diff --git a/doc/src/Commands_compute.rst b/doc/src/Commands_compute.rst index 07f5100ea4..b7e2156d88 100644 --- a/doc/src/Commands_compute.rst +++ b/doc/src/Commands_compute.rst @@ -100,6 +100,7 @@ KOKKOS, o = OPENMP, t = OPT. * :doc:`nbond/atom ` * :doc:`omega/chunk ` * :doc:`orientorder/atom (k) ` + * :doc:`pace ` * :doc:`pair ` * :doc:`pair/local ` * :doc:`pe ` diff --git a/doc/src/compute.rst b/doc/src/compute.rst index a99d7d7c9c..6491696271 100644 --- a/doc/src/compute.rst +++ b/doc/src/compute.rst @@ -264,6 +264,7 @@ The individual style names on the :doc:`Commands compute ` pag * :doc:`nbond/atom ` - calculates number of bonds per atom * :doc:`omega/chunk ` - angular velocity for each chunk * :doc:`orientorder/atom ` - Steinhardt bond orientational order parameters Ql +* :doc:`pace ` - atomic cluster expansion descriptors and related quantities * :doc:`pair ` - values computed by a pair style * :doc:`pair/local ` - distance/energy/force of each pairwise interaction * :doc:`pe ` - potential energy diff --git a/doc/src/compute_pace.rst b/doc/src/compute_pace.rst new file mode 100644 index 0000000000..0c4a295f1b --- /dev/null +++ b/doc/src/compute_pace.rst @@ -0,0 +1,251 @@ +.. index:: compute pace + +compute pace command +======================== + +Syntax +"""""" + +.. code-block:: LAMMPS + + compute ID group-ID pace ace_potential_filename ... keyword values ... + +* ID, group-ID are documented in :doc:`compute ` command +* pace = style name of this compute command +* ace_potential_filename = file name (in the .yace or .ace format from :doc:`pace pair_style `) including ACE hyperparameters, bonds, and generalized coupling coefficients +* keyword = *bikflag* or *dgradflag* + + .. parsed-literal:: + + *bikflag* value = *0* or *1* + *0* = descriptors are summed over atoms of each type + *1* = descriptors are listed separately for each atom + *dgradflag* value = *0* or *1* + *0* = descriptor gradients are summed over atoms of each type + *1* = descriptor gradients are listed separately for each atom pair + +Examples +"""""""" + +.. code-block:: LAMMPS + + compute pace all pace coupling_coefficients.yace + compute pace all pace coupling_coefficients.yace 0 1 + compute pace all pace coupling_coefficients.yace 1 1 + +Description +""""""""""" + +.. versionadded:: TBD + +This compute calculates a set of quantities related to the atomic cluster +expansion (ACE) descriptors of the atoms in a group. ACE descriptors are +a highly generalizable atomic descriptor, encoding the radial and angular +distribution of neighbor atoms, up to arbitrary bond order (rank). The +detailed mathematical definition is given in the paper by +:ref:`(Drautz) `. These descriptors are used in the +:doc:`pace pair_style `. Quantities obtained from `compute pace` +are related to those used in :doc:`pace pair_style ` to +evaluate atomic energies, forces, and stresses for linear ACE models. +For example, the energy for a linear ACE model is calculated as: +:math:`E=\sum_i^{N\_atoms} \sum_{\boldsymbol{\nu}} c_{\boldsymbol{\nu}} B_{i,\boldsymbol{\boldsymbol{\nu}}}`. +The ACE descriptors for atom `i` :math:`B_{i,\boldsymbol{\nu}}`, and +:math:`c_{\nu}` are linear model parameters. The detailed definition +and indexing convention for ACE descriptors is given in :ref:`(Drautz) `. +In short, body order :math:`N`, angular character, radial character, +and chemical elements in the *N-body* descriptor are encoded by :math:`\nu`. +In the :doc:`pace pair_style `, the linear model parameters +and the ACE descriptors are combined for efficient evaluation of energies +and forces. The details and benefits of this efficient implementation are +given in :ref:`(Lysogorskiy) `. et. al, but the combined +descriptors and linear model parameters for the purposes of `compute pace` +may be expressed in terms of the ACE descriptors mentioned above. + +:math:`c_{\boldsymbol{\nu}} B_{i,\boldsymbol{\nu}}= \sum_{\boldsymbol{\nu}' \in \boldsymbol{\nu} } \big[ c_{\boldsymbol{\nu}} C(\boldsymbol{\nu}') \big] A_{i,\boldsymbol{\nu}'}` + +where the bracketed terms on the right-hand side are the combined functions +with linear model parameters typically provided in the `.yace` potential +file for `pace pair_style`. When these bracketed terms are multiplied by the +products of the atomic base from :ref:`(Drautz) `, +:math:`A_{i,\boldsymbol{\nu'}}`, the ACE descriptors are recovered but they +are also scaled by linear model parameters. The generalized coupling coefficients, +written in short-hand here as :math:`C(\boldsymbol{\nu}')`, are the generalized +Clebsch-Gordan or generalized Wigner symbols. It may be desirable to reverse the +combination of these descriptors and the linear model parameters so that the +ACE descriptors themselves may be used. The ACE descriptors and their gradients +are often used when training ACE models, performing custom data analysis, +generalizing ACE model forms, and other tasks that involve direct computation of +descriptors. The key utility of `compute pace` is that it can compute the ACE +descriptors and gradients so that these tasks can be performed during a LAMMPS +simulation or so that LAMMPS can be used as a driver for tasks like ACE model +parameterization. To see how this command can be used within a Python workflow +to train ACE potentials, see the examples in +`FitSNAP `_. Examples on using outputs from +this compute to construct general ACE potential forms are demonstrated in +:ref:`(Goff) `. The various keywords and inputs to `compute pace` +determine what ACE descriptors and related quantities are returned in a compute +array. + +The coefficient file, `.yace`, ultimately defines the number of ACE +descriptors to be computed, their maximum body-order, the degree of angular +character they have, the degree of radial character they have, the chemical +character (which element-element interactions are encoded by descriptors), +and other hyperparameters defined in :ref:`(Drautz) `. These may +be modeled after the potential files in :doc:`pace pair_style `, +and have the same format. Details on how to generate the coefficient files +to train ACE models may be found in `FitSNAP `_. + +The keyword *bikflag* determines whether or not to list the descriptors of +each atom separately, or sum them together and list in a single row. If +*bikflag* is set to *0* then a single descriptor row is used, which contains +the per-atom ACE descriptors :math:`B_{i,\boldsymbol{\nu}}` summed over all +atoms *i* to produce :math:`B_{\boldsymbol{\nu}}`. If *bikflag* is set to +*1* this is replaced by a separate per-atom ACE descriptor row for each atom. +In this case, the entries in the final column for these rows are set to zero. + +The keyword *dgradflag* determines whether to sum atom gradients or list +them separately. If *dgradflag* is set to 0, the ACE +descriptor gradients w.r.t. atom *j* are summed over all atoms *i'* +of, which may be useful when training linear ACE models on atomic forces. +If *dgradflag* is set to 1, gradients are listed separately for each pair of atoms. +Each row corresponds +to a single term :math:`\frac{\partial {B_{i,\boldsymbol{\nu}}}}{\partial {r}^a_j}` +where :math:`{r}^a_j` is the *a-th* position coordinate of the atom with global +index *j*. This also changes the number of columns to be equal to the number of +ACE descriptors, with 3 additional columns representing the indices :math:`i`, +:math:`j`, and :math:`a`, as explained more in the Output info section below. +The option *dgradflag=1* requires that *bikflag=1*. + +.. note:: + + It is noted here that in contrast to :doc:`pace pair_style `, + the *.yace* file for `compute pace` typically should not contain linear + parameters for an ACE potential. If :math:`c_{\nu}` are included, + the value of the descriptor will not be returned in the `compute` array, + but instead, the energy contribution from that descriptor will be returned. + Do not do this unless it is the desired behavior. + *In short, you should not plug in a '.yace' for a pace potential into this + compute to evaluate descriptors.* + +.. note:: + + *Generalized Clebsch-Gordan or Generalized Wigner symbols (with appropriate + factors) must be used to evaluate ACE descriptors with this compute.* There + are multiple ways to define the generalized coupling coefficients. Because + of this, this compute will not revert your potential file to a coupling + coefficient file. Instead this compute allows the user to supply coupling + coefficients that follow any convention. + +.. note:: + + Using *dgradflag* = 1 produces a global array with :math:`N + 3N^2 + 1` rows + which becomes expensive for systems with more than 1000 atoms. + +.. note:: + + If you have a bonded system, then the settings of :doc:`special_bonds + ` command can remove pairwise interactions between + atoms in the same bond, angle, or dihedral. This is the default + setting for the :doc:`special_bonds ` command, and + means those pairwise interactions do not appear in the neighbor list. + Because this fix uses the neighbor list, it also means those pairs + will not be included in the calculation. One way to get around this, + is to write a dump file, and use the :doc:`rerun ` command to + compute the ACE descriptors for snapshots in the dump file. + The rerun script can use a :doc:`special_bonds ` + command that includes all pairs in the neighbor list. + +---------- + +Output info +""""""""""" + +Compute *pace* evaluates a global array. The columns are arranged into +*ntypes* blocks, listed in order of atom type *I*\ . Each block contains +one column for each ACE descriptor, the same as for compute +*sna/atom*\ in :doc:`compute snap `. A final column contains the corresponding energy, force +component on an atom, or virial stress component. The rows of the array +appear in the following order: + +* 1 row: *pace* average descriptor values for all atoms of type *I* +* 3\*\ *n* force rows: quantities, with derivatives w.r.t. x, y, and z coordinate of atom *i* appearing in consecutive rows. The atoms are sorted based on atom ID and run up to the total number of atoms, *n*. +* 6 rows: *virial* quantities summed for all atoms of type *I* + +For example, if :math:`\# \; B_{i, \boldsymbol{\nu}}` =30 and ntypes=1, the number of columns in the +The number of columns in the global array generated by *pace* are 31, and +931, respectively, while the number of rows is 1+3\*\ *n*\ +6, where *n* +is the total number of atoms. + +If the *bik* keyword is set to 1, the structure of the pace array is expanded. +The first :math:`N` rows of the pace array +correspond to :math:`\# \; B_{i,\boldsymbol{\nu}}` instead of a single row summed over atoms :math:`i`. +In this case, the entries in the final column for these rows +are set to zero. Also, each row contains only non-zero entries for the +columns corresponding to the type of that atom. This is not true in the case +of *dgradflag* keyword = 1 (see below). + +If the *dgradflag* keyword is set to 1, this changes the structure of the +global array completely. +Here the per-atom quantities are replaced with rows corresponding to +descriptor gradient components on single atoms: + +.. math:: + + \frac{\partial {B_{i,\boldsymbol{\nu}} }}{\partial {r}^a_j} + +where :math:`{r}^a_j` is the *a-th* position coordinate of the atom with global +index *j*. The rows are +organized in chunks, where each chunk corresponds to an atom with global index +:math:`j`. The rows in an atom :math:`j` chunk correspond to +atoms with global index :math:`i`. The total number of rows for +these descriptor gradients is therefore :math:`3N^2`. +The number of columns is equal to the number of ACE descriptors, +plus 3 additional left-most columns representing the global atom indices +:math:`i`, :math:`j`, +and Cartesian direction :math:`a` (0, 1, 2, for x, y, z). +The first 3 columns of the first :math:`N` rows belong to the reference +potential force components. The remaining K columns contain the +:math:`B_{i,\boldsymbol{\nu}}` per-atom descriptors corresponding to the non-zero entries +obtained when *bikflag* = 1. +The first column of the last row, after the first +:math:`N + 3N^2` rows, contains the reference potential +energy. The virial components are not used with this option. The total number of +rows is therefore :math:`N + 3N^2 + 1` and the number of columns is :math:`K + 3`. + +These values can be accessed by any command that uses global values +from a compute as input. See the :doc:`Howto output ` doc +page for an overview of LAMMPS output options. + +Restrictions +"""""""""""" + +These computes are part of the ML-PACE package. They are only enabled +if LAMMPS was built with that package. See the :doc:`Build package +` page for more info. + +Related commands +"""""""""""""""" + +:doc:`pair_style pace ` +:doc:`pair_style snap ` +:doc:`compute snap ` + +Default +""""""" + +The optional keyword defaults are *bikflag* = 0, +*dgradflag* = 0 + +---------- + +.. _Drautz19: + +**(Drautz)** Drautz, Phys Rev B, 99, 014104 (2019). + +.. _Lysogorskiy21: + +**(Lysogorskiy)** Lysogorskiy, van der Oord, Bochkarev, Menon, Rinaldi, Hammerschmidt, Mrovec, Thompson, Csanyi, Ortner, Drautz, npj Comp Mat, 7, 97 (2021). + +.. _Goff23: + +**(Goff)** Goff, Zhang, Negre, Rohskopf, Niklasson, Journal of Chemical Theory and Computation 19, no. 13 (2023). diff --git a/examples/PACKAGES/pace/README.md b/examples/PACKAGES/pace/README.md new file mode 100644 index 0000000000..66254b5241 --- /dev/null +++ b/examples/PACKAGES/pace/README.md @@ -0,0 +1,9 @@ +# This folder contains examples for pace in LAMMPS + + +## Compute pace usage +compute/latte_cell_0.data # lammps data file with C-H-O structure +compute/latte_cell_0.xyz # xyz file with C-H-O structure +compute/coupling_coefficients.yace # .yace file containing coupling coefficients (or ACE potential parameters) +compute/in.compute # input file for calling `compute pace` + diff --git a/examples/PACKAGES/pace/compute/coupling_coefficients.yace b/examples/PACKAGES/pace/compute/coupling_coefficients.yace new file mode 100644 index 0000000000..2953222216 --- /dev/null +++ b/examples/PACKAGES/pace/compute/coupling_coefficients.yace @@ -0,0 +1,294 @@ +elements: [H, N, O] +E0: [0.000000, 0.000000, 0.000000] +deltaSplineBins: 0.001000 +embeddings: + 0: {ndensity: 1, FS_parameters: [1.0, 1.0], npoti: FinnisSinclair, rho_core_cutoff: 100000, drho_core_cutoff: 250} + 1: {ndensity: 1, FS_parameters: [1.0, 1.0], npoti: FinnisSinclair, rho_core_cutoff: 100000, drho_core_cutoff: 250} + 2: {ndensity: 1, FS_parameters: [1.0, 1.0], npoti: FinnisSinclair, rho_core_cutoff: 100000, drho_core_cutoff: 250} +bonds: + [0, 0]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.0, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [0, 1]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.5, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [0, 2]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.7, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [1, 0]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.5, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [1, 1]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 4.4, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [1, 2]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.7, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [2, 0]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.7, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [2, 1]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.7, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} + [2, 2]: {nradmax: 2, lmax: 2, nradbasemax: 2, radbasename: ChebExpCos, radparameters: [3.3], radcoefficients: [[[1, 0], [1, 0], [1, 0]], [[0, 1], [0, 1], [0, 1]]], prehc: 0, lambdahc: 3.3, rcut: 5.5, dcut: 0.01, rcut_in: 0.1, dcut_in: 0.01, inner_cutoff_type: distance} +functions: + 0: + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 1], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 2], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [2, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 1], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 0], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 0], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [2, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [2, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [2, 2], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 0], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 1], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 0, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], 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0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 0, rank: 4, ndensity: 1, num_ms_combs: 19, mus: [0, 2, 2, 2], ns: [1, 1, 1, 1], ls: [1, 1, 1, 1], ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 0, rank: 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0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + 1: + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 1, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 1], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - 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-0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 1, rank: 4, ndensity: 1, num_ms_combs: 19, mus: [2, 2, 2, 2], ns: [1, 1, 1, 1], ls: [1, 1, 1, 1], ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + 2: + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [0], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [1], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [1], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 1, ndensity: 1, num_ms_combs: 1, mus: [2], ns: [2], ls: [0], ms_combs: [0], ctildes: [1.0]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 1], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [2, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 1], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 1], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 1], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 1], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 1], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [2, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 1], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [2, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [2, 2], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 0], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [2, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [2, 2], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 1], ns: [2, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [2, 2], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 0], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 2], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 0], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 0], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 1], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 0], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 1], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 2], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [0, 2], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 2], ns: [1, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [2, 2], ns: [1, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 1], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [2, 2], ns: [2, 2], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 0], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [1, 1], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [1, 2], ns: [2, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 3, mus: [1, 2], ns: [2, 1], ls: [1, 1], ms_combs: [-1, 1, 0, 0, 1, -1], ctildes: [0.5773502691896257, -0.5773502691896257, 0.5773502691896257]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [0, 2], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 2, ndensity: 1, num_ms_combs: 5, mus: [2, 2], ns: [1, 2], ls: [2, 2], ms_combs: [-2, 2, -1, 1, 0, 0, 1, -1, 2, -2], ctildes: [0.4472135954999579, -0.4472135954999579, 0.447213595499958, -0.4472135954999579, 0.4472135954999579]} + - {mu0: 2, rank: 3, ndensity: 1, num_ms_combs: 19, mus: [1, 2, 2], ns: [1, 1, 1], ls: [2, 2, 2], ms_combs: [-2, 0, 2, -2, 1, 1, -2, 2, 0, -1, -1, 2, -1, 0, 1, -1, 1, 0, -1, 2, -1, 0, -2, 2, 0, -1, 1, 0, 0, 0, 0, 1, -1, 0, 2, -2, 1, -2, 1, 1, -1, 0, 1, 0, -1, 1, 1, -2, 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ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 2, rank: 4, ndensity: 1, num_ms_combs: 19, mus: [0, 1, 1, 2], ns: [1, 1, 1, 1], ls: [1, 1, 1, 1], ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 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0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 2, rank: 4, ndensity: 1, num_ms_combs: 19, mus: [1, 2, 2, 2], ns: [1, 1, 1, 1], ls: [1, 1, 1, 1], ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} + - {mu0: 2, rank: 4, ndensity: 1, num_ms_combs: 19, mus: [2, 2, 2, 2], ns: [1, 1, 1, 1], ls: [1, 1, 1, 1], ms_combs: [-1, -1, 1, 1, -1, 0, 0, 1, -1, 0, 1, 0, -1, 1, -1, 1, -1, 1, 0, 0, -1, 1, 1, -1, 0, -1, 0, 1, 0, -1, 1, 0, 0, 0, -1, 1, 0, 0, 0, 0, 0, 0, 1, -1, 0, 1, -1, 0, 0, 1, 0, -1, 1, -1, -1, 1, 1, -1, 0, 0, 1, -1, 1, -1, 1, 0, -1, 0, 1, 0, 0, -1, 1, 1, -1, -1], ctildes: [0.0, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, -0.3333333333333333, 0.3333333333333333, -0.3333333333333333, 0.0, 0.0, 0.3333333333333333, -0.3333333333333333, 0.3333333333333333, 0.0, 0.0, 0.0]} diff --git a/examples/PACKAGES/pace/compute/in.compute b/examples/PACKAGES/pace/compute/in.compute new file mode 100644 index 0000000000..a0ef25f606 --- /dev/null +++ b/examples/PACKAGES/pace/compute/in.compute @@ -0,0 +1,22 @@ +#info all out log +units metal +atom_style atomic +boundary p p p +atom_modify map hash +boundary p p p +read_data latte_cell_0.data +mass 1 1.00 +mass 2 14.00 +mass 3 15.999 + + # potential settings + +pair_style zero 5.7 +pair_coeff * * + +compute pace all pace coupling_coefficients.yace 1 0 + +thermo 1 +thermo_style custom step temp c_pace[1][183] + +run 0 diff --git a/examples/PACKAGES/pace/compute/latte_cell_0.data b/examples/PACKAGES/pace/compute/latte_cell_0.data new file mode 100644 index 0000000000..b18ec13a4d --- /dev/null +++ b/examples/PACKAGES/pace/compute/latte_cell_0.data @@ -0,0 +1,172 @@ +latte_cell_0.data (written by ASE) + +161 atoms +3 atom types +0.0 12 xlo xhi +0.0 12 ylo yhi +0.0 12 zlo zhi + + +Atoms + + 1 3 1.2688096799999999 2.0079938400000001 2.7446829899999998 + 2 1 1.5343068200000001 2.0638766500000001 3.7105626900000002 + 3 1 1.7848279600000001 2.6755003400000001 2.2268847200000002 + 4 1 1.56251195 1.1089126899999999 2.3978115199999999 + 5 1 11.61728216 5.71881094 2.4732045999999999 + 6 2 6.5501865600000002 4.7439566800000001 3.6526025500000001 + 7 1 6.4564895299999998 4.1571673000000002 2.6975267999999999 + 8 2 2.0835561 1.59406078 8.5498047600000007 + 9 1 1.1041162499999999 1.4971771599999999 8.1507879200000009 + 10 1 2.60115534 2.2945960400000001 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5.5644605800000004 + 161 1 4.2956948500000003 4.7644888099999996 6.3801669700000003 diff --git a/examples/PACKAGES/pace/compute/latte_cell_0.xyz b/examples/PACKAGES/pace/compute/latte_cell_0.xyz new file mode 100644 index 0000000000..afe0a27f35 --- /dev/null +++ b/examples/PACKAGES/pace/compute/latte_cell_0.xyz @@ -0,0 +1,163 @@ +161 +Lattice="12.0 0.0 0.0 0.0 12.0 0.0 0.0 0.0 12.0" Properties=species:S:1:pos:R:3 pbc="T T T" +O 1.26880968 2.00799384 2.74468299 +H 1.53430682 2.06387665 3.71056269 +H 1.78482796 2.67550034 2.22688472 +H 1.56251195 1.10891269 2.39781152 +H 11.61728216 5.71881094 2.47320460 +N 6.55018656 4.74395668 3.65260255 +H 6.45648953 4.15716730 2.69752680 +N 2.08355610 1.59406078 8.54980476 +H 1.10411625 1.49717716 8.15078792 +H 2.60115534 2.29459604 7.95374187 +H 1.98177233 2.01940664 9.51282394 +H 0.99333338 3.69839073 8.19039479 +O 4.94840710 5.36455014 9.16152503 +H 9.07161706 9.37484540 4.22764624 +N 0.30864419 7.71366575 2.92749956 +H 0.47661671 10.18072110 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4.38049654 +O 4.75065560 11.44185335 1.12537088 +H 4.08611928 10.74852367 1.19233471 +H 5.50353016 10.96568825 0.73651277 +O 9.52545264 4.89944439 8.37322841 +H 8.78859598 4.35080439 8.66328314 +H 9.61490675 4.60849115 7.45400687 +O 4.19707467 1.34592128 3.67401439 +H 4.94370120 0.74406281 3.51406800 +H 4.19055349 1.77303760 2.79630494 +O 1.88232618 11.95451227 0.60024434 +H 2.04645873 11.02454723 0.38329541 +H 1.15184937 0.17494341 11.99928285 +O 3.75938422 11.01685511 6.45620508 +H 3.21254143 10.45537470 5.88949171 +H 3.41660269 10.82155767 7.32965639 +O 9.70398414 3.95001545 11.89474325 +H 10.46166606 3.91631180 11.28543523 +H 10.09834695 4.40269974 0.68193008 +O 8.56395964 3.51695075 5.62241042 +H 8.39666503 2.62622147 5.26381643 +H 7.96953714 4.08250598 5.00494074 +O 9.67362450 0.48030482 7.92575778 +H 9.61319804 11.88341918 7.16809240 +H 9.97840503 11.90238635 8.63894187 +O 3.94241531 6.96502967 11.60258943 +H 4.27671527 6.84600490 10.67022522 +H 4.65706385 6.51294615 0.09115988 +O 3.05701732 9.66319585 3.66112506 +H 2.54004901 9.57433550 2.84440476 +H 2.93148744 8.78098072 4.04252342 +O 7.45496127 5.84308508 11.01138472 +H 8.16758841 5.46391828 10.47644287 +H 6.71355737 5.83938184 10.36109975 +O 9.80291393 7.95789017 10.21404942 +H 10.38910242 8.34006414 10.87949429 +H 9.06376120 7.63923741 10.75692887 +O 4.49634356 4.10679358 11.73387805 +H 4.54737279 4.95779709 11.19223377 +H 5.35888184 4.17561117 0.20355937 +O 9.59234481 7.34180146 1.34856172 +H 8.87155933 7.47768372 2.05040471 +H 9.04432217 7.27322008 0.54011714 +O 7.03509631 3.22348773 0.70708240 +H 7.17844705 4.13403143 1.01841097 +H 7.77878544 2.78888884 1.15838887 +O 9.21241078 0.48085900 1.21751966 +H 9.66204365 11.65727108 1.45318397 +H 9.94048839 1.11619136 1.18684594 +O 1.19704207 9.58599592 6.61908889 +H 0.25606413 9.67373665 6.83193409 +H 1.26900519 8.62493549 6.54801125 +O 0.78256134 2.60406093 11.45340836 +H 0.61502181 3.56074060 11.40300991 +H 1.55655312 2.54573688 10.86673303 +O 5.86279361 7.12170548 5.89173203 +H 6.34324107 7.94001367 6.08558403 +H 5.50772967 6.84683068 6.74368758 +O 10.88782815 9.96374825 0.51092816 +H 11.78841776 10.32204307 0.44704989 +H 11.02688182 9.20519067 1.09766613 +O 3.93073389 4.16456745 5.71378770 +H 4.68840630 3.57889133 5.56446058 +H 4.29569485 4.76448881 6.38016697 diff --git a/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.1 b/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.1 new file mode 100644 index 0000000000..e5036cfe5b --- /dev/null +++ b/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.1 @@ -0,0 +1,81 @@ +LAMMPS (21 Nov 2023) +OMP_NUM_THREADS environment is not set. Defaulting to 1 thread. (src/comm.cpp:98) + using 1 OpenMP thread(s) per MPI task +#info all out log +units metal +atom_style atomic +boundary p p p +atom_modify map hash +boundary p p p +read_data latte_cell_0.data +Reading data file ... + orthogonal box = (0 0 0) to (12 12 12) + 1 by 1 by 1 MPI processor grid + reading atoms ... + 161 atoms + read_data CPU = 0.001 seconds +mass 1 1.00 +mass 2 14.00 +mass 3 15.999 + + # potential settings + +pair_style zero 5.7 +pair_coeff * * + +compute pace all pace coupling_coefficients.yace 1 0 + +thermo 1 +thermo_style custom step temp c_pace[1][183] + +run 0 +WARNING: No fixes with time integration, atoms won't move (src/verlet.cpp:60) +Generated 0 of 3 mixed pair_coeff terms from geometric mixing rule +Neighbor list info ... + update: every = 1 steps, delay = 0 steps, check = yes + max neighbors/atom: 2000, page size: 100000 + master list distance cutoff = 7.7 + ghost atom cutoff = 7.7 + binsize = 3.85, bins = 4 4 4 + 2 neighbor lists, perpetual/occasional/extra = 1 1 0 + (1) pair zero, perpetual + attributes: half, newton on + pair build: half/bin/atomonly/newton + stencil: half/bin/3d + bin: standard + (2) compute pace, occasional + attributes: full, newton on + pair build: full/bin/atomonly + stencil: full/bin/3d + bin: standard +Per MPI rank memory allocation (min/avg/max) = 6.993 | 6.993 | 6.993 Mbytes + Step Temp c_pace[1][183] + 0 0 8.6885642 +Loop time of 1.217e-06 on 1 procs for 0 steps with 161 atoms + +164.3% CPU use with 1 MPI tasks x 1 OpenMP threads + +MPI task timing breakdown: +Section | min time | avg time | max time |%varavg| %total +--------------------------------------------------------------- +Pair | 0 | 0 | 0 | 0.0 | 0.00 +Neigh | 0 | 0 | 0 | 0.0 | 0.00 +Comm | 0 | 0 | 0 | 0.0 | 0.00 +Output | 0 | 0 | 0 | 0.0 | 0.00 +Modify | 0 | 0 | 0 | 0.0 | 0.00 +Other | | 1.217e-06 | | |100.00 + +Nlocal: 161 ave 161 max 161 min +Histogram: 1 0 0 0 0 0 0 0 0 0 +Nghost: 1754 ave 1754 max 1754 min +Histogram: 1 0 0 0 0 0 0 0 0 0 +Neighs: 14230 ave 14230 max 14230 min +Histogram: 1 0 0 0 0 0 0 0 0 0 +FullNghs: 28460 ave 28460 max 28460 min +Histogram: 1 0 0 0 0 0 0 0 0 0 + +Total # of neighbors = 28460 +Ave neighs/atom = 176.77019 +Neighbor list builds = 0 +Dangerous builds = 0 +Total wall time: 0:00:00 diff --git a/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.4 b/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.4 new file mode 100644 index 0000000000..49ca6129b6 --- /dev/null +++ b/examples/PACKAGES/pace/compute/log.5Dec23.compute.g++.4 @@ -0,0 +1,81 @@ +LAMMPS (21 Nov 2023) +OMP_NUM_THREADS environment is not set. Defaulting to 1 thread. (src/comm.cpp:98) + using 1 OpenMP thread(s) per MPI task +#info all out log +units metal +atom_style atomic +boundary p p p +atom_modify map hash +boundary p p p +read_data latte_cell_0.data +Reading data file ... + orthogonal box = (0 0 0) to (12 12 12) + 1 by 2 by 2 MPI processor grid + reading atoms ... + 161 atoms + read_data CPU = 0.001 seconds +mass 1 1.00 +mass 2 14.00 +mass 3 15.999 + + # potential settings + +pair_style zero 5.7 +pair_coeff * * + +compute pace all pace coupling_coefficients.yace 1 0 + +thermo 1 +thermo_style custom step temp c_pace[1][183] + +run 0 +WARNING: No fixes with time integration, atoms won't move (src/verlet.cpp:60) +Generated 0 of 3 mixed pair_coeff terms from geometric mixing rule +Neighbor list info ... + update: every = 1 steps, delay = 0 steps, check = yes + max neighbors/atom: 2000, page size: 100000 + master list distance cutoff = 7.7 + ghost atom cutoff = 7.7 + binsize = 3.85, bins = 4 4 4 + 2 neighbor lists, perpetual/occasional/extra = 1 1 0 + (1) pair zero, perpetual + attributes: half, newton on + pair build: half/bin/atomonly/newton + stencil: half/bin/3d + bin: standard + (2) compute pace, occasional + attributes: full, newton on + pair build: full/bin/atomonly + stencil: full/bin/3d + bin: standard +Per MPI rank memory allocation (min/avg/max) = 6.97 | 6.97 | 6.971 Mbytes + Step Temp c_pace[1][183] + 0 0 8.6885642 +Loop time of 1.979e-06 on 4 procs for 0 steps with 161 atoms + +164.2% CPU use with 4 MPI tasks x 1 OpenMP threads + +MPI task timing breakdown: +Section | min time | avg time | max time |%varavg| %total +--------------------------------------------------------------- +Pair | 0 | 0 | 0 | 0.0 | 0.00 +Neigh | 0 | 0 | 0 | 0.0 | 0.00 +Comm | 0 | 0 | 0 | 0.0 | 0.00 +Output | 0 | 0 | 0 | 0.0 | 0.00 +Modify | 0 | 0 | 0 | 0.0 | 0.00 +Other | | 1.979e-06 | | |100.00 + +Nlocal: 40.25 ave 44 max 35 min +Histogram: 1 0 0 0 1 0 0 0 1 1 +Nghost: 1134.5 ave 1159 max 1117 min +Histogram: 1 1 0 0 1 0 0 0 0 1 +Neighs: 3557.5 ave 4115 max 3189 min +Histogram: 2 0 0 0 0 1 0 0 0 1 +FullNghs: 7115 ave 7755 max 6158 min +Histogram: 1 0 0 0 1 0 0 0 0 2 + +Total # of neighbors = 28460 +Ave neighs/atom = 176.77019 +Neighbor list builds = 0 +Dangerous builds = 0 +Total wall time: 0:00:00 diff --git a/src/.gitignore b/src/.gitignore index e2c9fa6d5b..74164574c2 100644 --- a/src/.gitignore +++ b/src/.gitignore @@ -100,6 +100,8 @@ /lepton_utils.cpp /lepton_utils.h +/compute_pace.cpp +/compute_pace.h /pair_pace.cpp /pair_pace.h /pair_pace_extrapolation.cpp diff --git a/src/ML-PACE/compute_pace.cpp b/src/ML-PACE/compute_pace.cpp new file mode 100644 index 0000000000..cf3be8f47f --- /dev/null +++ b/src/ML-PACE/compute_pace.cpp @@ -0,0 +1,496 @@ +// clang-format off +/* ---------------------------------------------------------------------- + LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator + https://www.lammps.org/, Sandia National Laboratories + LAMMPS Development team: developers@lammps.org + Copyright (2003) Sandia Corporation. Under the terms of Contract + DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains + certain rights in this software. This software is distributed under + the GNU General Public License. + See the README file in the top-level LAMMPS directory. +------------------------------------------------------------------------- */ + +#include "compute_pace.h" +#include "ace-evaluator/ace_evaluator.h" +#include "ace-evaluator/ace_c_basis.h" +#include "ace-evaluator/ace_abstract_basis.h" +#include "ace-evaluator/ace_types.h" +#include +#include + +#include "atom.h" +#include "update.h" +#include "modify.h" +#include "neighbor.h" +#include "neigh_list.h" +#include "neigh_request.h" +#include "force.h" +#include "pair.h" +#include "comm.h" +#include "memory.h" +#include "error.h" + +namespace LAMMPS_NS { +struct ACECimpl { + ACECimpl() : basis_set(nullptr), ace(nullptr) {} + ~ACECimpl() + { + delete basis_set; + delete ace; + } + ACECTildeBasisSet *basis_set; + ACECTildeEvaluator *ace; +}; +} + +using namespace LAMMPS_NS; + +enum{SCALAR,VECTOR,ARRAY}; +ComputePACE::ComputePACE(LAMMPS *lmp, int narg, char **arg) : + Compute(lmp, narg, arg), cutsq(nullptr), list(nullptr), pace(nullptr), + paceall(nullptr), pace_peratom(nullptr), map(nullptr), cg(nullptr) +{ + array_flag = 1; + extarray = 0; + bikflag = 0; + dgradflag = 0; + + int ntypes = atom->ntypes; + int nargmin = 4; + + acecimpl = new ACECimpl; + if (narg < nargmin) error->all(FLERR,"Illegal compute pace command"); + + bikflag = utils::inumeric(FLERR, arg[4], false, lmp); + dgradflag = utils::inumeric(FLERR, arg[5], false, lmp); + if (dgradflag && !bikflag) + error->all(FLERR,"Illegal compute pace command: dgradflag=1 requires bikflag=1"); + + memory->create(map,ntypes+1,"pace:map"); + + //read in file with CG coefficients or c_tilde coefficients + + auto potential_file_name = utils::get_potential_file_path(arg[3]); + delete acecimpl -> basis_set; + acecimpl -> basis_set = new ACECTildeBasisSet(potential_file_name); + double cut = acecimpl -> basis_set->cutoffmax; + cutmax = acecimpl -> basis_set->cutoffmax; + double cuti; + double radelemall = 0.5; + + //# of rank 1, rank > 1 functions + + int n_r1, n_rp = 0; + n_r1 = acecimpl -> basis_set->total_basis_size_rank1[0]; + n_rp = acecimpl -> basis_set->total_basis_size[0]; + + int ncoeff = n_r1 + n_rp; + + //int nvalues = ncoeff; + + nvalues = ncoeff; + + //----------------------------------------------------------- + //nperdim = ncoeff; + + ndims_force = 3; + ndims_virial = 6; + bik_rows = 1; + yoffset = nvalues; //nperdim; + zoffset = 2*nvalues; //nperdim; + natoms = atom->natoms; + if (bikflag) bik_rows = natoms; + dgrad_rows = ndims_force*natoms; + size_array_rows = bik_rows+dgrad_rows + ndims_virial; + if (dgradflag) { + size_array_rows = bik_rows + 3*natoms*natoms + 1; + size_array_cols = nvalues + 3; + if (comm->me == 0) + error->warning(FLERR,"dgradflag=1 creates a N^2 array, beware of large systems."); + } else size_array_cols = nvalues*atom->ntypes + 1; + lastcol = size_array_cols-1; + + ndims_peratom = ndims_force; + size_peratom = ndims_peratom*nvalues*atom->ntypes; + + nmax = 0; +} + +/* ---------------------------------------------------------------------- */ + +ComputePACE::~ComputePACE() +{ + delete acecimpl; + memory->destroy(pace); + memory->destroy(paceall); + memory->destroy(cutsq); + memory->destroy(pace_peratom); + memory->destroy(map); +} + +/* ---------------------------------------------------------------------- */ + +void ComputePACE::init() +{ + if (force->pair == nullptr) + error->all(FLERR,"Compute pace requires a pair style be defined"); + + if (cutmax > force->pair->cutforce) + error->all(FLERR,"Compute pace cutoff is longer than pairwise cutoff"); + + // need an occasional full neighbor list + neighbor->add_request(this, NeighConst::REQ_FULL | NeighConst::REQ_OCCASIONAL); + + int count = 0; + for (int i = 0; i < modify->ncompute; i++) + if (strcmp(modify->compute[i]->style,"pace") == 0) count++; + if (count > 1 && comm->me == 0) + error->warning(FLERR,"More than one compute pace"); + + // allocate memory for global array + memory->create(pace,size_array_rows,size_array_cols, "pace:pace"); + memory->create(paceall,size_array_rows,size_array_cols, "pace:paceall"); + array = paceall; + + // find compute for reference energy + + std::string id_pe = std::string("thermo_pe"); + int ipe = modify->find_compute(id_pe); + if (ipe == -1) + error->all(FLERR,"compute thermo_pe does not exist."); + c_pe = modify->compute[ipe]; + + // add compute for reference virial tensor + + std::string id_virial = std::string("pace_press"); + std::string pcmd = id_virial + " all pressure NULL virial"; + modify->add_compute(pcmd); + + int ivirial = modify->find_compute(id_virial); + if (ivirial == -1) + error->all(FLERR,"compute pace_press does not exist."); + c_virial = modify->compute[ivirial]; +} + +/* ---------------------------------------------------------------------- */ + +void ComputePACE::init_list(int /*id*/, NeighList *ptr) +{ + list = ptr; +} + +/* ---------------------------------------------------------------------- */ + +void ComputePACE::compute_array() +{ + int ntotal = atom->nlocal + atom->nghost; + double **f = atom->f; + invoked_array = update->ntimestep; + + // grow pace_peratom array if necessary + + if (atom->nmax > nmax) { + memory->destroy(pace_peratom); + nmax = atom->nmax; + memory->create(pace_peratom,nmax,size_peratom,"pace:pace_peratom"); + } + + // clear global array + + for (int irow = 0; irow < size_array_rows; irow++){ + for (int icoeff = 0; icoeff < size_array_cols; icoeff++){ + pace[irow][icoeff] = 0.0; + } + } + + // clear local peratom array + + for (int i = 0; i < ntotal; i++){ + for (int icoeff = 0; icoeff < size_peratom; icoeff++) { + pace_peratom[i][icoeff] = 0.0; + } + } + + // invoke full neighbor list (will copy or build if necessary) + + neighbor->build_one(list); + SPECIES_TYPE *mus; + NS_TYPE *ns; + LS_TYPE *ls; + + const int inum = list->inum; + const int* const ilist = list->ilist; + const int* const numneigh = list->numneigh; + int** const firstneigh = list->firstneigh; + int * const type = atom->type; + + //determine the maximum number of neighbours + int max_jnum = -1; + int nei = 0; + int jtmp =0; + for (int iitmp = 0; iitmp < list->inum; iitmp++) { + int itmp = ilist[iitmp]; + jtmp = numneigh[itmp]; + nei = nei + jtmp; + if (jtmp > max_jnum){ + max_jnum = jtmp; + } + } + + // compute pace derivatives for each atom in group + // use full neighbor list to count atoms less than cutoff + + double** const x = atom->x; + const int* const mask = atom->mask; + const int ntypes = atom->ntypes; + + for (int ii = 0; ii < inum; ii++) { + int irow = 0; + if (bikflag) irow = atom->tag[ilist[ii] & NEIGHMASK]-1; + const int i = ilist[ii]; + if (mask[i] & groupbit) { + const int itype = type[i]; + const int* const jlist = firstneigh[i]; + const int jnum = numneigh[i]; + const int typeoffset_local = ndims_peratom*nvalues*(itype-1); + const int typeoffset_global = nvalues*(itype-1); + + delete acecimpl -> ace; + acecimpl -> ace = new ACECTildeEvaluator(*acecimpl -> basis_set); + acecimpl -> ace->compute_projections = 1; + acecimpl -> ace->compute_b_grad = 1; + int n_r1, n_rp = 0; + n_r1 = acecimpl -> basis_set->total_basis_size_rank1[0]; + n_rp = acecimpl -> basis_set->total_basis_size[0]; + + int ncoeff = n_r1 + n_rp; + acecimpl -> ace->element_type_mapping.init(ntypes+1); + for (int ik = 1; ik <= ntypes; ik++) { + for(int mu = 0; mu < acecimpl -> basis_set ->nelements; mu++){ + if (mu != -1) { + if (mu == ik - 1) { + map[ik] = mu; + acecimpl -> ace->element_type_mapping(ik) = mu; + } + } + } + } + + + if (dgradflag) { + + // dBi/dRi tags + + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 0][0] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 0][1] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 0][2] = 0; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 1][0] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 1][1] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 1][2] = 1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 2][0] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 2][1] = atom->tag[i]-1; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 2][2] = 2; + + // dBi/dRj tags + + for (int j=0; jtag[i]-1) + 0][0] = atom->tag[i]-1; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 0][1] = j; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 0][2] = 0; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 1][0] = atom->tag[i]-1; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 1][1] = j; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 1][2] = 1; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 2][0] = atom->tag[i]-1; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 2][1] = j; + pace[bik_rows + ((j)*3*natoms) + 3*(atom->tag[i]-1) + 2][2] = 2; + } + } + + // resize the neighbor cache after setting the basis + acecimpl -> ace->resize_neighbours_cache(max_jnum); + acecimpl -> ace->compute_atom(i, atom->x, atom->type, list->numneigh[i], list->firstneigh[i]); + Array1D Bs = acecimpl -> ace -> projections; + + for (int jj = 0; jj < jnum; jj++) { + const int j = jlist[jj]; + //replace mapping of jj to j + if (!dgradflag) { + double *pacedi = pace_peratom[i]+typeoffset_local; + double *pacedj = pace_peratom[j]+typeoffset_local; + + //force array in (func_ind,neighbour_ind,xyz_ind) format + // dimension: (n_descriptors,max_jnum,3) + //example to access entries for neighbour jj after running compute_atom for atom i: + for (int func_ind =0; func_ind < n_r1 + n_rp; func_ind++){ + DOUBLE_TYPE fx_dB = acecimpl -> ace -> neighbours_dB(func_ind,jj,0); + DOUBLE_TYPE fy_dB = acecimpl -> ace -> neighbours_dB(func_ind,jj,1); + DOUBLE_TYPE fz_dB = acecimpl -> ace -> neighbours_dB(func_ind,jj,2); + pacedi[func_ind] += fx_dB; + pacedi[func_ind+yoffset] += fy_dB; + pacedi[func_ind+zoffset] += fz_dB; + pacedj[func_ind] -= fx_dB; + pacedj[func_ind+yoffset] -= fy_dB; + pacedj[func_ind+zoffset] -= fz_dB; + } + } else { + //printf("inside dBi/dRj logical : ncoeff = %d \n", ncoeff); + for (int iicoeff = 0; iicoeff < ncoeff; iicoeff++) { + + // add to pace array for this proc + //printf("inside dBi/dRj loop\n"); + // dBi/dRj + DOUBLE_TYPE fx_dB = acecimpl -> ace -> neighbours_dB(iicoeff,jj,0); + DOUBLE_TYPE fy_dB = acecimpl -> ace -> neighbours_dB(iicoeff,jj,1); + DOUBLE_TYPE fz_dB = acecimpl -> ace -> neighbours_dB(iicoeff,jj,2); + pace[bik_rows + ((atom->tag[j]-1)*3*natoms) + 3*(atom->tag[i]-1) + 0][iicoeff+3] -= fx_dB; + pace[bik_rows + ((atom->tag[j]-1)*3*natoms) + 3*(atom->tag[i]-1) + 1][iicoeff+3] -= fy_dB; + pace[bik_rows + ((atom->tag[j]-1)*3*natoms) + 3*(atom->tag[i]-1) + 2][iicoeff+3] -= fz_dB; + + // dBi/dRi + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 0][iicoeff+3] += fx_dB; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 1][iicoeff+3] += fy_dB; + pace[bik_rows + ((atom->tag[i]-1)*3*natoms) + 3*(atom->tag[i]-1) + 2][iicoeff+3] += fz_dB; + } + } + } // loop over jj inside + if (!dgradflag) { + + int k = typeoffset_global; + + for (int icoeff = 0; icoeff < ncoeff; icoeff++){ + pace[irow][k++] += Bs(icoeff); + } + } else { + int k = 3; + for (int icoeff = 0; icoeff < ncoeff; icoeff++){ + pace[irow][k++] += Bs(icoeff); + } + } + } //group bit + } // for ii loop + // accumulate force contributions to global array + if (!dgradflag){ + for (int itype = 0; itype < atom->ntypes; itype++) { + const int typeoffset_local = ndims_peratom*nvalues*itype; + const int typeoffset_global = nvalues*itype; + for (int icoeff = 0; icoeff < nvalues; icoeff++) { + for (int i = 0; i < ntotal; i++) { + double *pacedi = pace_peratom[i]+typeoffset_local; + int iglobal = atom->tag[i]; + int irow = 3*(iglobal-1)+1; + pace[irow++][icoeff+typeoffset_global] += pacedi[icoeff]; + pace[irow++][icoeff+typeoffset_global] += pacedi[icoeff+yoffset]; + pace[irow][icoeff+typeoffset_global] += pacedi[icoeff+zoffset]; + } + } + } + } + + if (!dgradflag) { + // accumulate forces to global array + for (int i = 0; i < atom->nlocal; i++) { + int iglobal = atom->tag[i]; + int irow = 3*(iglobal-1)+1; + pace[irow++][lastcol] = atom->f[i][0]; + pace[irow++][lastcol] = atom->f[i][1]; + pace[irow][lastcol] = atom->f[i][2]; + } + } else { + + // for dgradflag=1, put forces at first 3 columns of bik rows + + for (int i=0; inlocal; i++) { + int iglobal = atom->tag[i]; + pace[iglobal-1][0+0] = atom->f[i][0]; + pace[iglobal-1][0+1] = atom->f[i][1]; + pace[iglobal-1][0+2] = atom->f[i][2]; + } + } + + dbdotr_compute(); + + // sum up over all processes + MPI_Allreduce(&pace[0][0],&paceall[0][0],size_array_rows*size_array_cols,MPI_DOUBLE,MPI_SUM,world); + + // assign energy to last column + + if (!dgradflag) { + for (int i = 0; i < bik_rows; i++) paceall[i][lastcol] = 0; + int irow = 0; + double reference_energy = c_pe->compute_scalar(); + paceall[irow][lastcol] = reference_energy; + } else { + + // assign reference energy right after the dgrad rows, first column + + int irow = bik_rows + 3*natoms*natoms; + double reference_energy = c_pe->compute_scalar(); + paceall[irow][0] = reference_energy; + } + + // assign virial stress to last column + // switch to Voigt notation + + if (!dgradflag) { + c_virial->compute_vector(); + int irow = 3*natoms+bik_rows; + paceall[irow++][lastcol] = c_virial->vector[0]; + paceall[irow++][lastcol] = c_virial->vector[1]; + paceall[irow++][lastcol] = c_virial->vector[2]; + paceall[irow++][lastcol] = c_virial->vector[5]; + paceall[irow++][lastcol] = c_virial->vector[4]; + paceall[irow++][lastcol] = c_virial->vector[3]; + } +} + +/* ---------------------------------------------------------------------- + compute global virial contributions via summing r_i.dB^j/dr_i over + own & ghost atoms +------------------------------------------------------------------------- */ +void ComputePACE::dbdotr_compute() +{ + + if (dgradflag) return; + + double **x = atom->x; + int irow0 = bik_rows+ndims_force*natoms; + + // sum over ace contributions to forces + // on all particles including ghosts + + int nall = atom->nlocal + atom->nghost; + for (int i = 0; i < nall; i++) + for (int itype = 0; itype < atom->ntypes; itype++) { + const int typeoffset_local = ndims_peratom*nvalues*itype; + const int typeoffset_global = nvalues*itype; + double *pacedi = pace_peratom[i]+typeoffset_local; + for (int icoeff = 0; icoeff < nvalues; icoeff++) { + double dbdx = pacedi[icoeff]; + double dbdy = pacedi[icoeff+yoffset]; + double dbdz = pacedi[icoeff+zoffset]; + int irow = irow0; + pace[irow++][icoeff+typeoffset_global] += dbdx*x[i][0]; + pace[irow++][icoeff+typeoffset_global] += dbdy*x[i][1]; + pace[irow++][icoeff+typeoffset_global] += dbdz*x[i][2]; + pace[irow++][icoeff+typeoffset_global] += dbdz*x[i][1]; + pace[irow++][icoeff+typeoffset_global] += dbdz*x[i][0]; + pace[irow++][icoeff+typeoffset_global] += dbdy*x[i][0]; + } + } +} + +/* ---------------------------------------------------------------------- + memory usage +------------------------------------------------------------------------- */ + +double ComputePACE::memory_usage() +{ + + double bytes = (double)size_array_rows*size_array_cols*sizeof(double); // pace + bytes += (double)size_array_rows*size_array_cols*sizeof(double); // paceall + bytes += (double)nmax*size_peratom * sizeof(double); // pace_peratom + int n = atom->ntypes+1; + bytes += (double)n*sizeof(int); // map + + return bytes; +} diff --git a/src/ML-PACE/compute_pace.h b/src/ML-PACE/compute_pace.h new file mode 100644 index 0000000000..2f2f8d7f21 --- /dev/null +++ b/src/ML-PACE/compute_pace.h @@ -0,0 +1,60 @@ +/* -*- c++ -*- ---------------------------------------------------------- + LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator + https://www.lammps.org/, Sandia National Laboratories + LAMMPS Development team: developers@lammps.org + + Copyright (2003) Sandia Corporation. Under the terms of Contract + DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains + certain rights in this software. This software is distributed under + the GNU General Public License. + + See the README file in the top-level LAMMPS directory. +------------------------------------------------------------------------- */ + +#ifdef COMPUTE_CLASS +// clang-format off +ComputeStyle(pace,ComputePACE); +// clang-format on +#else + +#ifndef LMP_COMPUTE_PACE_H +#define LMP_COMPUTE_PACE_H + +#include "compute.h" + +namespace LAMMPS_NS { + +class ComputePACE : public Compute { + public: + ComputePACE(class LAMMPS *, int, char **); + ~ComputePACE(); + void init(); + void init_list(int, class NeighList *); + void compute_array(); + double memory_usage(); + + private: + int natoms, nmax, size_peratom, lastcol; + int ncoeff, nvalues, nperdim, yoffset, zoffset; + int ndims_peratom, ndims_force, ndims_virial; + double **cutsq; + class NeighList *list; + double **pace, **paceall; + double **pace_peratom; + double rcutfac; + int *map; // map types to [0,nelements) + int nelements, chemflag; + int bikflag, bik_rows, dgradflag, dgrad_rows; + double *cg; + double cutmax; + Compute *c_pe; + Compute *c_virial; + + void dbdotr_compute(); + struct ACECimpl *acecimpl; +}; + +} // namespace LAMMPS_NS + +#endif +#endif