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Introduced PrimitiveShellPair

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This commit is contained in:
Anthony Scemama 2018-03-15 16:03:43 +01:00
parent cc3ae9b8a3
commit 03c5d1d64a
10 changed files with 100 additions and 203 deletions
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134
Basis/ContractedShellPair.ml
View File

@ -7,7 +7,7 @@ type t =
{
shell_a : ContractedShell.t;
shell_b : ContractedShell.t;
shell_pairs : ShellPair.t array;
shell_pairs : PrimitiveShellPair.t array;
coef : float array;
expo_inv : float array;
center_ab : Coordinate.t; (* A-B *)
@ -22,7 +22,6 @@ module Co = Coordinate
module Cs = ContractedShell
module Ps = PrimitiveShell
module Psp = PrimitiveShellPair
module Sp = ShellPair
(** Creates an contracted shell pair : an array of pairs of primitive shells.
A contracted shell with N functions combined with a contracted
@ -37,115 +36,36 @@ Format.printf "@[<2>shell_b :@ %a@]@;" Cs.pp s_b;
let make = Psp.create_make_of (Cs.prim s_a).(0) (Cs.prim s_b).(0) in
let center_ab = Co.( Cs.center s_a |- Cs.center s_b ) in
(*
Format.printf "@[center_ab :@ %a@]@;" Coordinate.pp_angstrom center_ab;
Format.printf "@[a_minus_b :@ %a@]@." Coordinate.pp_angstrom (Psp.a_minus_b (
match make 0 (Cs.prim s_a).(0) 0 (Cs.prim s_b).(0) 0.
with Some x -> x | _ -> assert false));
*)
let norm_sq = Co.dot center_ab center_ab in
let norm_coef_scale_a =
Cs.norm_coef_scale s_a
and norm_coef_scale_b =
Cs.norm_coef_scale s_b
in
let norm_coef_scale =
Array.map (fun v1 ->
Array.map (fun v2 -> v1 *. v2) norm_coef_scale_b
) norm_coef_scale_a
|> Array.to_list
|> Array.concat
in
assert (norm_coef_scale = Psp.norm_coef_scale (
match make 0 (Cs.prim s_a).(0) 0 (Cs.prim s_b).(0) 0.
with Some x -> x | _ -> assert false));
let shell_pairs =
Array.init (Cs.size s_a) (fun i ->
let p_a = (Cs.prim s_a).(i) in
let p_a_expo_center = Co.( (Cs.expo s_a).(i) |. Cs.center s_a ) in
let norm_coef_a = (Cs.norm_coef s_a).(i) in
assert (norm_coef_a = Ps.norm_coef p_a);
let make = make 0 p_a in
Array.init (Cs.size s_b) (fun j ->
let p_b = (Cs.prim s_b).(j) in
try
let sp = make 0 p_b cutoff in
let sp_ = match sp with Some x -> x | None -> raise Null_contribution in
let norm_coef_b = (Cs.norm_coef s_b).(j) in
assert (norm_coef_b = Ps.norm_coef p_b);
let norm_coef = norm_coef_a *. norm_coef_b in
if norm_coef < cutoff then
raise Null_contribution;
let p_b_expo_center = Co.( (Cs.expo s_b).(j) |. Cs.center s_b ) in
let expo = (Cs.expo s_a).(i) +. (Cs.expo s_b).(j) in
let expo_inv = 1. /. expo in
let center = Co.(expo_inv |. (p_a_expo_center |+ p_b_expo_center ) )
in
let argexpo =
(Cs.expo s_a).(i) *. (Cs.expo s_b).(j) *. norm_sq *. expo_inv
in
let g =
(pi *. expo_inv)**(1.5) *. exp (-. argexpo)
in
let coef =
norm_coef *. g
in
if abs_float coef < cutoff then
raise Null_contribution;
let center_a =
Co.(center |- Cs.center s_a)
in
let monocentric =
Cs.(center s_a = center s_b)
in
let totAngMomInt =
Am.(Cs.totAngMom s_a + Cs.totAngMom s_b)
|> Am.to_int
in
assert (expo= Psp.expo sp_ );
assert (expo_inv= Psp.expo_inv sp_ );
assert (center= Psp.center sp_ );
Some ( (Cs.coef s_a).(i) *. (Cs.coef s_b).(j), {
Sp.i ; j ;
shell_a=s_a ; shell_b=s_b ;
coef ;
expo ; expo_inv ;
center ; center_a ; center_ab ;
norm_sq ; monocentric ; totAngMomInt
})
with
| Null_contribution -> None
)
)
Array.mapi (fun i p_a ->
let c_a = (Cs.coef s_a).(i) in
let make = make i p_a in
Array.mapi (fun j p_b ->
let c_b = (Cs.coef s_b).(j) in
let coef = c_a *. c_b in
assert (coef <> 0.);
let cutoff = cutoff /. abs_float coef in
coef, make j p_b cutoff) (Cs.prim s_b)) (Cs.prim s_a)
|> Array.to_list
|> Array.concat
|> Array.to_list
|> List.filter (function Some _ -> true | None -> false)
|> List.map (function Some x -> x | None -> assert false)
|> List.filter (function (_, Some _) -> true | _ -> false)
|> List.map (function (c, Some x) -> (c,x) | _ -> assert false)
|> Array.of_list
in
let coef = Array.map (fun (c,y) -> c *. y.Sp.coef) shell_pairs
and expo_inv = Array.map (fun (_,y) -> y.Sp.expo_inv) shell_pairs
let coef = Array.map (fun (c,y) -> c *. Psp.norm_coef y) shell_pairs
and expo_inv = Array.map (fun (_,y) -> Psp.expo_inv y) shell_pairs
in
let shell_pairs = Array.map snd shell_pairs in
let root = shell_pairs.(0) in
{
shell_a = s_a ; shell_b = s_b ; coef ; expo_inv ;
shell_pairs ; center_ab=shell_pairs.(0).center_ab;
norm_coef_scale ; norm_sq=shell_pairs.(0).norm_sq;
totAngMomInt = shell_pairs.(0).Sp.totAngMomInt;
shell_a = s_a ; shell_b = s_b ; coef ; expo_inv ; shell_pairs ;
center_ab = Psp.a_minus_b root;
norm_coef_scale = Psp.norm_coef_scale root;
norm_sq=Psp.a_minus_b_sq root;
totAngMomInt = Psp.totAngMom root |> Am.to_int;
}
@ -159,7 +79,7 @@ let norm_sq x = x.norm_sq
let totAngMomInt x = x.totAngMomInt
let norm_coef_scale x = x.norm_coef_scale
let monocentric x = x.shell_pairs.(0).Sp.monocentric
let monocentric x = Psp.monocentric x.shell_pairs.(0)
(** Returns an integer characteristic of a contracted shell pair *)
let hash a =
@ -199,8 +119,12 @@ let of_basis basis =
let equivalent x y =
(Array.length x = Array.length y) &&
(Array.init (Array.length x) (fun k -> Sp.equivalent x.(k) y.(k))
|> Array.fold_left (fun accu x -> x && accu) true)
let rec eqv = function
| 0 -> true
| k -> if Psp.equivalent x.(k) y.(k) then
eqv (k-1)
else false
in eqv (Array.length x - 1)
(** A list of unique shell pairs *)

6
Basis/ContractedShellPair.mli
View File

@ -37,9 +37,9 @@ val shell_b : t -> ContractedShell.t
build the contracted shell pair.
*)
val shell_pairs : t -> ShellPair.t array
(** Returns an array of {!ShellPair.t}, containing all the pairs of primitive functions.
build the contracted shell pair.
val shell_pairs : t -> PrimitiveShellPair.t array
(** Returns an array of {!PrimitiveShellPair.t}, containing all the pairs of
primitive functions used to build the contracted shell pair.
*)
val coef : t -> float array

12
Basis/KinInt.ml
View File

@ -8,7 +8,8 @@ module Co = Coordinate
module Cs = ContractedShell
module Csp = ContractedShellPair
module Po = Powers
module Sp = ShellPair
module Ps = PrimitiveShell
module Psp = PrimitiveShellPair
type t = Mat.t
@ -55,18 +56,15 @@ let contracted_class shell_a shell_b : float Zmap.t =
if (abs_float coef_prod) > 1.e-4*.cutoff then
begin
let center_pa =
sp.(ab).Sp.center_a
Psp.center_minus_a sp.(ab)
in
let expo_inv =
(Csp.expo_inv shell_p).(ab)
in
let i, j =
sp.(ab).Sp.i, sp.(ab).Sp.j
in
let expo_a =
(Cs.expo sp.(ab).Sp.shell_a).(i)
Ps.expo (Psp.shell_a sp.(ab))
and expo_b =
(Cs.expo sp.(ab).Sp.shell_b).(j)
Ps.expo (Psp.shell_b sp.(ab))
in
let xyz_of_int k =

19
Basis/OneElectronRR.ml
View File

@ -8,7 +8,8 @@ module Co = Coordinate
module Cs = ContractedShell
module Csp = ContractedShellPair
module Po = Powers
module Sp = ShellPair
module Ps = PrimitiveShell
module Psp = PrimitiveShellPair
@ -118,9 +119,9 @@ let contracted_class_shell_pair ~zero_m shell_p geometry : float Zmap.t =
let norm_coef_scale_p = Csp.norm_coef_scale shell_p
in
for ab=0 to (Array.length (Csp.shell_pairs shell_p) - 1)
let sp = Csp.shell_pairs shell_p in
for ab=0 to Array.length sp - 1
do
let b = (Csp.shell_pairs shell_p).(ab).Sp.j in
try
begin
let coef_prod = (Csp.coef shell_p).(ab) in
@ -134,14 +135,18 @@ let contracted_class_shell_pair ~zero_m shell_p geometry : float Zmap.t =
(Csp.expo_inv shell_p).(ab)
in
let expo_b =
Ps.expo (Psp.shell_b sp.(ab))
in
let center_ab =
Csp.center_ab shell_p
in
let center_p =
(Csp.shell_pairs shell_p).(ab).Sp.center
Psp.center sp.(ab)
in
let center_pa =
Co.(center_p |- Cs.center shell_a)
Psp.center_minus_a sp.(ab)
in
for c=0 to Array.length geometry - 1 do
@ -178,8 +183,8 @@ let contracted_class_shell_pair ~zero_m shell_p geometry : float Zmap.t =
hvrr_one_e
angMomA angMomB
zero_m_array
(Cs.expo shell_b).(b)
(Csp.expo_inv shell_p).(ab)
expo_b
expo_pq_inv
center_ab center_pa center_pc
map
in

4
Basis/Overlap.ml
View File

@ -10,7 +10,7 @@ module Co = Coordinate
module Cs = ContractedShell
module Csp = ContractedShellPair
module Po = Powers
module Sp = ShellPair
module Psp = PrimitiveShellPair
let cutoff = integrals_cutoff
@ -66,7 +66,7 @@ let contracted_class shell_a shell_b : float Zmap.t =
(Csp.expo_inv shell_p).(ab)
in
let center_pa =
sp.(ab).Sp.center_a
Psp.center_minus_a sp.(ab)
in
Array.iteri (fun i key ->

5
Basis/PrimitiveShellPair.ml
View File

@ -153,3 +153,8 @@ let norm_coef x = x.norm_coef
let expo x = x.expo
let center x = x.center
let shell_a x = x.shell_a
let shell_b x = x.shell_b

6
Basis/PrimitiveShellPair.mli
View File

@ -111,3 +111,9 @@ val center_minus_a : t -> Coordinate.t
val norm_coef : t -> float
(** Normalization coefficient of the shell pair. *)
val shell_a : t -> PrimitiveShell.t
(** Returns the first primitive shell that was used to build the shell pair. *)
val shell_b : t -> PrimitiveShell.t
(** Returns the second primitive shell that was used to build the shell pair. *)

40
Basis/ShellPair.ml
View File

@ -1,40 +0,0 @@
open Util
open Constants
type t = {
expo : float; (* alpha + beta *)
expo_inv : float; (* 1/(alpha + beta) *)
center : Coordinate.t; (* P = (alpha * A + beta B)/(alpha+beta) *)
center_a : Coordinate.t; (* P - A *)
center_ab: Coordinate.t; (* A - B *)
norm_sq : float; (* |A-B|^2 *)
coef : float; (* norm_coef * coef_a * coef_b * g, with
g = (pi/(alpha+beta))^(3/2) exp (-|A-B|^2 * alpha*beta/(alpha+beta)) *)
totAngMomInt : int ;
i : int;
j : int;
shell_a : ContractedShell.t;
shell_b : ContractedShell.t;
monocentric : bool
}
(** Returns an integer characteristic of a primitive shell pair *)
let hash a =
Hashtbl.hash a
let equivalent a b =
a = b
(*
Hashtbl.hash (a.expo, a.center_a, a.center_ab, a.coef, ContractedShell.totAngMom a.shell_a, ContractedShell.totAngMom a.shell_b)
*)
(** Comparison function, used for sorting *)
let cmp a b =
hash a - hash b

54
Basis/TwoElectronRR.ml
View File

@ -4,8 +4,9 @@ module Am = AngularMomentum
module Co = Coordinate
module Cs = ContractedShell
module Csp = ContractedShellPair
module Sp = ShellPair
module Po = Powers
module Psp = PrimitiveShellPair
module Ps = PrimitiveShell
let cutoff = Constants.integrals_cutoff
let cutoff2 = cutoff *. cutoff
@ -279,7 +280,6 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
and shell_c = Csp.shell_a shell_q
and shell_d = Csp.shell_b shell_q
and sp = Csp.shell_pairs shell_p
and sq = Csp.shell_pairs shell_q
in
let maxm = Csp.totAngMomInt shell_p + Csp.totAngMomInt shell_q in
@ -301,38 +301,38 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
(* Compute all integrals in the shell for each pair of significant shell pairs *)
let norm_coef_scale_p = Csp.norm_coef_scale shell_p in
let norm_coef_scale_p_list = Array.to_list (Csp.norm_coef_scale shell_p) in
let norm_coef_scale_q = Csp.norm_coef_scale shell_q in
for ab=0 to (Array.length sp - 1) do
let cab = (Csp.coef shell_p).(ab) in
let b = (Csp.shell_pairs shell_p).(ab).Sp.j in
let expo_b = (Cs.expo shell_b).(b) in
let expo_inv_p = (Csp.expo_inv shell_p).(ab) in
let center_ab = sp.(ab).Sp.center_ab in
let center_pa = sp.(ab).Sp.center_a in
let sp_ab = (Csp.shell_pairs shell_p).(ab) in
let c_ab = (Csp.coef shell_p).(ab) in
let expo_b = Ps.expo (Psp.shell_b sp_ab) in
let expo_inv_p = Psp.expo_inv sp_ab in
let center_ab = Psp.a_minus_b sp_ab in
let center_pa = Psp.center_minus_a sp_ab in
for cd=0 to (Array.length (Csp.shell_pairs shell_q) - 1) do
let coef_prod =
cab *. (Csp.coef shell_q).(cd)
in
let sp_cd = (Csp.shell_pairs shell_q).(cd) in
let c_cd = (Csp.coef shell_q).(cd) in
let coef_prod = c_ab *. c_cd in
(** Screening on the product of coefficients *)
try
if (abs_float coef_prod) < 1.e-3 *. cutoff then
raise NullQuartet;
let center_pq =
Co.(sp.(ab).Sp.center |- sq.(cd).Sp.center)
in
let norm_pq_sq =
Co.dot center_pq center_pq
in
let expo_inv_q = (Csp.expo_inv shell_q).(cd) in
let center_pq = Co.(Psp.center sp_ab |- Psp.center sp_cd) in
let norm_pq_sq = Co.dot center_pq center_pq in
let expo_inv_q = Psp.expo_inv sp_cd in
let expo_pq_inv = expo_inv_p +. expo_inv_q in
let zero_m_array =
zero_m ~maxm ~expo_pq_inv ~norm_pq_sq
in
begin
match Cs.(totAngMom shell_a, totAngMom shell_b,
totAngMom shell_c, totAngMom shell_d) with
@ -342,16 +342,14 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
in
contracted_class.(0) <- contracted_class.(0) +. coef_prod *. integral
| _ ->
let d = (Csp.shell_pairs shell_q).(cd).Sp.j in
let expo_d = (Cs.expo shell_d).(d) in
let expo_d = Ps.expo (Psp.shell_b sp_cd) in
let map_1d = Zmap.create (4*maxm) in
let map_2d = Zmap.create (Array.length class_indices) in
let center_cd = sq.(cd).Sp.center_ab in
let center_qc = sq.(cd).Sp.center_a in
let center_cd = Psp.a_minus_b sp_cd in
let center_qc = Psp.center_minus_a sp_cd in
let norm_coef_scale =
Array.to_list norm_coef_scale_p
|> List.map (fun v1 ->
Array.map (fun v2 -> v1 *. v2) norm_coef_scale_q)
List.map (fun v1 -> Array.map (fun v2 -> v1 *. v2) norm_coef_scale_q)
norm_coef_scale_p_list
|> Array.concat
in

23
Basis/TwoElectronRRVectorized.ml
View File

@ -6,8 +6,9 @@ module Am = AngularMomentum
module Co = Coordinate
module Cs = ContractedShell
module Csp = ContractedShellPair
module Sp = ShellPair
module Po = Powers
module Psp = PrimitiveShellPair
module Ps = PrimitiveShell
exception NullQuartet
exception Found
@ -629,9 +630,9 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
begin
try
let expo_inv_p =
Vec.init np (fun ab -> sp.(ab-1).Sp.expo_inv)
Vec.init np (fun ab -> Psp.expo_inv sp.(ab-1))
and expo_inv_q =
Vec.init nq (fun cd -> sq.(cd-1).Sp.expo_inv)
Vec.init nq (fun cd -> Psp.expo_inv sq.(cd-1))
in
let coef =
@ -652,7 +653,7 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
in
let center_pq =
Co.(sp.(i-1).Sp.center |- sq.(j-1).Sp.center)
Co.(Psp.center sp.(i-1) |- Psp.center sq.(j-1))
in
let norm_pq_sq =
Co.dot center_pq center_pq
@ -677,15 +678,15 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
in
let expo_inv_p =
Array.map (fun shell_ab -> shell_ab.Sp.expo_inv) sp
Array.map (fun shell_ab -> Psp.expo_inv shell_ab) sp
and expo_inv_q =
Array.map (fun shell_cd -> shell_cd.Sp.expo_inv) sq
Array.map (fun shell_cd -> Psp.expo_inv shell_cd) sq
in
let expo_b =
Array.map (fun shell_ab -> (Cs.expo shell_b).(shell_ab.Sp.j)) sp
Array.map (fun shell_ab -> Ps.expo (Psp.shell_b shell_ab) ) sp
and expo_d =
Array.map (fun shell_cd -> (Cs.expo shell_d).(shell_cd.Sp.j)) sq
Array.map (fun shell_cd -> Ps.expo (Psp.shell_b shell_cd) ) sq
in
let norm_coef_scale_p = Csp.norm_coef_scale shell_p in
@ -698,7 +699,7 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
let shell_cd = sq.(cd)
in
let cpq =
Co.(shell_ab.Sp.center |- shell_cd.Sp.center)
Co.(Psp.center shell_ab |- Psp.center shell_cd)
in
match xyz with
| 0 -> Co.get X cpq;
@ -718,7 +719,7 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
Array.init np (fun ab ->
let shell_ab = sp.(ab) in
let cpa =
Co.(shell_ab.Sp.center |- Cs.center shell_a)
Co.(Psp.center shell_ab |- Cs.center shell_a)
in
match xyz with
| 0 -> Co.(get X cpa);
@ -737,7 +738,7 @@ let contracted_class_shell_pairs ~zero_m ?schwartz_p ?schwartz_q shell_p shell_q
Array.init nq (fun cd ->
let shell_cd = sq.(cd) in
let cqc =
Co.(shell_cd.Sp.center |- Cs.center shell_c)
Co.(Psp.center shell_cd |- Cs.center shell_c)
in
match xyz with
| 0 -> Co.(get X cqc);