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

[cimatori]

For completeness, does anybody have any feedback on layers output 
through the diagnostic package?
Thanks,

Andrea Cimatoribus
Royal Netherlands Meteorological Institute
www.knmi.nl/~cimatori

On 10/25/2012 11:40 PM, Oliver Jahn wrote:
> 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
>>>>
>>>>
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>>>
>>>
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>>
>>
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