In the previous tutorials we have mainly concentrated on calculating *global*
properties such as conductance and band structures. Often, however, insight can
be gained from calculating *locally-defined* quantities, that is, quantities
defined over individual sites or hoppings in your system. In the
Closed systems tutorial we saw how we could visualize the density
associated with the eigenstates of a system using `kwant.plotter.map`

.

In this tutorial we will see how we can calculate more general quantities than simple densities by studying spin transport in a system with a magnetic texture.

See also

You can execute the code examples live in your browser by activating thebelab:

See also

The complete source code of this example can be found in
`magnetic_texture.py`

```
# Tutorial 2.7. Spin textures
# ===========================
#
# Physics background
# ------------------
# - Spin textures
# - Skyrmions
#
# Kwant features highlighted
# --------------------------
# - operators
# - plotting vector fields
from math import sin, cos, tanh, pi
import itertools
import numpy as np
import tinyarray as ta
import matplotlib.pyplot as plt
import kwant
sigma_0 = ta.array([[1, 0], [0, 1]])
sigma_x = ta.array([[0, 1], [1, 0]])
sigma_y = ta.array([[0, -1j], [1j, 0]])
sigma_z = ta.array([[1, 0], [0, -1]])
# vector of Pauli matrices σ_αiβ where greek
# letters denote spinor indices
sigma = np.rollaxis(np.array([sigma_x, sigma_y, sigma_z]), 1)
```

```
import matplotlib
import matplotlib.pyplot
from IPython.display import set_matplotlib_formats
matplotlib.rcParams['figure.figsize'] = matplotlib.pyplot.figaspect(1) * 2
set_matplotlib_formats('svg')
```

Our starting point will be the following spinful tight-binding model on a square lattice:

\[H = - \sum_{⟨ij⟩}\sum_{α} |iα⟩⟨jα|
+ J \sum_{i}\sum_{αβ} \mathbf{m}_i⋅ \mathbf{σ}_{αβ} |iα⟩⟨iβ|,\]

where latin indices run over sites, and greek indices run over spin. We can identify the first term as a nearest-neighbor hopping between like-spins, and the second as a term that couples spins on the same site. The second term acts like a magnetic field of strength \(J\) that varies from site to site and that, on site \(i\), points in the direction of the unit vector \(\mathbf{m}_i\). \(\mathbf{σ}_{αβ}\) is a vector of Pauli matrices. We shall take the following form for \(\mathbf{m}_i\):

\[\begin{split}\mathbf{m}_i &=\ \left(
\frac{x_i}{x_i^2 + y_i^2} \sin θ_i,\
\frac{y_i}{x_i^2 + y_i^2} \sin θ_i,\
\cos θ_i \right)^T,
\\
θ_i &=\ \frac{π}{2} (\tanh \frac{r_i - r_0}{δ} - 1),\end{split}\]

where \(x_i\) and \(y_i\) are the \(x\) and \(y\) coordinates of site \(i\), and \(r_i = \sqrt{x_i^2 + y_i^2}\).

To define this model in Kwant we start as usual by defining functions that depend on the model parameters:

```
def field_direction(pos, r0, delta):
x, y = pos
r = np.linalg.norm(pos)
r_tilde = (r - r0) / delta
theta = (tanh(r_tilde) - 1) * (pi / 2)
if r == 0:
m_i = [0, 0, -1]
else:
m_i = [
(x / r) * sin(theta),
(y / r) * sin(theta),
cos(theta),
]
return np.array(m_i)
def scattering_onsite(site, r0, delta, J):
m_i = field_direction(site.pos, r0, delta)
return J * np.dot(m_i, sigma)
def lead_onsite(site, J):
return J * sigma_z
```

and define our system as a square shape on a square lattice with two orbitals per site, with leads attached on the left and right:

```
lat = kwant.lattice.square(norbs=2)
def make_system(L=80):
syst = kwant.Builder()
def square(pos):
return all(-L/2 < p < L/2 for p in pos)
syst[lat.shape(square, (0, 0))] = scattering_onsite
syst[lat.neighbors()] = -sigma_0
lead = kwant.Builder(kwant.TranslationalSymmetry((-1, 0)),
conservation_law=-sigma_z)
lead[lat.shape(square, (0, 0))] = lead_onsite
lead[lat.neighbors()] = -sigma_0
syst.attach_lead(lead)
syst.attach_lead(lead.reversed())
return syst
```

Below is a plot of a projection of \(\mathbf{m}_i\) onto the x-y plane inside the scattering region. The z component is shown by the color scale:

```
def plot_vector_field(syst, params):
xmin, ymin = min(s.tag for s in syst.sites)
xmax, ymax = max(s.tag for s in syst.sites)
x, y = np.meshgrid(np.arange(xmin, xmax+1), np.arange(ymin, ymax+1))
m_i = [field_direction(p, **params) for p in zip(x.flat, y.flat)]
m_i = np.reshape(m_i, x.shape + (3,))
m_i = np.rollaxis(m_i, 2, 0)
fig, ax = plt.subplots(1, 1)
im = ax.quiver(x, y, *m_i, pivot='mid', scale=75)
fig.colorbar(im)
plt.show()
def plot_densities(syst, densities):
fig, axes = plt.subplots(1, len(densities), figsize=(13, 10))
for ax, (title, rho) in zip(axes, densities):
kwant.plotter.density(syst, rho, ax=ax)
ax.set_title(title)
plt.show()
def plot_currents(syst, currents):
fig, axes = plt.subplots(1, len(currents), figsize=(13, 10))
if not hasattr(axes, '__len__'):
axes = (axes,)
for ax, (title, current) in zip(axes, currents):
kwant.plotter.current(syst, current, ax=ax, colorbar=False,
fig_size=(13, 10))
ax.set_title(title)
plt.show()
```

```
syst = make_system().finalized()
```

```
plot_vector_field(syst, dict(r0=20, delta=10))
```

We will now be interested in analyzing the form of the scattering states that originate from the left lead:

```
params = dict(r0=20, delta=10, J=1)
wf = kwant.wave_function(syst, energy=-1, params=params)
psi = wf(0)[0]
```

If we were simulating a spinless system with only a single degree of freedom, then calculating the density on each site would be as simple as calculating the absolute square of the wavefunction like:

```
density = np.abs(psi)**2
```

When there are multiple degrees of freedom per site, however, one has to be more careful. In the present case with two (spin) degrees of freedom per site one could calculate the per-site density like:

```
# even (odd) indices correspond to spin up (down)
up, down = psi[::2], psi[1::2]
density = np.abs(up)**2 + np.abs(down)**2
```

With more than one degree of freedom per site we have more freedom as to what local quantities we can meaningfully compute. For example, we may wish to calculate the local z-projected spin density. We could calculate this in the following way:

```
# spin down components have a minus sign
spin_z = np.abs(up)**2 - np.abs(down)**2
```

If we wanted instead to calculate the local y-projected spin density, we would need to use an even more complicated expression:

```
# spin down components have a minus sign
spin_y = 1j * (down.conjugate() * up - up.conjugate() * down)
```

The `kwant.operator`

module aims to alleviate somewhat this tedious
book-keeping by providing a simple interface for defining operators that act on
wavefunctions. To calculate the above quantities we would use the
`Density`

operator like so:

```
rho = kwant.operator.Density(syst)
rho_sz = kwant.operator.Density(syst, sigma_z)
rho_sy = kwant.operator.Density(syst, sigma_y)
# calculate the expectation values of the operators with 'psi'
density = rho(psi)
spin_z = rho_sz(psi)
spin_y = rho_sy(psi)
```

`Density`

takes a `System`

as its first parameter
as well as (optionally) a square matrix that defines the quantity that you wish
to calculate per site. When an instance of a `Density`

is then
evaluated with a wavefunction, the quantity

\[ρ_i = \mathbf{ψ}^†_i \mathbf{M} \mathbf{ψ}_i\]

is calculated for each site \(i\), where \(\mathbf{ψ}_{i}\) is a vector consisting of the wavefunction components on that site and \(\mathbf{M}\) is the square matrix referred to previously.

Below we can see colorplots of the above-calculated quantities. The array that
is returned by evaluating a `Density`

can be used directly with
`kwant.plotter.density`

:

```
plot_densities(syst, [
('$σ_0$', density),
('$σ_z$', spin_z),
('$σ_y$', spin_y),
])
```

Technical Details

Although we refer loosely to “densities” and “operators” above, a
`Density`

actually represents a *collection* of linear
operators. This can be made clear by rewriting the above definition
of \(ρ_i\) in the following way:

\[ρ_i = \sum_{αβ} ψ^*_{α} \mathcal{M}_{iαβ} ψ_{β}\]

where greek indices run over the degrees of freedom in the Hilbert space of the scattering region and latin indices run over sites. We can this identify \(\mathcal{M}_{iαβ}\) as the components of a rank-3 tensor and can represent them as a “vector of matrices”:

\[\begin{split}\mathcal{M} = \left[
\left(\begin{matrix}
\mathbf{M} & 0 & … \\
0 & 0 & … \\
⋮ & ⋮ & ⋱
\end{matrix}\right)
,\
\left(\begin{matrix}
0 & 0 & … \\
0 & \mathbf{M} & … \\
⋮ & ⋮ & ⋱
\end{matrix}\right)
, … \right]\end{split}\]

where \(\mathbf{M}\) is defined as in the main text, and the \(0\) are zero matrices of the same shape as \(\mathbf{M}\).

`kwant.operator`

also has a class `Current`

for calculating
local currents, analogously to the local “densities” described above. If
one has defined a density via a matrix \(\mathbf{M}\) and the above
equation, then one can define a local current flowing from site \(b\)
to site \(a\):

\[J_{ab} = i \left(
\mathbf{ψ}^†_b (\mathbf{H}_{ab})^† \mathbf{M} \mathbf{ψ}_a
- \mathbf{ψ}^†_a \mathbf{M} \mathbf{H}_{ab} \mathbf{ψ}_b
\right),\]

where \(\mathbf{H}_{ab}\) is the hopping matrix from site \(b\) to site \(a\). For example, to calculate the local current and spin current:

```
J_0 = kwant.operator.Current(syst)
J_z = kwant.operator.Current(syst, sigma_z)
J_y = kwant.operator.Current(syst, sigma_y)
# calculate the expectation values of the operators with 'psi'
current = J_0(psi)
spin_z_current = J_z(psi)
spin_y_current = J_y(psi)
```

Evaluating a `Current`

operator on a wavefunction returns a
1D array of values that can be directly used with `kwant.plotter.current`

:

```
plot_currents(syst, [
('$J_{σ_0}$', current),
('$J_{σ_z}$', spin_z_current),
('$J_{σ_y}$', spin_y_current),
])
```

Note

Evaluating a `Current`

operator on a wavefunction
returns a 1D array of the same length as the number of hoppings in the
system, ordered in the same way as the edges in the system’s graph.

Technical Details

Similarly to how we saw in the previous section that `Density`

can be thought of as a collection of operators, `Current`

can be defined in a similar way. Starting from the definition of a “density”:

\[ρ_a = \sum_{αβ} ψ^*_{α} \mathcal{M}_{aαβ} ψ_{β},\]

we can define *currents* \(J_{ab}\) via the continuity equation:

\[\frac{∂ρ_a}{∂t} - \sum_{b} J_{ab} = 0\]

where the sum runs over sites \(b\) neigboring site \(a\). Plugging in the definition for \(ρ_a\), along with the Schrödinger equation and the assumption that \(\mathcal{M}\) is time independent, gives:

\[J_{ab} = \sum_{αβ}
ψ^*_α \left(i \sum_{γ}
\mathcal{H}^*_{abγα} \mathcal{M}_{aγβ}
- \mathcal{M}_{aαγ} \mathcal{H}_{abγβ}
\right) ψ_β,\]

where latin indices run over sites and greek indices run over the Hilbert space degrees of freedom, and

\[\begin{split}\mathcal{H}_{ab} = \left(\begin{matrix}
⋱ & ⋮ & ⋮ & ⋮ & ⋰ \\
⋯ & ⋱ & 0 & \mathbf{H}_{ab} & ⋯ \\
⋯ & 0 & ⋱ & 0 & ⋯ \\
⋯ & 0 & 0 & ⋱ & ⋯ \\
⋰ & ⋮ & ⋮ & ⋮ & ⋱
\end{matrix}\right).\end{split}\]

i.e. \(\mathcal{H}_{ab}\) is a matrix that is zero everywhere
except on elements connecting *from* site \(b\) *to* site \(a\),
where it is equal to the hopping matrix \(\mathbf{H}_{ab}\) between
these two sites.

This allows us to identify the rank-4 quantity

\[\mathcal{J}_{abαβ} = i \sum_{γ}
\mathcal{H}^*_{abγα} \mathcal{M}_{aγβ}
- \mathcal{M}_{aαγ} \mathcal{H}_{abγβ}\]

as the local current between connected sites.

The diagonal part of this quantity, \(\mathcal{J}_{aa}\),
represents the extent to which the density defined by \(\mathcal{M}_a\)
is not conserved on site \(a\). It can be calculated using
`Source`

, rather than `Current`

, which
only computes the off-diagonal part.

The above examples are reasonably simple in the sense that the book-keeping required to manually calculate the various densities and currents is still manageable. Now we shall look at the case where we wish to calculate some projected spin currents, but where the spin projection axis varies from place to place. More specifically, we want to visualize the spin current along the direction of \(\mathbf{m}_i\), which changes continuously over the whole scattering region.

Doing this is as simple as passing a *function* when instantiating
the `Current`

, instead of a constant matrix:

```
def following_m_i(site, r0, delta):
m_i = field_direction(site.pos, r0, delta)
return np.dot(m_i, sigma)
J_m = kwant.operator.Current(syst, following_m_i)
# evaluate the operator
m_current = J_m(psi, params=dict(r0=25, delta=10))
```

The function must take a `Site`

as its first parameter,
and may optionally take other parameters (i.e. it must have the same
signature as a Hamiltonian onsite function), and must return the square
matrix that defines the operator we wish to calculate.

Note

In the above example we had to pass the extra parameters needed by the
`following_operator`

function via the `params`

keyword argument. In
general you must pass all the parameters needed by the Hamiltonian via
`params`

(as you would when calling `smatrix`

or
`wave_function`

). In the previous examples,
however, we used the fact that the system hoppings do not depend on any
parameters (these are the only Hamiltonian elements required to calculate
currents) to avoid passing the system parameters for the sake of brevity.

Using this we can see that the spin current is essentially oriented along the direction of \(m_i\) in the present regime where the onsite term in the Hamiltonian is dominant:

```
plot_currents(syst, [
(r'$J_{\mathbf{m}_i}$', m_current),
('$J_{σ_z}$', spin_z_current),
])
```

Another useful feature of `kwant.operator`

is the ability to calculate
operators over selected parts of a system. For example, we may wish to
calculate the total density of states in a certain part
of the system, or the current flowing through a cut in the system.
We can do this selection when creating the operator by using the
keyword parameter `where`

.

To calculate the density of states inside a circle of radius 20 we can simply do:

```
def circle(site):
return np.linalg.norm(site.pos) < 20
rho_circle = kwant.operator.Density(syst, where=circle, sum=True)
all_states = np.vstack((wf(0), wf(1)))
dos_in_circle = sum(rho_circle(p) for p in all_states) / (2 * pi)
print('density of states in circle:', dos_in_circle)
```

```
density of states in circle: 859.7665213065379
```

note that we also provide `sum=True`

, which means that evaluating the
operator on a wavefunction will produce a single scalar. This is semantically
equivalent to providing `sum=False`

(the default) and running `numpy.sum`

on the output.

Below we calculate the probability current and z-projected spin current near the interfaces with the left and right leads.

```
def left_cut(site_to, site_from):
return site_from.pos[0] <= -39 and site_to.pos[0] > -39
def right_cut(site_to, site_from):
return site_from.pos[0] < 39 and site_to.pos[0] >= 39
J_left = kwant.operator.Current(syst, where=left_cut, sum=True)
J_right = kwant.operator.Current(syst, where=right_cut, sum=True)
Jz_left = kwant.operator.Current(syst, sigma_z, where=left_cut, sum=True)
Jz_right = kwant.operator.Current(syst, sigma_z, where=right_cut, sum=True)
print('J_left:', J_left(psi), ' J_right:', J_right(psi))
print('Jz_left:', Jz_left(psi), ' Jz_right:', Jz_right(psi))
```

```
J_left: 0.9798539026353323 J_right: 0.9798539026350267
Jz_left: 0.9714656811978496 Jz_right: 0.9840499358240913
```

We see that the probability current is conserved across the scattering region, but the z-projected spin current is not due to the fact that the Hamiltonian does not commute with \(σ_z\) everywhere in the scattering region.

`bind`

for speed¶In most of the above examples we only used each operator *once* after creating
it. Often one will want to evaluate an operator with many different
wavefunctions, for example with all scattering wavefunctions at a certain
energy, but with the *same set of parameters*. In such cases it is best to tell
the operator to pre-compute the onsite matrices and any necessary Hamiltonian
elements using the given set of parameters, so that this work is not duplicated
every time the operator is evaluated.

This can be achieved with `bind`

:

Warning

Take care that you do not use an operator that was bound to a
particular set of parameters with wavefunctions calculated with a
*different* set of parameters. This will almost certainly give
incorrect results.

```
J_m = kwant.operator.Current(syst, following_m_i)
J_z = kwant.operator.Current(syst, sigma_z)
J_m_bound = J_m.bind(params=dict(r0=25, delta=10, J=1))
J_z_bound = J_z.bind(params=dict(r0=25, delta=10, J=1))
# Sum current local from all scattering states on the left at energy=-1
wf_left = wf(0)
J_m_left = sum(J_m_bound(p) for p in wf_left)
J_z_left = sum(J_z_bound(p) for p in wf_left)
```

```
plot_currents(syst, [
(r'$J_{\mathbf{m}_i}$ (from left)', J_m_left),
(r'$J_{σ_z}$ (from left)', J_z_left),
])
```