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AU-BCE-EE / ABM

R model for anaerobic microbial degradation of organic matter with multiple microbial groups
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Use fs0 value for xa_aer and CO2 from respiration #24

Open sashahafner opened 1 year ago

sashahafner commented 1 year ago

We have some internal inconsistency where we use a "yield" of 0.1 here:

    xa_aer <- respiration * 0.1

in rates, but then xa_aer goes into dead pool, while 0.1 reflects ultimate non-degradable stuff. So we should switch 0.1 to fs0

See Teams chat from earlier today

sashahafner commented 1 year ago

That means adjusting CO2_aer:COD ratio too. See https://github.com/sashahafner/ABM-paper/blob/main/COD_conversion/conversion_calcs.pdf

sashahafner commented 1 year ago

Table 3.1 has a few values, we could use an average.

sashahafner commented 1 year ago

Make fs0_aer or whatever it is called an input argument.

fdalby commented 2 months ago

We don't have it as input argument, instead it is hardcoded into the resulting stoichiometric equations. See note in the stoich.R line 69. More information about how it is calculated is found in our recent paper with CO2 respiration.