[MITgcm-support] Converting mdsio output to netcdf, or reading mdsio in python

[Oliver Jahn]

Hi Andrea,

there is one now, in MITgcm/utils/python/MITgcmutils

Either install it by running

   python setup.py install --user

(or wherever you like), or just put the directory on your PYTHONPATH.
Either way, you should be able to

   from MITgcmutils import rdmds

and start reading mds files using rdmds.  It has a (hopefully reasonably 
useful) doc string.

There is also a script scripts/gluemncbig for gluing netcdf files, in 
case you go the other way.  It depends only on python and numpy.

Cheers,
Oliver


On 2012-10-25 12:13, cimatori wrote:
> If there is a MITgcm python package, I will gladly shift to mds output
> (which seems a lot faster).
>
> Andrea Cimatoribus
> Royal Netherlands Meteorological Institute
> www.knmi.nl/~cimatori
>
> On 10/25/2012 04:07 PM, Ryan Abernathey wrote:
>> Hi Andrea,
>>
>> You have 3 options:
>> - Simply read the mds files into python using np.fromfile (they are
>> just raw binary data)
>> - Use Oliver Jahn's MITgcm python utils package, which contains a
>> python mdsio and many other useful scripts (Oliver, is this publicly
>> available yet?)
>> - Upgrade your code to the latest version of layers, which now does
>> output via the diagnostics package and therefore should support netcdf
>> format. (Disclaimer: I have not tested netcdf output, but maybe Gael
>> has?)
>>
>> Personally, I actually prefer mds output. The main reason is that
>> netcdf does not support singleCPUio and consequently produces a
>> ridiculous amount of output files that then have to be glued together
>> in a separate step.
>>
>> Best,
>> Ryan
>>
>>
>> On Oct 25, 2012, at 6:26 AM, cimatori wrote:
>>
>>> Hi everybody,
>>> I have a technical issue which is probably rather common. I am using
>>> layers package to compute the stream function in density, but layers
>>> package can produce output only in the meta/data format.
>>> Unfortunately, I have no matlab available, and all my scripts are
>>> based on netcdf format. Is there a way convert meta/data to netcdf?
>>> Is there an easy way to read meta/data files in python?
>>> I do have access to octave (an open source version of matlab) if that
>>> can help.
>>> Many thanks,
>>>
>>> --
>>>
>>> Andrea Cimatoribus
>>> Royal Netherlands Meteorological Institute
>>> www.knmi.nl/~cimatori
>>>
>>>
>>> _______________________________________________
>>> MITgcm-support mailing list
>>> MITgcm-support at mitgcm.org
>>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>>
>>
>> _______________________________________________
>> MITgcm-support mailing list
>> MITgcm-support at mitgcm.org
>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>
>
> _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support