model_parameters::model_parameters(int sz,int argc,char * argv[]) :
model_data(argc,argv) , function_minimizer(sz)
{
initializationfunction();
lnK.allocate(-10000.,maxB,"lnK");
lnMSY.allocate("lnMSY");
n.allocate(0.1,30.,-2,"n");
f.allocate("f");
prior_function_value.allocate("prior_function_value");
likelihood_function_value.allocate("likelihood_function_value");
z.allocate("z");
#ifndef NO_AD_INITIALIZE
z.initialize();
#endif
zMSY.allocate("zMSY");
#ifndef NO_AD_INITIALIZE
zMSY.initialize();
#endif
meanP.allocate("meanP");
#ifndef NO_AD_INITIALIZE
meanP.initialize();
#endif
sig.allocate("sig");
#ifndef NO_AD_INITIALIZE
sig.initialize();
#endif
K.allocate("K");
#ifndef NO_AD_INITIALIZE
K.initialize();
#endif
MSY.allocate("MSY");
#ifndef NO_AD_INITIALIZE
MSY.initialize();
#endif
SSQ.allocate("SSQ");
#ifndef NO_AD_INITIALIZE
SSQ.initialize();
#endif
BMSY.allocate("BMSY");
#ifndef NO_AD_INITIALIZE
BMSY.initialize();
#endif
FMSY.allocate("FMSY");
#ifndef NO_AD_INITIALIZE
FMSY.initialize();
#endif
epsilon.allocate(1,nobs-1,"epsilon");
#ifndef NO_AD_INITIALIZE
epsilon.initialize();
#endif
Ppred.allocate(1,nobs-1,"Ppred");
#ifndef NO_AD_INITIALIZE
Ppred.initialize();
#endif
Pobs.allocate(1,nobs-1,"Pobs");
#ifndef NO_AD_INITIALIZE
Pobs.initialize();
#endif
sd_sig.allocate("sd_sig");
}
model_parameters::model_parameters(int sz,int argc,char * argv[]) :
model_data(argc,argv) , function_minimizer(sz)
{
initializationfunction();
a1.allocate("a1");
b1.allocate("b1");
b2.allocate("b2");
sdobs.allocate(1.0e-16,1.0e+4,"sdobs");
nll.allocate("nll");
}
model_parameters::model_parameters(int sz,int argc,char * argv[]) :
model_data(argc,argv) , function_minimizer(sz)
{
initializationfunction();
logSL50.allocate(logSL50Min,logSL50Max,1,"logSL50");
logDelta.allocate(logDeltaMin,logDeltaMax,1,"logDelta");
logFM.allocate(2,"logFM");
SDLinf.allocate("SDLinf");
#ifndef NO_AD_INITIALIZE
SDLinf.initialize();
#endif
GTGLinf.allocate("GTGLinf");
#ifndef NO_AD_INITIALIZE
GTGLinf.initialize();
#endif
LinfdL.allocate("LinfdL");
#ifndef NO_AD_INITIALIZE
LinfdL.initialize();
#endif
Delta.allocate("Delta");
#ifndef NO_AD_INITIALIZE
Delta.initialize();
#endif
EP0.allocate("EP0");
#ifndef NO_AD_INITIALIZE
EP0.initialize();
#endif
EPf.allocate("EPf");
#ifndef NO_AD_INITIALIZE
EPf.initialize();
#endif
MatDelta.allocate("MatDelta");
#ifndef NO_AD_INITIALIZE
MatDelta.initialize();
#endif
DiffLinfs.allocate(1,NGTG,"DiffLinfs");
#ifndef NO_AD_INITIALIZE
DiffLinfs.initialize();
#endif
RecProbs.allocate(1,NGTG,"RecProbs");
#ifndef NO_AD_INITIALIZE
RecProbs.initialize();
#endif
PredLenComp.allocate(1,NLenMids,"PredLenComp");
#ifndef NO_AD_INITIALIZE
PredLenComp.initialize();
#endif
PredUnfishedComp.allocate(1,NLenMids,"PredUnfishedComp");
#ifndef NO_AD_INITIALIZE
PredUnfishedComp.initialize();
#endif
Vul.allocate(1,NLenMids+1,"Vul");
#ifndef NO_AD_INITIALIZE
Vul.initialize();
#endif
MkL.allocate(1,NLenMids+1,"MkL");
#ifndef NO_AD_INITIALIZE
MkL.initialize();
#endif
FkL.allocate(1,NLenMids+1,"FkL");
#ifndef NO_AD_INITIALIZE
FkL.initialize();
#endif
Mat.allocate(1,NLenMids,"Mat");
#ifndef NO_AD_INITIALIZE
Mat.initialize();
#endif
Wght.allocate(1,NLenMids,"Wght");
#ifndef NO_AD_INITIALIZE
Wght.initialize();
#endif
Fec.allocate(1,NLenMids,"Fec");
#ifndef NO_AD_INITIALIZE
Fec.initialize();
#endif
EP0_gtg.allocate(1,NGTG,"EP0_gtg");
#ifndef NO_AD_INITIALIZE
EP0_gtg.initialize();
#endif
EPf_gtg.allocate(1,NGTG,"EPf_gtg");
#ifndef NO_AD_INITIALIZE
EPf_gtg.initialize();
#endif
PUnFished.allocate(1,NLenMids+1,"PUnFished");
#ifndef NO_AD_INITIALIZE
PUnFished.initialize();
#endif
PFished.allocate(1,NLenMids+1,"PFished");
#ifndef NO_AD_INITIALIZE
PFished.initialize();
#endif
NUnFished.allocate(1,NLenMids,"NUnFished");
#ifndef NO_AD_INITIALIZE
NUnFished.initialize();
#endif
NFished.allocate(1,NLenMids,"NFished");
#ifndef NO_AD_INITIALIZE
NFished.initialize();
#endif
currMkL.allocate(1,NLenMids+1,"currMkL");
#ifndef NO_AD_INITIALIZE
currMkL.initialize();
#endif
currZkL.allocate(1,NLenMids+1,"currZkL");
#ifndef NO_AD_INITIALIZE
currZkL.initialize();
#endif
UnfishedMatrix.allocate(1,NGTG,1,NLenMids,"UnfishedMatrix");
#ifndef NO_AD_INITIALIZE
UnfishedMatrix.initialize();
#endif
FishedMatrix.allocate(1,NGTG,1,NLenMids,"FishedMatrix");
#ifndef NO_AD_INITIALIZE
FishedMatrix.initialize();
#endif
MKLMat.allocate(1,NGTG,1,NLenMids+1,"MKLMat");
#ifndef NO_AD_INITIALIZE
MKLMat.initialize();
#endif
ZKLMat.allocate(1,NGTG,1,NLenMids+1,"ZKLMat");
#ifndef NO_AD_INITIALIZE
ZKLMat.initialize();
#endif
FMpar.allocate("FMpar");
SPR.allocate("SPR");
SL50.allocate("SL50");
SL95.allocate("SL95");
temp.allocate(1,NLenMids+1,"temp");
#ifndef NO_AD_INITIALIZE
temp.initialize();
#endif
tempNum.allocate("tempNum");
#ifndef NO_AD_INITIALIZE
tempNum.initialize();
#endif
obj_fun.allocate("obj_fun");
prior_function_value.allocate("prior_function_value");
likelihood_function_value.allocate("likelihood_function_value");
}
model_parameters::model_parameters(int sz,int argc,char * argv[]) :
model_data(argc,argv) , function_minimizer(sz)
{
initializationfunction();
no_f.allocate("no_f");
prior_function_value.allocate("prior_function_value");
likelihood_function_value.allocate("likelihood_function_value");
kappa.allocate("kappa");
#ifndef NO_AD_INITIALIZE
kappa.initialize();
#endif
phie.allocate("phie");
#ifndef NO_AD_INITIALIZE
phie.initialize();
#endif
So.allocate("So");
#ifndef NO_AD_INITIALIZE
So.initialize();
#endif
Bo.allocate("Bo");
#ifndef NO_AD_INITIALIZE
Bo.initialize();
#endif
beta.allocate("beta");
#ifndef NO_AD_INITIALIZE
beta.initialize();
#endif
tBo.allocate("tBo");
#ifndef NO_AD_INITIALIZE
tBo.initialize();
#endif
lxo.allocate(sage,nage,"lxo");
#ifndef NO_AD_INITIALIZE
lxo.initialize();
#endif
za.allocate(sage,nage,"za");
#ifndef NO_AD_INITIALIZE
za.initialize();
#endif
SB.allocate(1,ntstp,"SB");
#ifndef NO_AD_INITIALIZE
SB.initialize();
#endif
varPos.allocate(sage,nage,"varPos");
#ifndef NO_AD_INITIALIZE
varPos.initialize();
#endif
maxPos.allocate(sage,nage,"maxPos");
#ifndef NO_AD_INITIALIZE
maxPos.initialize();
#endif
NationVulB.allocate(1,ntstp,1,nations,"NationVulB");
#ifndef NO_AD_INITIALIZE
NationVulB.initialize();
#endif
Nage.allocate(1,ntstp,sage,nage,"Nage");
#ifndef NO_AD_INITIALIZE
Nage.initialize();
#endif
VulB.allocate(1,ntstp,sage,nage,"VulB");
#ifndef NO_AD_INITIALIZE
VulB.initialize();
#endif
PosX.allocate(1,ntstp,sage,nage,"PosX");
#ifndef NO_AD_INITIALIZE
PosX.initialize();
#endif
Effage.allocate(1,ntstp,sage,nage,"Effage");
#ifndef NO_AD_INITIALIZE
Effage.initialize();
#endif
VBarea.allocate(1,ntstp,sarea,narea,"VBarea");
#ifndef NO_AD_INITIALIZE
VBarea.initialize();
#endif
Effarea.allocate(1,ntstp,sarea,narea,"Effarea");
#ifndef NO_AD_INITIALIZE
Effarea.initialize();
#endif
NAreaAge.allocate(1,ntstp,sarea,narea,sage,nage,"NAreaAge");
#ifndef NO_AD_INITIALIZE
NAreaAge.initialize();
#endif
CatchAreaAge.allocate(1,ntstp,sarea,narea,sage,nage,"CatchAreaAge");
#ifndef NO_AD_INITIALIZE
CatchAreaAge.initialize();
#endif
CatchNatAge.allocate(1,ntstp,1,nations,sage,nage,"CatchNatAge");
#ifndef NO_AD_INITIALIZE
CatchNatAge.initialize();
#endif
EffNatAge.allocate(1,nations,1,ntstp,sage-2,nage,"EffNatAge");
#ifndef NO_AD_INITIALIZE
EffNatAge.initialize();
#endif
obsCatchNatAge.allocate(1,tot_pcat,sage-3,nage,"obsCatchNatAge");
#ifndef NO_AD_INITIALIZE
obsCatchNatAge.initialize();
#endif
}
