reorg map-reduce, aggregation, crud, serverside javascript, replicati…

…on (write concern/read pref)

source/administration/production-notes.txt

@@ -282,7 +282,7 @@ There is a :limit:`BSON Document Size` -- at the time of this writing
 Set Appropriate Write Concern for Write Operations
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 
-See :ref:`write concern <write-concern>` for more information.
+See :doc:`/core/write-concern` for more information.
 
 Dynamic Schema
 ~~~~~~~~~~~~~~
@@ -336,7 +336,7 @@ Consider:
 
 - and/or using :doc:`$toLower </reference/aggregation/toLower/>` or
   :doc:`$toUpper </reference/aggregation/toUpper/>` in the
-  :doc:`aggregation framework </applications/aggregation/>`
+  :doc:`aggregation framework </core/aggregation/>`
 
 Type Sensitive Fields
 ~~~~~~~~~~~~~~~~~~~~~
@@ -394,7 +394,7 @@ here:
 1. Monitoring and alerts for any lagging can be done via various means.
    MMS shows a graph of replica set lag
 
-#. Using :ref:`getLastError <replica-set-write-concern>` with
+#. Using :doc:`getLastError </core/write-concern>` with
    ``w:'majority'``, you will get a timeout or no return if a majority of
    the set is lagging. This is thus another way to guard against lag and
    get some reporting back of its occurrence.

source/aggregation.txt

@@ -7,7 +7,7 @@ Aggregation
 .. default-domain:: mongodb
 
 In version 2.2, MongoDB introduced the :doc:`aggregation framework
-</applications/aggregation>` that provides a powerful and flexible set
+</core/aggregation>` that provides a powerful and flexible set
 of tools to use for many data aggregation tasks. If you're familiar with data aggregation in SQL, consider the
 :doc:`/reference/sql-aggregation-comparison` document as an introduction to
 some of the basic concepts in the aggregation framework. Consider the
@@ -16,10 +16,10 @@ full documentation of the aggregation framework here:
 .. toctree::
    :maxdepth: 2
 
-   applications/aggregation
+   core/aggregation
    tutorial/aggregation-examples
    reference/aggregation
-   applications/map-reduce
+   core/map-reduce
 
 In addition to the aggregation framework, MongoDB provides simple
 :doc:`aggregation methods and commands </reference/simple-aggregation>`, 

source/applications.txt

@@ -31,15 +31,20 @@ The following documents outline basic application development topics:
 
    applications/drivers
    applications/optimization
-   applications/server-side-javascript
    core/capped-collections
+   core/server-side-javascript
+   tutorial/store-javascript-function-on-server
 
 .. seealso::
 
-   - :doc:`/applications/replication`
+   - :doc:`/core/read-preference`
+   - :doc:`/core/write-concern`
    - :doc:`/applications/indexes`
-   - :doc:`/applications/aggregation`
-   - :doc:`/applications/map-reduce`
+   - :doc:`/core/aggregation`
+   - :doc:`/core/map-reduce`
+   - :doc:`/tutorial/perform-incremental-map-reduce`
+   - :doc:`/tutorial/troubleshoot-map-function`
+   - :doc:`/tutorial/troubleshoot-reduce-function`
    - :doc:`/reference/connection-string`
 
 .. _application-patterns: