[yt-users] using yt for non-spatial data

[Carolin Villforth]

Hello yt-users,

I saw a yt presentation at the Python Astronomy Meeting and am interested to see if yt could be used for non-spatial data. My specific problem is MCMC chains in 19 (or up to 23) dimensional parameter space in which none of the parameters are nuisance parameters. I thought yt could be used to visualize and analyze such data. I tried to load the chain as particles and managed to do so, but am having problems plotting. I pasted the code below.

Has anyone used yt for non-spatial data?

Cheers,

Carolin


-----------

In [81]: mcchain.keys() ## a dictionary containing dimensions of the chain
Out[81]: 
['particle_position_z',
 'particle_mass',
 'particle_position_x',
 'particle_position_y',
 'qso']

In [82]: mcyt = yt.load_particles(mcchain)
yt : [INFO     ] 2015-04-23 09:47:39,235 Parameters: current_time              = 0.0
yt : [INFO     ] 2015-04-23 09:47:39,235 Parameters: domain_dimensions         = [2 2 2]
yt : [INFO     ] 2015-04-23 09:47:39,237 Parameters: domain_left_edge          = [ 0.  0.  0.]
yt : [INFO     ] 2015-04-23 09:47:39,237 Parameters: domain_right_edge         = [ 1.  1.  1.]
yt : [INFO     ] 2015-04-23 09:47:39,238 Parameters: cosmological_simulation   = 0.0

In [83]: circle = mcyt.sphere([0.5, 0.5, 0.5], 0.25)
yt : [INFO     ] 2015-04-23 09:47:45,741 Allocating for 1.000e+04 particles
yt : [INFO     ] 2015-04-23 09:47:45,763 Identified 7.130e+02 octs
yt : [INFO     ] 2015-04-23 09:47:45,897 Loading field plugins.
yt : [INFO     ] 2015-04-23 09:47:45,898 Loaded angular_momentum (8 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,898 Loaded astro (15 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,898 Loaded cosmology (22 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,899 Loaded fluid (64 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,900 Loaded fluid_vector (96 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,900 Loaded geometric (112 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,900 Loaded local (112 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,901 Loaded magnetic_field (120 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,901 Loaded my_plugins (120 new fields)
yt : [INFO     ] 2015-04-23 09:47:45,901 Loaded species (122 new fields)

In [84]: pl=yt.ProjectionPlot(circle, 'x', 'y')
---------------------------------------------------------------------------
AttributeError                            Traceback (most recent call last)
<ipython-input-84-685c784708ec> in <module>()
----> 1 pl=yt.ProjectionPlot(circle, 'x', 'y')

/Users/cvillforth/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/yt/visualization/plot_window.pyc in __init__(self, ds, axis, fields, center, width, axes_unit, weight_field, max_level, origin, fontsize, field_parameters, data_source, method, proj_style, window_size, aspect)
   1212         self.ts = ts
   1213         ds = self.ds = ts[0]
-> 1214         axis = fix_axis(axis, ds)
   1215         # proj_style is deprecated, but if someone specifies then it trumps
   1216         # method.

/Users/cvillforth/Library/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/yt/funcs.pyc in fix_axis(axis, ds)
    649 
    650 def fix_axis(axis, ds):
--> 651     return ds.coordinates.axis_id.get(axis, axis)
    652 
    653 def get_image_suffix(name):

AttributeError: 'YTSphere' object has no attribute 'coordinates'


--------------------------------------------------------------------------------
  Dr Carolin Villforth
  SUPA Advanced Fellow
  University of St Andrews (SUPA)
  School of Physics & Astronomy
  North Haugh, St Andrews, Fife
  KY16 9SS
  UK
  cv21 at st-andrews.ac.uk
  Office: 272
  phone +44 (0) 1334 46 1612
  http://www-star.st-and.ac.uk/~cv21/cv21/Home.html
--------------------------------------------------------------------------------





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