Changes to biology and physics to allow sediment light attenuation
Run prm file
Added a new flag to the run input file:
flagIsEstuary 1 Flag to indicate if the model is estuary. If true a sediment tracer is required in the initial conditions input file.
Place this under the ‘flaghemisphere’ parameter.
This should only be used if the model is tracing sediment in the water column.
If this is 1 the model will look for a SED tracer in your initial conditions file. If its 0 then your initial conditions will not need to change - this will be the case for most people.
Biology input prm file
k_SED 0.05 Coefficient of light absoption due to sediment. Only used if flagIsEstuary is on.
This must be in your biology file - but it will only be used if the flagIsEstuary flag is set to 1.
Place it near the ‘k_DON’ parameter.
This coefficient is used in the light equation to calculate the light penetration in a box layer.