[yt-users] yt and PLUTO

[Marc Schartmann]

Dear Jeff, Andrew, Nathan and all,

thanks a lot.

I have put a sample data file here (including parameter files, at  
least the pluto.ini
seems to be read):

http://www.mpe.mpg.de/~mschartm/download/

data.0000.hdf5
pluto.ini
definitions.h

And the error message I receive:

 >>> pf = load("data.0000.hdf5")
yt : [WARNING  ] 2013-03-07 09:16:19,293 Setting 1.0 in code units to  
be 1.0 cm
yt : [WARNING  ] 2013-03-07 09:16:19,293 No time units.  Setting 1.0 =  
1 second.
Traceback (most recent call last):
   File "<stdin>", line 1, in <module>
   File "/data01/mschartm/software/yt/yt-x86_64/src/yt-hg/yt/ 
convenience.py", line 77, in load
     return output_type_registry[candidates[0]](*args, **kwargs)
   File "/data01/mschartm/software/yt/yt-x86_64/src/yt-hg/yt/frontends/ 
chombo/data_structures.py", line 225, in __init__
     StaticOutput.__init__(self,filename,data_style)
   File "/data01/mschartm/software/yt/yt-x86_64/src/yt-hg/yt/ 
data_objects/static_output.py", line 97, in __init__
     self._set_units()
   File "/data01/mschartm/software/yt/yt-x86_64/src/yt-hg/yt/frontends/ 
chombo/data_structures.py", line 249, in _set_units
     self.units['unitary'] = 1.0 / (self.domain_right_edge -  
self.domain_left_edge).max()
AttributeError: 'ChomboStaticOutput' object has no attribute  
'domain_right_edge'

It would be great if you could point me to the locations where I need  
to adapt the code. This would save me a lot of time.

Thanks a lot and best wishes,

Marc





On Mar 7, 2013, at 3:45 AM, Nathan Goldbaum wrote:

> Or, if possible, a sample dataset.
>
> On Mar 6, 2013, at 6:41 PM, Andrew Myers <atmyers at berkeley.edu> wrote:
>
>> Hi Marc,
>>
>> I'm not surprised that yt doesn't work quite out-of-the box with  
>> Pluto data, but the Chombo HDF5 frontend definitely works, and  
>> could probably be made to handle Pluto data with minimal hassle.  
>> Probably you just need to do things like specifying the field  
>> names, where to find stuff like 'gamma', etc. If you want help with  
>> that, I'd be happy to point you to the right places in the code. It  
>> would also help if you could provide the traceback for the error  
>> you are seeing when you try to load the dataset.
>>
>> Best,
>> Andrew
>>
>> On Wed, Mar 6, 2013 at 8:54 AM, j s oishi <jsoishi at gmail.com> wrote:
>> Hi Marc (cc: yt-users),
>>
>> Thanks for your interest in yt! I have not used yt and pluto, but I
>> have used yt with some other Chombo data in the past. I would  
>> strongly
>> suggest you join the yt-users mailing list, which you can do here:
>>
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>
>> or dropping by our IRC chat room,
>>
>> http://yt-project.org/irc.html
>>
>> I believe Andrew Myers, who is active on yt-users, has the most
>> experience using Chombo data in yt. However, the mailing list is the
>> best way to get help. If you do post to yt-users, please include some
>> details about exactly what is going wrong when you try to load your
>> Pluto data. This will help get you going faster.
>>
>> take care, and welcome to yt!
>>
>> yours,
>>
>> Jeff
>>
>> On Wed, Mar 6, 2013 at 8:43 AM, Marc Schartmann <schartmann at mpe.mpg.de 
>> > wrote:
>> > Dear Jeff Oishi,
>> >
>> > I would very much like to use yt for analyzing my PLUTO  
>> simulations. I saw
>> > that there is supposed to be support for the Chombo hdf5 files,  
>> but it does
>> > not seem to work for me
>> > (maybe not for PLUTO 4.0?).
>> > Do you know of anybody who is working with PLUTO + yt, I might  
>> contact?
>> >
>> > Thanks a lot.
>> >
>> > Best regards from Munich,
>> >
>> > Marc
>> >
>> >
>> > --
>> >
>> >  
>> **********************************************************************
>> > Marc Schartmann |    Tel. 089-30000-3712
>> > Max-Planck-Institut für | (Tuesday-Thursday)
>> > extraterrestrische Physik |
>> > Giessenbachstrasse |  Fax: 089-30000-3569
>> > 85748 Garching |  schartmann at mpe.mpg.de
>> >  
>> **********************************************************************
>> > and
>> >  
>> **********************************************************************
>> > Universitätssternwarte | Tel. 089-2180-6028
>> > Scheinerstrasse 1 | (Monday & Friday)
>> > 81679 München |
>> >  
>> **********************************************************************
>> >
>> >
>> >
>> >
>> _______________________________________________
>> yt-users mailing list
>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>
>> _______________________________________________
>> yt-users mailing list
>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>




-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20130307/a410fb5a/attachment.html>