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sc::MBPT2 Class Reference

    The MBPT2 class implements several second-order perturbation theory

methods. More...

`#include <mbpt.h>`

Inheritance diagram for sc::MBPT2:
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Collaboration diagram for sc::MBPT2:
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## Public Member Functions
| MBPT2 (StateIn &)
| MBPT2 (const Ref< KeyVal > &)
| The KeyVal constructor. More...
void | save_data_state (StateOut &)
| Save the base classes (with save_data_state) and the members in the same order that the StateIn CTOR initializes them. More...
Ref< SCF > | ref ()
double | ref_energy ()
double | corr_energy ()
RefSCVector | ref_energy_gradient ()
RefSCVector | corr_energy_gradient ()
int | nelectron ()
| Returns the number of electrons.
int | nfzcore () const
int | nfzvirt () const
RefSymmSCMatrix | density ()
| Returns the SO density.
int | spin_polarized ()
| Return 1 if the alpha density is not equal to the beta density.
int | gradient_implemented () const
int | value_implemented () const
| Information about the availability of values, gradients, and hessians. More...
void | symmetry_changed ()
| Call this if you have changed the molecular symmetry of the molecule contained by this MolecularEnergy. More...
void | obsolete ()
| Marks all results as being out of date. More...
void | print (std::ostream &o=ExEnv::out0()) const
| Print information about the object.
Public Member Functions inherited from sc::Wavefunction
| Wavefunction (StateIn &)
| Wavefunction (const Ref< KeyVal > &)
| The KeyVal constructor. More...
void | save_data_state (StateOut &)
| Save the base classes (with save_data_state) and the members in the same order that the StateIn CTOR initializes them. More...
double | density (const SCVector3 &)
double | density_gradient (const SCVector3 &, double *)
double | natural_orbital (const SCVector3 &r, int iorb)
double | natural_orbital_density (const SCVector3 &r, int orb, double *orbval=0)
double | orbital (const SCVector3 &r, int iorb, const RefSCMatrix &orbs)
double | orbital_density (const SCVector3 &r, int iorb, const RefSCMatrix &orbs, double *orbval=0)
double | charge ()
| Returns the charge.
virtual RefSymmSCMatrix | ao_density ()
| Returns the AO density.
virtual RefSCMatrix | natural_orbitals ()
| Returns the natural orbitals.
virtual RefDiagSCMatrix | natural_density ()
| Returns the natural density (a diagonal matrix).
virtual RefSymmSCMatrix | alpha_density ()
| Return alpha electron densities in the SO basis.
virtual RefSymmSCMatrix | beta_density ()
| Return beta electron densities in the SO basis.
virtual RefSymmSCMatrix | alpha_ao_density ()
| Return alpha electron densities in the AO basis.
virtual RefSymmSCMatrix | beta_ao_density ()
| Return beta electron densities in the AO basis.
virtual RefSCMatrix | nao (double *atom_charges=0)
| returns the ao to nao transformation matrix
virtual RefSymmSCMatrix | overlap ()
| Returns the SO overlap matrix.
virtual RefSymmSCMatrix | core_hamiltonian ()
| Returns the SO core Hamiltonian.
virtual double | nuclear_repulsion_energy ()
| Returns the nuclear repulsion energy. More...
void | nuclear_repulsion_energy_gradient (double *g)
| Computes the nuclear repulsion gradient. More...
virtual void | nuclear_repulsion_energy_gradient (double **g)
| Computes the nuclear repulsion gradient. More...
RefSCDimension | ao_dimension ()
| Atomic orbital dimension.
RefSCDimension | so_dimension ()
| Symmetry adapted orbital dimension.
RefSCDimension | oso_dimension ()
| Orthogonalized symmetry adapted orbital dimension.
Ref< SCMatrixKit > | basis_matrixkit ()
| Matrix kit for AO, SO, orthogonalized SO, and MO dimensioned matrices.
Ref< Molecule > | molecule () const
| Returns the Molecule.
Ref< GaussianBasisSet > | basis () const
| Returns the basis set.
Ref< GaussianBasisSet > | atom_basis () const
| Returns the basis set describing the nuclear charge distributions.
const double * | atom_basis_coef () const
| Returns the coefficients of the nuclear charge distribution basis functions. More...
Ref< Integral > | integral ()
| Returns the integral evaluator.
void | symmetry_changed ()
| Call this if you have changed the molecular symmetry of the molecule contained by this MolecularEnergy. More...
RefSCMatrix | so_to_orthog_so ()
| Returns a matrix which does the default transform from SO's to orthogonal SO's. More...
RefSCMatrix | so_to_orthog_so_inverse ()
| Returns the inverse of the transformation returned by so_to_orthog_so.
OverlapOrthog::OrthogMethod | orthog_method () const
| Returns the orthogonalization method.
void | set_orthog_method (const OverlapOrthog::OrthogMethod &)
| (Re)Sets the orthogonalization method and makes this obsolete
double | lindep_tol () const
| Returns the tolerance for linear dependencies.
void | set_lindep_tol (double)
| Re(Sets) the tolerance for linear dependencies.
void | obsolete ()
| Marks all results as being out of date. More...
void | print (std::ostream &=ExEnv::out0()) const
| Print information about the object.
Public Member Functions inherited from sc::MolecularEnergy
| MolecularEnergy (const MolecularEnergy &)
| MolecularEnergy (const Ref< KeyVal > &)
| The KeyVal constructor. More...
| MolecularEnergy (StateIn &)
void | set_checkpoint ()
| Set up checkpointing.
void | set_checkpoint_file (const char *)
void | set_checkpoint_freq (int freq)
bool | if_to_checkpoint () const
| Check if need to checkpoint.
const char * | checkpoint_file () const
int | checkpoint_freq () const
MolecularEnergy & | operator= (const MolecularEnergy &)
virtual double | energy ()
| A wrapper around value();.
virtual RefSCDimension | moldim () const
void | guess_hessian (RefSymmSCMatrix &)
| Compute a quick, approximate hessian.
RefSymmSCMatrix | inverse_hessian (RefSymmSCMatrix &)
RefSymmSCMatrix | hessian ()
| If a molecule hessian object is given, it will be used to provide a hessian. More...
int | hessian_implemented () const
void | set_x (const RefSCVector &)
| Set and retrieve the coordinate values.
RefSCVector | get_cartesian_x ()
| Return the cartesian coordinates.
RefSCVector | get_cartesian_gradient ()
| Return the cartesian gradient.
RefSymmSCMatrix | get_cartesian_hessian ()
| Return the cartesian hessian.
Ref< MolecularCoor > | molecularcoor ()
Ref< NonlinearTransform > | change_coordinates ()
| An optimizer can call change coordinates periodically to give the function an opportunity to change its coordinate system. More...
void | print_natom_3 (const RefSCVector &, const char *t=0, std::ostream &o=ExEnv::out0()) const
| Nicely print n x 3 data that are stored in a vector.
void | print_natom_3 (double **, const char *t=0, std::ostream &o=ExEnv::out0()) const
void | print_natom_3 (double *, const char *t=0, std::ostream &o=ExEnv::out0()) const
Public Member Functions inherited from sc::Function
| Function (StateIn &)
| Function (const Function &)
| Function (const Ref< KeyVal > &, double funcacc=DBL_EPSILON, double gradacc=DBL_EPSILON, double hessacc=DBL_EPSILON)
| The keyval constructor reads the following keywords: More...
Function & | operator= (const Function &)
Ref< SCMatrixKit > | matrixkit () const
| Return the SCMatrixKit used to construct vectors and matrices. More...
RefSCDimension | dimension () const
| Return the SCDimension of the problem.
virtual double | value ()
| Return the value of the function.
int | value_needed () const
| Returns nonzero if the current value is not up-to-date.
int | do_value (int)
| If passed a nonzero number, compute the value the next time compute() is called. More...
AccResultdouble & | value_result ()
virtual void | set_desired_value_accuracy (double)
| Set the accuracy to which the value is to be computed.
virtual double | actual_value_accuracy () const
| Return the accuracy with which the value has been computed.
virtual double | desired_value_accuracy () const
| Return the accuracy with which the value is to be computed.
RefSCVector | get_x () const
const RefSCVector & | get_x_no_copy () const
virtual RefSCVector | gradient ()
int | gradient_needed () const
int | do_gradient (int)
virtual void | set_desired_gradient_accuracy (double)
virtual double | actual_gradient_accuracy () const
virtual double | desired_gradient_accuracy () const
AccResultRefSCVector & | gradient_result ()
int | hessian_needed () const
int | do_hessian (int)
virtual void | set_desired_hessian_accuracy (double)
virtual double | actual_hessian_accuracy () const
virtual double | desired_hessian_accuracy () const
AccResultRefSymmSCMatrix & | hessian_result ()
Public Member Functions inherited from sc::SavableState
SavableState & | operator= (const SavableState &)
void | save_state (StateOut &)
| Save the state of the object as specified by the StateOut object. More...
void | save_object_state (StateOut &)
| This can be used for saving state when the exact type of the object is known for both the save and the restore. More...
virtual void | save_vbase_state (StateOut &)
| Save the virtual bases for the object. More...
Public Member Functions inherited from sc::DescribedClass
| DescribedClass (const DescribedClass &)
DescribedClass & | operator= (const DescribedClass &)
ClassDesc * | class_desc () const throw ()
| This returns the unique pointer to the ClassDesc corresponding to the given type_info object. More...
const char * | class_name () const
| Return the name of the object's exact type.
int | class_version () const
| Return the version of the class.
Public Member Functions inherited from sc::RefCount
int | lock_ptr () const
| Lock this object.
int | unlock_ptr () const
| Unlock this object.
void | use_locks (bool inVal)
| start and stop using locks on this object
refcount_t | nreference () const
| Return the reference count.
refcount_t | reference ()
| Increment the reference count and return the new count.
refcount_t | dereference ()
| Decrement the reference count and return the new count.
int | managed () const
void | unmanage ()
| Turn off the reference counting mechanism for this object. More...
int | managed () const
| Return 1 if the object is managed. Otherwise return 0.
Public Member Functions inherited from sc::Identity
Identifier | identifier ()
| Return the Identifier for this argument. More...

## Protected Member Functions
void | init_variables ()
void | compute ()
| Recompute at least the results that have compute true and are not already computed. More...
void | eigen (RefDiagSCMatrix &vals, RefSCMatrix &vecs, RefDiagSCMatrix &occs)
void | compute_hsos_v1 ()
distsize_t | compute_v2_memory (int ni, int nfuncmax, int nbfme, int nshell, int ndocc, int nsocc, int nvir, int nproc)
void | compute_hsos_v2 ()
void | compute_hsos_v2_lb ()
int | compute_cs_batchsize (size_t mem_static, int nocc_act)
distsize_t | compute_cs_dynamic_memory (int ni, int nocc_act)
int | make_cs_gmat (RefSymmSCMatrix &Gmat, double *DPmat)
int | make_cs_gmat_new (RefSymmSCMatrix &Gmat, const RefSymmSCMatrix &DPmat)
void | form_max_dens (double *DPmat, signed char *maxp)
int | init_cs_gmat ()
void | done_cs_gmat ()
int | make_g_d_nor (RefSymmSCMatrix &Gmat, double *DPmat, const double *mgdbuff)
void | cs_cphf (double **scf_vector, double *Laj, double *eigval, RefSCMatrix &P2aj)
void | s2pdm_contrib (const double *intderbuf, double *PHF, double *P2AO, double **hf_ginter, double **ginter)
void | hcore_cs_grad (double *PHF, double *PMP2, double **hf_ginter, double **ginter)
void | overlap_cs_grad (double *WHF, double *WMP2, double **hf_ginter, double **ginter)
void | compute_cs_grad ()
Protected Member Functions inherited from sc::Wavefunction
double | min_orthog_res ()
double | max_orthog_res ()
void | copy_orthog_info (const Ref< Wavefunction > &)
Protected Member Functions inherited from sc::MolecularEnergy
void | failure (const char *)
virtual void | set_energy (double)
| This is just a wrapper around set_value().
virtual void | set_gradient (RefSCVector &)
| These are passed gradients and hessian in cartesian coordinates. More...
virtual void | set_hessian (RefSymmSCMatrix &)
void | x_to_molecule ()
void | molecule_to_x ()
Protected Member Functions inherited from sc::Function
virtual void | set_matrixkit (const Ref< SCMatrixKit > &)
| Set the SCMatrixKit that should be used to construct the requisite vectors and matrices. More...
virtual void | set_dimension (const RefSCDimension &)
RefSCVector & | get_x_reference ()
| Get read/write access to the coordinates for modification.
void | do_change_coordinates (const Ref< NonlinearTransform > &)
| Change the coordinate system and apply the given transform to intermediates matrices and vectors. More...
virtual void | set_value (double)
virtual void | set_actual_value_accuracy (double)
virtual void | set_actual_gradient_accuracy (double)
virtual void | set_actual_hessian_accuracy (double)
Protected Member Functions inherited from sc::SavableState
| SavableState (const SavableState &)
| SavableState (StateIn &)
| Each derived class StateIn CTOR handles the restore corresponding to calling save_object_state, save_vbase_state, and save_data_state listed above. More...

## Protected Attributes
Ref< SCF > | reference_
Ref< MemoryGrp > | mem
int | nfzc
int | nfzv
size_t | mem_alloc
double | cphf_epsilon_
int | eliminate_in_gmat_
const double * | intbuf_
Ref< TwoBodyInt > | tbint_
Ref< TwoBodyInt > * | tbints_
Ref< TwoBodyDerivInt > * | tbintder_
int | nbasis
int | noso
Ref< MessageGrp > | msg_
int | nvir
int | nocc
int | nsocc
Ref< ThreadGrp > | thr_
int | dynamic_
double | print_percent_
int | max_norb_
int * | symorb_irrep_
int * | symorb_num_
char * | method_
char * | algorithm_
int | do_d1_
int | do_d2_
int | nfuncmax
double | hf_energy_
RefSCVector | hf_gradient_
double | restart_ecorr_
int | restart_orbital_v1_
int | restart_orbital_memgrp_
Protected Attributes inherited from sc::Wavefunction
int | debug_
Protected Attributes inherited from sc::MolecularEnergy
Ref< PointGroup > | initial_pg_
int | print_molecule_when_changed_
Protected Attributes inherited from sc::Function
Ref< SCMatrixKit > | matrixkit_
| Used to construct new matrices.
RefSCVector | x_
| The variables.
RefSCDimension | dim_
| The dimension of x_.
AccResultdouble | value_
| The value of the function at x_.
AccResultRefSCVector | gradient_
| The gradient at x_.
AccResultRefSymmSCMatrix | hessian_
| The hessian at x_.

## Additional Inherited Members
Static Public Member Functions inherited from sc::SavableState
static void | save_state (SavableState *s, StateOut &)
static SavableState * | restore_state (StateIn &si)
| Restores objects saved with save_state. More...
static SavableState * | key_restore_state (StateIn &si, const char *keyword)
| Like restore_state, but keyword is used to override values while restoring. More...
static SavableState * | dir_restore_state (StateIn &si, const char *objectname, const char *keyword=0)

## Detailed Description

    The MBPT2 class implements several second-order perturbation theory

methods.

## Constructor & Destructor Documentation

sc::MBPT2::MBPT2 | ( | const Ref< KeyVal > & |  | ) |

The KeyVal constructor.

`reference`

  This gives the reference wavefunction. It must be an object of type CLSCF for closed-shell molecules and HSOSSCF for open-shell molecules. The is no default.

`nfzc`

  The number of frozen core orbitals. The default is 0. If no atoms have an atomic number greater than 30, then the number of orbitals to be frozen can be automatically determined by specifying nfzc = auto.

`nfzv`

  The number of frozen virtual orbitals. The default is 0.

`memory`

  The amount of memory, in bytes, that each processor may use.

`method`

  This gives a string that must take on one of the values below. The default is mp for closed-shell systems and zapt for open-shell systems.

  `mp`

    Use Møller-Plesset perturbation theory. This is only valid for closed-shell systems. Energies and gradients can be computed with this method.

  `opt1`

    Use the OPT1 variant of open-shell perturbation theory. Only energies can be computed for open-shell systems.

  `opt2`

    Use the OPT2 variant of open-shell perturbation theory. Only energies can be computed for open-shell systems.

  `zapt`

    Use the ZAPT variant of open-shell perturbation theory. Only energies can be computed for open-shell systems.

`algorithm`

  This gives a string that must take on one of the values given below. The default is memgrp for closed-shell systems. For open-shell systems v1 is used for a small number of processors and v2 is used otherwise.

  `memgrp`

    Use the distributed shared memory algorithm (which uses a MemoryGrp object). This is only valid for MP2 energies and gradients.

  `v1`

    Use algorithm V1. Only energies can be computed. The maximum number of processors that can be utilized is the number of virtual orbitals. This algorithm computes few integrals than the others, but has higher communication requirements.

  `v2`

    Use algorithm V2. Only energies can be computed. The maximum number of processors that can be utilized is the number of shells.

  `v2lb`

    Use a modified V2 algorithm that may compute more two electron integrals, but may get better load balance on the part of the calculation. Only energies can be computed. This is recommended only for computations involving large molecules (where the transformation is dominant) on very many processors (approaching the number of shells).

  The v1 and v2 algorithms are discussed in Ida M. B. Nielsen and Edward T. Seidl, J. Comp. Chem. 16, 1301 (1995). The memgrp algorithm is discussed in Ida M. B. Nielsen, Chem. Phys. Lett. 255, 210 (1996).

`memorygrp`

  A MemoryGrp object is used by the memgrp algorithm. If this is not given the program will try to find an appropriate default.

## Member Function Documentation

void sc::MBPT2::compute | ( |  | ) |
| protected virtual

Recompute at least the results that have compute true and are not already computed.

This should only be called by Result's members.

Implements sc::Compute.

Reimplemented in sc::MBPT2_R12.

void sc::MBPT2::obsolete | ( |  | ) |
| virtual

Marks all results as being out of date.

Any subsequent access to results will cause Compute::compute() to be called.

Reimplemented from sc::Compute.

Reimplemented in sc::MBPT2_R12.

void sc::MBPT2::save_data_state | ( | StateOut & |  | ) |
| virtual

Save the base classes (with save_data_state) and the members in the same order that the StateIn CTOR initializes them.

This must be implemented by the derived class if the class has data.

Reimplemented from sc::MolecularEnergy.

Reimplemented in sc::MBPT2_R12.

void sc::MBPT2::symmetry_changed | ( |  | ) |
| virtual

Call this if you have changed the molecular symmetry of the molecule contained by this MolecularEnergy.

Reimplemented from sc::MolecularEnergy.

int sc::MBPT2::value_implemented | ( |  | ) | const
| virtual

Information about the availability of values, gradients, and hessians.

Reimplemented from sc::Function.

Reimplemented in sc::MBPT2_R12.

The documentation for this class was generated from the following file:

- mbpt.h