from atom.model import Atom
from system.model import System
from numpy import array, sqrt, pi
from plotter.plotter import Plotter
from dos.dos_calculator import DOSCalculator, LDOSCalculator
from copy import deepcopy
######################ZigZag_GRAPHENE_ribbon_WITH DOS##########################
a = 1.0 # C-C bond length
n = 5
system = System([array([a * sqrt(3), 0.0, 0.0])], mode="with_vectors", name="zz_ribbon_{}_pz_ldos".format(n))
system.atoms = [
Atom("C", array([0.0, 0.0, 0.0])),
Atom("C", array([a * sqrt(3) / 2.0, a / 2.0, 0.0])),
Atom("C", array([a * sqrt(3) / 2.0, 3 * a / 2.0, 0.0])),
Atom("C", array([0.0, 2 * a, 0.0])),
]
four_atoms_cell = deepcopy(system.atoms)
shift_r = array([0.0, 3.0 * a, 0.0])
for i in range(1, n):
for atom in four_atoms_cell:
new_atom = deepcopy(atom)
new_atom.r = new_atom.r + i * shift_r
system.atoms.append(new_atom)
system.spin_multiplier = 1
system.k_points = [array([-pi / sqrt(3) / a, 0.0, 0.0]), array([0.0, 0.0, 0.0]), array([pi / sqrt(3) / a, 0, 0])]
system.make_k_mesh(150)
system.parameters = {
"C": {"ep": 1.2057, "ed": 24.1657, "lambda": 0.001},
"CC": {"Vppp": -3.26, "Vpps": 0.0, "Vpds": 0.0, "Vpdp": 2.4, "Vdds": 0.0, "Vddp": 3.6, "Vddd": -7.4},
}
ts = []
for N in ns:
tp = time.time()
system = System([N * a / 2. * array([1., sqrt(3), 0.]),
N * a / 2. * array([- 1., sqrt(3), 0.])])
system.name = 'graphene_pz_time_eigvalsh' + str(N)
atoms_lst = []
for i in range(N):
for j in range(N):
atoms_lst.extend([Atom('C', i * system.vectors[0] / N +
j * system.vectors[1] / N +
array([0., a / sqrt(3), 0.])),
Atom('C', i * system.vectors[0] / N +
j * system.vectors[1] / N +
array([0., 2 * a / sqrt(3), 0.]))])
system.atoms = atoms_lst
system.k_points = [array([0., 0., 0.]),
array([pi / a, -pi / sqrt(3) / a, 0]),
array([4 * pi / 3 / a, 0, 0]),
array([0., 0., 0.])]
system.make_k_mesh(32)
system.parameters = {
'C': {
'es': 0,
'ep': 7.4,
},
'CC': {
'Vsss': -3.8,
'Vsps': 4.44,
'Vppp': -1.325,
'Vpps': 4.9
from atom.model import Atom
from system.model import System
from numpy import array, sqrt, pi
from plotter.plotter import Plotter
#######################MoS2_MONOLAYER_WITH SOC#################################
a = 3.12
c = 3.11
system = System([a / 2. * array([1., sqrt(3), 0.]),
a / 2. * array([- 1., sqrt(3), 0.])],
mode="with_overlap", name="mos2_mono_SOC")
system.atoms = [Atom('Mo', array([0., a / sqrt(3), 0.])),
Atom('S', array([0., 2 * a / sqrt(3), c / 2.])),
Atom('S', array([0., 2 * a / sqrt(3), - c / 2.])),
]
system.spin_multiplier = 2
system.k_points = [array([0., 0., 0.]),
array([pi / a, -pi / sqrt(3) / a, 0]),
array([4 * pi / 3 / a, 0, 0]),
array([0., 0., 0.])]
system.make_k_mesh(100)
system.parameters = {
'S': {
'es': 7.6595,
'ep': -2.1537,
'ed': 8.7689,
'lambda': 0.2129,
},
'Mo': {
'es': 5.5994,
'ep': 6.7128,
from atom.model import Atom
from system.model import System
from numpy import array, sqrt, pi
from plotter.plotter import Plotter
from dos.dos_calculator import DOSCalculator
from copy import deepcopy
######################ZigZag_GRAPHENE_ribbon_WITH SOC##########################
a = 1. # C-C bond length
n = 3
system = System([array([0, a * 3, 0.])], mode="standard",
name='ac_ribbon_{}_pz'.format(n))
system.atoms = [Atom('C', array([0., 0., 0.])),
Atom('C', array([a * sqrt(3) / 2., a / 2., 0.])),
Atom('C', array([a * sqrt(3) / 2., 3 * a / 2., 0.])),
Atom('C', array([0., 2 * a, 0.])),
]
four_atoms_cell = deepcopy(system.atoms)
shift_r = array([a * sqrt(3), 0., 0.])
for i in range(1, n):
for atom in four_atoms_cell:
new_atom = deepcopy(atom)
new_atom.r = new_atom.r + i * shift_r
system.atoms.append(new_atom)
# system.atoms.append(Atom('C', array([0., 0., 0.]) + n * shift_r))
# system.atoms.append(Atom('C', array([0., 2 * a, 0.]) + n * shift_r))
system.spin_multiplier = 2
system.k_points = [array([0., - pi / 3 / a, 0.]),
array([0., 0., 0.]),
array([0., pi / 3 / a, 0]),
]
from atom.model import Atom
from system.model import System
from numpy import array, sqrt, pi
from plotter.plotter import Plotter
#############################GRAPHENE###################################
d = 1.
t = 1.
system = System([d / 2. * array([3., sqrt(3), 0.]),
- d / 2. * array([3, -sqrt(3), 0.])],
mode='with_overlap', name='grapene_sp_soc')
system.atoms = [Atom('C', array([d, 0., 0.])),
Atom('C', array([2 * d, 0., 0.])),
]
system.spin_multiplier = 2
system.k_points = [array([0., 0., 0.]),
array([2 * pi / 3 / d, 2 * pi / 3 / sqrt(3) / d, 0]),
array([2 * pi / 3 / d, 0, 0]),
array([0., 0., 0.])]
system.make_k_mesh(100)
system.parameters = {
'C': {
'es': -8.7,
'ep': 0.0,
'lambda': 0.001,
},
'CC': {
'Vsss': - 6.7,
'Vsps': 5.5,
'Vpps': 5.1,
'Vppp': -3.1,
N * a / 2. * array([0., 1., 1.]),
N * a / 2. * array([1., 0., 1.])])
system.name = 'diamond_multi' + str(N)
list_of_atoms = []
for i in xrange(N):
for j in xrange(N):
for k in xrange(N):
list_of_atoms.extend([Atom('C', i * system.vectors[0] / N +
j * system.vectors[1] / N +
k * system.vectors[2] / N +
array([0., 0., 0.])),
Atom('C', i * system.vectors[0] / N +
j * system.vectors[1] / N +
k * system.vectors[2] / N +
a / 4. * array([1., 1., 1.]))])
system.atoms = list_of_atoms
system.k_points = [array([pi / a, pi / a, pi / a]),
array([0., 0., 0.]),
array([0., 2 * pi / a, 0.]),
array([pi / 2 / a, 2 * pi / a, pi / 2 / a]),
array([0., 0., 0.]), ]
system.make_k_mesh(20)
system.parameters = {
'C': {
'es': 0,
'ep': 7.4,
},
'CC': {
'Vsss': -3.8,
'Vsps': 4.44,#10.25 * sqrt(3) / 4.,
'Vppp': -1.325,
from atom.model import Atom
from system.model import System
from numpy import array, sqrt, pi
from plotter.plotter import Plotter
##########################GRAPHENE_WITH SOC###################################
a = 1. # unit vector length
system = System([a / 2. * array([1., sqrt(3), 0.]),
a / 2. * array([- 1., sqrt(3), 0.])],
mode="with_vectors", name='graphene_pd_soc')
system.atoms = [Atom('C', array([0., a / sqrt(3), 0.])),
Atom('C', array([0., 2 * a / sqrt(3), 0.])),
]
system.spin_multiplier = 2
system.k_points = [array([0., 0., 0.]),
array([pi / a, -pi / sqrt(3) / a, 0]),
array([4 * pi / 3 / a, 0, 0]),
array([0., 0., 0.])]
system.make_k_mesh(200)
system.parameters = {
'C': {
'ep': 1.2057,
'ed': 24.1657,
'lambda': 0.001
},
'CC': {
'Vppp': -3.26,
'Vpps': 0.0,
'Vpds': 0.0,
'Vpdp': 2.4,
'Vdds': 0.0,
from atom.model import Atom
from system.model import System
from numpy import array, pi
from plotter.plotter import Plotter
from dos.dos_calculator import DOSCalculator
#############################1D_Chain###################################
d = 1.
t = 1.
system = System([array([d, 0, 0])], mode='standard', name='chain2_1d')
system.atoms = [Atom('A', array([d/2, 0., 0.])),
Atom('A', array([0., 0., 0.])),]
system.k_points = [array([- pi / d, 0., 0.]),
array([0., 0., 0.]),
array([pi / d, 0., 0.]),
]
system.make_k_mesh(100)
system.parameters = {
'A': {
'es': 0.0,
},
'AA': {
'Vsss': t,
}
}
for i in xrange(len(system.atoms)):
system.atoms[i].orbitals = ['s', ]
system.just_do_main_magic()
from atom.model import Atom
from system.model import System
from numpy import array, sqrt, linspace, zeros, exp, pi
import matplotlib.pyplot as plt
import os
from itertools import izip
a = 1. # C-C bond length
n = 50
length = 100
system = System([], mode="standard",
name='zz_chain_{}_{}_pz'.format(n, length))
system.atoms = []
for j in range(length):
for i in range(n):
dx = j * sqrt(3) * a
dy = 3. * a * i
dr = array([dx, dy, 0.])
system.atoms += [
Atom('C', dr + array([0., 0., 0.])),
Atom('C', dr + array([a * sqrt(3) / 2., a / 2., 0.])),
Atom('C', dr + array([a * sqrt(3) / 2., 3 * a / 2., 0.])),
Atom('C', dr + array([0., 2 * a, 0.])),
]
system.spin_multiplier = 1
system.k_mesh = [array([0., 0., 0.]), ]
system.parameters = {
'C': {
'ep': 0.,
},
'CC': {
from atom.model import Atom
from system.model import System
from numpy import array, pi
from plotter.plotter import Plotter
###########################DIAMOND##############################
a = 1.
system = System([a / 2. * array([1., 1., 0.]),
a / 2. * array([0., 1., 1.]),
a / 2. * array([1., 0., 1.])],
name='diamond_sp', mode="standard")
system.atoms = [Atom('C', array([0., 0., 0.])),
Atom('C', a / 4. * array([1., 1., 1.])),
]
system.k_points = [array([pi / a, pi / a, pi / a]),
array([0., 0., 0.]),
array([0., 2 * pi / a, 0.]),
array([pi / 2 / a, 2 * pi / a, pi / 2 / a]),
array([0., 0., 0.]), ]
system.make_k_mesh(150)
system.parameters = {
'C': {
'es': 0,
'ep': 7.4,
},
'CC': {
'Vsss': -3.8,
'Vsps': 4.44,#10.25 * sqrt(3) / 4.,
'Vppp': -1.325,
'Vpps': 4.9
