Exporting parameters and settings

Below are given parameters and settings used in the Bifrost model. Tables of parameters and settings are exported to the file parametersAndSettings.xls on the directory for the selected Bifrost project. For several of the parameters and settings there are in-built explanations which are given on the produced notebook, but not on the file. The explanation is in form of mouse-over and not printed on the table since some of the explanations can be a little bulky.

Parameters are here defined as quantities that determine the value of formulas in the model. All parameters must be defined in in the initialization chapter, although definition characteristics may be modified later.

The parameters given here are the parameters that are or may be used for estimation. In the model software the parameters may be vectors over sex, where the individual components are estimable parameters. If this is the case, it is noted in the explanation column.

The names of parameters and variables used here are those that actually are used in the program. The names in the menu can differ slightly for technical reasons.

Parameters

Global parameters for historic assessment

Name Value Status Explanation
capelinP2Females 13.8378 Estimate capelinP2 is the length at 50% maturity. capelinP2 is a sex-dependent vector used in the model. For estimation capelinP2Females and capelinP2Males are used.
capelinP2Males 13.8378 capelinP2Females
capelinP2Age2Addition 0.001 Estimate
capelinMaturationM 0.0385417 Estimate
uncertaintyCapelin 0.380689 Estimate
useCapelinScaling 1.20149 Estimate
consExponentQ1 0.001 Estimate
otherFoodCodQ1 0.0463545 Estimate
partImmaturePreyedByCodWinter 0.291708 Estimate partImmaturePreyedByCodWinter is the proportion of immature capelin biomass during quarter 1 that is subject to predation by cod together with the mature capelin biomass. The total capelin prey during quarter 1 is calculated in the routine exertPredationMortality and the effect on predation per cod (used in likelihood) of mature capelin and immature capelin is calculated in the routine predationMortalityBifrost and the effect on simulations in the routine calculatePredation, however the updating of immature and mature capelin is executed in overlying routines. The effect of partImmaturePreyedByCodWinter increases from zero in the year runLastYearNoConsumptionImmatureCapelinQ1 to its full value in the year runFirstYearFullConsumptionImmatureCapelinQ1. This is calculated in the routine partImmaturePreyed and delivered as the variable usePartImmaturePreyedByCod, which is used in the calculations.
partMatureCodPreyingOnCapelinWinter 0.0570797 Estimate partMatureCodPreyingOnCapelinWinter is the proportion of mature cod that preys on capelin (immature or mature) during quarter 1. The same linear increase in effect is applied for partMatureCodPreyingOnCapelinWinter as for partImmaturePreyedByCodWinter.
halfConsBiomassQ1 0.001 Estimate
maxConsCodQ1 0.321182 Estimate
uncertaintyConsumptionQ1 0.956352 Estimate
speciesSuitabilityCodCodQ1 0.236946 Estimate
speciesSuitabilityCapelinCodQ1 6.39382 Estimate
runScalingConsumptionPerCod 0.75 Estimate
runScalingCod 0.75 Estimate
speciesSuitabilityCapelinCodQ4 0.929167 Constant
speciesSuitabilityCapelinCodQ2 0.929167 speciesSuitabilityCapelinCodQ4
speciesSuitabilityCapelinCodQ3 0.929167 speciesSuitabilityCapelinCodQ4
suitAge2CapelinQ1 0.1 Estimate
suitAge9CapelinQ1 0.734864 Estimate
suitAge2CapelinQ4 0.25927 Estimate
suitAge2CapelinQ2 0.25927 suitAge2CapelinQ4
suitAge2CapelinQ3 0.25927 suitAge2CapelinQ4
suitAge9CapelinQ4 1. Estimate
suitAge9CapelinQ2 1. suitAge9CapelinQ4
suitAge9CapelinQ3 1. suitAge9CapelinQ4
betaPar1CapelinQ1 1.53542 Estimate
betaPar2CapelinQ1 5.60847 Estimate
betaPar1CapelinQ4 13.1672 Estimate
betaPar1CapelinQ2 13.1672 betaPar1CapelinQ4
betaPar1CapelinQ3 13.1672 betaPar1CapelinQ4
betaPar2CapelinQ4 1.5 Estimate
betaPar2CapelinQ2 1.5 betaPar2CapelinQ4
betaPar2CapelinQ3 1.5 betaPar2CapelinQ4
suitAge2CodQ1 0.675 Estimate
suitAge9CodQ1 0.384757 Estimate
suitAge2CodQ4 0.250545 Estimate
suitAge2CodQ2 0.250545 suitAge2CodQ4
suitAge2CodQ3 0.250545 suitAge2CodQ4
suitAge9CodQ4 1. Estimate
suitAge9CodQ2 1. suitAge9CodQ4
suitAge9CodQ3 1. suitAge9CodQ4
betaPar1CodQ1 1.5 Estimate
betaPar2CodQ1 3.24376 Estimate
betaPar1CodQ4 12.5838 Estimate
betaPar1CodQ2 12.5838 betaPar1CodQ4
betaPar1CodQ3 12.5838 betaPar1CodQ4
betaPar2CodQ4 1.5 Estimate
betaPar2CodQ2 1.5 betaPar2CodQ4
betaPar2CodQ3 1.5 betaPar2CodQ4
suitAge1OtherFoodQ1 0.1 Estimate
suitAge9OtherFoodQ1 0.1 Estimate
suitAge1OtherFoodQ4 0.529166 Estimate
suitAge1OtherFoodQ2 0.529166 suitAge1OtherFoodQ4
suitAge1OtherFoodQ3 0.529166 suitAge1OtherFoodQ4
suitAge9OtherFoodQ4 0.216668 Estimate
suitAge9OtherFoodQ2 0.216668 suitAge9OtherFoodQ4
suitAge9OtherFoodQ3 0.216668 suitAge9OtherFoodQ4
betaPar1OtherFoodQ1 2.20676 Estimate
betaPar2OtherFoodQ1 2.57326 Estimate
betaPar1OtherFoodQ4 1.5 Estimate
betaPar1OtherFoodQ2 1.5 betaPar1OtherFoodQ4
betaPar1OtherFoodQ3 1.5 betaPar1OtherFoodQ4
betaPar2OtherFoodQ4 13.7969 Estimate
betaPar2OtherFoodQ2 13.7969 betaPar2OtherFoodQ4
betaPar2OtherFoodQ3 13.7969 betaPar2OtherFoodQ4
consExponentQ4 0.001 Estimate
consExponentQ2 0.001 consExponentQ4
consExponentQ2 0.001 consExponentQ4
consExponentQ3 0.001 consExponentQ4
consExponentQ3 0.001 consExponentQ4
otherFoodCodQ4 2.81719 Estimate
otherFoodCodQ2 2.81719 otherFoodCodQ4
otherFoodCodQ3 2.81719 otherFoodCodQ4
halfConsBiomassQ4 0.001 Estimate
halfConsBiomassQ2 0.001 halfConsBiomassQ4
halfConsBiomassQ3 0.001 halfConsBiomassQ4
maxConsCodQ4 0.313849 Estimate
maxConsCodQ2 0.313849 maxConsCodQ4
maxConsCodQ3 0.313849 maxConsCodQ4
uncertaintyConsumptionQ4 0.95594 Estimate
speciesSuitabilityCodCodQ4 0.644792 Estimate
speciesSuitabilityCodCodQ2 0.644792 speciesSuitabilityCodCodQ4
speciesSuitabilityCodCodQ3 0.644792 speciesSuitabilityCodCodQ4
capelinM 0.0016667 Constant capelinM is monthly residual natural mortality for immature capelin.
capelinP1Females 3.5 Constant capelinP1 is the maturation as function of length at capelinP2 - the length at 50% maturity. capelinP1 is a sex-dependent vector used in the model. For estimation capelinP1Females and capelinP1Males are used.
capelinP1Males 3.5 capelinP1Females
capelinExtensionExponentQ1 1. Constant
capelinExtensionExponentQ2 1. capelinExtensionExponentQ4
capelinExtensionExponentQ3 1. capelinExtensionExponentQ4
capelinExtensionExponentQ4 1. Constant
halfCapelinExtensionQ1 0.0001 Constant
halfCapelinExtensionQ2 0.0001 halfCapelinExtensionQ4
halfCapelinExtensionQ3 0.0001 halfCapelinExtensionQ4
halfCapelinExtensionQ4 0.0001 Constant
codExtensionExponentQ1 1. Constant
codExtensionExponentQ2 1. codExtensionExponentQ4
codExtensionExponentQ3 1. codExtensionExponentQ4
codExtensionExponentQ4 1. Constant
consExponent 1.34 Constant
halfCodExtensionQ1 0.0001 Constant
halfCodExtensionQ2 0.0001 halfCodExtensionQ4
halfCodExtensionQ3 0.0001 halfCodExtensionQ4
halfCodExtensionQ4 0.0001 Constant
codWeightExponent 0. Constant
otherFoodBottomStart 0.5 Constant
sizeCodArea 0.8 Constant
sizeCapelinArea 0.8 Constant
zerogroupCapelinCatchability 13.56 Constant
zerogroupCapelinUncertainty 1.07 Constant
zerogroupCodCatchability 1416. Constant
onegroupCodCatchability 145. Constant
uncertaintyOnegroupCod 0.5 Constant
twogroupCodCatchability 1023. Constant
uncertaintyTwogroupCod 0.5 Constant
empiricalConsumptionOtherScaling 1. Constant
uncertaintyConsumptionQ2 0.67 Estimate
uncertaintyConsumptionQ3 0.67 Estimate
uncertaintyRecruitsCodRec 1. Estimate
uncertaintyRecruitsCapM 0.41 Estimate
uncertaintyRecruitsCapAge1Addition 1. Estimate

Yearly parameters for historic assessment

Yearly parameters are recruitment of capelin as age 1, residual mortality of capelin and recruitment of cod as age 0. For practical reasons the recruitment parameters are implemented as addition to the original quantities. The yearly parameters are tagged with the year in which the are compared to data for estimation, not the year in which they are applied.

capelinAge1Addition capelinMCorrection recruitmentCodCorrection
Year capelinAge1Addition is a list where each etry is a year and an addition to the number of 1 year old capelin the year before. capelinMCorrection is a list where each entry is a year and an addition in the year before to the default monthly residual mortality of 0.05. codRecruitmentCorrection is a list where each entry is a year and an addition to the number of cod as 0 year old 3 years before.
1973 458.201 0.004
1974 500.291 -0.0196
1975 368.46 -0.0185 0.
1976 260.3 -0.0118 10.9991
1977 166.737 -0.027 4.41333
1978 389.834 -0.026 5.96334
1979 601.17 0.0239 1.835
1980 394.036 -0.05 1.00667
1981 106.719 -0.0483333 0.568334
1982 298.858 0.0684333 0.496667
1983 662.178 0.218083 0.80875
1984 48.8158 0.0939167 1.23333
1985 219.77 0.20875 1.41833
1986 20.4086 0.293999 3.335
1987 53.8173 0.464166 1.85698
1988 32.0684 0.01225 1.32084
1989 105.847 0.191666 1.1
1990 72.9542 -0.0483333 1.08375
1991 313.391 -0.01 1.53667
1992 319.403 0.0955003 2.06626
1993 162.323 0.214582 2.78501
1994 35.1667 0.20775 4.72501
1995 -2.73959 -0.05 7.80667
1996 18.6666 -0.05 7.66833
1997 -1.97636 -0.05 9.62413
1998 66.2829 -0.00836673 9.90998
1999 -23.1354 -0.0483333 3.94
2000 7.42916 -0.049 2.74334
2001 -125.514 -0.05 1.67334
2002 146.028 0.0425833 1.42167
2003 1.58764 0.158 2.85833
2004 -33.2323 -0.05 2.04875
2005 57.0076 0.189749 4.76541
2006 16.3153 -0.05 6.05667
2007 64.3688 -0.05 12.5425
2008 291.038 -0.0483333 12.321
2009 78.7896 -0.0483333 6.44
2010 225.62 -0.0483333 3.76166
2011 267.863 -0.0463333 6.25326
2012 371.062 -0.0484954 6.875

Settings

Settings are defined as quantities that are used to administer estimations and runs by selecting options for the use of different versions of equations. Also settings can be quantities that in principle could be estimated from data, but in practice are not. Settings are defined in the initialization chapter, but some of the settings can get their values changed from the menu.

Settings for parameter estimations - historic assessment

Name Value Explanation
runOverallEstimationMethod simultaneous The setting runOverallEstimationMethod decides how the estimation of parameters is rigged. The variable is set in the estimation menu. The values are:

stepwise
simultaneous
bifrostEstimationMethod Custom The setting bifrostEstimationMethod originally denoted the method the inbuilt Mathematica estimation algorithm should use, e.e. "NelderMead". It can also take the value "Custom", in which case the custom made method is used.
basicEstimationMethod nminimize The setting basicEstimationMethod selects the main estimation scheme if Mathematica inbuilt estimation is used. Possible values are nminimize, findfit and findminimum. This setting is not relevant if bifrostEstimationMethod is set to "Custom"
stagesToPerform {1} stagesToPerform is a list of estimation stages to be performed by the routine bifrostEstimationWork. The stages and assumptions and parameters connected to each stage is defined in the lists stageSpecificSettings and estimationDeviations, defined in the uppermost project definition routine.
componentsInLikelihoodOriginal {{capelinAbundanceLikelihoodComponent, consumptionLikelihoodComponent, capelinRecruitsLikelihoodComponent, capelinMLikelihoodComponent, codRecruitsLikelihoodComponent}} componentsInLikelihoodOriginal is defined at initialization of each project together with stagesToPerform. For each stage a vector of likelihood components is defined. At each stage the setting componentsInLikelihood is used, taken from componentsInLikelihoodOriginal.
excludeFromLikelihoodCalculation {} excludeFromLikelihoodCalculation is a list of likelihood components not to be used when the likelihood is evaluated.
useAge3InEstimation False If useAge3InEstimation is True the number of capelin at age 3 (sex divided or sex aggregated depending on the setting of sumSexForEstimation) is used for constructing the likelihood function when the maturation parameters are estimated.
useAge4InEstimation True If useAge4InEstimation is True the number of capelin at age 4 (sex divided or sex aggregated depending on the setting of sumSexForEstimation) is used for constructing the likelihood function when the maturation parameters are estimated.
sumSexForEstimation True If sumSexForInEstimation is True number a age for female and male capelin are summed both for the data and simulation before the likelihood is evaluated. This is relevant for the estimation of maturation parameters. If the maturation parameters do not differ by sex (are bound to each other) it would be natural to set sunSexForEstimation to True.
useExogeneousCapelinCV False If useExogeneousCapelinCV is True the uncertainty in the capelin measurements used when constructing terms in the likelihood function is taken from uncertainties calculated from bootstrap replicates of the September estimate.
exogeneousCapelinCV 0.2 If useExogeneousCapelinCV is False exogeneousCV is an uncertainty applied to the input September data to construct replicates of the data.
lastCapelinEstimationYear 1980 lastCapelinEstimationYear is the last year where data from the September survey is used for estimating maturation parameters for capelin.
runLastYearSuppressCodPredationCapelinAutumn 1983 Overlap between cod and capelin in the autumn is a rather new feature of the Barents Sea ecosystem and supposing predation of capelin by cod is small in the autumn allows for estimating maturation parameters for capelin without being bothered with the parameters being confounded with the predation parameters for cod.
runLastYearNoConsumptionImmatureCapelinQ1 1983
runFirstYearFullConsumptionImmatureCapelinQ1 1995 After a liner increase from runLastYearNoConsumptionImmatureCapleinQ1 runFirstYearFullConsumptionImmatureCapelinQ1 is the first year when cod consumes capelin in Q1 according to parameter values. This setting is also used for conssumption of capelin by mature cod in Q1.
capelinStockDistributionFunction gamma capelinStockDistributionFunction is the distributinal assumption for terms in the likelihood function used when the capelin maturation parameters are estimated.
consumptionByCodDistributionFunction gamma consumptionByCodDistributionFunction is the distributional assumption for terms in the likelihood function when the predation parameters are estimated.
capelinMDistributionFunction gamma capelinMDistributionFunction is the distributional assumption for terms in the likelihood function when the yearly residual natural mortality for immature capelin is estimated.
capelinRecruitsDistributionFunction SSQ capelinRecruitsDistributionFunction is the distributional assumption for terms in the likelihood function when the yearly adjustment to number of capelin at age 1 is estimated.
codRecruitsDistributionFunction lognormal codRecruitsDistributionFunction is the distributional assumption for terms in the likelihood function when the yearly adjustment to number of cod at age 0 is estimated.
runExcludeLowCatchYears No If runExcludeLowCatchYears is Yes years with low capelin stock as defined in the hardcoded list excludeConsumptionYears are excluded from the likelihood.
runTotalConsumptionInEstimation No If runTotalConsumptionInEstimation is Yes, the consumption per cod is meaned over cod age both in data and model before the likelihood is evaluated.
minAgeCodConsumption 3 minAgeCodConsumption is the smallest age of cod for terms in the likelihood.
maxAgeCodConsumption 9 maxAgeCodConsumption is the largest age of cod for terms in the likelihood.
smallestAcceptableConsumptionMeasurement 0.0001 smallesAcceptableConsumptinMeasurement is the smallest value of consumption per cod for inclusion of terms in the likelihood.
runConsumptionPerCodWeightingMethod None The variable runConsumptionPerCodWeightingMethod decides how the consumption per cod calculations have beeb weighted in order to account for the distribution of the cod stock. The values are:

None
ByNumberInHaul
ByLengthStation
ByMultspecArea
quartersCodPredationInLikelihood {1, 3, 4} quartersCodPredationInLikelihood is a list of quarters for which empirical consumption per cod is used in the likelihood.
includeCodInLikelihood True On True, the consumption of cod by cod is included in the likelihood.
includeOtherFoodInLikelihood True On True, the consumption of other food by cod is included in the likelihood.
runSplitConsumptionQ1OnMaturation Yes On Yes, runSplitConsumptionQ1OnMaturation leads to the consumption of capelin per cod being calculated in quarter 1 on mature and immature capelin separately. Mature and immature capelin are separated in the model and is separated in the empirical consumption data using capelin length, where capelin in the stomachs that is not measured for length are distributed over length groups proportionally to the capelin that has been measured for length.
runUseCapelinCodSuitability Adjustment The variable runUseCapelinCodSuitability decides the source for the suitability of capelin for cod. The variable is set in the etsimation menu. The values are:

Default        A hardcoded vector by cod age
StomachSamples    An age-age matrix calculated when the coonsumption per cod calculaytions are shown
Adjustment    A vector over cod age is represented by a beta function with parameters that are estimated
runUseCodCodSuitability Adjustment The variable runUseCodCodSuitability decides the source for the suitability of cod for cod. The variable is set in the estimation menu. The values are:

AgeAgeOverlap
An age-age suitability is based on ooverlaps estimated from biological samples
StomachSamples    An age-age matrix calculated when the coonsumption per cod calculations are shown
Adjustment    A vector over cod age is represented by a beta function with parameters that are estimated
runUseCodCodSuitability Adjustment The variable runUseCodCodSuitability decides the source for the suitability of cod for cod. The variable is set in the estimation menu. The values are:

AgeAgeOverlap
An age-age suitability is based on ooverlaps estimated from biological samples
StomachSamples    An age-age matrix calculated when the coonsumption per cod calculations are shown
Adjustment    A vector over cod age is represented by a beta function with parameters that are estimated

Settings for simulation

Name Value Explanation
useCapelinGrowthMaturationModel True If useCapelinGrowthMaturationModel is True the weigth at age ana maturation at age for capelin is determined by a regression model on historic data, else weight at age is drawn from historic data in the year historicYearUsedPrognostic.
applyBifrostCodWeightModel True If applyBifrostCodWeightModel is True the weigth at age for cod is determined by a regression model on historic data, else weight at age is drawn from historic data in the year historicYearUsedPrognostic.
applyBifrostCodOgiveModel True If applyBifrostCodOgiveModel is True the maturation at age for cod is determined by a regression model on historic data, else weight at age is drawn from historic data in the year historicYearUsedPrognostic.
adaptiveCodCatch False If adaptiveCodCatch is set to Yes the catch of cod is adjusted so that the total cod biomass does not exceed maximumCodBiomass.
adaptiveHerringCatch False If adaptiveHerringCatch is True, the catch is adjusted so that the total biomass of the herring stock is kept below maximumHerringBiomass. This is done in the SeaStar notebook, routine oneYearProbabilistic
mainRandomSeed 1 The random generator is reset with mainRandomSeed prior to any main routines, i.e. in the routine performProjectTask. It is thus possible to check whether any conclusions are dependent on the random generator seed by rerunning using another value of mainRandomSeed.
bottomCapelinSpawning 0.02 bottomCapelinSpawning is the contribution to the spawning stock of capelin from the bottom dwelling
   part of the capelin stock (million tonnes). This stock component is not observed by the echosounder in the autumn
   only in bottom trawl hauls. It is entered to the spawning stock at January 1, so it is a part of
   the fishery.
runSmallestCapelinSSB 0.001 runSmallestCapelinSSB is the lowest allowed value of the capelin spawning stock. In the routine natmortMatureCapelin the mature capelin biomass is also to not become smaller than runSmallesCapelinSSB.
largestCapelinCatch 3. largestCapelinCatch is the largest allowed capelin catch (million tonnes)
catchDivisionByMonth {{0.2, 0.8}, {0.5, 0.5}, {0.3, 0.3, 0.4}, {1.}, {1.}, {1.}, {1.}, {1.}, {1.}, {1.}, {1.}, {1.}} In months where the number of capelin may change fast because of high predation and high catch (mostly during January-March) the time step (month) may be sub-divided and a portion of catch is instantly in the middle of each subdivision, while predation is gradually through each half of the subdivision (before and after catch). Each entry in the list catchDivisionByMonth is a list of how the catch during that month is partioned. The number of entries are 12, one for each month, where the first entry corresponds to January.
numberHistoricRuns 20 The setting numberHistoricRuns gives the number of historic replicates.
numberHCRRuns 20

   The setting numberHCRRuns is the number of long-term simulations for each series of reference points

   that is used during estimation of harvesting control rules.
numberHistoricReplicatesForPrognostic 20
prognosticSimulationMode randomYear prognosticSimulationMode governs how the historic data are used in simulations and takes the values:

    randomYear    Historic data are picked at random
    cyclicYear    Cycling through historic data, with random starting point
    last    using the last historic year
    fixedYear    using a specific year
replaceMatureWeight True If replaceMatureWeight is True, the weight at age for mature capelin is replaced by weight from the catches after January 1.
doCalculateCatch True In some cases it may be convenient to skip the calculation of catch at the end of the spawning season of capelin. This is achieved by setting the variable doCalculateCatch to False
overrideCatchCalculation False If one wants to determine the yearly catch exogeneously, i.e. it is not calculated from some haresting control rule, overrideCatchCalculation must be set to True. Then the catch which is applied by the end of the spawning season is equal to capelinCatch. capelinCatch becomes updated, however, by the routine prespawningCapeln for small values of the spawning stock.
targetRatio 0.5 When recruitmentOption is recruitment the catch during prognostic simulations is set so that the ratio between the realised recruitment and the maximum recruitment for the currently estimated recruitment function is targetRatio.
recruitmentAgeCod 3 For ages below recruitmentAgeCod the mortality from cannibalism is simulated. The number at zero years is estimated by fitting to the number in the VPA at age recruitmentAgeCod.
maxCapelinRecruitmentFactor 2. If a continuous uncertainty model is used (i.e. lognormal) there may occasionally occur very high recruitments. To avoid this, the recruitment is constrained to be below maxCapelinRecruitmentFactor maxCapelinRecruitment.
plotCapelinRecruitment False If plotCapelinRecruitment is True recruitment plots are made during each simulation during evaluation of harvesting control rules. Also, useful textual output is produced.
plotCodRecruitment False If plotCodRecruitment is True recruitment plots are made during each simulation during evaluation of harvesting control rules
useExogeneosYoungHerring False
exogeneousYoungHerring 1. exogeneousYoungHerring is the value used for the variable youngHerring in the recruitment function for capelin in case of the setting useExogeneousYoungHerring being True.
useExogeneosZerogroupHerring False
exogeneousZerogroupHerring 0.5 exogeneousZerogroupHerring is the value used for the variable zerogroupHerring in the recruitment function for capelin in case of the setting useExogeneousZerogroupHerring being True.

Settings for HCR evaluation

During harvest rule evaluation prognostic simulations are made for a number of historic replicates and a number of prognostic runs for each historic replicate. The prognostic simulations are made using a 3-fold loop over harvest rules, the outermost on herring harvest rules, the middle loop on cod harvest rules and the inner loop on capelin harvest rules.

Name Value Explanation
runApplyTargetSSB Yes If runApplyTargetSSB is set to Yes, the HCR evaluation uses runs where a target SSB for capelin is varied from runMinTargetSSB to runMaxTargetSSB in steps of runDelTargetSSB, all accessible from the menu.
runApplyProportionalToProduction Yes If runApplyProportionalToProduction is set to Yes, the HCR evaluation uses runs where a the capelin catch is set proprtional to capelin biomass in each age groups where the proportionality factor is varied from  is varied from runMinProductionProportion to runMaxProductionProportion in steps of runDelProductionProportion, all accessible from the menu.
runApplyPrecautionaryApproach Yes If runApplyPrecautionaryApproch is set to Yes, a prognostic simulation run applying the present harvest rule and the parameters runRiskLimitCapelin and runRiskLevelCapelin can be set from the menu.
runApplyPrecautionaryApproach Yes If runApplyPrecautionaryApproch is set to Yes, a prognostic simulation run applying the present harvest rule and the parameters runRiskLimitCapelin and runRiskLevelCapelin can be set from the menu.
adaptiveCodCatch No If adaptiveCodCatch is set to Yes the catch of cod is adjusted so that the total cod biomass does not exceed maximumCodBiomass.
Spikey Created with Wolfram Mathematica 9.0