[yt-users] Error in reading the hydrodynamics dataset in Ramses

Wed Nov 20 14:33:15 PST 2013

In the Makefile you should have NVAR=6.

Romain 

> Le 20 nov. 2013 à 23:15, Junhwan Choi (최준환) <choi.junhwan at gmail.com> a écrit :
> 
> Hi Romain,
> 
> Yes, it is Pierre's cudaton simulation.
> If this is the case where do I find how many  variables the simulation
> use and what he names are?
> I can ask to pierre, if there is no such a information in the simulation output.
> 
> Thank you,
> Junhwan
> 
> On Wed, Nov 20, 2013 at 3:53 PM, Romain Teyssier
> <romain.teyssier at gmail.com> wrote:
>> Hi Junhwan,
>> 
>> The name of your repository “rhd” suggests that you are using the radiation solver.
>> In this case, you must have more than 5 variables, probably 6 or more.
>> So you need to use :
>> fields = ["Density","x-velocity", "y-velocity","z-velocity",”Pressure”,”var6”,”var7”,...]).
>> 
>> Romain
>> 
>> 
>> 
>> 
>>> On 20 Nov 2013, at 22:50, Junhwan Choi (최준환) <choi.junhwan at gmail.com> wrote:
>>> 
>>> Thank you, Kearn.
>>> 
>>> I tried your suggestion that I used
>>> ds = load("/lustre/widow2/proj/ast031/test11_rhd_fesc=0.05/output_00048/info_00048.txt",
>>> fields = ["Density","x-velocity", "y-velocity",
>>> "z-velocity","Pressure"]).
>>> But, it results in the identical error message.
>>> I still do not know what I need to do.
>>> 
>>> Regard,
>>> Junhwan
>>> 
>>> 
>>> 
>>>> On Wed, Nov 20, 2013 at 10:37 AM,  <k.grisdale at surrey.ac.uk> wrote:
>>>> Hi Junhwan
>>>> 
>>>> I think the problem you might the having is you need to specify the fields you read into yt. To do this just modify you load command to this:
>>>> 
>>>> ds = load("/lustre/widow2/proj/ast031/test11_rhd_fesc=0.05/output_00048/info_00048.txt”, fields = ["Density","x-velocity", "y-velocity", "z-velocity", "Pressure”])
>>>> 
>>>> (Assuming that you are running a 3d Simulation with NVAR set as 5)
>>>> 
>>>> Hope that helps
>>>> 
>>>> Kearn
>>>> 
>>>> 
>>>>> On 20 Nov 2013, at 16:26, Junhwan Choi (최준환) <choi.junhwan at gmail.com> wrote:
>>>>> 
>>>>> Hi yt users,
>>>>> 
>>>>> I try to make a basic visualization for the Ramses simulation using
>>>>> following script:
>>>>> ==========================
>>>>> from yt.mods import *
>>>>> 
>>>>> ds = load("/lustre/widow2/proj/ast031/test11_rhd_fesc=0.05/output_00048/info_00048.txt")
>>>>> center = [0.5, 0.5, 0.5]
>>>>> 
>>>>> pw = ProjectionPlot(ds, "x", ("deposit", "all_density"))
>>>>> pw.zoom(1.01)
>>>>> pw.save("allview")
>>>>> 
>>>>> pw = ProjectionPlot(ds, "x", "Density")
>>>>> pw.zoom(1.01)
>>>>> pw.save("allviewGas")
>>>>> ============================
>>>>> It WORKS for the particle projection (for allview) but it does not
>>>>> work for gas projection.
>>>>> 
>>>>> When the yt try to deal with gas dataset, I got the following error
>>>>> message and the script crash.
>>>>> You are running with the wrong number of fields.
>>>>> Please specify these in the load command.
>>>>> We are looking for 6 fields.
>>>>> The last set of field sizes was: [2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2,
>>>>> 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2,
>>>>> 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2]
>>>>> Traceback (most recent call last):
>>>>> File "DenVis_DM_Gas.py", line 10, in <module>
>>>>>  pw = ProjectionPlot(ds, "x", ("gas", "Density"))
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/visualization/plot_window.py",
>>>>> line 1441, in __init__
>>>>>  field_parameters = field_parameters)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/data_objects/construction_data_containers.py",
>>>>> line 234, in __init__
>>>>>  self.get_data(field)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/data_objects/construction_data_containers.py",
>>>>> line 278, in get_data
>>>>>  chunk_fields, "io")):
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py",
>>>>> line 434, in parallel_objects
>>>>>  for obj_id, obj in oiter:
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/data_objects/data_containers.py",
>>>>> line 453, in chunks
>>>>>  self.get_data(fields)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/data_objects/data_containers.py",
>>>>> line 531, in get_data
>>>>>  fluids, self, self._current_chunk)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/geometry/geometry_handler.py",
>>>>> line 520, in _read_fluid_fields
>>>>>  chunk_size)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/frontends/ramses/io.py",
>>>>> line 41, in _read_fluid_selection
>>>>>  rv = subset.fill(content, fields, selector)
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/frontends/ramses/data_structures.py",
>>>>> line 304, in fill
>>>>>  for level, offset in enumerate(self.domain.hydro_offset):
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/frontends/ramses/data_structures.py",
>>>>> line 102, in hydro_offset
>>>>>  hvals = fpu.read_attrs(f, header, "=")
>>>>> File "/autofs/na3_home1/jhchoi/common/src/yt-hg/yt/utilities/fortran_utils.py",
>>>>> line 74, in read_attrs
>>>>>  assert(s1 == s2)
>>>>> AssertionError
>>>>> 
>>>>> I do not understand what is the problem since it is such a basic visualization.
>>>>> Since I am new for Ramses data, I may take a simple mistake.
>>>>> Can anyone explain what the error message means and how to resolve the problem?
>>>>> 
>>>>> Thank you in advance,
>>>>> Junhwan
>>>>> _______________________________________________
>>>>> yt-users mailing list
>>>>> yt-users at lists.spacepope.org
>>>>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>>> 
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