[yt-users] TotalMass for ORION data

[Nathan Goldbaum]

Andrew Myers issued a pull request to fix this: https://bitbucket.org/yt_analysis/yt/pull-request/488/fix-for-issue-559/diff

Thanks Andrew!

On May 6, 2013, at 4:49 PM, Mark Krumholz <krumholz at ucolick.org> wrote:

> 
> Hi All,
> 
> I just updated to the latest version of yt, hoping that this would be fixed, but it seems not to be: the "TotalMass" function is broken for Orion data, and, from what I can tell, for any data set that doesn't contain dark matter particles. Here's what I get when I try to use it:
> 
> In [1]: pf=load('data.0030.3d.hdf5')
> yt : [WARNING  ] 2013-05-06 16:43:36,339 Setting 1.0 in code units to be 1.0 cm
> yt : [WARNING  ] 2013-05-06 16:43:36,339 No time units.  Setting 1.0 = 1 second.
> yt : [INFO     ] 2013-05-06 16:43:36,340 Parameters: current_time              = 6.78585436617e+13
> yt : [INFO     ] 2013-05-06 16:43:36,340 Parameters: domain_dimensions         = [256 256 256]
> yt : [INFO     ] 2013-05-06 16:43:36,341 Parameters: domain_left_edge          = [ -1.68000000e+18  -1.68000000e+18  -1.68000000e+18]
> yt : [INFO     ] 2013-05-06 16:43:36,341 Parameters: domain_right_edge         = [  1.68000000e+18   1.68000000e+18   1.68000000e+18]
> 
> In [2]: dd=pf.h.all_data()
> ^[[Ayt : [INFO     ] 2013-05-06 16:43:53,804 Adding unknown field gravitational-potential to list of fields
> 
> In [3]: dd.quantities["TotalMass"]() 
> ---------------------------------------------------------------------------
> KeyError                                  Traceback (most recent call last)
> /home3/mkrumhol/yt-x86_64/src/yt-hg/scripts/iyt in <module>()
> ----> 1 dd.quantities["TotalMass"]()
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/derived_quantities.pyc in __call__(self, *args, **kwargs)
>     90                           self._data_source.pf.h.io)
>     91         if lazy_reader and not self.force_unlazy:
> ---> 92             return self._call_func_lazy(args, kwargs)
>     93         else:
>     94             return self._call_func_unlazy(args, kwargs)
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/derived_quantities.pyc in _call_func_lazy(self, args, kwargs)
>     97         self.retvals = [ [] for i in range(self.n_ret)]
>     98         for gi,g in enumerate(self._get_grids()):
> ---> 99             rv = self.func(GridChildMaskWrapper(g, self._data_source), *args, **kwargs)
>    100             if not iterable(rv): rv = (rv,)
>    101             for i in range(self.n_ret): self.retvals[i].append(rv[i])
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/derived_quantities.pyc in _TotalMass(data)
>    152     """
>    153     baryon_mass = data["CellMassMsun"].sum()
> --> 154     particle_mass = data["ParticleMassMsun"].sum()
>    155     return [baryon_mass + particle_mass]
>    156 def _combTotalMass(data, total_mass):
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/derived_quantities.pyc in __getitem__(self, item)
>     58     def __getitem__(self, item):
>     59         if item not in self.local_cache:
> ---> 60             data = self.data_source._get_data_from_grid(self.grid, item)
>     61             self.local_cache[item] = data
>     62         return self.local_cache[item]
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.pyc in save_state(self, grid, field, *args, **kwargs)
>     93         old_keys = grid.field_data.keys()
>     94         grid.field_parameters = self.field_parameters
> ---> 95         tr = func(self, grid, field, *args, **kwargs)
>     96         grid.field_parameters = old_params
>     97         grid.field_data = YTFieldData( [(k, grid.field_data[k]) for k in old_keys] )
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/data_containers.pyc in _get_data_from_grid(self, grid, field)
>   2643             return np.array([f[i,:][pointI] for i in range(3)])
>   2644         else:
> -> 2645             tr = grid[field]
>   2646             if tr.size == 1: # dx, dy, dz, cellvolume
>   2647                 tr = tr * np.ones(grid.ActiveDimensions, dtype='float64')
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.pyc in __getitem__(self, key)
>    155         """
>    156         if key not in self.field_data:
> --> 157             self.get_data(key)
>    158         return self.field_data[key]
>    159 
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.pyc in get_data(self, field, convert)
>    198                     else: raise
>    199             else:
> --> 200                 self._generate_field(field)
>    201         return self.field_data[field]
>    202 
> 
> /home3/mkrumhol/yt-x86_64/src/yt-hg/yt/data_objects/grid_patch.pyc in _generate_field(self, field)
>    145                 self[field] = self.pf.field_info[field](self)
>    146         else: # Can't find the field, try as it might
> --> 147             raise exceptions.KeyError(field)
>    148 
>    149     def has_key(self, key):
> 
> KeyError: 'ParticleMassMsun'
> 
> This isn't a huge deal, because I can use "TotalQuantity" on "Density" as a workaround, but I thought I would report it.
> 
> --
> Mark Krumholz
> krumholz at ucolick.org
> 
> 
> 
> 
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