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e-perl-NOAA committed Oct 17, 2023
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9 changes: 4 additions & 5 deletions 6starter.tex
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Expand Up @@ -106,8 +106,8 @@ \subsection{Starter File Options (starter.ss)}
& 1 = output an annotated replicate of the input data file; & \Tstrut\Bstrut\\
& 2 = add a second data file containing the model's expected values with no added error. ; and & \Tstrut\Bstrut\\
& 3+ = add N-2 parametric bootstrap data files. & \Tstrut\\
& & \\
& & \\
& & \Bstrut\\
% & & \\

\hline
%\pagebreak
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%\hline
\multicolumn{1}{r}{1940 1950} & \multirow{1}{1cm}[-0.25cm]{\parbox{19.5cm}{Vector of years for additional SD reporting. The number of years need to equal the value specified in the above line (Extra SD Reporting).}} \Tstrut\\
& & \\


\hline
0.0001 & Final convergence & \multirow{1}{1cm}[-0.25cm]{\parbox{12.5cm}{This is a reasonable default value for the change in log likelihood denoting convergence. For applications with much data and thus a large total log likelihood value, a larger convergence criterion may still provide acceptable convergence}} \Tstrut\Bstrut\\
Expand All @@ -173,8 +172,8 @@ \subsection{Starter File Options (starter.ss)}
0 & Summary biomass min age & \multirow{1}{1cm}[-0.25cm]{\parbox{12.5cm}{Minimum integer age for inclusion in the summary biomass used for reporting and for calculation of total exploitation rate.}} \Tstrut\\
& & \\

%\hline
\pagebreak
\hline
% \pagebreak
1 & Depletion basis: & \multirow{1}{1cm}[-0.25cm]{\parbox{12.5cm}{Selects the basis for the denominator when calculating degree of depletion in SB. The calculated values are reported to the SD report.}} \Tstrut\\
& 0 = skip; & \\
& 1 = X*SB0; & Relative to virgin spawning biomass. \\
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10 changes: 5 additions & 5 deletions 7forecast.tex
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Expand Up @@ -109,8 +109,8 @@ \subsection{Forecast File Options (forecast.ss)}
1 & F scalar/multiplier & \multirow{1}{1cm}[-0.15cm]{\parbox{12cm}{Only used if Forecast option = 5 (input annual F scalar), but is a required line in the forecast file.}} \Tstrut\\
& & \\

% \pagebreak
\hline
\pagebreak
% \hline
\multicolumn{3}{l}{There are 2 options for entering \hypertarget{FcastYears}{Forecast Years}:} \Tstrut\\

Option 1: & \multicolumn{2}{l}{\multirow{1}{1cm}[-0.15cm]{\parbox{18.5cm}{This approach for forecast year ranges is no longer recommended because blocks, random effects, and other time-varying parameter changes can now operate on forecast years and the new approach provides better control averaging.}}} \Tstrut\Bstrut\\
Expand All @@ -121,7 +121,7 @@ \subsection{Forecast File Options (forecast.ss)}
& & \Bstrut\\
& & \Tstrut\Bstrut\\

\pagebreak
% \pagebreak
& & -- Relative F for bycatch only fleets is scaled just like other fleets.\Tstrut\\
& & \multirow{1}{1cm}[-0.15cm]{\parbox{12cm}{-- For selectivity averaging with the new approach the method code is ``1'', whereas with the old Forecast Selectivity Option, the code was ``1'' for using time-varying parameters. SS3 accounts for this change internally.}} \Bstrut\\
& & \\
Expand Down Expand Up @@ -304,8 +304,8 @@ \subsection{Forecast File Options (forecast.ss)}
\multicolumn{1}{r}{2002 1} & Allocation to each group for each year of the forecast & \\
\multicolumn{1}{r}{-9999 1} & & \Bstrut\\

%\hline
\pagebreak
\hline
% \pagebreak
-1 & Basis for forecast catch: & \multirow{1}{1cm}[-0.25cm]{\parbox{12cm}{The dead or retained value in the forecast catch inputs will be interpreted in terms of numbers or biomass based on the units of the input catch for each fleet.}} \Tstrut\\
& -1 = Read basis with each observation, allows for a mixture of dead, retained, or F basis by different fleets for the fixed catches below; & \\
& 2 = Dead catch (retained + discarded); & \\
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