Index: /NEMO/trunk/doc/latex/NEMO/main/appendices.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/main/appendices.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/main/appendices.tex	(revision 11567)
@@ -1,8 +1,8 @@
 
-\subfile{../subfiles/apdx_s_coord}      %% Generalised vertical coordinate
-\subfile{../subfiles/apdx_diff_opers}   %% Diffusive operators
-\subfile{../subfiles/apdx_invariants}   %% Discrete invariants of the eqs.
-\subfile{../subfiles/apdx_triads}       %% Isoneutral diffusion using triads
-\subfile{../subfiles/apdx_DOMAINcfg}    %% Brief notes on DOMAINcfg
+\subfile{../subfiles/apdx_s_coord}      %% A. Generalised vertical coordinate
+\subfile{../subfiles/apdx_diff_opers}   %% B. Diffusive operators
+\subfile{../subfiles/apdx_invariants}   %% C. Discrete invariants of the eqs.
+\subfile{../subfiles/apdx_triads}       %% D. Isoneutral diffusion using triads
+\subfile{../subfiles/apdx_DOMAINcfg}    %% E. Brief notes on DOMAINcfg
 
 %% Not included
Index: /NEMO/trunk/doc/latex/NEMO/main/chapters.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/main/chapters.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/main/chapters.tex	(revision 11567)
@@ -1,17 +1,17 @@
-\subfile{../subfiles/chap_model_basics}
-\subfile{../subfiles/chap_time_domain}    %% Time discretisation (time stepping strategy)
-\subfile{../subfiles/chap_DOM}            %% Space discretisation
-\subfile{../subfiles/chap_TRA}            %% Tracer advection/diffusion equation
-\subfile{../subfiles/chap_DYN}            %% Dynamics : momentum equation
-\subfile{../subfiles/chap_SBC}            %% Surface Boundary Conditions
-\subfile{../subfiles/chap_LBC}            %% Lateral Boundary Conditions
-\subfile{../subfiles/chap_LDF}            %% Lateral diffusion
-\subfile{../subfiles/chap_ZDF}            %% Vertical diffusion
-\subfile{../subfiles/chap_DIA}            %% Outputs and Diagnostics
-\subfile{../subfiles/chap_OBS}            %% Observation operator
-\subfile{../subfiles/chap_ASM}            %% Assimilation increments
-\subfile{../subfiles/chap_STO}            %% Stochastic param.
-\subfile{../subfiles/chap_misc}           %% Miscellaneous topics
-\subfile{../subfiles/chap_cfgs}           %% Predefined configurations
+\subfile{../subfiles/chap_model_basics}   %% 1.
+\subfile{../subfiles/chap_time_domain}    %% 2.  Time discretisation (time stepping strategy)
+\subfile{../subfiles/chap_DOM}            %% 3.  Space discretisation
+\subfile{../subfiles/chap_TRA}            %% 4.  Tracer advection/diffusion equation
+\subfile{../subfiles/chap_DYN}            %% 5.  Dynamics : momentum equation
+\subfile{../subfiles/chap_SBC}            %% 6.  Surface Boundary Conditions
+\subfile{../subfiles/chap_LBC}            %% 7.  Lateral Boundary Conditions
+\subfile{../subfiles/chap_LDF}            %% 8.  Lateral diffusion
+\subfile{../subfiles/chap_ZDF}            %% 9.  Vertical diffusion
+\subfile{../subfiles/chap_DIA}            %% 10. Outputs and Diagnostics
+\subfile{../subfiles/chap_OBS}            %% 11. Observation operator
+\subfile{../subfiles/chap_ASM}            %% 12. Assimilation increments
+\subfile{../subfiles/chap_STO}            %% 13. Stochastic param.
+\subfile{../subfiles/chap_misc}           %% 14. Miscellaneous topics
+\subfile{../subfiles/chap_cfgs}           %% 15. Predefined configurations
 
 %% Not included
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/apdx_DOMAINcfg.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/apdx_DOMAINcfg.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/apdx_DOMAINcfg.tex	(revision 11567)
@@ -45,5 +45,5 @@
 \begin{listing}
   \nlst{namdom_domcfg}
-  \caption{\texttt{namdom\_domcfg}}
+  \caption{\forcode{&namdom_domcfg}}
   \label{lst:namdom_domcfg}
 \end{listing}
@@ -410,5 +410,5 @@
 \begin{listing}
   \nlst{namzgr_sco_domcfg}
-  \caption{\texttt{namzgr\_sco\_domcfg}}
+  \caption{\forcode{&namzgr_sco_domcfg}}
   \label{lst:namzgr_sco_domcfg}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ASM.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ASM.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ASM.tex	(revision 11567)
@@ -151,5 +151,5 @@
 \begin{listing}
   \nlst{nam_asminc}
-  \caption{\texttt{nam\_asminc}}
+  \caption{\forcode{&nam_asminc}}
   \label{lst:nam_asminc}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIA.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIA.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIA.tex	(revision 11567)
@@ -1352,5 +1352,5 @@
 \begin{listing}
   \nlst{namnc4}
-  \caption{\texttt{namnc4}}
+  \caption{\forcode{&namnc4}}
   \label{lst:namnc4}
 \end{listing}
@@ -1458,5 +1458,5 @@
 \begin{listing}
   \nlst{namtrd}
-  \caption{\texttt{namtrd}}
+  \caption{\forcode{&namtrd}}
   \label{lst:namtrd}
 \end{listing}
@@ -1509,5 +1509,5 @@
 \begin{listing}
   \nlst{namflo}
-  \caption{\texttt{namflo}}
+  \caption{\forcode{&namflo}}
   \label{lst:namflo}
 \end{listing}
@@ -1617,5 +1617,5 @@
 \begin{listing}
   \nlst{nam_diaharm}
-  \caption{\texttt{nam\_diaharm}}
+  \caption{\forcode{&nam_diaharm}}
   \label{lst:nam_diaharm}
 \end{listing}
@@ -1669,5 +1669,5 @@
 \begin{listing}
   \nlst{nam_diadct}
-  \caption{\texttt{nam\_diadct}}
+  \caption{\forcode{&nam_diadct}}
   \label{lst:nam_diadct}
 \end{listing}
@@ -2054,5 +2054,5 @@
 \begin{listing}
   \nlst{namptr}
-  \caption{\texttt{namptr}}
+  \caption{\forcode{&namptr}}
   \label{lst:namptr}
 \end{listing}
@@ -2068,5 +2068,5 @@
 \begin{listing}
   \nlst{nam_dia25h}
-  \caption{\texttt{nam\_dia25h}}
+  \caption{\forcode{&nam_dia25h}}
   \label{lst:nam_dia25h}
 \end{listing}
@@ -2087,5 +2087,5 @@
 \begin{listing}
   \nlst{nam_diatmb}
-  \caption{\texttt{nam\_diatmb}}
+  \caption{\forcode{&nam_diatmb}}
   \label{lst:nam_diatmb}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIU.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIU.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DIU.tex	(revision 11567)
@@ -40,5 +40,5 @@
 \begin{listing}
   \nlst{namdiu}
-  \caption{\texttt{namdiu}}
+  \caption{\forcode{&namdiu}}
   \label{lst:namdiu}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DOM.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DOM.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DOM.tex	(revision 11567)
@@ -463,5 +463,5 @@
 \begin{listing}
   \nlst{namdom}
-  \caption{\texttt{namdom}}
+  \caption{\forcode{&namdom}}
   \label{lst:namdom}
 \end{listing}
@@ -673,5 +673,5 @@
 \begin{listing}
   \nlst{namtsd}
-  \caption{\texttt{namtsd}}
+  \caption{\forcode{&namtsd}}
   \label{lst:namtsd}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DYN.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DYN.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_DYN.tex	(revision 11567)
@@ -168,5 +168,5 @@
 \begin{listing}
   \nlst{namdyn_adv}
-  \caption{\texttt{namdyn\_adv}}
+  \caption{\forcode{&namdyn_adv}}
   \label{lst:namdyn_adv}
 \end{listing}
@@ -191,5 +191,5 @@
 \begin{listing}
   \nlst{namdyn_vor}
-  \caption{\texttt{namdyn\_vor}}
+  \caption{\forcode{&namdyn_vor}}
   \label{lst:namdyn_vor}
 \end{listing}
@@ -571,5 +571,5 @@
 \begin{listing}
   \nlst{namdyn_hpg}
-  \caption{\texttt{namdyn\_hpg}}
+  \caption{\forcode{&namdyn_hpg}}
   \label{lst:namdyn_hpg}
 \end{listing}
@@ -789,5 +789,5 @@
 \begin{listing}
   \nlst{namdyn_spg}
-  \caption{\texttt{namdyn\_spg}}
+  \caption{\forcode{&namdyn_spg}}
   \label{lst:namdyn_spg}
 \end{listing}
@@ -1130,5 +1130,5 @@
 \begin{listing}
   \nlst{namdyn_ldf}
-  \caption{\texttt{namdyn\_ldf}}
+  \caption{\forcode{&namdyn_ldf}}
   \label{lst:namdyn_ldf}
 \end{listing}
@@ -1351,5 +1351,5 @@
 \begin{listing}
   \nlst{namwad}
-  \caption{\texttt{namwad}}
+  \caption{\forcode{&namwad}}
   \label{lst:namwad}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LBC.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LBC.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LBC.tex	(revision 11567)
@@ -17,6 +17,5 @@
 % Boundary Condition at the Coast
 % ================================================================
-\section[Boundary condition at the coast (\texttt{rn\_shlat})]
-{Boundary condition at the coast (\protect\np{rn\_shlat})}
+\section[Boundary condition at the coast (\forcode{rn_shlat})]{Boundary condition at the coast (\protect\np{rn\_shlat})}
 \label{sec:LBC_coast}
 %--------------------------------------------namlbc-------------------------------------------------------
@@ -24,5 +23,5 @@
 \begin{listing}
   \nlst{namlbc}
-  \caption{\texttt{namlbc}}
+  \caption{\forcode{&namlbc}}
   \label{lst:namlbc}
 \end{listing}
@@ -159,6 +158,5 @@
 % Boundary Condition around the Model Domain
 % ================================================================
-\section[Model domain boundary condition (\texttt{jperio})]
-{Model domain boundary condition (\protect\jp{jperio})}
+\section[Model domain boundary condition (\forcode{jperio})]{Model domain boundary condition (\protect\jp{jperio})}
 \label{sec:LBC_jperio}
 
@@ -171,6 +169,5 @@
 %        Closed, cyclic (\jp{jperio}\forcode{ = 0..2})
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Closed, cyclic (\forcode{jperio=[0127]})]
-{Closed, cyclic (\protect\jp{jperio}\forcode{=[0127]})}
+\subsection[Closed, cyclic (\forcode{=0,1,2,7})]{Closed, cyclic (\protect\jp{jperio}\forcode{=0,1,2,7})}
 \label{subsec:LBC_jperio012}
 
@@ -218,6 +215,5 @@
 %        North fold (\textit{jperio = 3 }to $6)$
 % -------------------------------------------------------------------------------------------------------------
-\subsection[North-fold (\forcode{jperio=[3-6]})]
-{North-fold (\protect\jp{jperio}\forcode{=[3-6]})}
+\subsection[North-fold (\forcode{=3,6})]{North-fold (\protect\jp{jperio}\forcode{=3,6})}
 \label{subsec:LBC_north_fold}
 
@@ -251,5 +247,5 @@
 \begin{listing}
   \nlst{nammpp}
-  \caption{\texttt{nammpp}}
+  \caption{\forcode{&nammpp}}
   \label{lst:nammpp}
 \end{listing}
@@ -370,5 +366,5 @@
 \begin{listing}
   \nlst{nambdy}
-  \caption{\texttt{nambdy}}
+  \caption{\forcode{&nambdy}}
   \label{lst:nambdy}
 \end{listing}
@@ -378,5 +374,5 @@
 \begin{listing}
   \nlst{nambdy_dta}
-  \caption{\texttt{nambdy\_dta}}
+  \caption{\forcode{&nambdy_dta}}
   \label{lst:nambdy_dta}
 \end{listing}
@@ -697,5 +693,5 @@
 \begin{listing}
   \nlst{nambdy_tide}
-  \caption{\texttt{nambdy\_tide}}
+  \caption{\forcode{&nambdy_tide}}
   \label{lst:nambdy_tide}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LDF.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LDF.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_LDF.tex	(revision 11567)
@@ -478,5 +478,5 @@
 \begin{listing}
   \nlst{namtra_eiv}
-  \caption{\texttt{namtra\_eiv}}
+  \caption{\forcode{&namtra_eiv}}
   \label{lst:namtra_eiv}
 \end{listing}
@@ -548,5 +548,5 @@
 \begin{listing}
   \nlst{namtra_mle}
-  \caption{\texttt{namtra\_mle}}
+  \caption{\forcode{&namtra_mle}}
   \label{lst:namtra_mle}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_OBS.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_OBS.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_OBS.tex	(revision 11567)
@@ -121,5 +121,5 @@
 \begin{listing}
   \nlst{namobs}
-  \caption{\texttt{namobs}}
+  \caption{\forcode{&namobs}}
   \label{lst:namobs}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_SBC.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_SBC.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_SBC.tex	(revision 11567)
@@ -16,5 +16,5 @@
 \begin{listing}
   \nlst{namsbc}
-  \caption{\texttt{namsbc}}
+  \caption{\forcode{&namsbc}}
   \label{lst:namsbc}
 \end{listing}
@@ -254,6 +254,5 @@
 % Input Data specification (\mdl{fldread})
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Input data specification (\textit{fldread.F90})]
-{Input data specification (\protect\mdl{fldread})}
+\subsection[Input data specification (\textit{fldread.F90})]{Input data specification (\protect\mdl{fldread})}
 \label{subsec:SBC_fldread}
 
@@ -531,5 +530,5 @@
 \begin{listing}
   \nlst{namsbc_sas}
-  \caption{\texttt{namsbc\_sas}}
+  \caption{\forcode{&namsbc_sas}}
   \label{lst:namsbc_sas}
 \end{listing}
@@ -613,6 +612,5 @@
 % Flux formulation
 % ================================================================
-\section[Flux formulation (\textit{sbcflx.F90})]
-{Flux formulation (\protect\mdl{sbcflx})}
+\section[Flux formulation (\textit{sbcflx.F90})]{Flux formulation (\protect\mdl{sbcflx})}
 \label{sec:SBC_flx}
 %------------------------------------------namsbc_flx----------------------------------------------------
@@ -620,5 +618,5 @@
 \begin{listing}
   \nlst{namsbc_flx}
-  \caption{\texttt{namsbc\_flx}}
+  \caption{\forcode{&namsbc_flx}}
   \label{lst:namsbc_flx}
 \end{listing}
@@ -640,6 +638,5 @@
 % Bulk formulation
 % ================================================================
-\section[Bulk formulation (\textit{sbcblk.F90})]
-{Bulk formulation (\protect\mdl{sbcblk})}
+\section[Bulk formulation (\textit{sbcblk.F90})]{Bulk formulation (\protect\mdl{sbcblk})}
 \label{sec:SBC_blk}
 %---------------------------------------namsbc_blk--------------------------------------------------
@@ -647,5 +644,5 @@
 \begin{listing}
   \nlst{namsbc_blk}
-  \caption{\texttt{namsbc\_blk}}
+  \caption{\forcode{&namsbc_blk}}
   \label{lst:namsbc_blk}
 \end{listing}
@@ -727,6 +724,5 @@
 % -------------------------------------------------------------------------------------------------------------
 \subsection[Ocean-Atmosphere Bulk formulae (\textit{sbcblk\_algo\_coare.F90, sbcblk\_algo\_coare3p5.F90,
-sbcblk\_algo\_ecmwf.F90, sbcblk\_algo\_ncar.F90})]
-{Ocean-Atmosphere Bulk formulae (\mdl{sbcblk\_algo\_coare}, \mdl{sbcblk\_algo\_coare3p5},
+sbcblk\_algo\_ecmwf.F90, sbcblk\_algo\_ncar.F90})]{Ocean-Atmosphere Bulk formulae (\mdl{sbcblk\_algo\_coare}, \mdl{sbcblk\_algo\_coare3p5},
 \mdl{sbcblk\_algo\_ecmwf}, \mdl{sbcblk\_algo\_ncar})}
 \label{subsec:SBC_blk_ocean}
@@ -794,6 +790,5 @@
 % Coupled formulation
 % ================================================================
-\section[Coupled formulation (\textit{sbccpl.F90})]
-{Coupled formulation (\protect\mdl{sbccpl})}
+\section[Coupled formulation (\textit{sbccpl.F90})]{Coupled formulation (\protect\mdl{sbccpl})}
 \label{sec:SBC_cpl}
 %------------------------------------------namsbc_cpl----------------------------------------------------
@@ -801,5 +796,5 @@
 \begin{listing}
   \nlst{namsbc_cpl}
-  \caption{\texttt{namsbc\_cpl}}
+  \caption{\forcode{&namsbc_cpl}}
   \label{lst:namsbc_cpl}
 \end{listing}
@@ -837,6 +832,5 @@
 %        Atmospheric pressure
 % ================================================================
-\section[Atmospheric pressure (\textit{sbcapr.F90})]
-{Atmospheric pressure (\protect\mdl{sbcapr})}
+\section[Atmospheric pressure (\textit{sbcapr.F90})]{Atmospheric pressure (\protect\mdl{sbcapr})}
 \label{sec:SBC_apr}
 %------------------------------------------namsbc_apr----------------------------------------------------
@@ -844,5 +838,5 @@
 \begin{listing}
   \nlst{namsbc_apr}
-  \caption{\texttt{namsbc\_apr}}
+  \caption{\forcode{&namsbc_apr}}
   \label{lst:namsbc_apr}
 \end{listing}
@@ -880,6 +874,5 @@
 %        Surface Tides Forcing
 % ================================================================
-\section[Surface tides (\textit{sbctide.F90})]
-{Surface tides (\protect\mdl{sbctide})}
+\section[Surface tides (\textit{sbctide.F90})]{Surface tides (\protect\mdl{sbctide})}
 \label{sec:SBC_tide}
 
@@ -888,5 +881,5 @@
 \begin{listing}
   \nlst{nam_tide}
-  \caption{\texttt{nam\_tide}}
+  \caption{\forcode{&nam_tide}}
   \label{lst:nam_tide}
 \end{listing}
@@ -944,5 +937,5 @@
 \begin{listing}
   \nlst{namsbc_rnf}
-  \caption{\texttt{namsbc\_rnf}}
+  \caption{\forcode{&namsbc_rnf}}
   \label{lst:namsbc_rnf}
 \end{listing}
@@ -1074,5 +1067,5 @@
 \begin{listing}
   \nlst{namsbc_isf}
-  \caption{\texttt{namsbc\_isf}}
+  \caption{\forcode{&namsbc_isf}}
   \label{lst:namsbc_isf}
 \end{listing}
@@ -1197,5 +1190,5 @@
 \begin{listing}
   \nlst{namsbc_iscpl}
-  \caption{\texttt{namsbc\_iscpl}}
+  \caption{\forcode{&namsbc_iscpl}}
   \label{lst:namsbc_iscpl}
 \end{listing}
@@ -1266,5 +1259,5 @@
 \begin{listing}
   \nlst{namberg}
-  \caption{\texttt{namberg}}
+  \caption{\forcode{&namberg}}
   \label{lst:namberg}
 \end{listing}
@@ -1334,5 +1327,5 @@
 %        Interactions with waves (sbcwave.F90, ln_wave)
 % =============================================================================================================
-\section[Interactions with waves (\textit{sbcwave.F90}, \texttt{ln\_wave})]{Interactions with waves (\protect\mdl{sbcwave}, \protect\np{ln\_wave})}
+\section[Interactions with waves (\textit{sbcwave.F90}, \forcode{ln_wave})]{Interactions with waves (\protect\mdl{sbcwave}, \protect\np{ln\_wave})}
 \label{sec:SBC_wave}
 %------------------------------------------namsbc_wave--------------------------------------------------------
@@ -1340,5 +1333,5 @@
 \begin{listing}
   \nlst{namsbc_wave}
-  \caption{\texttt{namsbc\_wave}}
+  \caption{\forcode{&namsbc_wave}}
   \label{lst:namsbc_wave}
 \end{listing}
@@ -1369,5 +1362,5 @@
 
 % ----------------------------------------------------------------
-\subsection[Neutral drag coefficient from wave model (\texttt{ln\_cdgw})]{Neutral drag coefficient from wave model (\protect\np{ln\_cdgw})}
+\subsection[Neutral drag coefficient from wave model (\forcode{ln_cdgw})]{Neutral drag coefficient from wave model (\protect\np{ln\_cdgw})}
 \label{subsec:SBC_wave_cdgw}
 
@@ -1382,5 +1375,5 @@
 % 3D Stokes Drift (ln_sdw, nn_sdrift)
 % ----------------------------------------------------------------
-\subsection[3D Stokes Drift (\texttt{ln\_sdw}, \texttt{nn\_sdrift})]{3D Stokes Drift (\protect\np{ln\_sdw, nn\_sdrift})}
+\subsection[3D Stokes Drift (\texttt{ln\_sdw}, \forcode{nn_sdrift})]{3D Stokes Drift (\protect\np{ln\_sdw, nn\_sdrift})}
 \label{subsec:SBC_wave_sdw}
 
@@ -1478,5 +1471,5 @@
 % Stokes-Coriolis term (ln_stcor)
 % ----------------------------------------------------------------
-\subsection[Stokes-Coriolis term (\texttt{ln\_stcor})]{Stokes-Coriolis term (\protect\np{ln\_stcor})}
+\subsection[Stokes-Coriolis term (\forcode{ln_stcor})]{Stokes-Coriolis term (\protect\np{ln\_stcor})}
 \label{subsec:SBC_wave_stcor}
 
@@ -1492,5 +1485,5 @@
 % Waves modified stress (ln_tauwoc, ln_tauw)
 % ----------------------------------------------------------------
-\subsection[Wave modified stress (\texttt{ln\_tauwoc}, \texttt{ln\_tauw})]{Wave modified sress (\protect\np{ln\_tauwoc, ln\_tauw})}
+\subsection[Wave modified stress (\forcode{ln_tauwoc} \& \forcode{ln_tauw})]{Wave modified sress (\protect\np{ln\_tauwoc, ln\_tauw})}
 \label{subsec:SBC_wave_tauw}
 
@@ -1630,5 +1623,5 @@
 \begin{listing}
   \nlst{namsbc_ssr}
-  \caption{\texttt{namsbc\_ssr}}
+  \caption{\forcode{&namsbc_ssr}}
   \label{lst:namsbc_ssr}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_STO.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_STO.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_STO.tex	(revision 11567)
@@ -178,5 +178,5 @@
 \begin{listing}
   \nlst{namsto}
-  \caption{\texttt{namsto}}
+  \caption{\forcode{&namsto}}
   \label{lst:namsto}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_TRA.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_TRA.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_TRA.tex	(revision 11567)
@@ -66,5 +66,5 @@
 \begin{listing}
   \nlst{namtra_adv}
-  \caption{\texttt{namtra\_adv}}
+  \caption{\forcode{&namtra_adv}}
   \label{lst:namtra_adv}
 \end{listing}
@@ -432,5 +432,5 @@
 \begin{listing}
   \nlst{namtra_ldf}
-  \caption{\texttt{namtra\_ldf}}
+  \caption{\forcode{&namtra_ldf}}
   \label{lst:namtra_ldf}
 \end{listing}
@@ -458,5 +458,5 @@
 %        Type of operator
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Type of operator (\texttt{ln\_traldf}\{\texttt{\_OFF,\_lap,\_blp}\})]{Type of operator (\protect\np{ln\_traldf\_OFF}, \protect\np{ln\_traldf\_lap}, or \protect\np{ln\_traldf\_blp})}
+\subsection[Type of operator (\forcode{ln_traldf_}\{\forcode{OFF,lap,blp}\})]{Type of operator (\protect\np{ln\_traldf\_OFF}, \protect\np{ln\_traldf\_lap}, or \protect\np{ln\_traldf\_blp})}
 \label{subsec:TRA_ldf_op}
 
@@ -492,5 +492,5 @@
 %        Direction of action
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Action direction (\texttt{ln\_traldf}\{\texttt{\_lev,\_hor,\_iso,\_triad}\})]{Direction of action (\protect\np{ln\_traldf\_lev}, \protect\np{ln\_traldf\_hor}, \protect\np{ln\_traldf\_iso}, or \protect\np{ln\_traldf\_triad})}
+\subsection[Action direction (\forcode{ln_traldf_}\{\forcode{lev,hor,iso,triad}\})]{Direction of action (\protect\np{ln\_traldf\_lev}, \protect\np{ln\_traldf\_hor}, \protect\np{ln\_traldf\_iso}, or \protect\np{ln\_traldf\_triad})}
 \label{subsec:TRA_ldf_dir}
 
@@ -518,5 +518,5 @@
 %       iso-level operator
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Iso-level (bi-)laplacian operator (\texttt{ln\_traldf\_iso})]{Iso-level (bi-)laplacian operator ( \protect\np{ln\_traldf\_iso})}
+\subsection[Iso-level (bi-)laplacian operator (\forcode{ln_traldf_iso})]{Iso-level (bi-)laplacian operator ( \protect\np{ln\_traldf\_iso})}
 \label{subsec:TRA_ldf_lev}
 
@@ -751,5 +751,5 @@
 \begin{listing}
   \nlst{namtra_qsr}
-  \caption{\texttt{namtra\_qsr}}
+  \caption{\forcode{&namtra_qsr}}
   \label{lst:namtra_qsr}
 \end{listing}
@@ -874,5 +874,5 @@
 \begin{listing}
   \nlst{nambbc}
-  \caption{\texttt{nambbc}}
+  \caption{\forcode{&nambbc}}
   \label{lst:nambbc}
 \end{listing}
@@ -914,5 +914,5 @@
 \begin{listing}
   \nlst{nambbl}
-  \caption{\texttt{nambbl}}
+  \caption{\forcode{&nambbl}}
   \label{lst:nambbl}
 \end{listing}
@@ -983,5 +983,5 @@
 %        Advective BBL
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Advective bottom boundary layer (\forcode{nn_bbl_adv=[12]})]{Advective bottom boundary layer (\protect\np{nn\_bbl\_adv}\forcode{=[12]})}
+\subsection[Advective bottom boundary layer (\forcode{nn_bbl_adv=1,2})]{Advective bottom boundary layer (\protect\np{nn\_bbl\_adv}\forcode{=1,2})}
 \label{subsec:TRA_bbl_adv}
 
@@ -1080,5 +1080,5 @@
 \begin{listing}
   \nlst{namtra_dmp}
-  \caption{\texttt{namtra\_dmp}}
+  \caption{\forcode{&namtra_dmp}}
   \label{lst:namtra_dmp}
 \end{listing}
@@ -1174,5 +1174,5 @@
 \begin{listing}
   \nlst{nameos}
-  \caption{\texttt{nameos}}
+  \caption{\forcode{&nameos}}
   \label{lst:nameos}
 \end{listing}
@@ -1182,5 +1182,5 @@
 %        Equation of State
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Equation of seawater (\texttt{ln}\{\texttt{\_teso10,\_eos80,\_seos}\})]{Equation of seawater (\protect\np{ln\_teos10}, \protect\np{ln\_teos80}, or \protect\np{ln\_seos})}
+\subsection[Equation of seawater (\forcode{ln_}\{\forcode{teos10,eos80,seos}\})]{Equation of seawater (\protect\np{ln\_teos10}, \protect\np{ln\_teos80}, or \protect\np{ln\_seos})}
 \label{subsec:TRA_eos}
 
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ZDF.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ZDF.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_ZDF.tex	(revision 11567)
@@ -50,5 +50,5 @@
 \begin{listing}
   \nlst{namzdf}
-  \caption{\texttt{namzdf}}
+  \caption{\forcode{&namzdf}}
   \label{lst:namzdf}
 \end{listing}
@@ -87,5 +87,5 @@
 \begin{listing}
   \nlst{namzdf_ric}
-  \caption{\texttt{namzdf\_ric}}
+  \caption{\forcode{&namzdf_ric}}
   \label{lst:namzdf_ric}
 \end{listing}
@@ -147,5 +147,5 @@
 \begin{listing}
   \nlst{namzdf_tke}
-  \caption{\texttt{namzdf\_tke}}
+  \caption{\forcode{&namzdf_tke}}
   \label{lst:namzdf_tke}
 \end{listing}
@@ -431,5 +431,5 @@
 \begin{listing}
   \nlst{namzdf_gls}
-  \caption{\texttt{namzdf\_gls}}
+  \caption{\forcode{&namzdf_gls}}
   \label{lst:namzdf_gls}
 \end{listing}
@@ -554,5 +554,5 @@
 \begin{listing}
   \nlst{namzdf_osm}
-  \caption{\texttt{namzdf\_osm}}
+  \caption{\forcode{&namzdf_osm}}
   \label{lst:namzdf_osm}
 \end{listing}
@@ -773,5 +773,5 @@
 %       Turbulent Closure Scheme
 % -------------------------------------------------------------------------------------------------------------
-\subsection[Handling convection with turbulent closure schemes (\forcode{ln_zdf{tke,gls,osm}})]{Handling convection with turbulent closure schemes (\forcode{ln_zdf{tke,gls,osm}})}
+\subsection[Handling convection with turbulent closure schemes (\forcode{ln_zdf_}\{\forcode{tke,gls,osm}\})]{Handling convection with turbulent closure schemes (\forcode{ln_zdf{tke,gls,osm}})}
 \label{subsec:ZDF_tcs}
 
@@ -903,15 +903,15 @@
 \begin{listing}
   \nlst{namdrg}
-  \caption{\texttt{namdrg}}
+  \caption{\forcode{&namdrg}}
   \label{lst:namdrg}
 \end{listing}
 \begin{listing}
   \nlst{namdrg_top}
-  \caption{\texttt{namdrg\_top}}
+  \caption{\forcode{&namdrg_top}}
   \label{lst:namdrg_top}
 \end{listing}
 \begin{listing}
   \nlst{namdrg_bot}
-  \caption{\texttt{namdrg\_bot}}
+  \caption{\forcode{&namdrg_bot}}
   \label{lst:namdrg_bot}
 \end{listing}
@@ -1191,5 +1191,5 @@
 \begin{listing}
   \nlst{namzdf_iwm}
-  \caption{\texttt{namzdf\_iwm}}
+  \caption{\forcode{&namzdf_iwm}}
   \label{lst:namzdf_iwm}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_cfgs.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_cfgs.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_cfgs.tex	(revision 11567)
@@ -30,5 +30,5 @@
 \begin{listing}
   \nlst{namcfg}
-  \caption{\texttt{namcfg}}
+  \caption{\forcode{&namcfg}}
   \label{lst:namcfg}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_misc.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_misc.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_misc.tex	(revision 11567)
@@ -348,5 +348,5 @@
 \begin{listing}
   \nlst{namctl}
-  \caption{\texttt{namctl}}
+  \caption{\forcode{&namctl}}
   \label{lst:namctl}
 \end{listing}
Index: /NEMO/trunk/doc/latex/NEMO/subfiles/chap_time_domain.tex
===================================================================
--- /NEMO/trunk/doc/latex/NEMO/subfiles/chap_time_domain.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/NEMO/subfiles/chap_time_domain.tex	(revision 11567)
@@ -272,5 +272,5 @@
 \begin{listing}
   \nlst{namrun}
-  \caption{\texttt{namrun}}
+  \caption{\forcode{&namrun}}
   \label{lst:namrun}
 \end{listing}
Index: /NEMO/trunk/doc/latex/global/highlighting.tex
===================================================================
--- /NEMO/trunk/doc/latex/global/highlighting.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/global/highlighting.tex	(revision 11567)
@@ -2,5 +2,5 @@
 %% ==============================================================================
 
-\usepackage[outputdir=../build, section]{minted}
+\usepackage[outputdir=../build, chapter]{minted}
 
 %% Global highlighting style
Index: /NEMO/trunk/doc/latex/global/indexes.tex
===================================================================
--- /NEMO/trunk/doc/latex/global/indexes.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/global/indexes.tex	(revision 11567)
@@ -8,6 +8,7 @@
 \newcommand{\key}[1]{\index[keys]{#1}        \texttt{\textbf{key\_#1}}}
 \newcommand{\mdl}[1]{\index[modules]{#1}     \textit{#1.F90}          }
-\newcommand{\nam}[1]{\index[blocks]{#1}      \texttt{nam#1}           }
-\newcommand{\np}[1]{ \index[parameters]{#1}  \texttt{#1}              }
+\newcommand{\nam}[1]{\index[blocks]{#1}      \forcode{&nam#1}         }
+\newcommand{\np}[1]{    \index[parameters]{#1}  \texttt{#1}           }
+\newcommand{\npnew}[2]{ \index[parameters]{#1}  \forcode{#1=#2}       }
 \newcommand{\rou}[1]{\index[subroutines]{#1} \texttt{#1}              }
 
Index: /NEMO/trunk/doc/latex/global/styles.tex
===================================================================
--- /NEMO/trunk/doc/latex/global/styles.tex	(revision 11566)
+++ /NEMO/trunk/doc/latex/global/styles.tex	(revision 11567)
@@ -18,4 +18,11 @@
 %% Caption
 \captionsetup{font = footnotesize, justification = justified}
+
+%% `\autoref` names (uncapitalize)
+\renewcommand{\appendixautorefname}{appendix}
+\renewcommand{\equationautorefname}{equation}
+\renewcommand{\figureautorefname}{figure}
+%\renewcommand{\listingautorefname}{namelist}
+\renewcommand{\tableautorefname}{table}
 
 %% Footnote
