forked from pydata/xarray
-
Notifications
You must be signed in to change notification settings - Fork 0
Expand file tree
/
Copy pathplot.py
More file actions
1117 lines (938 loc) · 42.3 KB
/
plot.py
File metadata and controls
1117 lines (938 loc) · 42.3 KB
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
970
971
972
973
974
975
976
977
978
979
980
981
982
983
984
985
986
987
988
989
990
991
992
993
994
995
996
997
998
999
1000
"""
Use this module directly:
import xarray.plot as xplt
Or use the methods on a DataArray:
DataArray.plot._____
"""
from __future__ import absolute_import, division, print_function
import functools
import warnings
from datetime import datetime
import numpy as np
import pandas as pd
from xarray.core.common import contains_cftime_datetimes
from xarray.core.pycompat import basestring
from .facetgrid import FacetGrid
from .utils import (
ROBUST_PERCENTILE, _determine_cmap_params, _infer_xy_labels,
_interval_to_double_bound_points, _interval_to_mid_points,
_resolve_intervals_2dplot, _valid_other_type, get_axis,
import_matplotlib_pyplot, label_from_attrs)
def _valid_numpy_subdtype(x, numpy_types):
"""
Is any dtype from numpy_types superior to the dtype of x?
"""
# If any of the types given in numpy_types is understood as numpy.generic,
# all possible x will be considered valid. This is probably unwanted.
for t in numpy_types:
assert not np.issubdtype(np.generic, t)
return any(np.issubdtype(x.dtype, t) for t in numpy_types)
def _ensure_plottable(*args):
"""
Raise exception if there is anything in args that can't be plotted on an
axis by matplotlib.
"""
numpy_types = [np.floating, np.integer, np.timedelta64, np.datetime64]
other_types = [datetime]
for x in args:
if not (_valid_numpy_subdtype(np.array(x), numpy_types)
or _valid_other_type(np.array(x), other_types)):
raise TypeError('Plotting requires coordinates to be numeric '
'or dates of type np.datetime64 or '
'datetime.datetime or pd.Interval.')
def _easy_facetgrid(darray, plotfunc, x, y, row=None, col=None,
col_wrap=None, sharex=True, sharey=True, aspect=None,
size=None, subplot_kws=None, **kwargs):
"""
Convenience method to call xarray.plot.FacetGrid from 2d plotting methods
kwargs are the arguments to 2d plotting method
"""
ax = kwargs.pop('ax', None)
figsize = kwargs.pop('figsize', None)
if ax is not None:
raise ValueError("Can't use axes when making faceted plots.")
if aspect is None:
aspect = 1
if size is None:
size = 3
elif figsize is not None:
raise ValueError('cannot provide both `figsize` and `size` arguments')
g = FacetGrid(data=darray, col=col, row=row, col_wrap=col_wrap,
sharex=sharex, sharey=sharey, figsize=figsize,
aspect=aspect, size=size, subplot_kws=subplot_kws)
return g.map_dataarray(plotfunc, x, y, **kwargs)
def _line_facetgrid(darray, row=None, col=None, hue=None,
col_wrap=None, sharex=True, sharey=True, aspect=None,
size=None, subplot_kws=None, **kwargs):
"""
Convenience method to call xarray.plot.FacetGrid for line plots
kwargs are the arguments to pyplot.plot()
"""
ax = kwargs.pop('ax', None)
figsize = kwargs.pop('figsize', None)
if ax is not None:
raise ValueError("Can't use axes when making faceted plots.")
if aspect is None:
aspect = 1
if size is None:
size = 3
elif figsize is not None:
raise ValueError('cannot provide both `figsize` and `size` arguments')
g = FacetGrid(data=darray, col=col, row=row, col_wrap=col_wrap,
sharex=sharex, sharey=sharey, figsize=figsize,
aspect=aspect, size=size, subplot_kws=subplot_kws)
return g.map_dataarray_line(hue=hue, **kwargs)
def plot(darray, row=None, col=None, col_wrap=None, ax=None, hue=None,
rtol=0.01, subplot_kws=None, **kwargs):
"""
Default plot of DataArray using matplotlib.pyplot.
Calls xarray plotting function based on the dimensions of
darray.squeeze()
=============== ===========================
Dimensions Plotting function
--------------- ---------------------------
1 :py:func:`xarray.plot.line`
2 :py:func:`xarray.plot.pcolormesh`
Anything else :py:func:`xarray.plot.hist`
=============== ===========================
Parameters
----------
darray : DataArray
row : string, optional
If passed, make row faceted plots on this dimension name
col : string, optional
If passed, make column faceted plots on this dimension name
hue : string, optional
If passed, make faceted line plots with hue on this dimension name
col_wrap : integer, optional
Use together with ``col`` to wrap faceted plots
ax : matplotlib axes, optional
If None, uses the current axis. Not applicable when using facets.
rtol : number, optional
Relative tolerance used to determine if the indexes
are uniformly spaced. Usually a small positive number.
subplot_kws : dict, optional
Dictionary of keyword arguments for matplotlib subplots. Only applies
to FacetGrid plotting.
**kwargs : optional
Additional keyword arguments to matplotlib
"""
darray = darray.squeeze()
if contains_cftime_datetimes(darray):
raise NotImplementedError(
'Built-in plotting of arrays of cftime.datetime objects or arrays '
'indexed by cftime.datetime objects is currently not implemented '
'within xarray. A possible workaround is to use the '
'nc-time-axis package '
'(https://github.com/SciTools/nc-time-axis) to convert the dates '
'to a plottable type and plot your data directly with matplotlib.')
plot_dims = set(darray.dims)
plot_dims.discard(row)
plot_dims.discard(col)
plot_dims.discard(hue)
ndims = len(plot_dims)
error_msg = ('Only 1d and 2d plots are supported for facets in xarray. '
'See the package `Seaborn` for more options.')
if ndims in [1, 2]:
if row or col:
kwargs['row'] = row
kwargs['col'] = col
kwargs['col_wrap'] = col_wrap
kwargs['subplot_kws'] = subplot_kws
if ndims == 1:
plotfunc = line
kwargs['hue'] = hue
elif ndims == 2:
if hue:
plotfunc = line
kwargs['hue'] = hue
else:
plotfunc = pcolormesh
else:
if row or col or hue:
raise ValueError(error_msg)
plotfunc = hist
kwargs['ax'] = ax
return plotfunc(darray, **kwargs)
def _infer_line_data(darray, x, y, hue):
error_msg = ('must be either None or one of ({0:s})'
.format(', '.join([repr(dd) for dd in darray.dims])))
ndims = len(darray.dims)
if x is not None and x not in darray.dims and x not in darray.coords:
raise ValueError('x ' + error_msg)
if y is not None and y not in darray.dims and y not in darray.coords:
raise ValueError('y ' + error_msg)
if x is not None and y is not None:
raise ValueError('You cannot specify both x and y kwargs'
'for line plots.')
if ndims == 1:
dim, = darray.dims # get the only dimension name
huename = None
hueplt = None
huelabel = ''
if (x is None and y is None) or x == dim:
xplt = darray[dim]
yplt = darray
else:
yplt = darray[dim]
xplt = darray
else:
if x is None and y is None and hue is None:
raise ValueError('For 2D inputs, please'
'specify either hue, x or y.')
if y is None:
xname, huename = _infer_xy_labels(darray=darray, x=x, y=hue)
xplt = darray[xname]
if xplt.ndim > 1:
if huename in darray.dims:
otherindex = 1 if darray.dims.index(huename) == 0 else 0
otherdim = darray.dims[otherindex]
yplt = darray.transpose(otherdim, huename)
xplt = xplt.transpose(otherdim, huename)
else:
raise ValueError('For 2D inputs, hue must be a dimension'
+ ' i.e. one of ' + repr(darray.dims))
else:
yplt = darray.transpose(xname, huename)
else:
yname, huename = _infer_xy_labels(darray=darray, x=y, y=hue)
yplt = darray[yname]
if yplt.ndim > 1:
if huename in darray.dims:
otherindex = 1 if darray.dims.index(huename) == 0 else 0
xplt = darray.transpose(otherdim, huename)
else:
raise ValueError('For 2D inputs, hue must be a dimension'
+ ' i.e. one of ' + repr(darray.dims))
else:
xplt = darray.transpose(yname, huename)
huelabel = label_from_attrs(darray[huename])
hueplt = darray[huename]
xlabel = label_from_attrs(xplt)
ylabel = label_from_attrs(yplt)
return xplt, yplt, hueplt, xlabel, ylabel, huelabel
# This function signature should not change so that it can use
# matplotlib format strings
def line(darray, *args, **kwargs):
"""
Line plot of DataArray index against values
Wraps :func:`matplotlib:matplotlib.pyplot.plot`
Parameters
----------
darray : DataArray
Must be 1 dimensional
figsize : tuple, optional
A tuple (width, height) of the figure in inches.
Mutually exclusive with ``size`` and ``ax``.
aspect : scalar, optional
Aspect ratio of plot, so that ``aspect * size`` gives the width in
inches. Only used if a ``size`` is provided.
size : scalar, optional
If provided, create a new figure for the plot with the given size.
Height (in inches) of each plot. See also: ``aspect``.
ax : matplotlib axes object, optional
Axis on which to plot this figure. By default, use the current axis.
Mutually exclusive with ``size`` and ``figsize``.
hue : string, optional
Dimension or coordinate for which you want multiple lines plotted.
If plotting against a 2D coordinate, ``hue`` must be a dimension.
x, y : string, optional
Dimensions or coordinates for x, y axis.
Only one of these may be specified.
The other coordinate plots values from the DataArray on which this
plot method is called.
xscale, yscale : 'linear', 'symlog', 'log', 'logit', optional
Specifies scaling for the x- and y-axes respectively
xticks, yticks : Specify tick locations for x- and y-axes
xlim, ylim : Specify x- and y-axes limits
xincrease : None, True, or False, optional
Should the values on the x axes be increasing from left to right?
if None, use the default for the matplotlib function.
yincrease : None, True, or False, optional
Should the values on the y axes be increasing from top to bottom?
if None, use the default for the matplotlib function.
add_legend : boolean, optional
Add legend with y axis coordinates (2D inputs only).
*args, **kwargs : optional
Additional arguments to matplotlib.pyplot.plot
"""
# Handle facetgrids first
row = kwargs.pop('row', None)
col = kwargs.pop('col', None)
if row or col:
allargs = locals().copy()
allargs.update(allargs.pop('kwargs'))
return _line_facetgrid(**allargs)
ndims = len(darray.dims)
if ndims > 2:
raise ValueError('Line plots are for 1- or 2-dimensional DataArrays. '
'Passed DataArray has {ndims} '
'dimensions'.format(ndims=ndims))
# Ensures consistency with .plot method
figsize = kwargs.pop('figsize', None)
aspect = kwargs.pop('aspect', None)
size = kwargs.pop('size', None)
ax = kwargs.pop('ax', None)
hue = kwargs.pop('hue', None)
x = kwargs.pop('x', None)
y = kwargs.pop('y', None)
xincrease = kwargs.pop('xincrease', None) # default needs to be None
yincrease = kwargs.pop('yincrease', None)
xscale = kwargs.pop('xscale', None) # default needs to be None
yscale = kwargs.pop('yscale', None)
xticks = kwargs.pop('xticks', None)
yticks = kwargs.pop('yticks', None)
xlim = kwargs.pop('xlim', None)
ylim = kwargs.pop('ylim', None)
add_legend = kwargs.pop('add_legend', True)
_labels = kwargs.pop('_labels', True)
if args is ():
args = kwargs.pop('args', ())
ax = get_axis(figsize, size, aspect, ax)
xplt, yplt, hueplt, xlabel, ylabel, huelabel = \
_infer_line_data(darray, x, y, hue)
# Remove pd.Intervals if contained in xplt.values.
if _valid_other_type(xplt.values, [pd.Interval]):
# Is it a step plot? (see matplotlib.Axes.step)
if kwargs.get('linestyle', '').startswith('steps-'):
xplt_val, yplt_val = _interval_to_double_bound_points(xplt.values,
yplt.values)
# Remove steps-* to be sure that matplotlib is not confused
kwargs['linestyle'] = (kwargs['linestyle']
.replace('steps-pre', '')
.replace('steps-post', '')
.replace('steps-mid', ''))
if kwargs['linestyle'] == '':
kwargs.pop('linestyle')
else:
xplt_val = _interval_to_mid_points(xplt.values)
yplt_val = yplt.values
xlabel += '_center'
else:
xplt_val = xplt.values
yplt_val = yplt.values
_ensure_plottable(xplt_val, yplt_val)
primitive = ax.plot(xplt_val, yplt_val, *args, **kwargs)
if _labels:
if xlabel is not None:
ax.set_xlabel(xlabel)
if ylabel is not None:
ax.set_ylabel(ylabel)
ax.set_title(darray._title_for_slice())
if darray.ndim == 2 and add_legend:
ax.legend(handles=primitive,
labels=list(hueplt.values),
title=huelabel)
# Rotate dates on xlabels
# Do this without calling autofmt_xdate so that x-axes ticks
# on other subplots (if any) are not deleted.
# https://stackoverflow.com/questions/17430105/autofmt-xdate-deletes-x-axis-labels-of-all-subplots
if np.issubdtype(xplt.dtype, np.datetime64):
for xlabels in ax.get_xticklabels():
xlabels.set_rotation(30)
xlabels.set_ha('right')
_update_axes(ax, xincrease, yincrease, xscale, yscale,
xticks, yticks, xlim, ylim)
return primitive
def step(darray, *args, **kwargs):
"""
Step plot of DataArray index against values
Similar to :func:`matplotlib:matplotlib.pyplot.step`
Parameters
----------
where : {'pre', 'post', 'mid'}, optional, default 'pre'
Define where the steps should be placed:
- 'pre': The y value is continued constantly to the left from
every *x* position, i.e. the interval ``(x[i-1], x[i]]`` has the
value ``y[i]``.
- 'post': The y value is continued constantly to the right from
every *x* position, i.e. the interval ``[x[i], x[i+1])`` has the
value ``y[i]``.
- 'mid': Steps occur half-way between the *x* positions.
Note that this parameter is ignored if the x coordinate consists of
:py:func:`pandas.Interval` values, e.g. as a result of
:py:func:`xarray.Dataset.groupby_bins`. In this case, the actual
boundaries of the interval are used.
*args, **kwargs : optional
Additional arguments following :py:func:`xarray.plot.line`
"""
if ('ls' in kwargs.keys()) and ('linestyle' not in kwargs.keys()):
kwargs['linestyle'] = kwargs.pop('ls')
where = kwargs.pop('where', 'pre')
if where not in ('pre', 'post', 'mid'):
raise ValueError("'where' argument to step must be "
"'pre', 'post' or 'mid'")
kwargs['linestyle'] = 'steps-' + where + kwargs.get('linestyle', '')
return line(darray, *args, **kwargs)
def hist(darray, figsize=None, size=None, aspect=None, ax=None, **kwargs):
"""
Histogram of DataArray
Wraps :func:`matplotlib:matplotlib.pyplot.hist`
Plots N dimensional arrays by first flattening the array.
Parameters
----------
darray : DataArray
Can be any dimension
figsize : tuple, optional
A tuple (width, height) of the figure in inches.
Mutually exclusive with ``size`` and ``ax``.
aspect : scalar, optional
Aspect ratio of plot, so that ``aspect * size`` gives the width in
inches. Only used if a ``size`` is provided.
size : scalar, optional
If provided, create a new figure for the plot with the given size.
Height (in inches) of each plot. See also: ``aspect``.
ax : matplotlib axes object, optional
Axis on which to plot this figure. By default, use the current axis.
Mutually exclusive with ``size`` and ``figsize``.
**kwargs : optional
Additional keyword arguments to matplotlib.pyplot.hist
"""
ax = get_axis(figsize, size, aspect, ax)
xincrease = kwargs.pop('xincrease', None) # default needs to be None
yincrease = kwargs.pop('yincrease', None)
xscale = kwargs.pop('xscale', None) # default needs to be None
yscale = kwargs.pop('yscale', None)
xticks = kwargs.pop('xticks', None)
yticks = kwargs.pop('yticks', None)
xlim = kwargs.pop('xlim', None)
ylim = kwargs.pop('ylim', None)
no_nan = np.ravel(darray.values)
no_nan = no_nan[pd.notnull(no_nan)]
primitive = ax.hist(no_nan, **kwargs)
ax.set_title('Histogram')
ax.set_xlabel(label_from_attrs(darray))
_update_axes(ax, xincrease, yincrease, xscale, yscale,
xticks, yticks, xlim, ylim)
return primitive
def _update_axes(ax, xincrease, yincrease,
xscale=None, yscale=None,
xticks=None, yticks=None,
xlim=None, ylim=None):
"""
Update axes with provided parameters
"""
if xincrease is None:
pass
elif xincrease and ax.xaxis_inverted():
ax.invert_xaxis()
elif not xincrease and not ax.xaxis_inverted():
ax.invert_xaxis()
if yincrease is None:
pass
elif yincrease and ax.yaxis_inverted():
ax.invert_yaxis()
elif not yincrease and not ax.yaxis_inverted():
ax.invert_yaxis()
# The default xscale, yscale needs to be None.
# If we set a scale it resets the axes formatters,
# This means that set_xscale('linear') on a datetime axis
# will remove the date labels. So only set the scale when explicitly
# asked to. https://github.com/matplotlib/matplotlib/issues/8740
if xscale is not None:
ax.set_xscale(xscale)
if yscale is not None:
ax.set_yscale(yscale)
if xticks is not None:
ax.set_xticks(xticks)
if yticks is not None:
ax.set_yticks(yticks)
if xlim is not None:
ax.set_xlim(xlim)
if ylim is not None:
ax.set_ylim(ylim)
# MUST run before any 2d plotting functions are defined since
# _plot2d decorator adds them as methods here.
class _PlotMethods(object):
"""
Enables use of xarray.plot functions as attributes on a DataArray.
For example, DataArray.plot.imshow
"""
def __init__(self, darray):
self._da = darray
def __call__(self, **kwargs):
return plot(self._da, **kwargs)
@functools.wraps(hist)
def hist(self, ax=None, **kwargs):
return hist(self._da, ax=ax, **kwargs)
@functools.wraps(line)
def line(self, *args, **kwargs):
return line(self._da, *args, **kwargs)
@functools.wraps(step)
def step(self, *args, **kwargs):
return step(self._da, *args, **kwargs)
def _rescale_imshow_rgb(darray, vmin, vmax, robust):
assert robust or vmin is not None or vmax is not None
# TODO: remove when min numpy version is bumped to 1.13
# There's a cyclic dependency via DataArray, so we can't import from
# xarray.ufuncs in global scope.
from xarray.ufuncs import maximum, minimum
# Calculate vmin and vmax automatically for `robust=True`
if robust:
if vmax is None:
vmax = np.nanpercentile(darray, 100 - ROBUST_PERCENTILE)
if vmin is None:
vmin = np.nanpercentile(darray, ROBUST_PERCENTILE)
# If not robust and one bound is None, calculate the default other bound
# and check that an interval between them exists.
elif vmax is None:
vmax = 255 if np.issubdtype(darray.dtype, np.integer) else 1
if vmax < vmin:
raise ValueError(
'vmin=%r is less than the default vmax (%r) - you must supply '
'a vmax > vmin in this case.' % (vmin, vmax))
elif vmin is None:
vmin = 0
if vmin > vmax:
raise ValueError(
'vmax=%r is less than the default vmin (0) - you must supply '
'a vmin < vmax in this case.' % vmax)
# Scale interval [vmin .. vmax] to [0 .. 1], with darray as 64-bit float
# to avoid precision loss, integer over/underflow, etc with extreme inputs.
# After scaling, downcast to 32-bit float. This substantially reduces
# memory usage after we hand `darray` off to matplotlib.
darray = ((darray.astype('f8') - vmin) / (vmax - vmin)).astype('f4')
with warnings.catch_warnings():
warnings.filterwarnings('ignore', 'xarray.ufuncs',
PendingDeprecationWarning)
return minimum(maximum(darray, 0), 1)
def _plot2d(plotfunc):
"""
Decorator for common 2d plotting logic
Also adds the 2d plot method to class _PlotMethods
"""
commondoc = """
Parameters
----------
darray : DataArray
Must be 2 dimensional, unless creating faceted plots
x : string, optional
Coordinate for x axis. If None use darray.dims[1]
y : string, optional
Coordinate for y axis. If None use darray.dims[0]
figsize : tuple, optional
A tuple (width, height) of the figure in inches.
Mutually exclusive with ``size`` and ``ax``.
aspect : scalar, optional
Aspect ratio of plot, so that ``aspect * size`` gives the width in
inches. Only used if a ``size`` is provided.
size : scalar, optional
If provided, create a new figure for the plot with the given size.
Height (in inches) of each plot. See also: ``aspect``.
ax : matplotlib axes object, optional
Axis on which to plot this figure. By default, use the current axis.
Mutually exclusive with ``size`` and ``figsize``.
row : string, optional
If passed, make row faceted plots on this dimension name
col : string, optional
If passed, make column faceted plots on this dimension name
col_wrap : integer, optional
Use together with ``col`` to wrap faceted plots
xscale, yscale : 'linear', 'symlog', 'log', 'logit', optional
Specifies scaling for the x- and y-axes respectively
xticks, yticks : Specify tick locations for x- and y-axes
xlim, ylim : Specify x- and y-axes limits
xincrease : None, True, or False, optional
Should the values on the x axes be increasing from left to right?
if None, use the default for the matplotlib function.
yincrease : None, True, or False, optional
Should the values on the y axes be increasing from top to bottom?
if None, use the default for the matplotlib function.
add_colorbar : Boolean, optional
Adds colorbar to axis
add_labels : Boolean, optional
Use xarray metadata to label axes
norm : ``matplotlib.colors.Normalize`` instance, optional
If the ``norm`` has vmin or vmax specified, the corresponding kwarg
must be None.
vmin, vmax : floats, optional
Values to anchor the colormap, otherwise they are inferred from the
data and other keyword arguments. When a diverging dataset is inferred,
setting one of these values will fix the other by symmetry around
``center``. Setting both values prevents use of a diverging colormap.
If discrete levels are provided as an explicit list, both of these
values are ignored.
cmap : matplotlib colormap name or object, optional
The mapping from data values to color space. If not provided, this
will be either be ``viridis`` (if the function infers a sequential
dataset) or ``RdBu_r`` (if the function infers a diverging dataset).
When `Seaborn` is installed, ``cmap`` may also be a `seaborn`
color palette. If ``cmap`` is seaborn color palette and the plot type
is not ``contour`` or ``contourf``, ``levels`` must also be specified.
colors : discrete colors to plot, optional
A single color or a list of colors. If the plot type is not ``contour``
or ``contourf``, the ``levels`` argument is required.
center : float, optional
The value at which to center the colormap. Passing this value implies
use of a diverging colormap. Setting it to ``False`` prevents use of a
diverging colormap.
robust : bool, optional
If True and ``vmin`` or ``vmax`` are absent, the colormap range is
computed with 2nd and 98th percentiles instead of the extreme values.
extend : {'neither', 'both', 'min', 'max'}, optional
How to draw arrows extending the colorbar beyond its limits. If not
provided, extend is inferred from vmin, vmax and the data limits.
levels : int or list-like object, optional
Split the colormap (cmap) into discrete color intervals. If an integer
is provided, "nice" levels are chosen based on the data range: this can
imply that the final number of levels is not exactly the expected one.
Setting ``vmin`` and/or ``vmax`` with ``levels=N`` is equivalent to
setting ``levels=np.linspace(vmin, vmax, N)``.
infer_intervals : bool, optional
Only applies to pcolormesh. If True, the coordinate intervals are
passed to pcolormesh. If False, the original coordinates are used
(this can be useful for certain map projections). The default is to
always infer intervals, unless the mesh is irregular and plotted on
a map projection.
subplot_kws : dict, optional
Dictionary of keyword arguments for matplotlib subplots. Only applies
to FacetGrid plotting.
cbar_ax : matplotlib Axes, optional
Axes in which to draw the colorbar.
cbar_kwargs : dict, optional
Dictionary of keyword arguments to pass to the colorbar.
**kwargs : optional
Additional arguments to wrapped matplotlib function
Returns
-------
artist :
The same type of primitive artist that the wrapped matplotlib
function returns
"""
# Build on the original docstring
plotfunc.__doc__ = '%s\n%s' % (plotfunc.__doc__, commondoc)
@functools.wraps(plotfunc)
def newplotfunc(darray, x=None, y=None, figsize=None, size=None,
aspect=None, ax=None, row=None, col=None,
col_wrap=None, xincrease=True, yincrease=True,
add_colorbar=None, add_labels=True, vmin=None, vmax=None,
cmap=None, center=None, robust=False, extend=None,
levels=None, infer_intervals=None, colors=None,
subplot_kws=None, cbar_ax=None, cbar_kwargs=None,
xscale=None, yscale=None, xticks=None, yticks=None,
xlim=None, ylim=None, norm=None, **kwargs):
# All 2d plots in xarray share this function signature.
# Method signature below should be consistent.
# Decide on a default for the colorbar before facetgrids
if add_colorbar is None:
add_colorbar = plotfunc.__name__ != 'contour'
imshow_rgb = (
plotfunc.__name__ == 'imshow' and
darray.ndim == (3 + (row is not None) + (col is not None)))
if imshow_rgb:
# Don't add a colorbar when showing an image with explicit colors
add_colorbar = False
# Matplotlib does not support normalising RGB data, so do it here.
# See eg. https://github.com/matplotlib/matplotlib/pull/10220
if robust or vmax is not None or vmin is not None:
darray = _rescale_imshow_rgb(darray, vmin, vmax, robust)
vmin, vmax, robust = None, None, False
# Handle facetgrids first
if row or col:
allargs = locals().copy()
allargs.pop('imshow_rgb')
allargs.update(allargs.pop('kwargs'))
# Need the decorated plotting function
allargs['plotfunc'] = globals()[plotfunc.__name__]
return _easy_facetgrid(**allargs)
plt = import_matplotlib_pyplot()
# colors is mutually exclusive with cmap
if cmap and colors:
raise ValueError("Can't specify both cmap and colors.")
# colors is only valid when levels is supplied or the plot is of type
# contour or contourf
if colors and (('contour' not in plotfunc.__name__) and (not levels)):
raise ValueError("Can only specify colors with contour or levels")
# we should not be getting a list of colors in cmap anymore
# is there a better way to do this test?
if isinstance(cmap, (list, tuple)):
warnings.warn("Specifying a list of colors in cmap is deprecated. "
"Use colors keyword instead.",
DeprecationWarning, stacklevel=3)
rgb = kwargs.pop('rgb', None)
xlab, ylab = _infer_xy_labels(
darray=darray, x=x, y=y, imshow=imshow_rgb, rgb=rgb)
if rgb is not None and plotfunc.__name__ != 'imshow':
raise ValueError('The "rgb" keyword is only valid for imshow()')
elif rgb is not None and not imshow_rgb:
raise ValueError('The "rgb" keyword is only valid for imshow()'
'with a three-dimensional array (per facet)')
# better to pass the ndarrays directly to plotting functions
xval = darray[xlab].values
yval = darray[ylab].values
# check if we need to broadcast one dimension
if xval.ndim < yval.ndim:
xval = np.broadcast_to(xval, yval.shape)
if yval.ndim < xval.ndim:
yval = np.broadcast_to(yval, xval.shape)
# May need to transpose for correct x, y labels
# xlab may be the name of a coord, we have to check for dim names
if imshow_rgb:
# For RGB[A] images, matplotlib requires the color dimension
# to be last. In Xarray the order should be unimportant, so
# we transpose to (y, x, color) to make this work.
yx_dims = (ylab, xlab)
dims = yx_dims + tuple(d for d in darray.dims if d not in yx_dims)
if dims != darray.dims:
darray = darray.transpose(*dims)
elif darray[xlab].dims[-1] == darray.dims[0]:
darray = darray.transpose()
# Pass the data as a masked ndarray too
zval = darray.to_masked_array(copy=False)
# Replace pd.Intervals if contained in xval or yval.
xplt, xlab_extra = _resolve_intervals_2dplot(xval, plotfunc.__name__)
yplt, ylab_extra = _resolve_intervals_2dplot(yval, plotfunc.__name__)
_ensure_plottable(xplt, yplt)
if 'contour' in plotfunc.__name__ and levels is None:
levels = 7 # this is the matplotlib default
cmap_kwargs = {'plot_data': zval.data,
'vmin': vmin,
'vmax': vmax,
'cmap': colors if colors else cmap,
'center': center,
'robust': robust,
'extend': extend,
'levels': levels,
'filled': plotfunc.__name__ != 'contour',
'norm': norm,
}
cmap_params = _determine_cmap_params(**cmap_kwargs)
if 'contour' in plotfunc.__name__:
# extend is a keyword argument only for contour and contourf, but
# passing it to the colorbar is sufficient for imshow and
# pcolormesh
kwargs['extend'] = cmap_params['extend']
kwargs['levels'] = cmap_params['levels']
# if colors == a single color, matplotlib draws dashed negative
# contours. we lose this feature if we pass cmap and not colors
if isinstance(colors, basestring):
cmap_params['cmap'] = None
kwargs['colors'] = colors
if 'pcolormesh' == plotfunc.__name__:
kwargs['infer_intervals'] = infer_intervals
if 'imshow' == plotfunc.__name__ and isinstance(aspect, basestring):
# forbid usage of mpl strings
raise ValueError("plt.imshow's `aspect` kwarg is not available "
"in xarray")
ax = get_axis(figsize, size, aspect, ax)
primitive = plotfunc(xplt, yplt, zval, ax=ax, cmap=cmap_params['cmap'],
vmin=cmap_params['vmin'],
vmax=cmap_params['vmax'],
norm=cmap_params['norm'],
**kwargs)
# Label the plot with metadata
if add_labels:
ax.set_xlabel(label_from_attrs(darray[xlab], xlab_extra))
ax.set_ylabel(label_from_attrs(darray[ylab], ylab_extra))
ax.set_title(darray._title_for_slice())
if add_colorbar:
cbar_kwargs = {} if cbar_kwargs is None else dict(cbar_kwargs)
cbar_kwargs.setdefault('extend', cmap_params['extend'])
if cbar_ax is None:
cbar_kwargs.setdefault('ax', ax)
else:
cbar_kwargs.setdefault('cax', cbar_ax)
cbar = plt.colorbar(primitive, **cbar_kwargs)
if add_labels and 'label' not in cbar_kwargs:
cbar.set_label(label_from_attrs(darray))
elif cbar_ax is not None or cbar_kwargs is not None:
# inform the user about keywords which aren't used
raise ValueError("cbar_ax and cbar_kwargs can't be used with "
"add_colorbar=False.")
# origin kwarg overrides yincrease
if 'origin' in kwargs:
yincrease = None
_update_axes(ax, xincrease, yincrease, xscale, yscale,
xticks, yticks, xlim, ylim)
# Rotate dates on xlabels
# Do this without calling autofmt_xdate so that x-axes ticks
# on other subplots (if any) are not deleted.
# https://stackoverflow.com/questions/17430105/autofmt-xdate-deletes-x-axis-labels-of-all-subplots
if np.issubdtype(xplt.dtype, np.datetime64):
for xlabels in ax.get_xticklabels():
xlabels.set_rotation(30)
xlabels.set_ha('right')
return primitive
# For use as DataArray.plot.plotmethod
@functools.wraps(newplotfunc)
def plotmethod(_PlotMethods_obj, x=None, y=None, figsize=None, size=None,
aspect=None, ax=None, row=None, col=None, col_wrap=None,
xincrease=True, yincrease=True, add_colorbar=None,
add_labels=True, vmin=None, vmax=None, cmap=None,
colors=None, center=None, robust=False, extend=None,
levels=None, infer_intervals=None, subplot_kws=None,
cbar_ax=None, cbar_kwargs=None,
xscale=None, yscale=None, xticks=None, yticks=None,
xlim=None, ylim=None, norm=None, **kwargs):
"""
The method should have the same signature as the function.
This just makes the method work on Plotmethods objects,
and passes all the other arguments straight through.
"""
allargs = locals()
allargs['darray'] = _PlotMethods_obj._da
allargs.update(kwargs)
for arg in ['_PlotMethods_obj', 'newplotfunc', 'kwargs']:
del allargs[arg]
return newplotfunc(**allargs)
# Add to class _PlotMethods
setattr(_PlotMethods, plotmethod.__name__, plotmethod)
return newplotfunc
@_plot2d
def imshow(x, y, z, ax, **kwargs):
"""
Image plot of 2d DataArray using matplotlib.pyplot
Wraps :func:`matplotlib:matplotlib.pyplot.imshow`
While other plot methods require the DataArray to be strictly
two-dimensional, ``imshow`` also accepts a 3D array where some
dimension can be interpreted as RGB or RGBA color channels and
allows this dimension to be specified via the kwarg ``rgb=``.
Unlike matplotlib, Xarray can apply ``vmin`` and ``vmax`` to RGB or RGBA
data, by applying a single scaling factor and offset to all bands.
Passing ``robust=True`` infers ``vmin`` and ``vmax``
:ref:`in the usual way <robust-plotting>`.
.. note::
This function needs uniformly spaced coordinates to
properly label the axes. Call DataArray.plot() to check.
The pixels are centered on the coordinates values. Ie, if the coordinate
value is 3.2 then the pixels for those coordinates will be centered on 3.2.
"""
if x.ndim != 1 or y.ndim != 1:
raise ValueError('imshow requires 1D coordinates, try using '
'pcolormesh or contour(f)')
# Centering the pixels- Assumes uniform spacing
try:
xstep = (x[1] - x[0]) / 2.0
except IndexError:
# Arbitrary default value, similar to matplotlib behaviour
xstep = .1
try:
ystep = (y[1] - y[0]) / 2.0
except IndexError:
ystep = .1
left, right = x[0] - xstep, x[-1] + xstep
bottom, top = y[-1] + ystep, y[0] - ystep
defaults = {'origin': 'upper',
'interpolation': 'nearest'}
if not hasattr(ax, 'projection'):
# not for cartopy geoaxes
defaults['aspect'] = 'auto'
# Allow user to override these defaults
defaults.update(kwargs)
if defaults['origin'] == 'upper':
defaults['extent'] = [left, right, bottom, top]
else:
defaults['extent'] = [left, right, top, bottom]
if z.ndim == 3:
# matplotlib imshow uses black for missing data, but Xarray makes
# missing data transparent. We therefore add an alpha channel if
# there isn't one, and set it to transparent where data is masked.
if z.shape[-1] == 3:
alpha = np.ma.ones(z.shape[:2] + (1,), dtype=z.dtype)
if np.issubdtype(z.dtype, np.integer):
alpha *= 255
z = np.ma.concatenate((z, alpha), axis=2)
else:
z = z.copy()
z[np.any(z.mask, axis=-1), -1] = 0
primitive = ax.imshow(z, **defaults)
return primitive
@_plot2d