6 merge neccton dev

[ggalli00]

all new processes introduced in neccton (that I could remember of) ported here, these are: 1. non-1.0 O2 / CO2 stoichiometry of respiration / C fixation, 2. minimum Chl/C ratio, 3. extra respiration under nutrient stress. The code compiles and runs (gotm-fabm-bfm). New parameters added to fabm_multispectral_2xDetritus.yaml

[Copilot]

Pull request overview

Ports several biogeochemical process updates from the neccton branch into the FABM-BFM Fortran implementation and its reference configuration, targeting updated O2/C stoichiometry handling, chlorophyll quota limits, and nutrient-stress respiration behavior.

Changes:

• Introduces O2:C stoichiometry scaling factors for respiration and carbon fixation and applies them to O2 fluxes in multiple pelagic components.
• Adds a minimum Chl:C quota parameter (p_qlcmin) and updates the chlorophyll synthesis formulation accordingly.
• Implements nutrient-stress “extra respiration” partitioning (p_pu_rn) with a new diagnostic (flPIO3c) and updates the multispectral 2xDetritus YAML with the new parameters.

Reviewed changes

Copilot reviewed 6 out of 6 changed files in this pull request and generated 5 comments.

Show a summary per file

File	Description
shared.F90	Adds shared stoichiometry scaling constants used across pelagic processes.
Phyto.F90	Adds nutrient-stress respiration partitioning + diagnostic, introduces minimum Chl:C, and applies O2:C scaling to O2 fluxes.
PelBac.F90	Applies O2:C respiration scaling to bacterial O2 consumption.
MicroZoo.F90	Applies O2:C respiration scaling to microzooplankton O2 consumption.
MesoZoo.F90	Applies O2:C respiration scaling to mesozooplankton O2 consumption.
fabm_multispectral_2xDetritus.yaml	Adds new configuration parameters (p_pu_rn, p_qlcmin) and updates some tuned values.

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