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dft_tools/python/sumk_lda_tools.py

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First import. triqs 1.0 alpha1
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################################################################################
#
# TRIQS: a Toolbox for Research in Interacting Quantum Systems
#
# Copyright (C) 2011 by M. Aichhorn, L. Pourovskii, V. Vildosola
#
# TRIQS is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# TRIQS is distributed in the hope that it will be useful, but WITHOUT ANY
# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
#
# You should have received a copy of the GNU General Public License along with
# TRIQS. If not, see <http://www.gnu.org/licenses/>.
#
################################################################################
from types import *
import numpy
import pytriqs.utility.dichotomy as dichotomy
from pytriqs.gf.local import *
#from pytriqs.applications.impurity_solvers.operators import *
from pytriqs.operators import *
import pytriqs.utility.mpi as mpi
from datetime import datetime
#from pytriqs.applications.dft.symmetry import *
#from pytriqs.applications.dft.sumk_lda import SumkLDA
from symmetry import *
from sumk_lda import SumkLDA
import string
def read_fortran_file (filename):
""" Returns a generator that yields all numbers in the Fortran file as float, one by one"""
import os.path
if not(os.path.exists(filename)) : raise IOError, "File %s does not exists"%filename
for line in open(filename,'r') :
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for x in line.replace('D','E').split() :
yield string.atof(x)
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class SumkLDATools(SumkLDA):
"""Extends the SumkLDA class with some tools for analysing the data."""
def __init__(self, hdf_file, mu = 0.0, h_field = 0.0, use_lda_blocks = False, lda_data = 'SumK_LDA', symm_corr_data = 'SymmCorr',
par_proj_data = 'SumK_LDA_ParProj', symm_par_data = 'SymmPar', bands_data = 'SumK_LDA_Bands'):
self.Gupf_refreq = None
SumkLDA.__init__(self,hdf_file=hdf_file,mu=mu,h_field=h_field,use_lda_blocks=use_lda_blocks,lda_data=lda_data,
symm_corr_data=symm_corr_data,par_proj_data=par_proj_data,symm_par_data=symm_par_data,
bands_data=bands_data)
def downfold_pc(self,ik,ir,ish,sig,gf_to_downfold,gf_inp):
"""Downfolding a block of the Greens function"""
gf_downfolded = gf_inp.copy()
isp = self.names_to_ind[self.SO][sig] # get spin index for proj. matrices
dim = self.shells[ish][3]
n_orb = self.n_orbitals[ik,isp]
L=self.proj_mat_pc[ik,isp,ish,ir,0:dim,0:n_orb]
R=self.proj_mat_pc[ik,isp,ish,ir,0:dim,0:n_orb].conjugate().transpose()
gf_downfolded.from_L_G_R(L,gf_to_downfold,R)
return gf_downfolded
def rotloc_all(self,ish,gf_to_rotate,direction):
"""Local <-> Global rotation of a GF block.
direction: 'toLocal' / 'toGlobal' """
assert ((direction=='toLocal')or(direction=='toGlobal')),"Give direction 'toLocal' or 'toGlobal' in rotloc!"
gf_rotated = gf_to_rotate.copy()
if (direction=='toGlobal'):
if ((self.rot_mat_all_time_inv[ish]==1) and (self.SO)):
gf_rotated <<= gf_rotated.transpose()
gf_rotated.from_L_G_R(self.rot_mat_all[ish].conjugate(),gf_rotated,self.rot_mat_all[ish].transpose())
else:
gf_rotated.from_L_G_R(self.rot_mat_all[ish],gf_rotated,self.rot_mat_all[ish].conjugate().transpose())
elif (direction=='toLocal'):
if ((self.rot_mat_all_time_inv[ish]==1)and(self.SO)):
gf_rotated <<= gf_rotated.transpose()
gf_rotated.from_L_G_R(self.rot_mat_all[ish].transpose(),gf_rotated,self.rot_mat_all[ish].conjugate())
else:
gf_rotated.from_L_G_R(self.rot_mat_all[ish].conjugate().transpose(),gf_rotated,self.rot_mat_all[ish])
return gf_rotated
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def lattice_gf_realfreq(self, ik, mu, broadening, mesh=None, with_Sigma=True):
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"""Calculates the lattice Green function on the real frequency axis. If self energy is
present and with_Sigma=True, the mesh is taken from Sigma. Otherwise, the mesh has to be given."""
ntoi = self.names_to_ind[self.SO]
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bln = self.block_names[self.SO]
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if (not hasattr(self,"Sigma_imp")): with_Sigma=False
if (with_Sigma):
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assert self.Sigma_imp[0].note == 'ReFreq', "Real frequency Sigma needed for lattice_gf_realfreq!"
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stmp = self.add_dc()
else:
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assert (not (mesh is None)),"Without Sigma, give the mesh=(om_min,om_max,n_points) for lattice_gf_realfreq!"
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if (self.Gupf_refreq is None):
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# first setting up of Gupf_refreq
BS = [ range(self.n_orbitals[ik,ntoi[ib]]) for ib in bln ]
gf_struct = [ (bln[ib], BS[ib]) for ib in range(self.n_spin_blocks_gf[self.SO]) ]
a_list = [a for a,al in gf_struct]
if (with_Sigma):
glist = lambda : [ GfReFreq(indices = al, mesh =self.Sigma_imp[0].mesh) for a,al in gf_struct]
else:
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glist = lambda : [ GfReFreq(indices = al, window=(mesh[0],mesh[1]),n_points=mesh[2]) for a,al in gf_struct]
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self.Gupf_refreq = BlockGf(name_list = a_list, block_list = glist(),make_copies=False)
self.Gupf_refreq.zero()
GFsize = [ gf.N1 for sig,gf in self.Gupf_refreq]
unchangedsize = all( [ self.n_orbitals[ik,ntoi[bln[ib]]]==GFsize[ib]
for ib in range(self.n_spin_blocks_gf[self.SO]) ] )
if (not unchangedsize):
BS = [ range(self.n_orbitals[ik,ntoi[ib]]) for ib in bln ]
gf_struct = [ (bln[ib], BS[ib]) for ib in range(self.n_spin_blocks_gf[self.SO]) ]
a_list = [a for a,al in gf_struct]
if (with_Sigma):
glist = lambda : [ GfReFreq(indices = al, mesh =self.Sigma_imp[0].mesh) for a,al in gf_struct]
else:
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glist = lambda : [ GfReFreq(indices = al, window=(mesh[0],mesh[1]),n_points=mesh[2]) for a,al in gf_struct]
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self.Gupf_refreq = BlockGf(name_list = a_list, block_list = glist(),make_copies=False)
self.Gupf_refreq.zero()
idmat = [numpy.identity(self.n_orbitals[ik,ntoi[bl]],numpy.complex_) for bl in bln]
self.Gupf_refreq <<= Omega + 1j*broadening
M = copy.deepcopy(idmat)
for ibl in range(self.n_spin_blocks_gf[self.SO]):
ind = ntoi[bln[ibl]]
n_orb = self.n_orbitals[ik,ind]
M[ibl] = self.hopping[ik,ind,0:n_orb,0:n_orb] - (idmat[ibl]*mu) - (idmat[ibl] * self.h_field * (1-2*ibl))
self.Gupf_refreq -= M
if (with_Sigma):
tmp = self.Gupf_refreq.copy() # init temporary storage
for icrsh in xrange(self.n_corr_shells):
for sig,gf in tmp: tmp[sig] <<= self.upfold(ik,icrsh,sig,stmp[icrsh][sig],gf)
self.Gupf_refreq -= tmp # adding to the upfolded GF
self.Gupf_refreq.invert()
return self.Gupf_refreq
def check_input_dos(self, om_min, om_max, n_om, beta=10, broadening=0.01):
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First import. triqs 1.0 alpha1
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delta_om = (om_max-om_min)/(n_om-1)
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om_mesh = numpy.zeros([n_om],numpy.float_)
for i in range(n_om): om_mesh[i] = om_min + delta_om * i
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DOS = {}
for bn in self.block_names[self.SO]:
DOS[bn] = numpy.zeros([n_om],numpy.float_)
DOSproj = [ {} for icrsh in range(self.n_inequiv_corr_shells) ]
DOSproj_orb = [ {} for icrsh in range(self.n_inequiv_corr_shells) ]
for icrsh in range(self.n_inequiv_corr_shells):
for bn in self.block_names[self.corr_shells[self.invshellmap[icrsh]][4]]:
dl = self.corr_shells[self.invshellmap[icrsh]][3]
DOSproj[icrsh][bn] = numpy.zeros([n_om],numpy.float_)
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DOSproj_orb[icrsh][bn] = numpy.zeros([n_om,dl,dl],numpy.float_)
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# init:
Gloc = []
for icrsh in range(self.n_corr_shells):
b_list = [a for a,al in self.gf_struct_corr[icrsh]]
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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#glist = lambda : [ GfReFreq(indices = al, beta = beta, mesh_array = mesh) for a,al in self.gf_struct_corr[icrsh]]
glist = lambda : [ GfReFreq(indices = al, window = (om_min,om_max), n_points = n_om) for a,al in self.gf_struct_corr[icrsh]]
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Gloc.append(BlockGf(name_list = b_list, block_list = glist(),make_copies=False))
for icrsh in xrange(self.n_corr_shells): Gloc[icrsh].zero() # initialize to zero
for ik in xrange(self.n_k):
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Gupf=self.lattice_gf_realfreq(ik=ik,mu=self.chemical_potential,broadening=broadening,mesh=(om_min,om_max,n_om),with_Sigma=False)
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Gupf *= self.bz_weights[ik]
# non-projected DOS
for iom in range(n_om):
for sig,gf in Gupf:
asd = gf.data[iom,:,:].imag.trace()/(-3.1415926535)
DOS[sig][iom] += asd
for icrsh in xrange(self.n_corr_shells):
tmp = Gloc[icrsh].copy()
for sig,gf in tmp: tmp[sig] <<= self.downfold(ik,icrsh,sig,Gupf[sig],gf) # downfolding G
Gloc[icrsh] += tmp
if (self.symm_op!=0): Gloc = self.Symm_corr.symmetrize(Gloc)
if (self.use_rotations):
for icrsh in xrange(self.n_corr_shells):
for sig,gf in Gloc[icrsh]: Gloc[icrsh][sig] <<= self.rotloc(icrsh,gf,direction='toLocal')
# Gloc can now also be used to look at orbitally resolved quantities
for ish in range(self.n_inequiv_corr_shells):
for sig,gf in Gloc[self.invshellmap[ish]]: # loop over spins
for iom in range(n_om): DOSproj[ish][sig][iom] += gf.data[iom,:,:].imag.trace()/(-3.1415926535)
DOSproj_orb[ish][sig][:,:,:] += gf.data[:,:,:].imag/(-3.1415926535)
# output:
if (mpi.is_master_node()):
for bn in self.block_names[self.SO]:
f=open('DOS%s.dat'%bn, 'w')
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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for i in range(n_om): f.write("%s %s\n"%(om_mesh[i],DOS[bn][i]))
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f.close()
for ish in range(self.n_inequiv_corr_shells):
f=open('DOS%s_proj%s.dat'%(bn,ish),'w')
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for i in range(n_om): f.write("%s %s\n"%(om_mesh[i],DOSproj[ish][bn][i]))
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f.close()
for i in range(self.corr_shells[self.invshellmap[ish]][3]):
for j in range(i,self.corr_shells[self.invshellmap[ish]][3]):
Fname = 'DOS'+bn+'_proj'+str(ish)+'_'+str(i)+'_'+str(j)+'.dat'
f=open(Fname,'w')
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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for iom in range(n_om): f.write("%s %s\n"%(om_mesh[iom],DOSproj_orb[ish][bn][iom,i,j]))
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f.close()
def read_par_proj_input_from_hdf(self):
"""
Reads the data for the partial projectors from the HDF file
"""
thingstoread = ['dens_mat_below','n_parproj','proj_mat_pc','rot_mat_all','rot_mat_all_time_inv']
retval = self.read_input_from_hdf(subgrp=self.par_proj_data,things_to_read = thingstoread)
return retval
def dos_partial(self,broadening=0.01):
"""calculates the orbitally-resolved DOS"""
assert hasattr(self,"Sigma_imp"), "Set Sigma First!!"
#thingstoread = ['Dens_Mat_below','N_parproj','Proj_Mat_pc','rotmat_all']
#retval = self.read_input_from_HDF(SubGrp=self.par_proj_data, thingstoread=thingstoread)
retval = self.read_par_proj_input_from_hdf()
if not retval: return retval
if self.symm_op: self.Symm_par = Symmetry(self.hdf_file,subgroup=self.symm_par_data)
mu = self.chemical_potential
gf_struct_proj = [ [ (al, range(self.shells[i][3])) for al in self.block_names[self.SO] ] for i in xrange(self.n_shells) ]
Gproj = [BlockGf(name_block_generator = [ (a,GfReFreq(indices = al, mesh = self.Sigma_imp[0].mesh)) for a,al in gf_struct_proj[ish] ], make_copies = False )
for ish in xrange(self.n_shells)]
for ish in range(self.n_shells): Gproj[ish].zero()
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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Msh = [x.real for x in self.Sigma_imp[0].mesh]
First import. triqs 1.0 alpha1
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n_om = len(Msh)
DOS = {}
for bn in self.block_names[self.SO]:
DOS[bn] = numpy.zeros([n_om],numpy.float_)
DOSproj = [ {} for ish in range(self.n_shells) ]
DOSproj_orb = [ {} for ish in range(self.n_shells) ]
for ish in range(self.n_shells):
for bn in self.block_names[self.SO]:
dl = self.shells[ish][3]
DOSproj[ish][bn] = numpy.zeros([n_om],numpy.float_)
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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DOSproj_orb[ish][bn] = numpy.zeros([n_om,dl,dl],numpy.float_)
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ikarray=numpy.array(range(self.n_k))
for ik in mpi.slice_array(ikarray):
S = self.lattice_gf_realfreq(ik=ik,mu=mu,broadening=broadening)
S *= self.bz_weights[ik]
# non-projected DOS
for iom in range(n_om):
for sig,gf in S: DOS[sig][iom] += gf.data[iom,:,:].imag.trace()/(-3.1415926535)
#projected DOS:
for ish in xrange(self.n_shells):
tmp = Gproj[ish].copy()
for ir in xrange(self.n_parproj[ish]):
for sig,gf in tmp: tmp[sig] <<= self.downfold_pc(ik,ir,ish,sig,S[sig],gf)
Gproj[ish] += tmp
# collect data from mpi:
for sig in DOS:
DOS[sig] = mpi.all_reduce(mpi.world,DOS[sig],lambda x,y : x+y)
for ish in xrange(self.n_shells):
Gproj[ish] <<= mpi.all_reduce(mpi.world,Gproj[ish],lambda x,y : x+y)
mpi.barrier()
if (self.symm_op!=0): Gproj = self.Symm_par.symmetrize(Gproj)
# rotation to local coord. system:
if (self.use_rotations):
for ish in xrange(self.n_shells):
for sig,gf in Gproj[ish]: Gproj[ish][sig] <<= self.rotloc_all(ish,gf,direction='toLocal')
for ish in range(self.n_shells):
for sig,gf in Gproj[ish]:
for iom in range(n_om): DOSproj[ish][sig][iom] += gf.data[iom,:,:].imag.trace()/(-3.1415926535)
DOSproj_orb[ish][sig][:,:,:] += gf.data[:,:,:].imag / (-3.1415926535)
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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First import. triqs 1.0 alpha1
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if (mpi.is_master_node()):
# output to files
for bn in self.block_names[self.SO]:
f=open('./DOScorr%s.dat'%bn, 'w')
for i in range(n_om): f.write("%s %s\n"%(Msh[i],DOS[bn][i]))
f.close()
# partial
for ish in range(self.n_shells):
f=open('DOScorr%s_proj%s.dat'%(bn,ish),'w')
for i in range(n_om): f.write("%s %s\n"%(Msh[i],DOSproj[ish][bn][i]))
f.close()
for i in range(self.shells[ish][3]):
for j in range(i,self.shells[ish][3]):
Fname = './DOScorr'+bn+'_proj'+str(ish)+'_'+str(i)+'_'+str(j)+'.dat'
f=open(Fname,'w')
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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for iom in range(n_om): f.write("%s %s\n"%(Msh[iom],DOSproj_orb[ish][bn][iom,i,j]))
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f.close()
def spaghettis(self,broadening,shift=0.0,plot_range=None, ishell=None, invert_Akw=False, fermi_surface=False):
""" Calculates the correlated band structure with a real-frequency self energy.
ATTENTION: Many things from the original input file are are overwritten!!!"""
assert hasattr(self,"Sigma_imp"), "Set Sigma First!!"
thingstoread = ['n_k','n_orbitals','proj_mat','hopping','n_parproj','proj_mat_pc']
retval = self.read_input_from_hdf(subgrp=self.bands_data,things_to_read=thingstoread)
if not retval: return retval
if fermi_surface: ishell=None
# print hamiltonian for checks:
if ((self.SP==1)and(self.SO==0)):
f1=open('hamup.dat','w')
f2=open('hamdn.dat','w')
for ik in xrange(self.n_k):
for i in xrange(self.n_orbitals[ik,0]):
f1.write('%s %s\n'%(ik,self.hopping[ik,0,i,i].real))
for i in xrange(self.n_orbitals[ik,1]):
f2.write('%s %s\n'%(ik,self.hopping[ik,1,i,i].real))
f1.write('\n')
f2.write('\n')
f1.close()
f2.close()
else:
f=open('ham.dat','w')
for ik in xrange(self.n_k):
for i in xrange(self.n_orbitals[ik,0]):
f.write('%s %s\n'%(ik,self.hopping[ik,0,i,i].real))
f.write('\n')
f.close()
#=========================================
# calculate A(k,w):
mu = self.chemical_potential
bln = self.block_names[self.SO]
# init DOS:
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M = [x.real for x in self.Sigma_imp[0].mesh]
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n_om = len(M)
if plot_range is None:
om_minplot = M[0]-0.001
om_maxplot = M[n_om-1] + 0.001
else:
om_minplot = plot_range[0]
om_maxplot = plot_range[1]
if (ishell is None):
Akw = {}
for ibn in bln: Akw[ibn] = numpy.zeros([self.n_k, n_om ],numpy.float_)
else:
Akw = {}
for ibn in bln: Akw[ibn] = numpy.zeros([self.shells[ishell][3],self.n_k, n_om ],numpy.float_)
if fermi_surface:
om_minplot = -2.0*broadening
om_maxplot = 2.0*broadening
Akw = {}
for ibn in bln: Akw[ibn] = numpy.zeros([self.n_k,1],numpy.float_)
if not (ishell is None):
GFStruct_proj = [ (al, range(self.shells[ishell][3])) for al in bln ]
Gproj = BlockGf(name_block_generator = [ (a,GfReFreq(indices = al, mesh = self.Sigma_imp[0].mesh)) for a,al in GFStruct_proj ], make_copies = False)
Gproj.zero()
for ik in xrange(self.n_k):
S = self.lattice_gf_realfreq(ik=ik,mu=mu,broadening=broadening)
if (ishell is None):
# non-projected A(k,w)
for iom in range(n_om):
Small changes in spaghetti
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if (M[iom]>om_minplot) and (M[iom]<om_maxplot):
First import. triqs 1.0 alpha1
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if fermi_surface:
for sig,gf in S: Akw[sig][ik,0] += gf.data[iom,:,:].imag.trace()/(-3.1415926535) * (M[1]-M[0])
else:
for sig,gf in S: Akw[sig][ik,iom] += gf.data[iom,:,:].imag.trace()/(-3.1415926535)
Akw[sig][ik,iom] += ik*shift # shift Akw for plotting in xmgrace
else:
# projected A(k,w):
Gproj.zero()
tmp = Gproj.copy()
for ir in xrange(self.n_parproj[ishell]):
for sig,gf in tmp: tmp[sig] <<= self.downfold_pc(ik,ir,ishell,sig,S[sig],gf)
Gproj += tmp
# TO BE FIXED:
# rotate to local frame
#if (self.use_rotations):
# for sig,gf in Gproj: Gproj[sig] <<= self.rotloc(0,gf,direction='toLocal')
for iom in range(n_om):
Small changes in spaghetti
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if (M[iom]>om_minplot) and (M[iom]<om_maxplot):
First import. triqs 1.0 alpha1
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for ish in range(self.shells[ishell][3]):
for ibn in bln:
Akw[ibn][ish,ik,iom] = Gproj[ibn].data[iom,ish,ish].imag/(-3.1415926535)
# END k-LOOP
if (mpi.is_master_node()):
if (ishell is None):
for ibn in bln:
# loop over GF blocs:
if (invert_Akw):
maxAkw=Akw[ibn].max()
minAkw=Akw[ibn].min()
# open file for storage:
if fermi_surface:
f=open('FS_'+ibn+'.dat','w')
else:
f=open('Akw_'+ibn+'.dat','w')
for ik in range(self.n_k):
if fermi_surface:
if (invert_Akw):
Akw[ibn][ik,0] = 1.0/(minAkw-maxAkw)*(Akw[ibn][ik,0] - maxAkw)
f.write('%s %s\n'%(ik,Akw[ibn][ik,0]))
else:
for iom in range(n_om):
Small changes in spaghetti
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if (M[iom]>om_minplot) and (M[iom]<om_maxplot):
First import. triqs 1.0 alpha1
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if (invert_Akw):
Akw[ibn][ik,iom] = 1.0/(minAkw-maxAkw)*(Akw[ibn][ik,iom] - maxAkw)
if (shift>0.0001):
f.write('%s %s\n'%(M[iom],Akw[ibn][ik,iom]))
else:
f.write('%s %s %s\n'%(ik,M[iom],Akw[ibn][ik,iom]))
f.write('\n')
f.close()
else:
for ibn in bln:
for ish in range(self.shells[ishell][3]):
if (invert_Akw):
maxAkw=Akw[ibn][ish,:,:].max()
minAkw=Akw[ibn][ish,:,:].min()
f=open('Akw_'+ibn+'_proj'+str(ish)+'.dat','w')
for ik in range(self.n_k):
for iom in range(n_om):
Small changes in spaghetti
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if (M[iom]>om_minplot) and (M[iom]<om_maxplot):
First import. triqs 1.0 alpha1
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if (invert_Akw):
Akw[ibn][ish,ik,iom] = 1.0/(minAkw-maxAkw)*(Akw[ibn][ish,ik,iom] - maxAkw)
if (shift>0.0001):
f.write('%s %s\n'%(M[iom],Akw[ibn][ish,ik,iom]))
else:
f.write('%s %s %s\n'%(ik,M[iom],Akw[ibn][ish,ik,iom]))
f.write('\n')
f.close()
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
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def constr_Sigma_real_axis(self, filename, hdf=True, hdf_dataset='SigmaReFreq',n_om=0,orb=0, tol_mesh=1e-6):
"""Uses Data from files to construct Sigma (or GF) on the real axis."""
if not hdf:
# read sigma from text files
#first get the mesh out of one of the files:
if (len(self.gf_struct_solver[orb][0][1])==1):
Fname = filename+'_'+self.gf_struct_solver[orb][0][0]+'.dat'
else:
Fname = filename+'_'+self.gf_struct_solver[orb][0][0]+'/'+str(self.gf_struct_solver[orb][0][1][0])+'_'+str(self.gf_struct_solver[orb][0][1][0])+'.dat'
R = read_fortran_file(Fname)
mesh = numpy.zeros([n_om],numpy.float_)
try:
for i in xrange(n_om):
mesh[i] = R.next()
sk = R.next()
sk = R.next()
except StopIteration : # a more explicit error if the file is corrupted.
raise "SumkLDA.read_Sigma_ME : reading mesh failed!"
R.close()
# check whether the mesh is uniform
bin = (mesh[n_om-1]-mesh[0])/(n_om-1)
for i in xrange(n_om):
assert abs(i*bin+mesh[0]-mesh[i]) < tol_mesh, 'constr_Sigma_ME: real-axis mesh is non-uniform!'
# construct Sigma
a_list = [a for a,al in self.gf_struct_solver[orb]]
glist = lambda : [ GfReFreq(indices = al, window=(mesh[0],mesh[n_om-1]),n_points=n_om) for a,al in self.gf_struct_solver[orb]]
SigmaME = BlockGf(name_list = a_list, block_list = glist(),make_copies=False)
#read Sigma
First import. triqs 1.0 alpha1
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Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
2014-01-21 16:47:45 +01:00
for i,g in SigmaME:
mesh=[w for w in g.mesh]
for iL in g.indices:
for iR in g.indices:
if (len(g.indices) == 1):
Fname = filename+'_%s'%(i)+'.dat'
else:
Fname = 'SigmaME_'+'%s'%(i)+'_%s'%(iL)+'_%s'%(iR)+'.dat'
R = read_fortran_file(Fname)
try:
for iom in xrange(n_om):
sk = R.next()
rsig = R.next()
isig = R.next()
g.data[iom,iL,iR]=rsig+1j*isig
except StopIteration : # a more explicit error if the file is corrupted.
raise "SumkLDA.read_Sigma_ME : reading Sigma from file failed!"
R.close()
First import. triqs 1.0 alpha1
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else:
Fix bugs in sumk_lda_tools.py This is again a merge of Leonid's and Markus' changes. It must be checked! I had to make some choices! modified: python/sumk_lda_tools.py
2014-01-21 16:47:45 +01:00
# read sigma from hdf
omega_min=0.0
omega_max=0.0
n_om=0
if (mpi.is_master_node()):
ar = HDFArchive(filename)
SigmaME = ar[hdf_dataset]
del ar
# we need some parameters to construct Sigma on other nodes
omega_min=SigmaME.mesh.omega_min
omega_max=SigmaME.mesh.omega_max
n_om=len(SigmaME.mesh)
omega_min=mpi.bcast(omega_min)
omega_max=mpi.bcast(omega_max)
n_om=mpi.bcast(n_om)
mpi.barrier()
# construct Sigma on other nodes
if (not mpi.is_master_node()):
a_list = [a for a,al in self.gf_struct_solver[orb]]
glist = lambda : [ GfReFreq(indices = al, window=(omega_min,omega_max),n_points=n_om) for a,al in self.gf_struct_solver[orb]]
SigmaME = BlockGf(name_list = a_list, block_list = glist(),make_copies=False)
# pass SigmaME to other nodes
SigmaME = mpi.bcast(SigmaME)
mpi.barrier()
SigmaME.note='ReFreq'
First import. triqs 1.0 alpha1
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return SigmaME
def partial_charges(self,beta=40):
"""Calculates the orbitally-resolved density matrix for all the orbitals considered in the input.
The theta-projectors are used, hence case.parproj data is necessary"""
#thingstoread = ['Dens_Mat_below','N_parproj','Proj_Mat_pc','rotmat_all']
#retval = self.read_input_from_HDF(SubGrp=self.par_proj_data,thingstoread=thingstoread)
retval = self.read_par_proj_input_from_hdf()
if not retval: return retval
if self.symm_op: self.Symm_par = Symmetry(self.hdf_file,subgroup=self.symm_par_data)
# Density matrix in the window
bln = self.block_names[self.SO]
ntoi = self.names_to_ind[self.SO]
self.dens_mat_window = [ [numpy.zeros([self.shells[ish][3],self.shells[ish][3]],numpy.complex_) for ish in range(self.n_shells)]
for isp in range(len(bln)) ] # init the density matrix
mu = self.chemical_potential
GFStruct_proj = [ [ (al, range(self.shells[i][3])) for al in bln ] for i in xrange(self.n_shells) ]
if hasattr(self,"Sigma_imp"):
Gproj = [BlockGf(name_block_generator = [ (a,GfImFreq(indices = al, mesh = self.Sigma_imp[0].mesh)) for a,al in GFStruct_proj[ish] ], make_copies = False)
for ish in xrange(self.n_shells)]
beta = self.Sigma_imp[0].mesh.beta
else:
Gproj = [BlockGf(name_block_generator = [ (a,GfImFreq(indices = al, beta = beta)) for a,al in GFStruct_proj[ish] ], make_copies = False)
for ish in xrange(self.n_shells)]
for ish in xrange(self.n_shells): Gproj[ish].zero()
ikarray=numpy.array(range(self.n_k))
#print mpi.rank, mpi.slice_array(ikarray)
#print "K-Sum starts on node",mpi.rank," at ",datetime.now()
for ik in mpi.slice_array(ikarray):
#print mpi.rank, ik, datetime.now()
S = self.lattice_gf_matsubara(ik=ik,mu=mu,beta=beta)
S *= self.bz_weights[ik]
for ish in xrange(self.n_shells):
tmp = Gproj[ish].copy()
for ir in xrange(self.n_parproj[ish]):
for sig,gf in tmp: tmp[sig] <<= self.downfold_pc(ik,ir,ish,sig,S[sig],gf)
Gproj[ish] += tmp
#print "K-Sum done on node",mpi.rank," at ",datetime.now()
#collect data from mpi:
for ish in xrange(self.n_shells):
Gproj[ish] <<= mpi.all_reduce(mpi.world,Gproj[ish],lambda x,y : x+y)
mpi.barrier()
#print "Data collected on node",mpi.rank," at ",datetime.now()
# Symmetrisation:
if (self.symm_op!=0): Gproj = self.Symm_par.symmetrize(Gproj)
#print "Symmetrisation done on node",mpi.rank," at ",datetime.now()
for ish in xrange(self.n_shells):
# Rotation to local:
if (self.use_rotations):
for sig,gf in Gproj[ish]: Gproj[ish][sig] <<= self.rotloc_all(ish,gf,direction='toLocal')
isp = 0
for sig,gf in Gproj[ish]: #dmg.append(Gproj[ish].density()[sig])
self.dens_mat_window[isp][ish] = Gproj[ish].density()[sig]
isp+=1
# add Density matrices to get the total:
dens_mat = [ [ self.dens_mat_below[ntoi[bln[isp]]][ish]+self.dens_mat_window[isp][ish] for ish in range(self.n_shells)]
for isp in range(len(bln)) ]
return dens_mat
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