T.C. Onstott Posted October 4, 2010 Share Posted October 4, 2010 Dear Tom, I would like to grow biomass using the microbe reaction and monitor depletion of critical carbon substrate, N (i.e. NH3(a) and P (HPO4--) to determine when an environment becomes substrate limited as opposed to energy limited. I am not sure how to do this. I created a mineral phase bioacetate(s) with the formula C36O40H102N9P1 and comprised of 4 species, Acetic_acid(aq), NH3(aq), HPO4-- and H+. this work fine. I then have a microbe reaction that uses Acetic_acid(aq) and calculates biomass. What I then tried to do is to create a custom rate law for C36O40H102N9P1 where the rate is equal to (biomass-biomass0)/Deltat. I thought that the custom rate laws could import these values like they do in the ratelaw_custom4.bas example, but no luck. I just get a can't evaluate the rate error message. Before I beat my head against a wall, I thought I would check in to see if you can offer some advice. If my code reads as follows: kinetic microbe-24 rxn = "Acetate + H2O -> Methane(aq) + HCO3-" rate_law = ratelaw_example5.bas rate_con = 9e-10 kinetic microbe-24 biomass = 2e-14 kinetic microbe-24 growth_yield = 1 kinetic microbe-24 ATP_energy = -6 kinetic microbe-24 ATP_number = 1 kinetic microbe-24 Decay_con = 1e-11 kinetic microbe-24 power(Acetate) = 1 kinetic microbe-24 powerD(Acetate) = 1 kinetic microbe-24 order1 = 1 kinetic microbe-24 order2 = 1 kinetic microbe-24 KD = 8.6e-4 react 0.1 grams of "bioacetate(s)" kinetic "bioacetate(s)" rate_law = ratelaw_bioacetate2.bas rate_con = 3.18e-8 surface = 1 do I need to explicitly state something like kinetic "bioacetate(s)" biomass0 = ??? kinetic "bioacetate(s)" biomass = ??? in order for this ratelaw to be evaluated? Ideally I want to use the same biomass given by microbe-24. Thanks, tco Quote Link to comment Share on other sites More sharing options...
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