| `forcingmodel_nemo` | Use NEMO as a forcing model | standard in our group |
| `forcingmodel_deSolve` | Uses deSolve forcing model | |
| `nanquest` | | |
| **BIOLOGY** | | |
| `aggregation` | Use aggregation model for computing sinking speeds dynamically, add state variable AGG | Not working properly (M.C.) |
| `gelatinous` | Enable Gelatinous Zooplankton Variables (GEL and NOC) | standard in our group |
| `smineral` | enable Mineral SPM state variable (SMI) | No foundation for the intialisation and river values |
| `agginit` | Initializes aggregation variable from PON | |
| `chlorophyll_geider` | | Currently commented out |
| `clipping` | Set negative tracer values to e-12 and compute how much is "clipped away" | not compatible with NEMO trcrad negative correction option, you shouldn't use both, else the clipping output is not correct |
| `temp_clip` | | |
| **OPTICS** | | |
| `simpleoptics` | Uses simplified optics model (Gregoire 2008) | not used by anyone currently |
| `fulloptics` | Three-band light model with inherent optical properties as described in Arthur Capets phd thesis | Some parameters |
| `radtrans` | Radtrans spectral light model in BAMHBI | |
| `radtrans_diag` | | |
| **BENTHIC** | | |
| `benthic` | Use Benthic model with parameterized benthic-pelagic fluxes (Capet 2016) | standard in our group |
| `metamodel_ORIG` | Use benthic metamodel parameter as established by Arthur | We currently don't have a (documented) alternative, could also remove this optionality |
| `bflbounds` | | |
| **ALKALINITY** | | |
| `alkalinity_system` | Add negative excess charge as a state variable (CHA) for computing alkalinity | |
| `co2syscheck` | Enable output possibility of Total Alkalinity, CO2,CO3, HCO3 | |
