WcsMap

class gammapy.maps.WcsMap(geom, data, meta=None, unit='')[source]

Bases: gammapy.maps.Map

Base class for WCS map classes.

Parameters
geomWcsGeom

A WCS geometry object.

datandarray

Data array.

Attributes Summary

data

Data array (ndarray)

geom

Map geometry (Geom)

meta

Map meta (dict)

quantity

Map data times unit (Quantity)

tag

unit

Map unit (Unit)

Methods Summary

apply_edisp(edisp)

Apply energy dispersion to map.

coadd(map_in[, weights])

Add the contents of map_in to this map.

copy(**kwargs)

Copy map instance and overwrite given attributes, except for geometry.

create([map_type, npix, binsz, width, proj, …])

Factory method to create an empty WCS map.

crop(crop_width)

Crop the spatial dimensions of the map.

downsample(factor[, preserve_counts, axis])

Downsample the spatial dimension by a given factor.

fill_by_coord(coords[, weights])

Fill pixels at coords with given weights.

fill_by_idx(idx[, weights])

Fill pixels at idx with given weights.

fill_by_pix(pix[, weights])

Fill pixels at pix with given weights.

fill_events(events)

Fill event coordinates (EventList).

from_geom(geom[, meta, data, unit, dtype])

Generate an empty map from a Geom instance.

from_hdulist(hdu_list[, hdu, hdu_bands, format])

Make a WcsMap object from a FITS HDUList.

from_images(images[, axis])

Create Map from list of images and a non-spatial axis.

get_by_coord(coords)

Return map values at the given map coordinates.

get_by_idx(idx)

Return map values at the given pixel indices.

get_by_pix(pix)

Return map values at the given pixel coordinates.

get_image_by_coord(coords)

Return spatial map at the given axis coordinates.

get_image_by_idx(idx)

Return spatial map at the given axis pixel indices.

get_image_by_pix(pix)

Return spatial map at the given axis pixel coordinates

interp_by_coord(coords[, interp, fill_value])

Interpolate map values at the given map coordinates.

interp_by_pix(pix[, interp, fill_value])

Interpolate map values at the given pixel coordinates.

interp_to_geom(geom[, preserve_counts])

Interpolate map to input geometry.

iter_by_image()

Iterate over image planes of the map.

pad(pad_width[, mode, cval, order])

Pad the spatial dimensions of the map.

plot_grid([figsize, ncols])

Plot map as a grid of subplots for non-spatial axes

plot_interactive([rc_params])

Plot map with interactive widgets to explore the non spatial axes.

read(filename[, hdu, hdu_bands, map_type, …])

Read a map from a FITS file.

reduce(axis_name[, func, keepdims, weights])

Reduce map over a single non-spatial axis

reduce_over_axes([func, keepdims, …])

Reduce map over non-spatial axes

resample_axis(axis[, weights, ufunc])

Resample map to a new axis binning by grouping over smaller bins and apply ufunc to the bin contents.

set_by_coord(coords, vals)

Set pixels at coords with given vals.

set_by_idx(idx, vals)

Set pixels at idx with given vals.

set_by_pix(pix, vals)

Set pixels at pix with given vals.

slice_by_idx(slices)

Slice sub map from map object.

sum_over_axes([axes_names, keepdims, weights])

To sum map values over all non-spatial axes.

to_cube(axes)

Append non-spatial axes to create a higher-dimensional Map.

to_hdu([hdu, hdu_bands, sparse])

Make a FITS HDU from this map.

to_hdulist([hdu, hdu_bands, sparse, format])

Convert to HDUList.

upsample(factor[, order, preserve_counts, axis])

Upsample the spatial dimension by a given factor.

write(filename[, overwrite])

Write to a FITS file.

Attributes Documentation

data

Data array (ndarray)

geom

Map geometry (Geom)

meta

Map meta (dict)

quantity

Map data times unit (Quantity)

tag = 'map'
unit

Map unit (Unit)

Methods Documentation

apply_edisp(edisp)

Apply energy dispersion to map. Requires energy axis.

Parameters
edispgammapy.irf.EDispKernel

Energy dispersion matrix

Returns
mapWcsNDMap

Map with energy dispersion applied.

coadd(map_in, weights=None)

Add the contents of map_in to this map.

This method can be used to combine maps containing integral quantities (e.g. counts) or differential quantities if the maps have the same binning.

Parameters
map_inMap

Input map.

weights: `Map` or `~numpy.ndarray`

The weight factors while adding

copy(**kwargs)

Copy map instance and overwrite given attributes, except for geometry.

Parameters
**kwargsdict

Keyword arguments to overwrite in the map constructor.

Returns
copyMap

Copied Map.

classmethod create(map_type='wcs', npix=None, binsz=0.1, width=None, proj='CAR', frame='icrs', refpix=None, axes=None, skydir=None, dtype='float32', meta=None, unit='')[source]

Factory method to create an empty WCS map.

Parameters
map_type{‘wcs’, ‘wcs-sparse’}

Map type. Selects the class that will be used to instantiate the map.

npixint or tuple or list

Width of the map in pixels. A tuple will be interpreted as parameters for longitude and latitude axes. For maps with non-spatial dimensions, list input can be used to define a different map width in each image plane. This option supersedes width.

widthfloat or tuple or list

Width of the map in degrees. A tuple will be interpreted as parameters for longitude and latitude axes. For maps with non-spatial dimensions, list input can be used to define a different map width in each image plane.

binszfloat or tuple or list

Map pixel size in degrees. A tuple will be interpreted as parameters for longitude and latitude axes. For maps with non-spatial dimensions, list input can be used to define a different bin size in each image plane.

skydirtuple or SkyCoord

Sky position of map center. Can be either a SkyCoord object or a tuple of longitude and latitude in deg in the coordinate system of the map.

frame{“icrs”, “galactic”}, optional

Coordinate system, either Galactic (“galactic”) or Equatorial (“icrs”).

axeslist

List of non-spatial axes.

projstring, optional

Any valid WCS projection type. Default is ‘CAR’ (cartesian).

refpixtuple

Reference pixel of the projection. If None then this will be chosen to be center of the map.

dtypestr, optional

Data type, default is float32

metadict

Dictionary to store meta data.

unitstr or Unit

The unit of the map

Returns
mapWcsMap

A WCS map object.

abstract crop(crop_width)

Crop the spatial dimensions of the map.

Parameters
crop_width{sequence, array_like, int}

Number of pixels cropped from the edges of each axis. Defined analogously to pad_with from numpy.pad.

Returns
mapMap

Cropped map.

abstract downsample(factor, preserve_counts=True, axis=None)

Downsample the spatial dimension by a given factor.

Parameters
factorint

Downsampling factor.

preserve_countsbool

Preserve the integral over each bin. This should be true if the map is an integral quantity (e.g. counts) and false if the map is a differential quantity (e.g. intensity).

axisstr

Which axis to downsample. By default spatial axes are downsampled.

Returns
mapMap

Downsampled map.

fill_by_coord(coords, weights=None)

Fill pixels at coords with given weights.

Parameters
coordstuple or MapCoord

Coordinate arrays for each dimension of the map. Tuple should be ordered as (lon, lat, x_0, …, x_n) where x_i are coordinates for non-spatial dimensions of the map.

weightsndarray

Weights vector. Default is weight of one.

abstract fill_by_idx(idx, weights=None)

Fill pixels at idx with given weights.

Parameters
idxtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps.

weightsndarray

Weights vector. Default is weight of one.

fill_by_pix(pix, weights=None)

Fill pixels at pix with given weights.

Parameters
pixtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps. Pixel indices can be either float or integer type. Float indices will be rounded to the nearest integer.

weightsndarray

Weights vector. Default is weight of one.

fill_events(events)

Fill event coordinates (EventList).

static from_geom(geom, meta=None, data=None, unit='', dtype='float32')

Generate an empty map from a Geom instance.

Parameters
geomGeom

Map geometry.

datanumpy.ndarray

data array

metadict

Dictionary to store meta data.

unitstr or Unit

Data unit.

Returns
map_outMap

Map object

classmethod from_hdulist(hdu_list, hdu=None, hdu_bands=None, format=None)[source]

Make a WcsMap object from a FITS HDUList.

Parameters
hdu_listHDUList

HDU list containing HDUs for map data and bands.

hdustr

Name or index of the HDU with the map data.

hdu_bandsstr

Name or index of the HDU with the BANDS table.

format{‘gadf’, ‘fgst-ccube’, ‘fgst-template’}

FITS format convention.

Returns
wcs_mapWcsMap

Map object

classmethod from_images(images, axis=None)

Create Map from list of images and a non-spatial axis.

If the images have a non-spatial axis of length 1 a new axes is generated from by merging the individual axes. The image geometries must be aligned.

Parameters
imageslist of Map objects

Images

axisMapAxis

Map axis

Returns
mapMap

Map with additional non-spatial axis.

get_by_coord(coords)

Return map values at the given map coordinates.

Parameters
coordstuple or MapCoord

Coordinate arrays for each dimension of the map. Tuple should be ordered as (lon, lat, x_0, …, x_n) where x_i are coordinates for non-spatial dimensions of the map.

Returns
valsndarray

Values of pixels in the map. np.nan used to flag coords outside of map.

abstract get_by_idx(idx)

Return map values at the given pixel indices.

Parameters
idxtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps.

Returns
valsndarray

Array of pixel values. np.nan used to flag coordinate outside of map

get_by_pix(pix)

Return map values at the given pixel coordinates.

Parameters
pixtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps. Pixel indices can be either float or integer type.

Returns
valsndarray

Array of pixel values. np.nan used to flag coordinates outside of map

get_image_by_coord(coords)

Return spatial map at the given axis coordinates.

Parameters
coordstuple or dict

Tuple should be ordered as (x_0, …, x_n) where x_i are coordinates for non-spatial dimensions of the map. Dict should specify the axis names of the non-spatial axes such as {‘axes0’: x_0, …, ‘axesn’: x_n}.

Returns
map_outMap

Map with spatial dimensions only.

See also

get_image_by_idx, get_image_by_pix

Examples

import numpy as np
from gammapy.maps import Map, MapAxis
from astropy.coordinates import SkyCoord
from astropy import units as u

# Define map axes
energy_axis = MapAxis.from_edges(
    np.logspace(-1., 1., 4), unit='TeV', name='energy',
)

time_axis = MapAxis.from_edges(
    np.linspace(0., 10, 20), unit='h', name='time',
)

# Define map center
skydir = SkyCoord(0, 0, frame='galactic', unit='deg')

# Create map
m_wcs = Map.create(
    map_type='wcs',
    binsz=0.02,
    skydir=skydir,
    width=10.0,
    axes=[energy_axis, time_axis],
)

# Get image by coord tuple
image = m_wcs.get_image_by_coord(('500 GeV', '1 h'))

# Get image by coord dict with strings
image = m_wcs.get_image_by_coord({'energy': '500 GeV', 'time': '1 h'})

# Get image by coord dict with quantities
image = m_wcs.get_image_by_coord({'energy': 0.5 * u.TeV, 'time': 1 * u.h})
get_image_by_idx(idx)

Return spatial map at the given axis pixel indices.

Parameters
idxtuple

Tuple of scalar indices for each non spatial dimension of the map. Tuple should be ordered as (I_0, …, I_n).

Returns
map_outMap

Map with spatial dimensions only.

See also

get_image_by_coord, get_image_by_pix
get_image_by_pix(pix)

Return spatial map at the given axis pixel coordinates

Parameters
pixtuple

Tuple of scalar pixel coordinates for each non-spatial dimension of the map. Tuple should be ordered as (I_0, …, I_n). Pixel coordinates can be either float or integer type.

Returns
map_outMap

Map with spatial dimensions only.

See also

get_image_by_coord, get_image_by_idx
abstract interp_by_coord(coords, interp=None, fill_value=None)

Interpolate map values at the given map coordinates.

Parameters
coordstuple or MapCoord

Coordinate arrays for each dimension of the map. Tuple should be ordered as (lon, lat, x_0, …, x_n) where x_i are coordinates for non-spatial dimensions of the map.

interp{None, ‘nearest’, ‘linear’, ‘cubic’, 0, 1, 2, 3}

Method to interpolate data values. By default no interpolation is performed and the return value will be the amplitude of the pixel encompassing the given coordinate. Integer values can be used in lieu of strings to choose the interpolation method of the given order (0=’nearest’, 1=’linear’, 2=’quadratic’, 3=’cubic’). Note that only ‘nearest’ and ‘linear’ methods are supported for all map types.

fill_valueNone or float value

The value to use for points outside of the interpolation domain. If None, values outside the domain are extrapolated.

Returns
valsndarray

Interpolated pixel values.

abstract interp_by_pix(pix, interp=None, fill_value=None)

Interpolate map values at the given pixel coordinates.

Parameters
pixtuple

Tuple of pixel coordinate arrays for each dimension of the map. Tuple should be ordered as (p_lon, p_lat, p_0, …, p_n) where p_i are pixel coordinates for non-spatial dimensions of the map.

interp{None, ‘nearest’, ‘linear’, ‘cubic’, 0, 1, 2, 3}

Method to interpolate data values. By default no interpolation is performed and the return value will be the amplitude of the pixel encompassing the given coordinate. Integer values can be used in lieu of strings to choose the interpolation method of the given order (0=’nearest’, 1=’linear’, 2=’quadratic’, 3=’cubic’). Note that only ‘nearest’ and ‘linear’ methods are supported for all map types.

fill_valueNone or float value

The value to use for points outside of the interpolation domain. If None, values outside the domain are extrapolated.

Returns
valsndarray

Interpolated pixel values.

interp_to_geom(geom, preserve_counts=False, **kwargs)

Interpolate map to input geometry.

Parameters
geomGeom

Target Map geometry

preserve_countsbool

Preserve the integral over each bin. This should be true if the map is an integral quantity (e.g. counts) and false if the map is a differential quantity (e.g. intensity)

**kwargsdict

Keyword arguments passed to Map.interp_by_coord

Returns
interp_mapMap

Interpolated Map

iter_by_image()

Iterate over image planes of the map.

This is a generator yielding (data, idx) tuples, where data is a numpy.ndarray view of the image plane data, and idx is a tuple of int, the index of the image plane.

The image plane index is in data order, so that the data array can be indexed directly. See Iterating by image for further information.

abstract pad(pad_width, mode='constant', cval=0, order=1)

Pad the spatial dimensions of the map.

Parameters
pad_width{sequence, array_like, int}

Number of pixels padded to the edges of each axis.

mode{‘edge’, ‘constant’, ‘interp’}

Padding mode. ‘edge’ pads with the closest edge value. ‘constant’ pads with a constant value. ‘interp’ pads with an extrapolated value.

cvalfloat

Padding value when mode=’consant’.

orderint

Order of interpolation when mode=’constant’ (0 = nearest-neighbor, 1 = linear, 2 = quadratic, 3 = cubic).

Returns
mapMap

Padded map.

plot_grid(figsize=None, ncols=3, **kwargs)

Plot map as a grid of subplots for non-spatial axes

Parameters
figsizetuple of int

Figsize to plot on

ncolsint

Number of columns to plot

**kwargsdict

Keyword arguments passed to Map.plot.

Returns
axesndarray of Axes

Axes grid

plot_interactive(rc_params=None, **kwargs)

Plot map with interactive widgets to explore the non spatial axes.

Parameters
rc_paramsdict

Passed to matplotlib.rc_context(rc=rc_params) to style the plot.

**kwargsdict

Keyword arguments passed to WcsNDMap.plot.

Examples

You can try this out e.g. using a Fermi-LAT diffuse model cube with an energy axis:

from gammapy.maps import Map

m = Map.read("$GAMMAPY_DATA/fermi_3fhl/gll_iem_v06_cutout.fits")
m.plot_interactive(add_cbar=True, stretch="sqrt")

If you would like to adjust the figure size you can use the rc_params argument:

rc_params = {'figure.figsize': (12, 6), 'font.size': 12}
m.plot_interactive(rc_params=rc_params)
static read(filename, hdu=None, hdu_bands=None, map_type='auto', format=None)

Read a map from a FITS file.

Parameters
filenamestr or Path

Name of the FITS file.

hdustr

Name or index of the HDU with the map data.

hdu_bandsstr

Name or index of the HDU with the BANDS table. If not defined this will be inferred from the FITS header of the map HDU.

map_type{‘wcs’, ‘wcs-sparse’, ‘hpx’, ‘hpx-sparse’, ‘auto’}

Map type. Selects the class that will be used to instantiate the map. The map type should be consistent with the format of the input file. If map_type is ‘auto’ then an appropriate map type will be inferred from the input file.

Returns
map_outMap

Map object

reduce(axis_name, func=<ufunc 'add'>, keepdims=False, weights=None)

Reduce map over a single non-spatial axis

Parameters
axis_name: str

The name of the axis to reduce over

funcufunc

Function to use for reducing the data.

keepdimsbool, optional

If this is set to true, the axes which are summed over are left in the map with a single bin

weightsMap

Weights to be applied.

Returns
map_outMap

Map with the given non-spatial axes reduced

reduce_over_axes(func=<ufunc 'add'>, keepdims=False, axes_names=None, weights=None)

Reduce map over non-spatial axes

Parameters
funcufunc

Function to use for reducing the data.

keepdimsbool, optional

If this is set to true, the axes which are summed over are left in the map with a single bin

axes_names: list

Names of MapAxis to reduce over If None, all will reduced

weightsMap

Weights to be applied.

Returns
map_outMap

Map with non-spatial axes reduced

resample_axis(axis, weights=None, ufunc=<ufunc 'add'>)

Resample map to a new axis binning by grouping over smaller bins and apply ufunc to the bin contents.

By default, the map content are summed over the smaller bins. Other numpy ufunc can be used, e.g. np.logical_and, np.logical_or

Parameters
axisMapAxis

New map axis.

weightsMap

Array to be used as weights. The spatial geometry must be equivalent to other and additional axes must be broadcastable.

ufuncufunc

ufunc to use to resample the axis. Default is numpy.add.

Returns
mapMap

Map with resampled axis.

set_by_coord(coords, vals)

Set pixels at coords with given vals.

Parameters
coordstuple or MapCoord

Coordinate arrays for each dimension of the map. Tuple should be ordered as (lon, lat, x_0, …, x_n) where x_i are coordinates for non-spatial dimensions of the map.

valsndarray

Values vector.

abstract set_by_idx(idx, vals)

Set pixels at idx with given vals.

Parameters
idxtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps.

valsndarray

Values vector.

set_by_pix(pix, vals)

Set pixels at pix with given vals.

Parameters
pixtuple

Tuple of pixel index arrays for each dimension of the map. Tuple should be ordered as (I_lon, I_lat, I_0, …, I_n) for WCS maps and (I_hpx, I_0, …, I_n) for HEALPix maps. Pixel indices can be either float or integer type. Float indices will be rounded to the nearest integer.

valsndarray

Values vector.

slice_by_idx(slices)

Slice sub map from map object.

For usage examples, see Indexing and Slicing.

Parameters
slicesdict

Dict of axes names and integers or slice object pairs. Contains one element for each non-spatial dimension. For integer indexing the corresponding axes is dropped from the map. Axes not specified in the dict are kept unchanged.

Returns
map_outMap

Sliced map object.

sum_over_axes(axes_names=None, keepdims=True, weights=None)

To sum map values over all non-spatial axes.

Parameters
keepdimsbool, optional

If this is set to true, the axes which are summed over are left in the map with a single bin

axes_names: list of str

Names of MapAxis to reduce over. If None, all will summed over

weightsMap

Weights to be applied. The Map should have the same geometry.

Returns
map_outMap

Map with non-spatial axes summed over

to_cube(axes)

Append non-spatial axes to create a higher-dimensional Map.

This will result in a Map with a new geometry with N+M dimensions where N is the number of current dimensions and M is the number of axes in the list. The data is reshaped onto the new geometry

Parameters
axeslist

Axes that will be appended to this Map. The axes should have only one bin

Returns
mapWcsNDMap

new map

to_hdu(hdu='SKYMAP', hdu_bands=None, sparse=False)[source]

Make a FITS HDU from this map.

Parameters
hdustr

The HDU extension name.

hdu_bandsstr

The HDU extension name for BANDS table.

sparsebool

Set INDXSCHM to SPARSE and sparsify the map by only writing pixels with non-zero amplitude.

Returns
hduBinTableHDU or ImageHDU

HDU containing the map data.

to_hdulist(hdu=None, hdu_bands=None, sparse=False, format='gadf')[source]

Convert to HDUList.

Parameters
hdustr

Name or index of the HDU with the map data.

hdu_bandsstr

Name or index of the HDU with the BANDS table.

sparsebool

Sparsify the map by only writing pixels with non-zero amplitude.

format{‘gadf’, ‘fgst-ccube’,’fgst-template’}

FITS format convention.

Returns
hdu_listHDUList
abstract upsample(factor, order=0, preserve_counts=True, axis=None)

Upsample the spatial dimension by a given factor.

Parameters
factorint

Upsampling factor.

orderint

Order of the interpolation used for upsampling.

preserve_countsbool

Preserve the integral over each bin. This should be true if the map is an integral quantity (e.g. counts) and false if the map is a differential quantity (e.g. intensity).

axisstr

Which axis to upsample. By default spatial axes are upsampled.

Returns
mapMap

Upsampled map.

write(filename, overwrite=False, **kwargs)

Write to a FITS file.

Parameters
filenamestr

Output file name.

overwritebool

Overwrite existing file?

hdustr

Set the name of the image extension. By default this will be set to SKYMAP (for BINTABLE HDU) or PRIMARY (for IMAGE HDU).

hdu_bandsstr

Set the name of the bands table extension. By default this will be set to BANDS.

formatstr, optional

FITS format convention. By default files will be written to the gamma-astro-data-formats (GADF) format. This option can be used to write files that are compliant with format conventions required by specific software (e.g. the Fermi Science Tools). The following formats are supported:

  • “gadf” (default)

  • “fgst-ccube”

  • “fgst-ltcube”

  • “fgst-bexpcube”

  • “fgst-srcmap”

  • “fgst-template”

  • “fgst-srcmap-sparse”

  • “galprop”

  • “galprop2”

sparsebool

Sparsify the map by dropping pixels with zero amplitude. This option is only compatible with the ‘gadf’ format.