'HI'] for zeta in range(Nxtpl): zlab = zlabels[zeta] # e.g., LO largs['z' + zlab] = needdict[zlab]['f_zeta'] largs['value' + zlab] = needdict[zlab][datakey] return largs ## Aliases ## complete_basis_set = cbs def _cbs_wrapper_methods(**kwargs): """ A helper function for the driver to enumerate methods used in the stages of a cbs calculation. Parameters ---------- kwargs : dict kwargs containing cbs specification either in the ``cbs_metadata`` format, or in separate keywords (``scf_wfn``, ``corl_wfn`` etc.). Returns ------- list List containing method name for each active stage. """ cbs_methods = [] if "cbs_metadata" in kwargs: for item in kwargs["cbs_metadata"]: cbs_methods.append(item.get("wfn")) else: cbs_method_kwargs = ['scf_wfn', 'corl_wfn', 'delta_wfn'] cbs_method_kwargs += [f'delta{x}_wfn' for x in range(2, 6)] for method in cbs_method_kwargs: if method in kwargs: cbs_methods.append(kwargs[method]) return cbs_methods def _parse_cbs_gufunc_string(method_name): """ A helper function that parses a ``"method/basis"`` input string into separate method and basis components. Also handles delta corrections. Parameters ---------- method_name : str A ``"method/basis"`` style string defining the calculation. Returns ------- tuple Tuple in the ``(method_list, basis_list)`` format, where ``method_list`` is the list of the component methods, and ``basis_list`` is the list of basis sets forming the extrapolation for each specified method. E.g. ``"mp2/cc-pv[tq]z+D:ccsd(t)/cc-pvtz"`` would return: ``(["mp2", "ccsd(t)"], ["cc-pv[tq]z", "cc-pvtz"])``. """ method_name_list = re.split(r"""\+(?=\s*[Dd]:)""", method_name) if len(method_name_list) > 2: raise ValidationError( "CBS gufunc: Text parsing is only valid for a single delta, please use the CBS wrapper directly") method_list = [] basis_list = [] for num, method_str in enumerate(method_name_list): if (method_str.count("[") > 1) or (method_str.count("]") > 1): raise ValidationError(f"""CBS gufunc: Too many brackets given! {method_str}""") if method_str.count('/') != 1: raise ValidationError(f"""CBS gufunc: All methods must specify a basis with '/'. {method_str}""") if num > 0: method_str = method_str.strip() if method_str[:2].lower() != 'd:': raise ValidationError("""CBS gufunc: Delta method must start with 'D:'.""") else: method_str = method_str[2:] method, basis = method_str.split('/') method_list.append(method) basis_list.append(basis) return method_list, basis_list def _cbs_gufunc(func, total_method_name, **kwargs): """ A text based parser of the CBS method string. Provided to handle "method/basis" specification of the requested calculations. Also handles "simple" (i.e. one-method and one-basis) calls. Parameters ---------- func : function Function to be called (energy, gradient, frequency or cbs). total_method_name : str String in a ``"method/basis"`` syntax. Simple calls (e.g. ``"blyp/sto-3g"``) are bounced out of CBS. More complex calls (e.g. ``"mp2/cc-pv[tq]z"`` or ``"mp2/cc-pv[tq]z+D:ccsd(t)/cc-pvtz"``) are expanded by `_parse_cbs_gufunc_string()` and pushed through :py:func:`~psi4.cbs`. Returns ------- tuple or float Float, or if ``return_wfn`` is specified, a tuple of ``(value, wavefunction)``. """ # Catch kwarg issues for all methods kwargs = p4util.kwargs_lower(kwargs) return_wfn = kwargs.pop('return_wfn', False) core.clean_variables() ptype = kwargs.pop('ptype', None) # Make sure the molecule the user provided is the active one molecule = kwargs.pop('molecule', core.get_active_molecule()) molecule.update_geometry() # Sanitize total_method_name label = total_method_name total_method_name = total_method_name.lower() total_method_name = total_method_name.replace(' ', '') # Split into components method_list, basis_list = _parse_cbs_gufunc_string(total_method_name) # Single energy call? single_call = len(method_list) == 1 single_call &= '[' not in basis_list[0] single_call &= ']' not in basis_list[0] if single_call: method_name = method_list[0] basis = basis_list[0] # Save some global variables so we can reset them later optstash = p4util.OptionsState(['BASIS']) core.set_global_option('BASIS', basis) ptype_value, wfn = func(method_name, return_wfn=True, molecule=molecule, **kwargs) if core.get_option("SCF", "DF_INTS_IO") != "SAVE": core.clean() optstash.restore() if return_wfn: return (ptype_value, wfn) else: return ptype_value # Drop out for unsupported calls if ptype not in ["energy", "gradient", "hessian"]: raise ValidationError("%s: Cannot extrapolate or delta correct %s yet." % (ptype.title(), ptype)) # Catch kwarg issues for CBS methods only user_dertype = kwargs.pop('dertype', None) cbs_verbose = kwargs.pop('cbs_verbose', False) # If we are not a single call, let CBS wrapper handle it! cbs_kwargs = {} cbs_kwargs['ptype'] = ptype cbs_kwargs['return_wfn'] = True cbs_kwargs['molecule'] = molecule cbs_kwargs['verbose'] = cbs_verbose if user_dertype != None: cbs_kwargs['dertype'] = user_dertype # Find method and basis metadata = [] if method_list[0] in ['scf', 'hf', 'c4-scf', 'c4-hf']: stage = {} stage['wfn'] = method_list[0] stage['basis'] = basis_list[0] if 'scf_scheme' in kwargs: stage['scheme'] = kwargs.pop('scf_scheme') stage['stage'] = "scf" stage['treatment'] = "scf" else: # _validate_cbs_inputs will produce scf stage automatically stage = {} stage['wfn'] = method_list[0] stage['basis'] = basis_list[0] if 'corl_scheme' in kwargs: stage['scheme'] = kwargs.pop('corl_scheme') stage['stage'] = "corl" stage['treatment'] = "corl" metadata.append(stage) # "method/basis" syntax only allows for one delta correction # via "method/basis+D:delta/basis". Maximum length of method_list is 2. if len(method_list) == 2: stage = {} stage['wfn'] = method_list[1] stage['basis'] = basis_list[1] if 'delta_scheme' in kwargs: stage['scheme'] = kwargs.pop('delta_scheme') stage['stage'] = "delta1" stage['treatment'] = "corl" metadata.append(stage) cbs_kwargs["cbs_metadata"] = metadata ptype_value, wfn = cbs(func, label, **cbs_kwargs) if return_wfn: return (ptype_value, wfn) else: return ptype_value