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Dear Iya Belova,
could you please describe in more details what your goal/plans are with setting methane fluxes?
If you are interested in simulating of atmospheric methane concentrations this is not directly possible with COSMO - CLM , but you could do this for example with COSMO - CLM /MESSy (for which you would need an additional license).
There you could either prescribe methane concentration at the lowest boundary or setting explicitly flux conditions for methane. For the chemical sink of methane you could either run the “full” atmospheric chemistry set or a parametrized methane chemistry, using prescribed concentrations of reaction partners.
Greetings,
Mariano Mertens