Merge lp:~albertog/siesta/psml-chlocal into lp:siesta/psml-support

Proposed by Alberto Garcia
Status: Merged
Merged at revision: 549
Proposed branch: lp:~albertog/siesta/psml-chlocal
Merge into: lp:siesta/psml-support
Diff against target: 7877 lines (+6555/-916)
31 files modified
Pseudo/vnl-operator/psop.f90 (+4/-1)
Src/Makefile (+4/-3)
Src/atom.F (+315/-75)
Src/hamann.f90 (+245/-0)
Src/ncps/src/m_ncps_reader.f (+2/-0)
Src/psoplib/src/flib_spline.f90 (+0/-257)
Src/psoplib/src/m_interpol.F90 (+0/-189)
Src/psoplib/src/m_localgen.f (+7/-304)
Src/psoplib/src/m_psop.f90 (+1/-1)
Src/psoplib/src/makefile (+1/-2)
Tests/Pseudos/O.tm2-siesta-vnl.psml (+3212/-0)
Tests/Pseudos/O.tm2.psml (+2677/-0)
Tests/Pseudos/Si.soft-siesta-vnl.psml (+4/-3)
Tests/Pseudos/Si.tm2.nrl.vnl.psml (+4/-3)
Tests/fe-psml/fe-psml.pseudos (+1/-1)
Tests/fe-psml/makefile (+1/-1)
Tests/h2o-psml/h2o-psml.fdf (+24/-0)
Tests/h2o-psml/h2o-psml.pseudos (+1/-0)
Tests/h2o-psml/makefile (+6/-0)
Tests/si64-psml-full/makefile (+1/-1)
Tests/si64-psml-full/si64-psml-full.pseudos (+1/-1)
Tests/si64-psml-sl/makefile (+1/-1)
Tests/si64-psml-sl/si64-psml-sl.pseudos (+1/-1)
Tests/si64-soft-psml-full/makefile (+1/-1)
Tests/si64-soft-psml-full/si64-soft-psml-full.pseudos (+1/-2)
Tests/si64-soft/makefile (+1/-1)
Tests/si64-soft/si64-soft.pseudos (+1/-1)
Tests/test.mk (+5/-3)
Tests/test.psml.mk (+0/-46)
Tests/test_tddft.mk (+29/-17)
version.info (+4/-1)
To merge this branch: bzr merge lp:~albertog/siesta/psml-chlocal
Reviewer Review Type Date Requested Status
Javier Junquera Approve
Review via email: mp+317296@code.launchpad.net

Description of the change

New methods to get chlocal from PSML data. Test.mk update

* New methods and heuristics for chlocal handling

If the PSML file contains a 'local-charge' element, the data is obtained
using the libPSML function 'ps_LocalCharge_Value'. The cutoff for the
internal linear tables is estimated or obtained directly from an
annotation if present.

Since 'psop' writes a 'local-charge' element and (now) inserts the chlocal
cutoff annotation in 'local-potential', the chlocal data obtained from
a PSML file of ATOM/psop lineage is essentially identical to that produced
by a run of Siesta starting from semilocal potentials.

When the 'local-charge' element is not present, chlocal is obtained by
the calculation of the laplacian of Vlocal by finite differences,
using a routine by Don Hamann, and subsequent interpolation. The
chlocal cutoff is obtained by default as the point at which the tail
of Vlocal adopts the Coulomb form within a tolerance. A number of fdf
parameters (with prefix psml.chlocal) control the whole procedure, but
their default values should be appropriate for most cases (see the
code for more details). Minor numerical differences (coming from Ena)
from previous versions are to be expected.

(The code now uses the same tolerance (1.0e-5) for the Coulomb check
when printing the 'r*V+2*Z' cutoff)

* Streamlined pseudo file handling in test.mk

When an item in the name.pseudos file contains the extension .psf or
.psml, it is taken directly as a file name in
Tests/Pseudos. Otherwise, for backward compatibility, the .psf
extension is added.

* Updated test files for PSML runs (new psop version 1.0.1)
  and added 'h2o-psml' test

* Print uuid of the PSML file at reading time in Siesta

* Psop now generates an annotation for the local-potential
  element which stores the chlocal cutoff.

  Unpacking the annotation is the preferred method to extract
  chlocal from a psop-generated PSML file.

* The "chlocal-from-vlocal" functionality has been removed
  from psoplib.

To post a comment you must log in.
Revision history for this message
Alberto Garcia (albertog) wrote :

Javier,

You might want to run a test for numerical differences before I merge.

Revision history for this message
Javier Junquera (javier-junquera) wrote :

 I have run trunk-597--psml-548--chlocal-12 on two different systems:

 - Bulk Fe (GGA, non-linear core corrections)
 - Bulk Al (LDA, without non-linear core corrections).

 In three different modes for each system:

 - Reading the psf
 - Reading the PSML but generating the KB projector and local part in Siesta.
 - Reading the PSML, including the KB projector and local part in the PSML file.

 The results were exactly the same as the ones obtained before with the latest version of trunk-psml,
 with only ONE exception:

 Bulk Fe when the PSML includes the KB and the local part in the PSML file.

 Using trunk-psml:

#Reading KB projs from Fe.psml file
#
#PSML: Kleinman-Bylander projectors:
# l= 0 rc= 3.055283 Ekb= 3.387904
# l= 1 rc= 3.172035 Ekb= 1.365322
# l= 2 rc= 2.799300 Ekb=-14.260262
# l= 3 rc= 3.293249 Ekb= -1.655710

 Using trunk-597--psml-548--chlocal-12

Reading KB projs from Fe psml data

PSML: Kleinman-Bylander projectors:
   l= 0 rc= 3.055283 Ekb= 3.387904
   l= 1 rc= 3.172035 Ekb= 1.365322
   l= 2 rc= 2.799300 Ekb=-14.260262
   l= 3 rc= 3.293249 Ekb= -1.655980

 There are small differences in the Ekb for the f-channel that translates in small
 differences in the total energy (of the order, in the worst case, of 30*10^-6 eV).

 Bests,

     Javier

>
> Javier,
>
> You might want to run a test for numerical differences before I merge.
>
> --
> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
> You are requested to review the proposed merge of lp:~albertog/siesta/psml-chlocal into lp:~siesta-pseudos-bases/siesta/trunk-psml.

Revision history for this message
Alberto Garcia (albertog) wrote :

Hola, Javier,

Tus tests dan básicamente los mismos resultados porque has usado los mismos ficheros psml generados
por la versión anterior de psop.

En los de la nueva versión hay un campo nuevo (el cutoff de chlocal) que hace que los resultados
sean prácticamente idénticos entre las ejecuciones “sl only from psml” y “full-nl from psml”.

Para los psmls que vienen de oncvpsp los resultados deberían ser ligeramente diferentes a los anteriores.

Si quieres testear más en este branch puedes hacerlo. Pero cuando termines tienes que “aprobar” el merge
yendo a la página del “merge request” en Launchpad.

 Saludos,

  Alberto

> On 15 Feb 2017, at 18:30, Javier Junquera <email address hidden> wrote:
>
>
> I have run trunk-597--psml-548--chlocal-12 on two different systems:
>
> - Bulk Fe (GGA, non-linear core corrections)
> - Bulk Al (LDA, without non-linear core corrections).
>
> In three different modes for each system:
>
> - Reading the psf
> - Reading the PSML but generating the KB projector and local part in Siesta.
> - Reading the PSML, including the KB projector and local part in the PSML file.
>
> The results were exactly the same as the ones obtained before with the latest version of trunk-psml,
> with only ONE exception:
>
> Bulk Fe when the PSML includes the KB and the local part in the PSML file.
>
> Using trunk-psml:
>
> #Reading KB projs from Fe.psml file
> #
> #PSML: Kleinman-Bylander projectors:
> # l= 0 rc= 3.055283 Ekb= 3.387904
> # l= 1 rc= 3.172035 Ekb= 1.365322
> # l= 2 rc= 2.799300 Ekb=-14.260262
> # l= 3 rc= 3.293249 Ekb= -1.655710
>
>
> Using trunk-597--psml-548--chlocal-12
>
> Reading KB projs from Fe psml data
>
> PSML: Kleinman-Bylander projectors:
> l= 0 rc= 3.055283 Ekb= 3.387904
> l= 1 rc= 3.172035 Ekb= 1.365322
> l= 2 rc= 2.799300 Ekb=-14.260262
> l= 3 rc= 3.293249 Ekb= -1.655980
>
>
> There are small differences in the Ekb for the f-channel that translates in small
> differences in the total energy (of the order, in the worst case, of 30*10^-6 eV).
>
> Bests,
>
> Javier
>
>
>
>>
>> Javier,
>>
>> You might want to run a test for numerical differences before I merge.
>>
>> --
>> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
>> You are requested to review the proposed merge of lp:~albertog/siesta/psml-chlocal into lp:~siesta-pseudos-bases/siesta/trunk-psml.
>
>
> --
> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
> You are the owner of lp:~albertog/siesta/psml-chlocal.

Revision history for this message
Javier Junquera (javier-junquera) wrote :
Download full text (3.3 KiB)

 Efectivamente, con la última versión de trunk-597--psml-548--chlocal-12
 los resultados “sl only from psml” y “full-nl from psml” son idénticos
 si entramos con pseudos generados por ATOM y post procesados con la última versión de psop.

 Lo he chequeado para el Fe y para el Al.

 Los resultados si venimos con pseudos generados por ONCVPSP son ligeramente diferentes
 (corrimiento de las energías ligeramente hacia arriba).

 Paso a aprobar el merge en launchpad.

 Saludos,

    Javier

>
> Hola, Javier,
>
> Tus tests dan básicamente los mismos resultados porque has usado los mismos ficheros psml generados
> por la versión anterior de psop.
>
> En los de la nueva versión hay un campo nuevo (el cutoff de chlocal) que hace que los resultados
> sean prácticamente idénticos entre las ejecuciones “sl only from psml” y “full-nl from psml”.
>
> Para los psmls que vienen de oncvpsp los resultados deberían ser ligeramente diferentes a los anteriores.
>
> Si quieres testear más en este branch puedes hacerlo. Pero cuando termines tienes que “aprobar” el merge
> yendo a la página del “merge request” en Launchpad.
>
> Saludos,
>
> Alberto
>
>
>> On 15 Feb 2017, at 18:30, Javier Junquera <email address hidden> wrote:
>>
>>
>> I have run trunk-597--psml-548--chlocal-12 on two different systems:
>>
>> - Bulk Fe (GGA, non-linear core corrections)
>> - Bulk Al (LDA, without non-linear core corrections).
>>
>> In three different modes for each system:
>>
>> - Reading the psf
>> - Reading the PSML but generating the KB projector and local part in Siesta.
>> - Reading the PSML, including the KB projector and local part in the PSML file.
>>
>> The results were exactly the same as the ones obtained before with the latest version of trunk-psml,
>> with only ONE exception:
>>
>> Bulk Fe when the PSML includes the KB and the local part in the PSML file.
>>
>> Using trunk-psml:
>>
>> #Reading KB projs from Fe.psml file
>> #
>> #PSML: Kleinman-Bylander projectors:
>> # l= 0 rc= 3.055283 Ekb= 3.387904
>> # l= 1 rc= 3.172035 Ekb= 1.365322
>> # l= 2 rc= 2.799300 Ekb=-14.260262
>> # l= 3 rc= 3.293249 Ekb= -1.655710
>>
>>
>> Using trunk-597--psml-548--chlocal-12
>>
>> Reading KB projs from Fe psml data
>>
>> PSML: Kleinman-Bylander projectors:
>> l= 0 rc= 3.055283 Ekb= 3.387904
>> l= 1 rc= 3.172035 Ekb= 1.365322
>> l= 2 rc= 2.799300 Ekb=-14.260262
>> l= 3 rc= 3.293249 Ekb= -1.655980
>>
>>
>> There are small differences in the Ekb for the f-channel that translates in small
>> differences in the total energy (of the order, in the worst case, of 30*10^-6 eV).
>>
>> Bests,
>>
>> Javier
>>
>>
>>
>>>
>>> Javier,
>>>
>>> You might want to run a test for numerical differences before I merge.
>>>
>>> --
>>> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
>>> You are requested to review the proposed merge of lp:~albertog/siesta/psml-chlocal into lp:~siesta-pseudos-bases/siesta/trunk-psml.
>>
>>
>> --
>> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
>> You are the owner of lp:~albertog/siesta/psml-chlocal.
>
>
> --
> https://code....

Read more...

Revision history for this message
Javier Junquera (javier-junquera) wrote :
Download full text (3.1 KiB)

Efectivamente, con la última versión de trunk-597--psml-548--chlocal-12
los resultados “sl only from psml” y “full-nl from psml” son idénticos
si entramos con pseudos generados por ATOM y post procesados con la última versión de psop.

Lo he chequeado para el Fe y para el Al.

Los resultados si venimos con pseudos generados por ONCVPSP son ligeramente diferentes
(corrimiento de las energías ligeramente hacia arriba).

Paso a aprobar el merge en launchpad.

Saludos,

   Javier

> Hola, Javier,
>
> Tus tests dan básicamente los mismos resultados porque has usado los mismos
> ficheros psml generados
> por la versión anterior de psop.
>
> En los de la nueva versión hay un campo nuevo (el cutoff de chlocal) que hace
> que los resultados
> sean prácticamente idénticos entre las ejecuciones “sl only from psml” y
> “full-nl from psml”.
>
> Para los psmls que vienen de oncvpsp los resultados deberían ser ligeramente
> diferentes a los anteriores.
>
> Si quieres testear más en este branch puedes hacerlo. Pero cuando termines
> tienes que “aprobar” el merge
> yendo a la página del “merge request” en Launchpad.
>
> Saludos,
>
> Alberto
>
>
> > On 15 Feb 2017, at 18:30, Javier Junquera <email address hidden> wrote:
> >
> >
> > I have run trunk-597--psml-548--chlocal-12 on two different systems:
> >
> > - Bulk Fe (GGA, non-linear core corrections)
> > - Bulk Al (LDA, without non-linear core corrections).
> >
> > In three different modes for each system:
> >
> > - Reading the psf
> > - Reading the PSML but generating the KB projector and local part in Siesta.
> > - Reading the PSML, including the KB projector and local part in the PSML
> file.
> >
> > The results were exactly the same as the ones obtained before with the
> latest version of trunk-psml,
> > with only ONE exception:
> >
> > Bulk Fe when the PSML includes the KB and the local part in the PSML file.
> >
> > Using trunk-psml:
> >
> > #Reading KB projs from Fe.psml file
> > #
> > #PSML: Kleinman-Bylander projectors:
> > # l= 0 rc= 3.055283 Ekb= 3.387904
> > # l= 1 rc= 3.172035 Ekb= 1.365322
> > # l= 2 rc= 2.799300 Ekb=-14.260262
> > # l= 3 rc= 3.293249 Ekb= -1.655710
> >
> >
> > Using trunk-597--psml-548--chlocal-12
> >
> > Reading KB projs from Fe psml data
> >
> > PSML: Kleinman-Bylander projectors:
> > l= 0 rc= 3.055283 Ekb= 3.387904
> > l= 1 rc= 3.172035 Ekb= 1.365322
> > l= 2 rc= 2.799300 Ekb=-14.260262
> > l= 3 rc= 3.293249 Ekb= -1.655980
> >
> >
> > There are small differences in the Ekb for the f-channel that translates in
> small
> > differences in the total energy (of the order, in the worst case, of
> 30*10^-6 eV).
> >
> > Bests,
> >
> > Javier
> >
> >
> >
> >>
> >> Javier,
> >>
> >> You might want to run a test for numerical differences before I merge.
> >>
> >> --
> >> https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
> >> You are requested to review the proposed merge of lp:~albertog/siesta/psml-
> chlocal into lp:~siesta-pseudos-bases/siesta/trunk-psml.
> >
> >
> > --
> > https://code.launchpad.net/~albertog/siesta/psml-chlocal/+merge/317296
> > You are the owner of lp:~albertog/sie...

Read more...

review: Approve

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1=== modified file 'Pseudo/vnl-operator/psop.f90'
2--- Pseudo/vnl-operator/psop.f90 2017-01-17 16:47:45 +0000
3+++ Pseudo/vnl-operator/psop.f90 2017-02-15 10:54:34 +0000
4@@ -53,7 +53,7 @@
5 implicit none
6
7 character(len=*), parameter :: PSML_VERSION = "1.0"
8- character(len=*), parameter :: PSML_CREATOR = "psop-1.0"
9+ character(len=*), parameter :: PSML_CREATOR = "psop-1.01"
10
11 integer, parameter :: dp = selected_real_kind(10,100)
12
13@@ -562,6 +562,9 @@
14 call xml_NewElement(xf,"tmp-wrapper")
15 call xml_NewElement(xf,"local-potential")
16 call my_add_attribute(xf,"type",trim(method_used))
17+ call xml_NewElement(xf,"annotation")
18+ call my_add_attribute(xf,"chlocal-cutoff",str(rchloc))
19+ call xml_EndElement(xf,"annotation")
20 call xml_NewElement(xf,"grid")
21
22 if (use_linear_grid) then
23
24=== modified file 'Src/Makefile'
25--- Src/Makefile 2017-01-26 11:29:17 +0000
26+++ Src/Makefile 2017-02-15 10:54:34 +0000
27@@ -191,7 +191,7 @@
28 m_initwf.o wavefunctions.o \
29 m_evolve.o evolk.o evolg.o changebasis.o m_iotddft.o \
30 m_matdiag.o m_matswinvers.o \
31- semicore_info_froyen.o
32+ semicore_info_froyen.o hamann.o
33
34 # Mixing algorithms
35 OBJS += m_mixing.o m_mixing_scf.o
36@@ -539,8 +539,8 @@
37 atm_types.o: precision.o radial.o
38 atmfuncs.o: atm_types.o precision.o radial.o spher_harm.o sys.o
39 atom.o: atmparams.o atom_options.o basis_specs.o basis_types.o bsc_xcmod.o
40-atom.o: interpolation.o m_filter.o old_atmfuncs.o periodic_table.o precision.o
41-atom.o: sys.o
42+atom.o: hamann.o interpolation.o m_filter.o old_atmfuncs.o periodic_table.o
43+atom.o: precision.o sys.o
44 atom_graph.o: alloc.o atm_types.o atmfuncs.o class_OrbitalDistribution.o
45 atom_graph.o: class_SpData1D.o class_SpData2D.o class_SpData2D.o
46 atom_graph.o: class_Sparsity.o intrinsic_missing.o ldau_specs.o mneighb.o
47@@ -1430,6 +1430,7 @@
48 m_get_kpoints_scale.o: get_kpoints_scale.o
49 m_gradient.o: gradient.o
50 m_grdsam.o: grdsam.o
51+m_hamann.o: hamann.o
52 m_hsparse.o: hsparse.o
53 m_intramol_pressure.o: remove_intramol_pressure.o
54 m_ioxv.o: ioxv.o
55
56=== modified file 'Src/atom.F'
57--- Src/atom.F 2017-01-17 16:47:45 +0000
58+++ Src/atom.F 2017-02-15 10:54:34 +0000
59@@ -107,7 +107,6 @@
60 . split_norm,filtercut_in,basp)
61
62 use m_psop, only: compute_vlocal_chlocal
63- use m_psop, only: chlocal_from_vlocal
64 use m_psop, only: kbgen
65 use m_psml, only: ps_HasLocalPotential
66 use m_psml, only: ps_HasProjectors
67@@ -535,39 +534,16 @@
68 endif
69
70 if (use_psml_vlocal) then
71- call get_psml_vlocal(basp%psml_handle,atm_label,
72- $ rofi,nrval,Zval,vlocal,
73- $ vlocal_type,
74- $ got_chlocal,chlocal,nchloc)
75+ call get_psml_vlocal_chlocal(basp%psml_handle,is,
76+ $ rofi,drdi,nrval,Zval,vlocal,
77+ $ chlocal,nchloc)
78
79 if (write_ion_plot_files) then
80 call file_out(nrval,rofi,vlocal,
81 . trim(global_label)//".Vlocal_psml")
82- endif
83-
84- if (got_chlocal) then
85- ! We got the local charge from the psml file
86- else
87-
88- ! We need to reconstruct the chlocal from vlocal
89- ! This is not completely trivial
90-
91- use_charge_cutoff = .true.
92- quadratic = .true. ! shape of chlocal near the origin
93- ! we do not really know, except that
94- ! in the case of a "siesta-fit"
95- ! chlocal is not quadratic, and
96- ! Siesta uses the "vlocal" cutoff.
97-
98- if (trim(vlocal_type)=="siesta-fit") then
99- use_charge_cutoff = .false.
100- quadratic = .false.
101- endif
102-
103- call chlocal_from_vlocal(rofi, vlocal, drdi,
104- $ s, a, nrval,
105- $ Zval, nchloc, chlocal,
106- $ use_charge_cutoff,quadratic)
107+ call file_out(nrval,rofi,chlocal,
108+ . trim(global_label)//".Chlocal_psml")
109+ endif
110 !
111 ! Sanity check: re-compute Vlocal from chlocal
112 ! using the standard routine, and output to
113@@ -582,9 +558,6 @@
114 . trim(global_label)//".Vlocal_from_chlocal")
115 endif
116
117- endif ! got_chlocal
118-
119- !
120 else
121
122 force_chlocal_method =
123@@ -606,23 +579,18 @@
124 $ fit_3derivs,
125 $ use_charge_cutoff,
126 $ vlocal_type)
127+
128+
129 endif
130
131 !
132 ! Save local-pseudopotential charge
133 !
134- Rchloc = rofi(nchloc)
135- ! This comment is misleading. rchloc is the
136- ! working cutoff for the place at which vlocal
137- ! gets the Coulomb tail, at least when using the
138- ! "vlocal as fit" routine. rchloc has the stated meaning
139- ! only if vlocal is generated from the localized
140- ! charge distribution
141-
142- write(6,'(2a,f10.5)') 'atom: Maximum radius for' ,
143- . ' 4*pi*r*r*local-pseudopot. charge ',Rchloc
144-
145- call comlocal(is,a,b,rofi,chlocal,nchloc,flting)
146+ Rchloc = rofi(nchloc)
147+ write(6,'(2a,f10.5)') 'atom: Maximum radius for' ,
148+ . 'chloc: ',Rchloc
149+
150+ call comlocal(is,a,b,rofi,chlocal,nchloc,flting)
151 !
152 !------------------------------------------------------------------
153 !new: Save vlocal (actually r*vlocal +2*Zval)
154@@ -634,7 +602,7 @@
155 ! Actually, eps=1.0e-5 in the "vlocal as fit" routine...
156 !
157 do ir = nrval,2,-1
158- if (abs(red_vlocal(ir)) .gt. 1.0e-4_dp) then
159+ if (abs(red_vlocal(ir)) .gt. 1.0e-5_dp) then
160 nvlocal = ir + 1
161 exit
162 endif
163@@ -694,7 +662,6 @@
164 nchloc = 0
165 call comlocal(is,a,b,rofi,chlocal,nchloc,flting)
166 nvlocal = 0
167- call comlocal(is,a,b,rofi,red_vlocal,nvlocal,flting)
168 call com_vlocal(is,a,b,rofi,red_vlocal,nvlocal,
169 . zval,flting)
170 !
171@@ -2477,24 +2444,31 @@
172
173 end subroutine read_vps
174 !
175- subroutine get_psml_vlocal(ps,atm_label,rofi,nrval,Zval,
176- $ vlocal,vlocal_type,
177- $ got_chlocal,chlocal,nchloc)
178+ subroutine get_psml_vlocal_chlocal(ps,is,rofi,drdi,nrval,
179+ $ Zval,vlocal,chlocal,nchloc)
180+
181+ !! Extracts Vlocal from PSML file and computes Chlocal
182+ !! by computing its Laplacian
183
184 use m_psml, psml_t => ps_t
185
186 type(psml_t), intent(in) :: ps ! psml handle
187- character(len=*), intent(in) :: atm_label
188+ integer, intent(in) :: is
189 real(dp), intent(in) :: rofi(:)
190+ real(dp), intent(in) :: drdi(:)
191 integer, intent(in) :: nrval
192 real(dp), intent(in) :: Zval
193 real(dp), intent(out) :: vlocal(:)
194- character(len=*), intent(out) :: vlocal_type
195- logical, intent(out) :: got_chlocal
196 real(dp), intent(out) :: chlocal(:)
197 integer, intent(out) :: nchloc
198
199- integer :: ir
200+ integer :: ir, status
201+ character(len=40) :: vlocal_type
202+ logical :: got_chlocal
203+ character(len=50) :: value
204+ real(dp) :: rchloc
205+
206+ type(ps_annotation_t) :: annotation
207
208 if (abs(ps_ZPseudo(ps)-Zval) > 1.e-8_dp) then
209 call die("Zval mismatch in psml file")
210@@ -2510,29 +2484,295 @@
211 enddo
212
213 vlocal_type = ps_LocalPotential_Type(ps)
214- write(6,"(a)") "Got Vlocal (" // trim(vlocal_type) //
215- $ ") from " // trim(atm_label)//" psml data"
216-
217+ write(6,"(a)") "Got Vlocal (" // trim(vlocal_type)
218+ $ // ") from psml data"
219+
220+! Extraction of chlocal
221+
222+ ! Try to get chlocal from the PSML file
223+
224 got_chlocal = .false.
225 if (ps_HasLocalCharge(ps)) then
226- write(6,"(a)") "Got Chlocal from " //
227- $ trim(atm_label)//" psml data"
228- got_chlocal = .true.
229- do ir = 1, nrval
230- chlocal(ir) = ps_LocalCharge_Value(ps,rofi(ir))
231- enddo
232- ! Compute nchloc, assuming proper generation of local charge,
233- ! during which the tail is set to zero.
234- do ir = nrval, 1, -1
235- if (abs(chlocal(ir)) > 0.0_dp) exit
236- enddo
237- nchloc = ir + 1
238- write(6,"(a,i4,f10.6)") "nchloc from abs(chloc)>0: ",
239- $ nchloc, rofi(nchloc)
240- endif
241-
242- end subroutine get_psml_vlocal
243-
244+
245+ annotation = ps_GetAnnotation(ps,"local-potential")
246+ call get_annotation_value(annotation,"chlocal-cutoff",
247+ $ value,status)
248+
249+ if (status == 0) then
250+
251+ write(6,"(a)") "Got Chlocal from " //
252+ $ " psml data"
253+
254+ do ir = 1, nrval
255+ chlocal(ir) = ps_LocalCharge_Value(ps,rofi(ir))
256+ enddo
257+ ! Get the chlocal cutoff from PSML file
258+ read(value,*) rchloc
259+
260+ do ir = 1, nrval
261+ if (rofi(ir) > (rchloc + 1.0e-6_dp)) exit
262+ enddo
263+ nchloc = ir - 1
264+ write(6,*) "rchloc from annotation, nchloc: ",
265+ $ rchloc, nchloc
266+
267+ got_chlocal = .true.
268+
269+ elseif (fdf_get("psml.chlocal.trust.tail",.true.)) then
270+
271+ ! Compute nchloc, assuming proper generation of local charge,
272+ ! during which the tail is set to zero.
273+ ! NOTE: The interpolator will return non-zero values for points
274+ ! beyond the cutoff, particularly if using high orders of interpolation
275+
276+ ! Possibly use a lower order of interpolation here,
277+ ! at least near the tail (to be implemented)
278+ do ir = 1, nrval
279+ chlocal(ir) = ps_LocalCharge_Value(ps,rofi(ir))
280+ enddo
281+ do ir = nrval, 1, -1
282+ if (abs(chlocal(ir)) > 0.0_dp) exit
283+ enddo
284+ nchloc = ir + 1
285+ write(6,"(a)") "Got Chlocal from " //
286+ $ " psml data"
287+ write(6,"(a,i4,f10.6)") "nchloc from abs(chloc)>0: ",
288+ $ nchloc, rofi(nchloc)
289+ got_chlocal = .true.
290+
291+ endif
292+
293+ endif
294+
295+ ! If we could not get the data from the PSML file, we
296+ ! have to construct chlocal from the local potential
297+
298+ if (.not. got_chlocal) then
299+ call chlocal_from_vlocal(ps,nrval,rofi,drdi,vlocal,Zval,
300+ $ chlocal,nchloc)
301+ endif
302+
303+ end subroutine get_psml_vlocal_chlocal
304+
305+ subroutine chlocal_from_vlocal(ps,nrval,rofi,drdi,vlocal,Zval,
306+ $ chlocal,nchloc)
307+
308+ ! This routine computes the "local charge density" chlocal
309+ ! which would produce Vlocal electrostatically
310+ ! Use Poisson's equation:
311+ !
312+ ! Laplacian(Vlocal) = - 4 pi * chlocal (Hartree units)
313+
314+ use m_hamann, only: derivs, dpnint
315+ use m_psml, psml_t => ps_t
316+
317+ type(psml_t), intent(in) :: ps ! psml handle
318+ real(dp), intent(in) :: rofi(:)
319+ real(dp), intent(in) :: drdi(:)
320+ integer, intent(in) :: nrval
321+ real(dp), intent(in) :: Zval
322+ real(dp), intent(in) :: vlocal(:)
323+ real(dp), intent(out) :: chlocal(:)
324+ integer, intent(out) :: nchloc
325+
326+ integer :: ir, i, mmax, n0, npts, nrange
327+ integer :: nchloc_charge, nchloc_vlocal
328+ integer :: poly_order_rlin, poly_order_rofi
329+ character(len=40) :: vlocal_type
330+
331+ real(dp) :: qtot, r, g2, charge, al, rr1, delta
332+ real(dp) :: rcut_chloc, exp_al, r0
333+ real(dp), dimension(:), allocatable :: vl, vlp, vlpp, vllap
334+ real(dp), dimension(:), allocatable :: rr, ch, rlin, chlocal_rlin
335+ real(dp), parameter :: pi = 3.141592653589793_dp
336+
337+ real(dp), parameter :: eps_vlocal=1.0e-5_dp
338+ real(dp), parameter :: eps_charge=1.0e-4_dp ! To match
339+
340+ logical :: use_charge_cutoff
341+
342+ ! Heuristics for parameters
343+
344+ vlocal_type = ps_LocalPotential_Type(ps)
345+ select case (trim(vlocal_type))
346+ case ("siesta-fit")
347+ use_charge_cutoff = fdf_boolean(
348+ $ "use-charge-cutoff-for-vlocal-fit",.false.)
349+ !
350+ r0 = fdf_get("psml.chlocal.build.r0",0.004_dp)
351+ delta = fdf_get("psml.chlocal.build.delta",0.005_dp)
352+ poly_order_rlin =
353+ $ fdf_get("psml.chlocal.build.poly_order_rlin",4)
354+ case ("siesta-charge")
355+ use_charge_cutoff = .true.
356+ !
357+ r0 = fdf_get("psml.chlocal.build.r0",0.009_dp)
358+ delta = fdf_get("psml.chlocal.build.delta",0.01_dp)
359+ poly_order_rlin =
360+ $ fdf_get("psml.chlocal.build.poly_order_rlin",3)
361+ case default
362+
363+ ! PSML files produced by other codes
364+ r0 = fdf_get("psml.chlocal.build.r0",0.004_dp)
365+ delta = fdf_get("psml.chlocal.build.delta",0.005_dp)
366+ poly_order_rlin =
367+ $ fdf_get("psml.chlocal.build.poly_order_rlin",4)
368+ use_charge_cutoff =
369+ $ fdf_boolean("use-charge-cutoff-for-vlocal-fit",.false.)
370+ end select
371+
372+
373+! Set up reference grid in the manner of Don Hamann
374+! so that we can use his 'derivs' routine below
375+! Any grid would do, as long as the proper drdi and
376+! d^2r/di^2 is used.
377+
378+ ! al = log(1.012_dp) ! spacing factor
379+ !rr1 = 0.0005_dp / Z ! first point (r(1))
380+ ! make them larger
381+ rr1 = fdf_get("psml.chlocal.build.rr1",0.001_dp)
382+ exp_al = fdf_get("psml.chlocal.build.exp_al",1.012_dp)
383+ al = log(exp_al) ! spacing factor
384+ mmax = log(rofi(nrval)/rr1)/al ! range of points
385+
386+ ! First point to keep
387+ if (r0 <= rr1) call die("psml: chlocal build: r0 < rr1")
388+
389+ allocate(rr(mmax),vl(mmax))
390+ do i = 1, mmax
391+ rr(i) = rr1 * exp(al*(i-1))
392+ vl(i) = 2.0_dp * ps_LocalPotential_Value(ps,rr(i))
393+ enddo
394+
395+ allocate(vlp(mmax),vlpp(mmax),vllap(mmax))
396+ allocate(ch(mmax))
397+
398+ ! Compute laplacian by finite differences
399+ call derivs(mmax,vl,al,0.0_dp,rr,vlp,vlpp,vllap)
400+ ch(:) = - vllap(:) / (8.0_dp*pi) ! Rydberg units
401+
402+ call file_out(mmax,rr,ch,
403+ . trim(global_label)//".Chlocal_rr_psml")
404+
405+
406+ ! Now interpolate first into linear grid, using
407+ ! the points from r0 onwards
408+ n0 = log(r0/rr1)/al ! range of points
409+ npts= 2 + rofi(nrval)/delta ! overkill. will have to reduce range
410+ allocate(rlin(npts))
411+ do i = 1, npts
412+ rlin(i) = delta*(i-1)
413+ enddo
414+
415+ allocate(chlocal_rlin(npts))
416+ chlocal_rlin(:) = 0.0_dp
417+ ! to avoid out-of-range errors in interp routine
418+ nrange = log(rr(mmax)/rr1)/al - 2
419+ call dpnint(rr(n0),ch(n0),mmax-n0+1,rlin,chlocal_rlin,
420+ $ nrange,poly_order=poly_order_rlin)
421+ call file_out(npts,rlin,chlocal_rlin,
422+ . trim(global_label)//".Chlocal_rlin_psml")
423+
424+ ! Now interpolate into Siesta's grid
425+ chlocal(:) = 0.0_dp
426+ poly_order_rofi =
427+ $ fdf_get("psml.chlocal.build.poly_order_rofi",7)
428+ call dpnint(rlin,chlocal_rlin,npts,rofi,chlocal,
429+ $ nrval-20,poly_order=poly_order_rofi)
430+
431+ call file_out(nrval,rofi,chlocal,
432+ . trim(global_label)//".Chlocal_rofi_psml")
433+
434+ deallocate(rlin, chlocal_rlin)
435+ deallocate(rr, vl, ch, vlp, vlpp, vllap)
436+
437+ ! Compute chlocal cutoff
438+ ! This section tries to keep compatibility with Siesta's behavior
439+ ! for its own vlocal/chlocal
440+
441+
442+ if (use_charge_cutoff) then
443+ ! Psop's vlocals for the 'siesta-charge' option
444+ ! are cut off at 1.1*rchloc... so it is hopeless
445+ ! to try to reproduce exactly the behavior here.
446+ ! It would be better to dampen off vlocal in all cases
447+
448+ qtot = 0.0_dp
449+ do ir=1,nrval
450+ r = rofi(ir)
451+ charge = 4*pi*r*r*chlocal(ir)*drdi(ir)
452+ qtot = qtot - charge ! minus sign for cosmetics in output
453+ enddo
454+ !write(6,*) "qtot in whole range of chlocal: ", qtot
455+
456+ ! The "charge" option for cutoff is
457+ ! based on "smallness" of the charge itself
458+ do ir = nrval, 1, -1
459+ r = rofi(ir)
460+ chlocal(ir) = zval*chlocal(ir)/qtot
461+ charge = 4*pi*r*r*chlocal(ir)
462+ if (abs(charge) .gt. eps_charge) then
463+ nchloc_charge = ir + 1
464+ exit
465+ endif
466+ enddo
467+
468+ rcut_chloc = rofi(nchloc_charge)
469+ write(6,"(a,f10.6)") "Choosing charge chloc cutoff:",
470+ $ rcut_chloc
471+ nchloc = nchloc_charge
472+
473+ else
474+
475+! "vlocal" option for cutoff
476+! This sets the cutoff point for chlocal
477+! as that in which Vlocal is close to
478+! -Z/r (see test inside the loop).
479+
480+ ! This test is not very robust. If Vlocal crosses Z/r
481+ ! at some point, the loop will end too soon.
482+ ! do ir=1,nrval-1
483+ ! g2=vlocal(ir)*rofi(ir)
484+ ! if (abs(g2+2.0_dp*zval).lt.eps_vlocal) exit
485+ ! enddo
486+ ! "nchloc-1" is used below as the effective point...
487+ ! This is historical usage.
488+ ! nchloc_vlocal = ir
489+
490+ ! This is more robust
491+ do ir=nrval,1,-1
492+ g2=vlocal(ir)*rofi(ir)
493+ if (abs(g2+2.0_dp*zval).ge.eps_vlocal) exit
494+ enddo
495+ ! "nchloc-1" is used below as the effective point...
496+ ! This is historical usage.
497+ nchloc_vlocal = ir + 1
498+
499+ rcut_chloc = rofi(nchloc_vlocal)
500+ write(6,"(a,f10.6)") "Choosing vlocal chloc cutoff:",
501+ $ rcut_chloc
502+ nchloc = nchloc_vlocal
503+
504+ ! Note the different normalization here
505+ ! Compute qtot only up to nchloc
506+ qtot = 0.0_dp
507+ do ir=1,nchloc-1
508+ r = rofi(ir)
509+ charge = 4*pi*r*r*chlocal(ir)*drdi(ir)
510+ qtot = qtot - charge
511+ enddo
512+ write(6,"(a,f14.8)") "qtot up to nchloc:", qtot
513+
514+ do ir=1,nchloc-1
515+ chlocal(ir)=zval*chlocal(ir)/qtot
516+ enddo
517+ do ir=nchloc,nrval
518+ chlocal(ir)=0.0_dp
519+ enddo
520+
521+ endif
522+ end subroutine chlocal_from_vlocal
523+
524 subroutine get_psml_kbprojs(is,ps,atm_label,a,b,rofi,nrval,Zval,
525 $ lmxkb_true,nkb)
526 use m_psml, psml_t => ps_t
527
528=== added file 'Src/hamann.f90'
529--- Src/hamann.f90 1970-01-01 00:00:00 +0000
530+++ Src/hamann.f90 2017-02-15 10:54:34 +0000
531@@ -0,0 +1,245 @@
532+module m_hamann
533+ public :: derivs, dpnint
534+ private
535+
536+ CONTAINS
537+!
538+! Copyright (c) 1989-2016 by D. R. Hamann, Mat-Sim Research LLC and Rutgers
539+! University
540+!
541+!
542+! This program is free software: you can redistribute it and/or modify
543+! it under the terms of the GNU General Public License as published by
544+! the Free Software Foundation, either version 3 of the License, or
545+! (at your option) any later version.
546+!
547+! This program is distributed in the hope that it will be useful,
548+! but WITHOUT ANY WARRANTY; without even the implied warranty of
549+! MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
550+! GNU General Public License for more details.
551+!
552+! You should have received a copy of the GNU General Public License
553+! along with this program. If not, see <http://www.gnu.org/licenses/>.
554+
555+! Routines taken from Don Hamann's oncvpsp package
556+
557+subroutine derivs(mmax, f, a, b, rr, dpr, dppr, dlap)
558+
559+ ! Computes the first and second derivatives,
560+ ! and the laplacian 1/r d^2(rf)/dr^2 of a
561+ ! function f defined on a log grid of the
562+ ! form r(i) = b * [ exp( a*(i-1) ) - 1]
563+ !
564+ ! for which dr/di = a(r+b)
565+ !
566+ ! This routine will work also for Hamann-style
567+ ! grids of the form
568+
569+ ! r(i) = r1 * exp( a*(i-1) )
570+ !
571+ ! if b is formally set to zero, since dr/di = a*r
572+ ! in this case (even though r1 (=b) is not zero, obviously)
573+
574+ ! Adapted from a subroutine by Don Hamann
575+ ! in the oncvpsp package.
576+
577+ implicit none
578+ integer, parameter :: dp=kind(1.0d0)
579+
580+ integer, intent(in) :: mmax
581+ real(dp), intent(in) :: a, b
582+ real(dp), intent(in) :: rr(mmax)
583+ real(dp), intent(in) :: f(mmax)
584+ real(dp), intent(out) :: dpr(mmax), dppr(mmax), dlap(mmax)
585+
586+! local vars
587+ integer :: i
588+ real(dp) :: drdi
589+ real(dp) :: dpn(mmax), dppn(mmax)
590+ real(dp) :: c11,c12,c13,c14,c15
591+ real(dp) :: c21,c22,c23,c24,c25
592+
593+ c11 = 2.0d0 / 24.0d0
594+ c12 = -16.0d0 / 24.0d0
595+ c13 = 0.0d0 / 24.0d0
596+ c14 = 16.0d0 / 24.0d0
597+ c15 = -2.0d0 / 24.0d0
598+!
599+ c21 = -1.0d0 / 12.0d0
600+ c22 = 16.0d0 / 12.0d0
601+ c23 = -30.0d0 / 12.0d0
602+ c24 = 16.0d0 / 12.0d0
603+ c25 = -1.0d0 / 12.0d0
604+!
605+! n derivatives of d
606+!
607+ i=1
608+ dpn(i) = -25.d0/12.d0*f(i) +4.d0*f(i+1) -3.d0*f(i+2) &
609+& +4.d0/3.d0*f(i+3) -1.d0/4.d0*f(i+4)
610+ dppn(i) = 15.d0/4.d0*f(i) -77.d0/6.d0*f(i+1) +107.d0/6.d0*f(i+2) &
611+& -13.d0*f(i+3) +61.d0/12.d0*f(i+4) -5.d0/6.d0*f(i+5)
612+ i=2
613+ dpn(i) = -25.d0/12.d0*f(i) +4.d0*f(i+1) -3.d0*f(i+2) &
614+& +4.d0/3.d0*f(i+3) -1.d0/4.d0*f(i+4)
615+ dppn(i) = 15.d0/4.d0*f(i) -77.d0/6.d0*f(i+1) +107.d0/6.d0*f(i+2) &
616+& -13.d0*f(i+3) +61.d0/12.d0*f(i+4) -5.d0/6.d0*f(i+5)
617+
618+ do i = 3, mmax - 2
619+ dpn(i) = c11*f(i-2) + c12*f(i-1) + c14*f(i+1) + c15*f(i+2)
620+ dppn(i) = c21*f(i-2) + c22*f(i-1) + c23*f(i) + c24*f(i+1) &
621+& +c25*f(i+2)
622+ end do
623+
624+ i=mmax-1
625+ dpn(i) = +25.d0/12.d0*f(i) -4.d0*f(i-1) +3.d0*f(i-2) &
626+& -4.d0/3.d0*f(i-3) +1.d0/4.d0*f(i-4)
627+ dppn(i) = -15.d0/4.d0*f(i) +77.d0/6.d0*f(i-1) -107.d0/6.d0*f(i-2) &
628+& +13.d0*f(i-3) -61.d0/12.d0*f(i-4) +5.d0/6.d0*f(i-5)
629+ i=mmax
630+ dpn(i) = +25.d0/12.d0*f(i) -4.d0*f(i-1) +3.d0*f(i-2) &
631+& -4.d0/3.d0*f(i-3) +1.d0/4.d0*f(i-4)
632+ dppn(i) = -15.d0/4.d0*f(i) +77.d0/6.d0*f(i-1) -107.d0/6.d0*f(i-2) &
633+& +13.d0*f(i-3) -61.d0/12.d0*f(i-4) +5.d0/6.d0*f(i-5)
634+
635+!
636+! r derivatives of d
637+!
638+ do i = 1, mmax
639+ drdi = a * (rr(i) + b)
640+ dpr(i) = dpn(i) / drdi
641+ dppr(i) = (dppn(i) - a * dpn(i)) / (drdi)**2
642+ dlap(i) = (dppn(i) + a * dpn(i)) / (drdi)**2
643+ end do
644+
645+end subroutine derivs
646+
647+
648+subroutine dpnint(xx, yy, nn, tt, ss, mm, poly_order)
649+
650+! local polynomial interpolation of data yy on nn points xx
651+! giving values ss on mm points tt
652+! npoly sets order of polynomial
653+! xx must be ordered in ascending order
654+! output mm interpolated values ss on points tt
655+
656+ implicit none
657+
658+ integer, parameter :: dp=kind(1.0d0)
659+
660+!Input variables
661+ real(dp) :: xx(*),yy(*),tt(*),ss(*)
662+ integer nn,mm
663+ integer, optional :: poly_order
664+
665+!Local variables
666+ real(dp) :: sum,term,zz
667+ integer ii,imin,imax,iprod,iy,istart,jj,kk
668+ integer npoly
669+
670+! set order of polynomial
671+! integer, parameter :: npoly=7
672+
673+ if (present(poly_order)) then
674+ npoly = poly_order
675+ else
676+ npoly = 7
677+ endif
678+
679+ if(nn<npoly+1) then
680+ write(6,'(/a,i6,a,i4)') 'dpnint: interpolation error, n=', &
681+& nn,'< npoly=',npoly
682+ stop
683+ end if
684+
685+! note: output point 1 is skipped in this version because of special
686+! properties of pp data (ie., log grid)
687+! this point receives special treatment (see below)
688+
689+ ss(1:mm)=0.0d0
690+ imin = 1
691+ do jj = 2, mm
692+ if(tt(jj)<xx(1)) then
693+ write(6,'(/a)') 'dp3int: interpolation error - out of range'
694+ stop
695+ end if
696+ if(tt(jj)>xx(nn)) then
697+ write(6,'(/a)') 'dpnint: interpolation error - out of range'
698+ stop
699+ end if
700+
701+! interval halving search for xx(ii) points bracketing tt(jj)
702+ if(jj>2) then
703+ if(tt(jj)<tt(jj-1)) imin=1
704+ end if
705+ imin = 1
706+ imax = nn
707+ do kk = 1, nn
708+ ii = (imin + imax) / 2
709+ if(tt(jj)>xx(ii)) then
710+ imin = ii
711+ else
712+ imax = ii
713+ end if
714+ if(imax - imin .eq. 1) then
715+ exit
716+ end if
717+ end do
718+
719+
720+ zz=tt(jj)
721+
722+ if(mod(npoly,2)==1) then
723+ istart=imin-npoly/2
724+ else if(zz-xx(imin) < xx(imax)-zz) then
725+ istart=imin-npoly/2
726+ else
727+ istart=imax-npoly/2
728+ end if
729+
730+ istart = min(istart, nn - npoly)
731+ istart = max(istart, 1)
732+
733+ sum=0.0d0
734+ do iy=istart,istart+npoly
735+ if(yy(iy)==0.0d0) cycle
736+ term=yy(iy)
737+ do iprod=istart, istart+npoly
738+ if(iprod==iy) cycle
739+ term=term*(zz-xx(iprod))/(xx(iy)-xx(iprod))
740+ end do
741+ sum=sum+term
742+ end do
743+ ss(jj)=sum
744+
745+! special treatment for the origin
746+! Do order npoly EXTRAPOLATION to the origin using the points inerpolated
747+! on the linear grid rather than the log grid, since this represents an
748+! extrapolation of 1 grid point. Exrapolation from the innermost points
749+! of the log grid would represent a huge extrapolation, and round-off
750+! error would not be acceptable If the fitted function is a polynomial
751+! of order npoly or less, this is exact.
752+
753+ if(tt(1)==0.0d0) then
754+
755+ istart=2
756+ zz=0.0d0
757+
758+ sum=0.0d0
759+ do iy=istart,istart+npoly
760+ if(ss(iy)==0.0d0) cycle
761+ term=ss(iy)
762+ do iprod=istart, istart+npoly
763+ if(iprod==iy) cycle
764+ term=term*(zz-tt(iprod))/(tt(iy)-tt(iprod))
765+ end do
766+ sum=sum+term
767+ end do
768+ ss(1)=sum
769+
770+ end if
771+
772+ end do
773+ return
774+ end subroutine dpnint
775+
776+end module m_hamann
777
778=== modified file 'Src/ncps/src/m_ncps_reader.f'
779--- Src/ncps/src/m_ncps_reader.f 2015-11-25 17:03:59 +0000
780+++ Src/ncps/src/m_ncps_reader.f 2017-02-15 10:54:34 +0000
781@@ -21,6 +21,7 @@
782 use m_ncps_froyen_reader, only: pseudo_reparametrize
783 use m_ncps_writers, only: pseudo_write_formatted
784 use m_psml, only: psml_t => ps_t
785+ use m_psml, only: ps_GetUUID
786
787 character(len=*), intent(in) :: label
788 type(pseudopotential_t) :: p
789@@ -82,6 +83,7 @@
790 . 'Reading pseudopotential from: ', trim(fname)
791 call pseudo_read_psml(fname,p,psml_handle,
792 $ reparametrize,a,b,rmax)
793+ write(6,"(a)") "PSML uuid: " // ps_GetUUID(psml_handle)
794 has_psml_ps = .true.
795 else
796 write(6,'(2a,a)') 'pseudo_read: ERROR: ',
797
798=== removed file 'Src/psoplib/src/flib_spline.f90'
799--- Src/psoplib/src/flib_spline.f90 2015-06-09 13:34:25 +0000
800+++ Src/psoplib/src/flib_spline.f90 1970-01-01 00:00:00 +0000
801@@ -1,257 +0,0 @@
802-module flib_spline
803-!
804-! Spline interpolation, based on code in "Numerical Recipes"
805-!
806-
807-implicit none
808-
809-integer, parameter, private :: dp = selected_real_kind(14,100)
810-integer, parameter, private :: sp = selected_real_kind(5,10)
811-
812-private
813-
814-public :: generate_spline
815-interface generate_spline
816- module procedure generate_spline_sp
817- module procedure generate_spline_dp
818-end interface generate_spline
819-
820-public :: evaluate_spline
821-interface evaluate_spline
822- module procedure evaluate_spline_sp
823- module procedure evaluate_spline_dp
824-end interface evaluate_spline
825-
826-
827-private :: generate_spline_sp
828-private :: generate_spline_dp
829-private :: evaluate_spline_sp
830-private :: evaluate_spline_dp
831-
832-CONTAINS !=================
833-
834-SUBROUTINE generate_spline_sp(X,Y,N,Y2,YP1,YPN,stat)
835-!
836-! Given arrays x and y of size n, this routine computes
837-! an array y2 holding information about the second derivative
838-! of the interpolating spline. YP1 and YPN, if present, are the
839-! requested values of the first derivative of the spline at the
840-! end points. If not given, a "natural" spline with zero second
841-! derivative at the extremes is constructed.
842-! The array y2 is needed to evaluate the spline, but it only needs
843-! to be computed once.
844-!
845-integer, intent(in) :: n
846-real(kind=sp), dimension(:), intent(in) :: x, y
847-real(kind=sp), dimension(:), intent(out) :: y2
848-real(kind=sp), intent(in), optional :: yp1, ypn
849-integer, intent(out), optional :: stat
850-
851-real(kind=sp) :: P,QN,SIG,UN
852-INTEGER :: I,K
853-integer :: flag
854-
855-real(kind=sp), parameter :: zero = 0.0_sp, &
856- half = 0.5_sp, &
857- one = 1.0_sp, &
858- two = 2.0_sp, &
859- three= 3.0_sp, &
860- six = 6.0_sp
861-
862-real(kind=sp), dimension(n) :: U ! Automatic array
863-
864-!--------------------------------------------------------
865-! Check that the nodes are different
866-!
867-flag = 0
868-do i =2, n
869- if (x(i) == x(i-1)) then
870- flag = -1
871- if (present(stat)) stat = flag
872- RETURN
873- endif
874-enddo
875-
876-IF (present(YP1)) THEN
877- Y2(1) = -half
878- U(1) = (three/ (X(2)-X(1)))* ((Y(2)-Y(1))/ (X(2)-X(1))-YP1)
879-ELSE
880- Y2(1) = zero
881- U(1) = zero
882-END IF
883-
884-DO I = 2,N - 1
885- SIG = (X(I)-X(I-1))/ (X(I+1)-X(I-1))
886- P = SIG*Y2(I-1) + two
887- Y2(I) = (SIG-one)/P
888- U(I) = ( six * ((Y(I+1)-Y(I))/ (X(I+1)-X(I))- (Y(I)-Y(I-1))/ &
889- (X(I)-X(I-1)))/ (X(I+1)-X(I-1))-SIG*U(I-1))/P
890-enddo
891-IF (present(YPN)) THEN
892- QN = half
893- UN = (three/(X(N)-X(N-1)))* (YPN - (Y(N)-Y(N-1))/ (X(N)-X(N-1)))
894-ELSE
895- QN = zero
896- UN = zero
897-END IF
898-
899-Y2(N) = (UN-QN*U(N-1))/ (QN*Y2(N-1) + one)
900-DO K = N-1 , 1 , -1
901- Y2(K) = Y2(K)*Y2(K+1) + U(K)
902-enddo
903-
904-if (present(stat)) stat = flag
905-
906-end subroutine generate_spline_sp
907-
908-!..............................................
909-SUBROUTINE generate_spline_dp(X,Y,N,Y2,YP1,YPN,stat)
910-!
911-! Given arrays x and y of size n, this routine computes
912-! an array y2 holding information about the second derivative
913-! of the interpolating spline. YP1 and YPN, if present, are the
914-! requested values of the first derivative of the spline at the
915-! end points. If not given, a "natural" spline with zero second
916-! derivative at the extremes is constructed.
917-! The array y2 is needed to evaluate the spline, but it only needs
918-! to be computed once.
919-!
920-integer, intent(in) :: n
921-real(kind=dp), dimension(:), intent(in) :: x, y
922-real(kind=dp), dimension(:), intent(out) :: y2
923-real(kind=dp), intent(in), optional :: yp1, ypn
924-integer, intent(out), optional :: stat
925-
926-real(kind=dp) :: P,QN,SIG,UN
927-INTEGER :: I,K
928-integer :: flag
929-
930-real(kind=dp), parameter :: zero = 0.0_dp, &
931- half = 0.5_dp, &
932- one = 1.0_dp, &
933- two = 2.0_dp, &
934- three= 3.0_dp, &
935- six = 6.0_dp
936-
937-real(kind=dp), dimension(n) :: U ! Automatic array
938-
939-!--------------------------------------------------------
940-! Check that the nodes are different
941-!
942-flag = 0
943-do i =2, n
944- if (x(i) == x(i-1)) then
945- flag = -1
946- if (present(stat)) stat = flag
947- RETURN
948- endif
949-enddo
950-
951-IF (present(YP1)) THEN
952- Y2(1) = -half
953- U(1) = (three/ (X(2)-X(1)))* ((Y(2)-Y(1))/ (X(2)-X(1))-YP1)
954-ELSE
955- Y2(1) = zero
956- U(1) = zero
957-END IF
958-
959-DO I = 2,N - 1
960- SIG = (X(I)-X(I-1))/ (X(I+1)-X(I-1))
961- P = SIG*Y2(I-1) + two
962- Y2(I) = (SIG-one)/P
963- U(I) = ( six * ((Y(I+1)-Y(I))/ (X(I+1)-X(I))- (Y(I)-Y(I-1))/ &
964- (X(I)-X(I-1)))/ (X(I+1)-X(I-1))-SIG*U(I-1))/P
965-enddo
966-IF (present(YPN)) THEN
967- QN = half
968- UN = (three/(X(N)-X(N-1)))* (YPN - (Y(N)-Y(N-1))/ (X(N)-X(N-1)))
969-ELSE
970- QN = zero
971- UN = zero
972-END IF
973-
974-Y2(N) = (UN-QN*U(N-1))/ (QN*Y2(N-1) + one)
975-DO K = N-1 , 1 , -1
976- Y2(K) = Y2(K)*Y2(K+1) + U(K)
977-enddo
978-
979-if (present(stat)) stat = flag
980-
981-end subroutine generate_spline_dp
982-
983-!..............................................
984-!------------------------------------------------
985-SUBROUTINE evaluate_spline_sp(XA,YA,Y2A,N,X,Y)
986-!
987-! Given arrays xa and ya of size n, and an array y2a computed
988-! previously by routine spline, this routine computes the value
989-! at x of the interpolating spline. The value is returned in y.
990-!
991-integer, intent(in) :: n
992-real(kind=sp), dimension(:), intent(in) :: xa, ya, y2a
993-real(kind=sp), intent(in) :: x
994-real(kind=sp), intent(out) :: y
995-
996-
997-real(kind=sp) :: A,B,H
998-integer :: K,KHI,KLO
999-
1000-KLO = 1
1001-KHI = N
1002-do
1003- IF (KHI-KLO <= 1) exit
1004- K = (KHI+KLO)/2
1005- IF (XA(K) > X) THEN
1006- KHI = K
1007- ELSE
1008- KLO = K
1009- END IF
1010-enddo
1011-
1012-H = XA(KHI) - XA(KLO)
1013-
1014-A = (XA(KHI)-X)/H
1015-B = (X-XA(KLO))/H
1016-Y = A*YA(KLO) + B*YA(KHI) + ((A**3-A)*Y2A(KLO)+ &
1017- (B**3-B)*Y2A(KHI))* (H**2)/6.0_sp
1018-
1019-end subroutine evaluate_spline_sp
1020-!..............................................
1021-SUBROUTINE evaluate_spline_dp(XA,YA,Y2A,N,X,Y)
1022-!
1023-! Given arrays xa and ya of size n, and an array y2a computed
1024-! previously by routine spline, this routine computes the value
1025-! at x of the interpolating spline. The value is returned in y.
1026-!
1027-integer, intent(in) :: n
1028-real(kind=dp), dimension(:), intent(in) :: xa, ya, y2a
1029-real(kind=dp), intent(in) :: x
1030-real(kind=dp), intent(out) :: y
1031-
1032-
1033-real(kind=dp) :: A,B,H
1034-integer :: K,KHI,KLO
1035-
1036-KLO = 1
1037-KHI = N
1038-do
1039- IF (KHI-KLO <= 1) exit
1040- K = (KHI+KLO)/2
1041- IF (XA(K) > X) THEN
1042- KHI = K
1043- ELSE
1044- KLO = K
1045- END IF
1046-enddo
1047-
1048-H = XA(KHI) - XA(KLO)
1049-
1050-A = (XA(KHI)-X)/H
1051-B = (X-XA(KLO))/H
1052-Y = A*YA(KLO) + B*YA(KHI) + ((A**3-A)*Y2A(KLO)+ &
1053- (B**3-B)*Y2A(KHI))* (H**2)/6.0_dp
1054-
1055-end subroutine evaluate_spline_dp
1056-!..............................................
1057-!------------------------------------------------
1058-end module flib_spline
1059
1060=== removed file 'Src/psoplib/src/m_interpol.F90'
1061--- Src/psoplib/src/m_interpol.F90 2015-06-09 13:34:25 +0000
1062+++ Src/psoplib/src/m_interpol.F90 1970-01-01 00:00:00 +0000
1063@@ -1,189 +0,0 @@
1064-module m_interpol
1065-
1066-implicit none
1067-
1068-!
1069-! Implements simple polynomial interpolation
1070-!
1071-public :: interpolate
1072-private
1073-
1074-integer, parameter :: dp = selected_real_kind(10,100)
1075-
1076-CONTAINS
1077-
1078-subroutine interpolate(x,y,r,val,npoint,debug)
1079-real(dp), intent(in) :: x(:), y(:)
1080-real(dp), intent(in) :: r
1081-real(dp), intent(out):: val
1082-integer, intent(in) :: npoint
1083-logical, intent(in), optional :: debug
1084-
1085-integer, save :: i0
1086-integer :: npts, nmin, nmax, nn, i
1087-!!integer, parameter :: npoint = 2 ! basis for interpolation order
1088-real(dp) :: dy
1089-
1090-npts = size(x)
1091-if (size(y) /= npts) call die("x and y not conformable in interpolate")
1092-
1093-! Find closest point in x array so that x(i0) < r
1094-call hunt(x,npts,r,i0)
1095-!
1096-! Choose points to interpolate over.
1097-! At the extremes of the range we get quadratic interpolation
1098-! The maximum order is 2*npoint + 1 (cuartic polynomial)
1099-! It is in principle possible to extrapolate, but with reduced
1100-! order (and all the dangers pertaining to extrapolation!)
1101-!
1102-nmin=max(1,i0-npoint)
1103-nmax=min(npts,i0+npoint)
1104-nn=nmax-nmin+1
1105-!
1106-call polint(x(nmin:),y(nmin:),nn,r,val,dy)
1107-
1108-if (present(debug)) then
1109- if (debug) then
1110- print "(a,/,2g20.10,3i3,g20.10)", &
1111- "r ,r-x(i0), i0, nmin, nmax, d: ", &
1112- r, r-x(i0), i0, nmin, nmax, dy
1113- do i=0, nn-1
1114- print *, "x, y: ", x(nmin+i), y(nmin+i)
1115- enddo
1116- endif
1117-endif
1118-end subroutine interpolate
1119-
1120- SUBROUTINE hunt(xx,n,x,jlo)
1121- INTEGER jlo,n
1122- REAL(dp), intent(in) :: x,xx(n)
1123-
1124- INTEGER inc,jhi,jm
1125- LOGICAL ascnd
1126- ascnd=xx(n).ge.xx(1)
1127- if(jlo.le.0.or.jlo.gt.n)then
1128- jlo=0
1129- jhi=n+1
1130- goto 3
1131- endif
1132- inc=1
1133- if(x.ge.xx(jlo).eqv.ascnd)then
1134-1 jhi=jlo+inc
1135- if(jhi.gt.n)then
1136- jhi=n+1
1137- else if(x.ge.xx(jhi).eqv.ascnd)then
1138- jlo=jhi
1139- inc=inc+inc
1140- goto 1
1141- endif
1142- else
1143- jhi=jlo
1144-2 jlo=jhi-inc
1145- if(jlo.lt.1)then
1146- jlo=0
1147- else if(x.lt.xx(jlo).eqv.ascnd)then
1148- jhi=jlo
1149- inc=inc+inc
1150- goto 2
1151- endif
1152- endif
1153-3 if(jhi-jlo.eq.1)then
1154- if(x.eq.xx(n))jlo=n-1
1155- if(x.eq.xx(1))jlo=1
1156- return
1157- endif
1158- jm=(jhi+jlo)/2
1159- if(x.ge.xx(jm).eqv.ascnd)then
1160- jlo=jm
1161- else
1162- jhi=jm
1163- endif
1164- goto 3
1165- END SUBROUTINE hunt
1166-! (C) Copr. 1986-92 Numerical Recipes Software
1167-
1168- SUBROUTINE POLINT(XA,YA,N,X,Y,DY)
1169-!*****************************************************************
1170-! Polynomial interpolation. Modified and adapted to double
1171-! precision from same routine of Numerical Recipes.
1172-! D. Sanchez-Portal, Oct. 1996
1173-!*****************************************************************
1174-! Input:
1175-! real*8 XA(N) : x values of the function y(x) to interpolate
1176-! real*8 YA(N) : y values of the function y(x) to interpolate
1177-! integer N : Number of data points
1178-! real*8 X : x value at which the interpolation is desired
1179-! Output:
1180-! real*8 Y : interpolated value of y(x) at X
1181-! real*8 DY : accuracy estimate
1182-!*****************************************************************
1183-
1184- IMPLICIT NONE
1185- INTEGER :: N
1186- REAL(dp) :: XA(N),YA(N), X, Y, DY
1187-
1188- INTEGER :: I, M, NS
1189- REAL(dp) :: C(N), D(N), DEN, DIF, DIFT, HO, HP, W
1190- REAL(dp), PARAMETER :: ZERO=0.D0
1191-
1192- NS=1
1193- DIF=ABS(X-XA(1))
1194- DO I=1,N
1195- DIFT=ABS(X-XA(I))
1196- IF (DIFT.LT.DIF) THEN
1197- NS=I
1198- DIF=DIFT
1199- ENDIF
1200- C(I)=YA(I)
1201- D(I)=YA(I)
1202- END DO ! I
1203- Y=YA(NS)
1204- NS=NS-1
1205- DO M=1,N-1
1206- DO I=1,N-M
1207- HO=XA(I)-X
1208- HP=XA(I+M)-X
1209- W=C(I+1)-D(I)
1210- DEN=HO-HP
1211- IF (DEN.EQ.ZERO) call die('polint: ERROR. Two XAs are equal')
1212- DEN=W/DEN
1213- D(I)=HP*DEN
1214- C(I)=HO*DEN
1215- END DO ! I
1216- IF (2*NS.LT.N-M) THEN
1217- DY=C(NS+1)
1218- ELSE
1219- DY=D(NS)
1220- NS=NS-1
1221- ENDIF
1222- Y=Y+DY
1223- END DO ! M
1224-
1225- END SUBROUTINE POLINT
1226-
1227-end module m_interpol
1228-
1229-#ifdef __TEST__
1230-program test_interp
1231-use m_interpol
1232-integer, parameter :: dp = selected_real_kind(10,100)
1233-real(dp) :: x(7) = (/ ((i-1)*0.15, i=1,7) /)
1234-real(dp) :: y(7)
1235-real(dp) :: xi, vi, v
1236-y = sin(x)
1237-do
1238- print *, "Enter value x in [0,0.9]"
1239- read *, xi
1240- call interpolate(x,y,xi,vi,npoint=3,debug=.true.)
1241- v = sin(xi)
1242- print "(a,2f15.8,g20.10)", "Interp, true, diff: ", vi, v, (vi-v)
1243-enddo
1244-end program test_interp
1245-
1246- subroutine die(str)
1247- character(len=*), intent(in) :: str
1248- write(*,*) str
1249- STOP
1250- end subroutine die
1251-
1252-#endif
1253
1254=== modified file 'Src/psoplib/src/m_localgen.f'
1255--- Src/psoplib/src/m_localgen.f 2015-06-09 13:34:25 +0000
1256+++ Src/psoplib/src/m_localgen.f 2017-02-15 10:54:34 +0000
1257@@ -3,7 +3,7 @@
1258
1259 implicit none
1260
1261- public :: compute_vlocal_chlocal, chlocal_from_vlocal
1262+ public :: compute_vlocal_chlocal
1263
1264 private
1265
1266@@ -319,17 +319,11 @@
1267 chlocal(1)= -rhor1* zval/qtot
1268
1269 !
1270- ! Test the reversibility
1271- !
1272- call ch_of_vlocal(rofi, vlocal, drdi, s, a,
1273- $ nrval, alt_chlocal,
1274- $ quadratic=.true.)
1275-
1276- open(44,file="ch_ch.charge",form="formatted")
1277- write(44,"(a)") "# r chlocal_Siesta, computed"
1278+ open(44,file="chlocal.charge",form="formatted")
1279+ write(44,"(a)") "# r chlocal_Siesta (raw)"
1280 do ir=2,nrval
1281 r=rofi(ir)
1282- write(44,"(3f16.10)") r, chlocal(ir), alt_chlocal(ir)
1283+ write(44,"(2f16.10)") r, chlocal(ir)
1284 enddo
1285 close(44)
1286
1287@@ -558,16 +552,11 @@
1288 endif
1289 enddo
1290
1291- ! get simply chlocal with an alternative method
1292- call ch_of_vlocal(rofi, vlocal, drdi, s, a,
1293- $ nrval, alt_chlocal,
1294- $ quadratic=.false.)
1295-
1296- open(44,file="ch_ch.fit",form="formatted")
1297- write(44,"(a)") "# r chlocal_Siesta, computed"
1298+ open(44,file="chlocal.fit",form="formatted")
1299+ write(44,"(a)") "# r chlocal_Siesta (raw)"
1300 do ir=2,nrval
1301 r=rofi(ir)
1302- write(44,"(3f16.10)") r, chlocal(ir), alt_chlocal(ir)
1303+ write(44,"(2f16.10)") r, chlocal(ir)
1304 enddo
1305 close(44)
1306
1307@@ -635,292 +624,6 @@
1308
1309 end subroutine vlocal_as_fit
1310
1311- subroutine chlocal_from_vlocal(rofi, vlocal, drdi, s, a, nrval,
1312- $ Zval, nchloc, chlocal,
1313- $ use_charge_cutoff,quadratic)
1314-
1315- ! This is a general version, which does not use
1316- ! the details of the fit for r < rgauss
1317- ! It should work for an arbitrary vlocal
1318-
1319- real(dp), intent(in) :: rofi(:), drdi(:), s(:), vlocal(:)
1320- real(dp), intent(in) :: a, Zval
1321- integer, intent(in) :: nrval
1322- real(dp), intent(out) :: chlocal(:)
1323- integer, intent(out) :: nchloc
1324- ! Option for compatibility
1325- logical, intent(in) :: use_charge_cutoff
1326- logical, intent(in) :: quadratic
1327-
1328- ! local variables
1329-
1330- real(dp), parameter :: eps=1.0d-5
1331- real(dp), parameter :: eps_charge=1.0d-4 ! To match
1332- real(dp) :: qtot, charge
1333- integer :: ir
1334- real(dp), parameter :: pi = 3.14159265358979323846_dp
1335-
1336- integer :: status
1337-
1338-C Once we have the local potential we define the 'local-pseudopotential
1339-C charge' which help us to calculate the electrostatic interation
1340-C between the ions
1341-
1342-
1343- call ch_of_vlocal(rofi, vlocal, drdi, s, a,
1344- $ nrval, chlocal, quadratic)
1345-
1346-!
1347-! This is the classic way of computing an effective cutoff
1348-! for chlocal, but it is only a heuristic based on when
1349-! rVlocal equals 2*Zval. There are other criteria, including
1350-! a specific test for smallness of 4pi*r*r*chlocal, as in
1351-! the "vlocal from a localized charge" routine
1352-!
1353- do ir = 1, nrval
1354- if (abs(rofi(ir)*vlocal(ir)+2.0_dp*zval).lt.eps) exit !exit loop
1355- enddo
1356- nchloc = ir
1357- write(6,"(a,i4,f10.6)") "nchloc from rV+2Z: ",
1358- $ nchloc, rofi(nchloc)
1359-
1360- if (use_charge_cutoff) then
1361- ! Alternative way to compute nchloc,
1362- ! used by Siesta when method="charge"
1363- do ir = nrval, 1, -1
1364- charge = 4*pi*rofi(ir)**2 * chlocal(ir)
1365- if (abs(charge).gt.eps_charge) exit
1366- enddo
1367- nchloc=ir+1
1368- write(6,"(a,i4,f10.6)") "nchloc from 4*pi*r*r*chloc: ",
1369- $ nchloc, rofi(nchloc)
1370- endif
1371-
1372- qtot = 0.0_dp
1373- do ir = 1, nchloc-1
1374- qtot = qtot - 4*pi*rofi(ir)**2 * chlocal(ir) * drdi(ir)
1375- enddo
1376- print *, "qtot in chlocal_from_vlocal up to nchloc: ", qtot
1377-
1378- do ir=1,nchloc-1
1379- chlocal(ir)=zval*chlocal(ir)/qtot
1380- enddo
1381- do ir=nchloc,nrval
1382- chlocal(ir)=0.0_dp
1383- enddo
1384-
1385- end subroutine chlocal_from_vlocal
1386-
1387- subroutine ch_of_vlocal(rofi, vlocal, drdi, s, a,
1388- $ nrval, chlocal, quadratic)
1389-
1390- use flib_spline
1391- use m_interpol, only: interpolate
1392-
1393- ! This is a general version, which
1394- ! should work for an arbitrary vlocal
1395-
1396- ! It uses some help from the user, if she knows that the
1397- ! behavior of chlocal is quadratic near the origin
1398-
1399- real(dp), intent(in) :: rofi(:), drdi(:), s(:), vlocal(:)
1400- real(dp), intent(in) :: a
1401- integer, intent(in) :: nrval
1402- real(dp), intent(out) :: chlocal(:)
1403- logical, intent(in) :: quadratic
1404-
1405- ! local variables
1406-
1407- real(dp) :: pi, r
1408- real(dp) :: rmax, delta, a1, b1, x2, splval
1409- real(dp) :: delta_1, factor
1410- integer :: ir, npts, ninitial, nstep
1411-
1412- real(dp), allocatable :: f(:), f2(:)
1413- real(dp), allocatable :: ralt(:), drd1(:), s1(:),
1414- $ chlocal_ralt(:)
1415- real(dp), allocatable :: chlocal_ralt_spl(:)
1416- real(dp), allocatable :: g(:), g2der(:), g2der_spl(:), ch2(:)
1417- real(dp), allocatable :: xaux(:)
1418-
1419- integer :: status
1420-
1421-C Once we have the local potential we define the 'local-pseudopotential
1422-C charge' which help us to calculate the electrostatic interation
1423-C between the ions
1424-!
1425-! Poisson's eq.:
1426-!
1427-! 1/r* d2(rV)/dr2 = -8*pi*rho
1428-!
1429-! Important note:
1430-!
1431-! Near the origin, rho goes like -2*V'/r - V'', so V' must be zero at
1432-! the origin in order for V to be rho-representable!
1433-!
1434-! If V(r) = V_0 + a*r^2 + b*r^3 + c*r^4 near the origin,
1435-!
1436-! 8*pi*rho(r) = -6a - 18b*r -20c*r^2 ...
1437-!
1438-! We could check:
1439-!
1440-! 1. Whether V' is indeed zero near the origin
1441-! 2. Try to estimate a (and maybe b) to help with the extrapolation
1442-! of rho near the origin.
1443-!
1444-
1445- pi=acos(-1.0_dp)
1446-
1447- allocate (f(nrval), f2(nrval))
1448- do ir = 1, nrval
1449- f(ir) = rofi(ir)*vlocal(ir)
1450- write(44,*) rofi(ir), f(ir)
1451- enddo
1452-
1453- ! re-sample the range to avoid very small differences
1454-! Example for linear grid:
1455-! rmax = 10.0_dp
1456-! delta= 0.0002_dp
1457-! npts = rmax/delta + 1
1458-! npts = 1000
1459-! ----
1460-! Empirically it is better to use a logarithmic grid, not so
1461-! fine as the standard atomic one, and with reduced range.
1462-!
1463-! I want Rmax=10 au,
1464- rmax = 10.0_dp
1465-! Initial delta_r
1466- delta_1 = 2e-4_dp
1467-! expansion factor: 1 to 500: 1.e-1 at the end of the range
1468- factor = 500.0_dp
1469-
1470-! (note exchanged a, b with respect to Siesta usage...)
1471-! We have, approximately: exp(bN) = factor
1472-! ab = delta_1
1473-! a*exp(bN) = Rmax
1474-! so
1475-!
1476- a1 = rmax / factor
1477- b1 = delta_1 / a1
1478- npts = log(factor) / b1
1479-
1480- allocate(ralt(npts), drd1(npts), s1(npts),
1481- $ chlocal_ralt(npts))
1482- allocate(g(npts), g2der(npts), ch2(npts))
1483- allocate(g2der_spl(npts), chlocal_ralt_spl(npts))
1484-
1485-
1486- ! Two ways of resampling, basically equivalent
1487- ! Splines, and polynomial interpolation
1488-
1489- call generate_spline(rofi,f,nrval,f2,stat=status)
1490- if (status/=0) call die("error in generate_spline")
1491-
1492- open(55,file="r.rV.rVspl",form="formatted")
1493- write(55,"(a)") "# ralt, r*Vlocal (interp), r*Vlocal (spline)"
1494- do ir = 1, npts
1495- ralt(ir) = a1*(exp(b1*(ir-1)) -1)
1496- drd1(ir) = a1*b1*(exp(b1*(ir-1)))
1497- s1(ir) = sqrt(drd1(ir))
1498-! ralt(ir) = (ir-1)*delta ! for linear grid
1499- call interpolate(rofi(1:nrval),f,ralt(ir),g(ir),npoint=2)
1500- call evaluate_spline(rofi,f,f2,nrval,ralt(ir),splval)
1501- write(55,*) ralt(ir), g(ir), splval
1502- enddo
1503- close(55)
1504-
1505- ! Two ways of computing the second derivative
1506- call compute_2nd_der(ralt,b1,drd1,s1,g,npts,g2der,g2der_spl)
1507-
1508- ! Should we trust the second derivative for the points
1509- ! near r=0? No.
1510-
1511- open(55,file="r.ch.ch",form="formatted")
1512- write(55,"(a)") "# ralt, chlocal_ralt_fd, chlocal_ralt_spline"
1513- do ir = 2, npts
1514- chlocal_ralt(ir) = - g2der(ir) / (ralt(ir)*8*pi)
1515- chlocal_ralt_spl(ir) = - g2der_spl(ir) / (ralt(ir)*8*pi)
1516- write(55,*) ralt(ir), chlocal_ralt(ir), chlocal_ralt_spl(ir)
1517- enddo
1518- close(55)
1519-
1520- ! Now we have chlocal on the alternate grid
1521- ! re-sample back to the original logarithmic grid
1522-
1523- call generate_spline(ralt(2:npts),chlocal_ralt_spl(2:npts),
1524- $ npts-1,ch2,stat=status)
1525- if (status/=0) call die("error in generate_spline")
1526-
1527- if (quadratic) then
1528- allocate(xaux(npts))
1529- xaux(:) = ralt(:)**2
1530- endif
1531-
1532- ! Experimentally, it is better to use the spline data
1533- !
1534- do ir = 1, nrval
1535- if (rofi(ir) > rmax) then
1536- chlocal(ir) = 0.0_dp
1537- else if (rofi(ir) > ralt(5)) then
1538- call evaluate_spline(ralt(2:npts),
1539- $ chlocal_ralt_spl(2:npts),ch2,npts-1,
1540- $ rofi(ir),chlocal(ir))
1541- else
1542- ! The region near r=0 is tricky
1543- ! We have to use some heuristics
1544- if (quadratic) then
1545- ninitial = 4
1546- nstep = 2
1547- x2 = rofi(ir)**2
1548- call interpolate(xaux(ninitial:npts:nstep),
1549- $ chlocal_ralt_spl(ninitial:npts:nstep),
1550- $ x2,chlocal(ir),npoint=2)
1551- else
1552- ninitial = 5
1553- nstep = 3
1554- call interpolate(ralt(ninitial:npts:nstep),
1555- $ chlocal_ralt_spl(ninitial:npts:nstep),
1556- $ rofi(ir),chlocal(ir),npoint=3)
1557- endif
1558- endif
1559- enddo
1560-
1561- CONTAINS
1562-
1563- subroutine compute_2nd_der(ralt,b1,drd1,s1,g,npts,
1564- $ g2der,g2der_spl)
1565- real(dp), intent(in) :: ralt(:), drd1(:), s1(:), g(:)
1566- real(dp), intent(in) :: b1
1567- integer, intent(in) :: npts
1568- real(dp), intent(out):: g2der(:)
1569- real(dp), intent(out):: g2der_spl(:)
1570-
1571- integer :: status, ir
1572- real(dp) :: d2g, d2u, g1, g2, g3, a2b4
1573-
1574- call generate_spline(ralt,g,npts,g2der_spl,stat=status)
1575- if (status/=0) call die("error in generate_spline")
1576-
1577- ! This section for finite-difference derivative
1578- ! (it seems to have problems near the origin)
1579-
1580- a2b4 = 0.25_dp * b1*b1 ! note exchange a-b with respect to Siesta
1581-
1582- do ir = 2, npts-1
1583- g1=g(ir-1)/s1(ir-1)
1584- g2=g(ir)/s1(ir)
1585- g3=g(ir+1)/s1(ir+1)
1586-
1587- d2g=g1+g3-2.0_dp*g2
1588- d2u=d2g-a2b4*g2
1589- g2der(ir) = d2u / (drd1(ir)*s1(ir))
1590- enddo
1591- g2der(npts) = 0.0_dp
1592-
1593- end subroutine compute_2nd_der
1594-
1595- end subroutine ch_of_vlocal
1596-
1597 !--------------------------------------------------------------
1598 !
1599 ! The famous "Vanderbilt generalized cutoff"
1600
1601=== modified file 'Src/psoplib/src/m_psop.f90'
1602--- Src/psoplib/src/m_psop.f90 2015-06-09 13:34:25 +0000
1603+++ Src/psoplib/src/m_psop.f90 2017-02-15 10:54:34 +0000
1604@@ -1,6 +1,6 @@
1605 module m_psop
1606 use m_kbgen, only: kbgen
1607- use m_localgen, only: compute_vlocal_chlocal, chlocal_from_vlocal
1608+ use m_localgen, only: compute_vlocal_chlocal
1609 use psop_params, only: nkbmx, lmaxd, nrmax
1610 public
1611 end module m_psop
1612
1613=== modified file 'Src/psoplib/src/makefile'
1614--- Src/psoplib/src/makefile 2015-06-09 13:34:25 +0000
1615+++ Src/psoplib/src/makefile 2017-02-15 10:54:34 +0000
1616@@ -15,7 +15,7 @@
1617 VPATH=.
1618 #
1619 OBJFILES= m_psop.o m_kbgen.o m_localgen.o schrodinger.o arw.o \
1620- psop_params.o flib_spline.o m_interpol.o
1621+ psop_params.o
1622 #
1623 INCFLAGS=
1624 #
1625@@ -31,7 +31,6 @@
1626 #
1627 # DO NOT DELETE THIS LINE - used by make depend
1628 m_kbgen.o: psop_params.o schrodinger.o
1629-m_localgen.o: flib_spline.o m_interpol.o
1630 m_psop.o: m_kbgen.o m_localgen.o psop_params.o
1631 schrodinger.o: psop_params.o
1632 schrodinger_m.o: schrodinger.o
1633
1634=== added file 'Tests/Pseudos/O.tm2-siesta-vnl.psml'
1635--- Tests/Pseudos/O.tm2-siesta-vnl.psml 1970-01-01 00:00:00 +0000
1636+++ Tests/Pseudos/O.tm2-siesta-vnl.psml 2017-02-15 10:54:34 +0000
1637@@ -0,0 +1,3212 @@
1638+<?xml version="1.0" encoding="UTF-8" ?>
1639+<psml version="1.0" energy_unit="hartree" length_unit="bohr"
1640+ uuid="5b3d2f40-ec64-11e6-64a7-41e7ddfb3ee3">
1641+<provenance creator="psop-1.01" date="2017-02-06">
1642+<annotation source-uuid="797d2750-e8a2-11e6-6686-48a1bdef027e"
1643+ command-line="/Users/ag/L/Siesta/psml-chlocal/Pseudo/vnl-operator/psop -l O.tm2.psml"
1644+ local-potential="inserted" nonlocal-projectors="inserted" />
1645+</provenance>
1646+<provenance creator="ATM4.1.0+rev-87" date=" 1-FEB-17">
1647+<input-file name="INP">
1648+<![CDATA[ pg Oxygen
1649+ tm2 2.0
1650+ n=O c=ca
1651+ 0.0 0.0 0.0 0.0 0.0 0.0
1652+ 1 4
1653+ 2 0 2.00 0.00
1654+ 2 1 4.00 0.00
1655+ 3 2 0.00 0.00
1656+ 4 3 0.00 0.00
1657+ 1.15 1.15 1.15 1.15
1658+]]>
1659+</input-file>
1660+</provenance>
1661+<header atomic-label="O" z-pseudo="6" atomic-number="8"
1662+ flavor="Troullier-Martins" relativity="no" polarized="no" core-corrections="no">
1663+<exchange-correlation>
1664+<annotation atom-xc-code="ca" siesta-xc-type="LDA" siesta-xc-authors="CA" />
1665+<libxc-info number-of-functionals="2">
1666+<functional name="XC_LDA_X" type="XC_EXCHANGE" id="1" />
1667+<functional name="XC_LDA_C_PZ" type="XC_CORRELATION" id="9" />
1668+</libxc-info>
1669+</exchange-correlation>
1670+<valence-configuration total-valence-charge="6">
1671+<shell n="2" l="s" occupation="2" />
1672+<shell n="2" l="p" occupation="4" />
1673+</valence-configuration>
1674+</header>
1675+<grid npts="1030">
1676+<annotation type="log-atom" nrval="1030" scale="0.309844022083E-03"
1677+ step="0.125000000000E-01" />
1678+<grid-data>
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4849+</psml>
4850
4851=== added file 'Tests/Pseudos/O.tm2.psml'
4852--- Tests/Pseudos/O.tm2.psml 1970-01-01 00:00:00 +0000
4853+++ Tests/Pseudos/O.tm2.psml 2017-02-15 10:54:34 +0000
4854@@ -0,0 +1,2677 @@
4855+<?xml version="1.0" encoding="UTF-8" ?>
4856+<psml version="1.0" energy_unit="hartree" length_unit="bohr"
4857+ uuid="797d2750-e8a2-11e6-6686-48a1bdef027e">
4858+<provenance creator="ATM4.1.0+rev-87" date=" 1-FEB-17">
4859+<input-file name="INP">
4860+<![CDATA[ pg Oxygen
4861+ tm2 2.0
4862+ n=O c=ca
4863+ 0.0 0.0 0.0 0.0 0.0 0.0
4864+ 1 4
4865+ 2 0 2.00 0.00
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4868+ 4 3 0.00 0.00
4869+ 1.15 1.15 1.15 1.15
4870+]]>
4871+</input-file>
4872+</provenance>
4873+<header atomic-label="O" atomic-number="8" z-pseudo="6"
4874+ flavor="Troullier-Martins" relativity="no" polarized="no" core-corrections="no">
4875+<exchange-correlation>
4876+<annotation atom-xc-code="ca" siesta-xc-type="LDA" siesta-xc-authors="CA" />
4877+<libxc-info number-of-functionals="2">
4878+<functional name="XC_LDA_X" type="XC_EXCHANGE" id="1" />
4879+<functional name="XC_LDA_C_PZ" type="XC_CORRELATION" id="9" />
4880+</libxc-info>
4881+</exchange-correlation>
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4884+<shell n="2" l="p" occupation="4" />
4885+</valence-configuration>
4886+</header>
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5000+ 7.180888227548E-02 7.271602417938E-02 7.363457652377E-02 7.456468283430E-02
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