[MITgcm-support] introduction to the MITgcm biogeochemistry module

[Manfredi Manizza]

Hi Johnny,

given that you work on the Arctic Ocean, you can look at this paper :

*M. Manizza*, M. J. Follows, S. Dutkiewicz, D. Menemenlis, J. W. 
McClelland, C. N. Hill, B. J. Peterson, R. Key - (2011) A Model of the 
Arctic Ocean Carbon Cycle 
<http://bluemoon.ucsd.edu/mmanizza/Manizza_ArcticCC_JGRO_11.pdf> - 
Journal of Geophysical Research-Oceans, VOL. 116, C12020, 19 PP., 2011 
doi:10.1029/2011JC006998.

There is a relationship in the appndix where you can derive DIC and 
Alkalinity fields from T and S
used in the model for intial conditions.

For generating initial conditions of PO4 look at Word Ocean Atlas.

Look at GLODAP for deriving the boundary conditions for DIC and ALK.

Boundary conditions files have to be prescribed possibly each month to 
the model,
so you need files that match that , so if you run 10 years for instance
your have to generate the files that have the same climatological field 
12*10 times.

I hope this helps.

Manfredi


On 2/19/14 2:11 AM, Jonny Williams wrote:
> Hi Manfredi
>
> Thanks a lot for your email, that's really helpful! Do I need to do 
> anything except for turn on the dic package and then recompile? Do I 
> need to provide boundary condition files for the dic module?
>
> Thanks again!
>
> Jonny
>
>
> On 18 February 2014 17:34, Manfredi Manizza <mmanizza at ucsd.edu 
> <mailto:mmanizza at ucsd.edu>> wrote:
>
>     Hi Johnny,
>
>     what you can simply use straight away is the "dic" package that
>     is  based on six tracers or six (five + iron)
>     The model is very simplified and it does not compute NPP but NCP
>     (net community production) with a simplified scheme that does not
>     take into account the ecosystems dynamics but just light and
>     nutrient availability.
>
>     I hope this helps.
>
>     Manfredi
>
>
>     On 2/18/14 5:27 AM, Jonny Williams wrote:
>>     Hi there
>>
>>     I am currently at the stage where I'd like to start having a go
>>     at using the biogeochemical capabilities of the MITgcm. Clearly
>>     there is a lot of information online about this and many
>>     publications but if possible I'd like to have a read of a 'MITgcm
>>     biogeochemistry 101' type paper, if there is one? For now I'd
>>     like to be able to calculate basic properties, such as NPP for
>>     example.
>>
>>     Please do contact me if you have any suggestions or if I need to
>>     rephrase my question!...
>>
>>     Many thanks
>>
>>     Jonny Williams
>>
>>     -- 
>>     Dr Jonny Williams
>>     School of Geographical Sciences
>>     University of Bristol
>>     University Road
>>     BS8 1SS
>>
>>     +44 (0)117 3318352 <tel:%2B44%20%280%29117%203318352>
>>     jonny.williams at bristol.ac.uk <mailto:jonny.williams at bristol.ac.uk>
>>     bit.ly/jonnywilliams <http://bit.ly/jonnywilliams>
>>
>>
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>
>
>     -- 
>     Dr. Manfredi Manizza
>     Geosciences Research Division
>     Scripps Institution of Oceanography
>     University of California San Diego
>     9500 Gilman Drive La Jolla, CA 92093-0244
>     email :mmanizza at ucsd.edu  <mailto:mmanizza at ucsd.edu>
>     tel   :+1-858-534-7094  <tel:%2B1-858-534-7094>
>     web   :http://bluemoon.ucsd.edu/mmanizza/
>
>
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>
>
>
> -- 
> Dr Jonny Williams
> School of Geographical Sciences
> University of Bristol
> University Road
> BS8 1SS
>
> +44 (0)117 3318352
> jonny.williams at bristol.ac.uk <mailto:jonny.williams at bristol.ac.uk>
> bit.ly/jonnywilliams <http://bit.ly/jonnywilliams>
>
>
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-- 
Dr. Manfredi Manizza
Geosciences Research Division
Scripps Institution of Oceanography
University of California San Diego
9500 Gilman Drive La Jolla, CA 92093-0244
email : mmanizza at ucsd.edu
tel   : +1-858-534-7094
web   : http://bluemoon.ucsd.edu/mmanizza/

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