Zissou models connectivity patterns of marine larvae using offline hydrodynamic models in NetCDF format and habitat polygons using a GIS Shapefile. The larval parameters are set using an XML configuration file.
| Trait | Options | Description | Units |
|---|---|---|---|
| Pelagic larval duration | - | Larvae assigned a PLD sampled from a Gaussian distribution | Days (Gaussian) |
| Non-settlement competency period | - | Larvae are only allowed to settle once competent, competency age sampled from a Gaussian distribution | Days |
| Development age | Preflexion | Age of preflexion sampled from a Gaussian distribution. If this value is greater than 0, the larvae are considered to be pelagic eggs during the first period. | Days |
| Flexion | Age of flexion sampled from a Gaussian distribution | Days | |
| Postflexion | Age of postflexion sampled from a Gaussian distribution | Days | |
| Spawning sites | Location | The latitude and longitude of larval release location | GPS Coordinates |
| Depth | The depth the larvae are spawned | metres (m) | |
| Number | The number of larvae to spawn | Positive integer | |
| Period | The period to release the larvae over | Date range | |
| Interval | The number of days between releases | Days (e.g. 1 = daily, 7 = weekly) | |
| Settlement sites | - | Polygons representing settlement sites | GIS Shapefile |
| Mortality | Linear | The percentage of larvae to be randomly killed each day | Rate (% per day) |
| Vertical migration | Diel | Vertically migrates the particles twice daily at sunset and sunrise | Probabilities of larvae day/night distributions at user specified depths |
| Ontogenetic | Vertically migrates to another depth based on their ontogenetic stage | Probabilities of larvae ontogenetic distributions at user specified depths | |
| Settlement buffer | - | The distance within which a larva can settle to a reef | Kilometres (km) |
| Sensory distance | - | The distance at which a larva can sense a reef and orientate towards it | Kilometres (km) |
| Horizontal swimming | Critical swimming speed (U |
The speed at which a fish can swim before it fatigues as measured in a laboratory setting | Metres per second (ms^-1^) |
| In situ swimming speed | The swimming speed of the fish larvae recorded by divers in situ as a proportion of the U |
Proportion | |
| Swimming endurance | The proportion of time the fish can spend swimming as measured in a laboratory setting | Proportion |
When the particles reach land they can either be killed, remain in the current position or move with a muted velocity
I use SemVer for versioning. For the versions available, see the tags on this repository.
MIT @ Steven Hawes