SpatialMap¶
- class SpatialMap(data: ndarray, positions: _SupportsArray[dtype[Any]] | _NestedSequence[_SupportsArray[dtype[Any]]] | bool | int | float | complex | str | bytes | _NestedSequence[bool | int | float | complex | str | bytes] | AbstractSites, sublattices: _SupportsArray[dtype[Any]] | _NestedSequence[_SupportsArray[dtype[Any]]] | bool | int | float | complex | str | bytes | _NestedSequence[bool | int | float | complex | str | bytes] | None = None)¶
Represents some spatially dependent property: data mapped to site positions
Attributes
callsig
1D array of values for each site, i.e. maps directly to x, y, z site coordinates.
Total number of lattice sites
Lattice site positions.
1D array of sublattices IDs, short for
.sublattices
1D array of sublattices IDs
1D array of coordinates, short for
.positions.x
Return a new array with shape=(N, 3).
1D array of coordinates, short for
.positions.y
1D array of coordinates, short for
.positions.z
Methods
__getitem__
(idx)Same rules as numpy indexing
_decorate_plot
([ax])_make_crop_indices
(limits)Return the indices into
obj
which retain only the data within the given limitsclipped
(v_min, v_max)Clip (limit) the values in the
data
array, seeclip()
convolve
([sigma])Convolve the data with a Gaussian kernel of the given standard deviation
cropped
(**limits)Return a copy which retains only the sites within the given limits
plot_contour
([ax])Contour plot of the xy plane
plot_contourf
([num_levels, ax])Filled contour plot of the xy plane
plot_pcolor
([ax])Color plot of the xy plane
save_txt
(filename)with_data
(data)Return a copy of this object with different data mapped to the sites
- __getitem__(idx: int | _SupportsArray[dtype[Any]] | _NestedSequence[_SupportsArray[dtype[Any]]] | bool | float | complex | str | bytes | _NestedSequence[bool | int | float | complex | str | bytes]) SpatialMap ¶
Same rules as numpy indexing
- clipped(v_min: int, v_max: int) SpatialMap ¶
Clip (limit) the values in the
data
array, seeclip()
- convolve(sigma: float = 0.25)¶
Convolve the data with a Gaussian kernel of the given standard deviation
- Parameters:
- sigmafloat
Standard deviation of the Gaussian kernel
- cropped(**limits) SpatialMap ¶
Return a copy which retains only the sites within the given limits
- Parameters:
- **limits
Attribute names and corresponding limits. See example.
Examples
Leave only the data where -10 <= x < 10 and 2 <= y < 4:
new = original.cropped(x=[-10, 10], y=[2, 4])
- plot_contour(ax: Axes | None = None, **kwargs) TriContourSet ¶
Contour plot of the xy plane
- Parameters:
- axOptional[plt.Axes]
The axis to plot on.
- **kwargs
Forwarded to
tricontour()
.
- plot_contourf(num_levels: int = 50, ax: Axes | None = None, **kwargs) TriContourSet ¶
Filled contour plot of the xy plane
- Parameters:
- num_levelsint
Number of contour levels.
- axOptional[plt.Axes]
The axis to plot on.
- **kwargs
Forwarded to
tricontourf()
.
- plot_pcolor(ax: Axes | None = None, **kwargs) TriMesh | PolyCollection ¶
Color plot of the xy plane
- Parameters:
- axOptional[plt.Axes]
The axis to plot on.
- **kwargs
Forwarded to
tripcolor()
.
- with_data(data) SpatialMap ¶
Return a copy of this object with different data mapped to the sites
- property data: ndarray¶
1D array of values for each site, i.e. maps directly to x, y, z site coordinates
- property positions: Positions¶
Lattice site positions. Named tuple with x, y, z fields, each a 1D array.
- property sub: ndarray¶
1D array of sublattices IDs, short for
.sublattices