Description Usage Arguments Author(s)
Completes a single iteration of recruitment, mortality, fishing and movement given MICE model inputs
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 | popdynOneMICE(
np,
nf,
nareas,
maxage,
Ncur,
Vcur,
FMretx,
FMx,
PerrYrp,
hsx,
aRx,
bRx,
movy,
Spat_targ,
SRrelx,
M_agecur,
Mat_agecur,
Asizex,
Kx,
Linfx,
t0x,
Mx,
R0x,
R0ax,
SSBpRx,
ax,
bx,
Rel,
SexPars,
x
)
|
np |
Integer, the number of stocks |
nf |
Integer, number of fleets |
maxage |
Integer, maximum modelled age |
Ncur |
Array [stock, age, area] of stock numbers |
Vcur |
Array [fleet, age, area] of the vulnerability curve |
FMretx |
Array [stock, fleet, age, area] of the retention curve |
FMx |
Array [stock, fleet, age, area] fishing mortality rate |
PerrYrp |
Vector [stock] process error - the lognormal factor for recruitment strength |
hsx |
Vector [stock] steepness of the stock recruitment curve |
aRx |
Vector [stock] stock recruitment parameter alpha (for Ricker curve) |
bRx |
Vector [stock] stock recruitment parameter beta (for Ricker curve) |
movy |
Array [stock,age,area,area] of movement transitions |
Spat_targ |
Matrix [stock, fleet] of spatial targetting parameter (0 evenly spatial distributed, 1 proportional to vulnerable biomass) |
SRrelx |
Integer vector [stock] the form of the stock recruitment relationship (1 = Beverton-Holt, 2= Ricker) |
M_agecur |
Matrix [stock, age] of Natural mortality rate at age |
Mat_agecur |
Matrix [stock, age] of maturity (spawning fraction) age age |
Asizex |
Matrix [stock, area] of relative area sizes |
Kx |
Vector [stock] of von B growth parameter K |
Mx |
Vector [stock] mature natural mortality rate |
R0x |
Vector [stock] unfished recruitment |
R0ax |
Matrix [stock, area] unfished recruitment by area |
SSBpRx |
Matrix [stock, area] spawning biomass per recruit by area |
ax |
Vector [stock] weight-length parameter a W=aL^b |
bx |
Vector [stock] weight-length parameter b W=aL^b |
Rel |
A list of inter-stock relationships see slot Rel of MOM object class |
SexPars |
A list of sex-specific relationships (SSBfrom, stock_age) |
x |
Integer. The simulation number |
nyears |
Integer, number of historical years (unfished til today) |
Linf |
Vector [stock] of von B asymptotic length parameter Linf |
t0 |
Vector [stock] of von B theoretical age at zero length (t0) |
T.Carruthers
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