[yt-users] pf.h.region error
Elizabeth Tasker
tasker at astro1.sci.hokudai.ac.jp
Wed Feb 22 11:51:59 PST 2012
And that's fixed it -- thanks Matt.
(Thank you for your suggestion Hannes -- I also thought processing
that calculation might be an error and tried with numbers. This time
though, no luck).
On 22 February 2012 14:36, Matthew Turk <matthewturk at gmail.com> wrote:
> The problem lies with incorrect harrays files, which get parsed on hierarchy
> instantiation. Wipe them out and you will be fine.
>
> Adding validation to hierarchy serialization sounds like a good introductory
> project for any keen new developers. :-)
>
> On Feb 22, 2012 2:22 PM, "Elizabeth Tasker"
> <tasker at astro1.sci.hokudai.ac.jp> wrote:
>>
>> (As an amendment, it throws the same error when trying to create a
>> projection of the whole data set:
>>
>> p = pc.add_projection("Density", 0) )
>>
>> Elizabeth
>>
>>
>>
>> On 22 February 2012 14:10, Elizabeth Tasker
>> <tasker at astro1.sci.hokudai.ac.jp> wrote:
>> > Occasionally, when I try and create a region, I get this error;
>> >
>> >
>> >
>> > ValueError Traceback (most recent call
>> > last)
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/scripts/iyt in <module>()
>> > 20 pc = PlotCollection(pf, center=center)
>> > 21
>> > ---> 22 reg = pf.h.region(center, [center[0]-0.5*width,
>> > center[1]-0.5*width, center[2]-0.5*depth], [center[0]+0.5*width,
>> > center[1]+0.5*width, center[2]+0.5*dept
>> > h])
>> > 23
>> > 24 p = pc.add_projection('Density', 2, data_source=reg)
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/yt/data_objects/static_output.pyc
>> > in hierarchy(self)
>> > 167 raise RuntimeError("You should not instantiate
>> > StaticOutput.")
>> > 168 self._instantiated_hierarchy =
>> > self._hierarchy_class(
>> > --> 169 self, data_style=self.data_style)
>> > 170 return self._instantiated_hierarchy
>> > 171 h = hierarchy # alias
>> >
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/yt/frontends/enzo/data_structures.pyc
>> > in __init__(self, pf, data_style)
>> > 160 self.float_type = 'float64'
>> > 161
>> > --> 162 AMRHierarchy.__init__(self, pf, data_style)
>> > 163 # sync it back
>> > 164 self.parameter_file.data_style = self.data_style
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/yt/data_objects/hierarchy.pyc
>> > in __init__(self, pf, data_style)
>> > 68
>> > 69 mylog.debug("Parsing hierarchy.")
>> > ---> 70 self._parse_hierarchy()
>> > 71
>> > 72 mylog.debug("Constructing grid objects.")
>> >
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/yt/frontends/enzo/data_structures.pyc
>> > in _parse_hierarchy(self)
>> > 226 return line.split()[2:]
>> > 227 if os.path.exists(self.hierarchy_filename[:-9] +
>> > "harrays"):
>> > --> 228 if self._parse_binary_hierarchy(): return
>> > 229 t1 = time.time()
>> > 230 pattern = r"Pointer:
>> > Grid\[(\d*)\]->NextGrid(Next|This)Level = (\d*)\s+$"
>> >
>> >
>> > /work/taskere/orca/yt-2-orca/src/yt-hg/yt/frontends/enzo/data_structures.pyc
>> > in _parse_binary_hierarchy(self)
>> > 300 except h5py.h5.H5Error:
>> > 301 return False
>> > --> 302 self.grid_dimensions[:] = f["/ActiveDimensions"][:]
>> > 303 self.grid_left_edge[:] = f["/LeftEdges"][:]
>> > 304 self.grid_right_edge[:] = f["/RightEdges"][:]
>> >
>> > ValueError: shape mismatch: objects cannot be broadcast to a single
>> > shape
>> > WARNING: Failure executing file: <image_object.py>
>> >
>> >
>> > What I don't understand is that it'll happen on one data set, but then
>> > the next one (or the one before) in the simulation will be totally
>> > fine. My dtdump steps are small too, so I'm confused as to why this
>> > would occur. Both "width" and "depth" are neither very small or very
>> > large compared to "centre". (In kpc, centre = 16, 22, 16 and width =
>> > 4 and depth = 1.)
>> >
>> > Elizabeth
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