[yt-users] yt SlicePlot questions

[Junhwan Choi (최준환)]

Thank you for your information.
Junhwan

On Thu, Jan 17, 2013 at 2:54 PM, Nathan Goldbaum <nathan12343 at gmail.com>wrote:

> Hi Junhwan,
>
> After registering your new field, you can tell yt to plot it on a linear
> scale using the following invocation:
>
> pf.field_info['PotentialFieldCGS'].take_log = False
>
> Alternatively you can tell yt to plot your field on a linear scale in your
> call to add_field:
>
> add_field('PotentialFieldCGS',take_log=False,function=_PotentialFieldCGS)
>
> This assumes the field is defined through a function
> called _PotentialFieldCGS.  For more details, take a look at this page of
> the docs:
> http://yt-project.org/docs/2.4/analyzing/creating_derived_fields.html?highlight=add_field
>
> As for your second question, SlicePlot internally uses the
> FixedResolutionBuffer class to pixelize the data.  FixedResolutionBuffer
> does not do any interpolation to smooth over pixelized data.  One could
> take the image array and smooth it in postprocessing but that functionality
> has not been built in to FixedResolutionBuffer up to this point.  For more
> details about FixedResolutionBuffer, take a look at its page in the API
> docs:
> http://yt-project.org/docs/2.4/api/generated/yt.visualization.fixed_resolution.FixedResolutionBuffer.__init__.html
>
> You may have more luck making a smoothed image using the manual plotting
> interface: http://yt-project.org/docs/2.4/visualizing/manual_plotting.html
>
> If you went this route, you would have to come up with a recipe to smooth
> the image and then manually construct the plot.
>
> Cheers,
>
> Nathan
>
> On Jan 17, 2013, at 11:41 AM, Jun-Hwan Choi wrote:
>
> Hi all,
>
> I have two questions on yt SlicePlot.
> First, when I make a new field and generate the SlicePlot of the
> simulation with a given field, I face on following error message:
> Traceback (most recent call last):
>  File "Pot.py", line 16, in <module>
>    pc = SlicePlot(pf, "x", "PotentialFieldCGS", width = (6.0,
> 'kpc'),center=den_center)
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/visualization/plot_window.py",
> line 804, in __init__
>    PWViewerMPL.__init__(self, slc, bounds, origin=origin)
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/visualization/plot_window.py",
> line 447, in __init__
>    if setup: self._setup_plots()
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/yt-2.4-py2.7-linux-x86_64.egg/yt/visualization/plot_window.py",
> line 617, in _setup_plots
>    self.plots[f].image, cax = self.plots[f].cax)
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/figure.py",
> line 1104, in colorbar
>    cb = cbar.Colorbar(cax, mappable, **kw)
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/colorbar.py",
> line 731, in __init__
>    ColorbarBase.__init__(self, ax, **kw)
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/colorbar.py",
> line 246, in __init__
>    self.draw_all()
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/colorbar.py",
> line 260, in draw_all
>    self._process_values()
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/colorbar.py",
> line 558, in _process_values
>    b = self.norm.inverse(self._uniform_y(self.cmap.N+1))
>  File
> "/home/jhchoi/common/lib/python2.7/site-packages/matplotlib/colors.py",
> line 895, in inverse
>    return vmin * ma.power((vmax/vmin), val)
>  File "/home/jhchoi/common/lib/python2.7/site-packages/numpy/ma/core.py",
> line 6043, in power
>    m |= invalid
> ValueError: invalid return array shape
>
> I suspect the reason is that Field value is negative and z value tends to
> be log scale (because I make it positive the yt work).
> Is there any way to make plot in negative with making linear z-value?
>
> Second, when I make a SlicePlot with small region, owing to resolution
> (certain grid cell size is not 1/10 of the Sire x-y size) the plot looks
> ugly.
> Is there any way to visually improve the low resolution SlicePlot?
>
> Thank you in advance,
> Junhwan
>
> --
> --------------------------------------------------------------
> Jun-Hwan Choi, Ph.D.
> Department of Physics and Astronomy, University of Kentucky
> Tel: (859) 897-6737        Fax: (859) 323-2846
> Email: jhchoi at pa.uky.edu   URL: http://www.pa.uky.edu/~jhchoi
> --------------------------------------------------------------
>
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