Description Usage Arguments Author(s)
View source: R/multi_q_estimation.R
Function returns objective function that fits both stock depletion and catch fraction among fleets
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par |
Integer, the simulation number |
depc |
Numeric vector, nstock long of specified stock depletion (SSB now / SSB0) |
CFc |
Matrix [nstock, nfleet], a catch fraction among fleets (sums to 1 for each stock (row)) |
nf |
Integer, number of fleets |
nyears |
Integer, number of historical years (unfished til today) |
nareas |
Integer, number of areas (default is 2) |
maxage |
Integer, maximum number of age classes for calculation |
Nx |
Array [stock, age, year, area] of stock numbers |
VFx |
Array [fleet, age, year, area] of the vulnerability curve |
FretAx |
Array [fleet, age, year, area] of the retention curve |
Effind |
Array [fleet, year] of effort |
movx |
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) |
M_ageArrayx |
Array [stock, age,year] of Natural mortality rate at age |
Mat_agex |
Array [stock, age, year] of maturity (spawning fraction) age age |
Asizex |
Matrix [stock, area] Area size |
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 |
SSB0x |
Vector [stock] Unfished spawning stock biomass |
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) |
ax |
Vector [stock] weight-length parameter a W=aL^b |
bx |
Vector [stock] weight-length parameter b W=aL^b |
Perrx |
Matrix [stock, year] process error - the lognormal factor for recruitment strength |
SRrelx |
Integer vector [stock] the form of the stock recruitment relationship (1 = Beverton-Holt, 2= Ricker) |
Rel |
A list of inter-stock relationships see slot Rel of MOM object class |
SexPars |
A list of sex-specific dynamics (SSBfrom, stcck_age) |
x |
Integer. The simulation number |
mod |
Character if 'opt' qestMICE returns the objective function otherwise the fitted values in a list |
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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