Function returns objective function that fits both stock depletion and catch fraction among fleets
qestMICE(
par,
depc,
CFc,
mode = "opt",
np,
nf,
nyears,
nareas,
maxage,
Nx,
VFx,
FretAx,
Effind,
distx,
movx,
Spat_targ,
M_ageArrayx,
Mat_agex,
Asizex,
WatAgex,
Len_agex,
Karrayx,
Linfarrayx,
t0arrayx,
Marrayx,
R0x,
R0ax,
SSBpRx,
SSB0x,
hsx,
aRx,
bRx,
ax,
bx,
Perrx,
SRrelx,
Rel,
SexPars,
x,
plusgroup,
optVB,
VB0x,
maxF
)Integer, the simulation number
Numeric vector, nstock long of specified stock depletion (SSB now / SSB0)
Matrix [nstock, nfleet], a catch fraction among fleets (sums to 1 for each stock (row))
Integer, number of fleets
Integer, number of historical years (unfished til today)
Integer, number of areas (default is 2)
Integer, maximum number of age classes for calculation
Array [stock, age, year, area] of stock numbers
Array [fleet, age, year, area] of the vulnerability curve
Array [fleet, age, year, area] of the retention curve
Array [fleet, year] of effort
Array [stock,age,area,area] of movement transitions
Matrix [stock, fleet] of spatial targeting parameter (0 evenly spatial distributed, 1 proportional to vulnerable biomass)
Array [stock, age,year] of Natural mortality rate at age
Array [stock, age, year] of maturity (spawning fraction) age age
Matrix [stock, area] Area size
Array of von B growth parameter K
Array of von B asymptotic length parameter Linf
Array ofvon B theoretical age at zero length (t0)
Array of mature natural mortality rate
Vector [stock] unfished recruitment
Matrix [stock, area] unfished recruitment by area
Matrix [stock, area] spawning biomass per recruit by area
Vector [stock] Unfished spawning stock biomass
Vector [stock] steepness of the stock recruitment curve
Vector [stock] stock recruitment parameter alpha (for Ricker curve)
Vector [stock] stock recruitment parameter beta (for Ricker curve)
Vector [stock] weight-length parameter a W=aL^b
Vector [stock] weight-length parameter b W=aL^b
Matrix [stock, year] process error - the lognormal factor for recruitment strength
Integer vector [stock] the form of the stock recruitment relationship (1 = Beverton-Holt, 2= Ricker)
A list of inter-stock relationships see slot Rel of MOM object class
A list of sex-specific dynamics (SSBfrom, stcck_age)
Integer. The simulation number
Character if 'opt' qestMICE returns the objective function otherwise the fitted values in a list