--- manual/s_software/text/sarch.tex	2004/01/29 16:02:58	1.16
+++ manual/s_software/text/sarch.tex	2004/10/16 03:40:16	1.20
@@ -1,4 +1,4 @@
-% $Header: /home/ubuntu/mnt/e9_copy/manual/s_software/text/sarch.tex,v 1.16 2004/01/29 16:02:58 afe Exp $
+% $Header: /home/ubuntu/mnt/e9_copy/manual/s_software/text/sarch.tex,v 1.20 2004/10/16 03:40:16 edhill Exp $
 
 This chapter focuses on describing the {\bf WRAPPER} environment within which
 both the core numerics and the pluggable packages operate. The description
@@ -17,6 +17,9 @@
 features that are employed.
 
 \section{Overall architectural goals}
+\begin{rawhtml}
+<!-- CMIREDIR:overall_architectural_goals: -->
+\end{rawhtml}
 
 Broadly, the goals of the software architecture employed in MITgcm are 
 three-fold
@@ -76,6 +79,9 @@
 \end{figure}
 
 \section{WRAPPER}
+\begin{rawhtml}
+<!-- CMIREDIR:wrapper: -->
+\end{rawhtml}
 
 A significant element of the software architecture utilized in
 MITgcm is a software superstructure and substructure collectively
@@ -150,6 +156,9 @@
 computer architecture currently available to the scientific computing community.
 
 \subsection{Machine model parallelism}
+\begin{rawhtml}
+<!-- CMIREDIR:domain_decomp: -->
+\end{rawhtml}
 
  Codes operating under the WRAPPER target an abstract machine that is assumed to
 consist of one or more logical processors that can compute concurrently.  
@@ -537,6 +546,9 @@
 last 50 years.
 
 \section{Using the WRAPPER}
+\begin{rawhtml}
+<!-- CMIREDIR:using_the_wrapper: -->
+\end{rawhtml}
 
 In order to support maximum portability the WRAPPER is implemented primarily 
 in sequential Fortran 77. At a practical level the key steps provided by the 
@@ -1415,6 +1427,9 @@
 
 
 \section{MITgcm execution under WRAPPER}
+\begin{rawhtml}
+<!-- CMIREDIR:mitgcm_wrapper: -->
+\end{rawhtml}
 
 Fitting together the WRAPPER elements, package elements and
 MITgcm core equation elements of the source code produces calling