[yt-users] Error slicing 2D spherical FLASH data
Nathan Goldbaum
nathan12343 at gmail.com
Mon Jun 23 13:47:02 PDT 2014
Hey Luke,
What do the raw density values in your data look like?
dens = ds.all_data()['density']
print dens.max()
print dens.min()
-Nathan
On Mon, Jun 23, 2014 at 1:37 PM, Luke Zoltan Kelley <lkelley at cfa.harvard.edu
> wrote:
> Hello again yt-users,
>
> I'm trying to plot density from a FLASH simulation in 2D spherical. I
> assumed that a 'SlicePlot' would be the natural choice, slicing along axis
> '2'/'z'/'phi'.
>
> pf = load('starwind_hdf5_plt_cnt_0000')
> slc = SlicePlot(pf, 2, "density")
>
> However, I get the error:
>
> yt : [INFO ] 2014-06-23 16:31:42,631 xlim = -400000000000.000000
> 400000000000.000000
> yt : [INFO ] 2014-06-23 16:31:42,632 ylim = -400000000000.000000
> 400000000000.000000
> yt : [INFO ] 2014-06-23 16:31:42,632 Making a fixed resolution buffer
> of (('gas', 'density')) 800 by 800
> yt : [INFO ] 2014-06-23 16:31:42,698 xlim = -400000000000.000000
> 400000000000.000000
> yt : [INFO ] 2014-06-23 16:31:42,698 ylim = -400000000000.000000
> 400000000000.000000
> yt : [INFO ] 2014-06-23 16:31:42,699 Making a fixed resolution buffer
> of (('gas', 'density')) 800 by 800
> yt : [INFO ] 2014-06-23 16:31:42,703 Making a fixed resolution buffer
> of (('gas', 'density')) 800 by 800
> ERROR: ValueError: The truth value of an array with more than one element
> is ambiguous. Use a.any() or a.all() [numpy.ma.core]
> astropy: [ERROR ] 2014-06-23 16:31:42,864 ValueError: The truth value
> of an array with more than one element is ambiguous. Use a.any() or a.all()
> ---------------------------------------------------------------------------
> ValueError Traceback (most recent call last)
> <ipython-input-26-62c5de6a0872> in <module>()
> ----> 1 slc = SlicePlot(pf, 2, "density")
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/plot_window.pyc
> in SlicePlot(pf, normal, fields, axis, *args, **kwargs)
> 1872 del kwargs['north_vector']
> 1873
> -> 1874 return AxisAlignedSlicePlot(pf, normal, fields, *args,
> **kwargs)
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/plot_window.pyc
> in __init__(self, pf, axis, fields, center, width, axes_unit, origin,
> fontsize, field_parameters, window_size, aspect)
> 1093 if axes_unit is None:
> 1094 axes_unit = get_axes_unit(width, pf)
> -> 1095 self.set_axes_unit(axes_unit)
> 1096
> 1097 class ProjectionPlot(PWViewerMPL):
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/plot_container.pyc
> in newfunc(*args, **kwargs)
> 67 rv = f(*args, **kwargs)
> 68 args[0]._plot_valid = False
> ---> 69 args[0]._setup_plots()
> 70 return rv
> 71 return newfunc
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/plot_window.pyc
> in _setup_plots(self)
> 836 self._colormaps[f], extent, zlim,
> 837 self.figure_size, fp.get_size(),
> --> 838 self.aspect, fig, axes, cax)
> 839
> 840 axes_unit_labels = ['', '']
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/plot_window.pyc
> in __init__(self, data, cbname, cmap, extent, zlim, figure_size, fontsize,
> unit_aspect, figure, axes, cax)
> 1703 size, axrect, caxrect, zlim, figure, axes, cax)
> 1704
> -> 1705 self._init_image(data, cbname, cmap, extent, unit_aspect)
> 1706
> 1707 self.image.axes.ticklabel_format(scilimits=(-2, 3))
>
> /Users/lzkelley/Applications/yt/yt-x86_64/src/yt-hg/yt/visualization/base_plot_types.pyc
> in _init_image(self, data, cbnorm, cmap, extent, aspect)
> 114 extent=extent, norm=norm,
> vmin=self.zmin,
> 115 aspect=aspect,
> vmax=self.zmax, cmap=cmap)
> --> 116 self.cb = self.figure.colorbar(self.image, self.cax)
> 117
> 118 def _repr_png_(self):
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/figure.pyc
> in colorbar(self, mappable, cax, ax, use_gridspec, **kw)
> 1449 cax, kw = cbar.make_axes(ax, **kw)
> 1450 cax.hold(True)
> -> 1451 cb = cbar.colorbar_factory(cax, mappable, **kw)
> 1452
> 1453 self.sca(current_ax)
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colorbar.pyc
> in colorbar_factory(cax, mappable, **kwargs)
> 1272 cb = ColorbarPatch(cax, mappable, **kwargs)
> 1273 else:
> -> 1274 cb = Colorbar(cax, mappable, **kwargs)
> 1275
> 1276 mappable.callbacksSM.connect('changed', cb.on_mappable_changed)
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colorbar.pyc
> in __init__(self, ax, mappable, **kw)
> 875 kw['alpha'] = mappable.get_alpha()
> 876
> --> 877 ColorbarBase.__init__(self, ax, **kw)
> 878
> 879 def on_mappable_changed(self, mappable):
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colorbar.pyc
> in __init__(self, ax, cmap, norm, alpha, values, boundaries, orientation,
> ticklocation, extend, spacing, ticks, format, drawedges, filled,
> extendfrac, extendrect, label)
> 315 # The rest is in a method so we can recalculate when clim
> changes.
> 316 self.config_axis()
> --> 317 self.draw_all()
> 318
> 319 def _extend_lower(self):
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colorbar.pyc
> in draw_all(self)
> 336 and do all the drawing.
> 337 '''
> --> 338 self._process_values()
> 339 self._find_range()
> 340 X, Y = self._mesh()
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colorbar.pyc
> in _process_values(self, b)
> 650 self.norm.vmin = 0
> 651 self.norm.vmax = 1
> --> 652 b = self.norm.inverse(self._uniform_y(self.cmap.N + 1))
> 653 if self._extend_lower():
> 654 b[0] = b[0] - 1
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/matplotlib/colors.pyc
> in inverse(self, value)
> 1001 if cbook.iterable(value):
> 1002 val = ma.asarray(value)
> -> 1003 return vmin * ma.power((vmax / vmin), val)
> 1004 else:
> 1005 return vmin * pow((vmax / vmin), value)
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/numpy/ma/core.pyc
> in __mul__(self, other)
> 3705 def __mul__(self, other):
> 3706 "Multiply other by self, and return a new masked array."
> -> 3707 return multiply(self, other)
> 3708 #
> 3709 def __rmul__(self, other):
>
> /Users/lzkelley/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/numpy/ma/core.pyc
> in __call__(self, a, b, *args, **kwargs)
> 936 # Case 1. : scalar
> 937 if not result.ndim:
> --> 938 if m:
> 939 return masked
> 940 return result
>
> ValueError: The truth value of an array with more than one element is
> ambiguous. Use a.any() or a.all()
>
>
> yt instinfo
> Version = 3.0-dev
> Changeset = 90a724768665
>
>
> Any help would be greatly appreciated,
> Thanks so much!
> Luke
>
>
>
>
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> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
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