Typo and link cleanup, adding two new methods and one operator

Added:
  db.collection.createIndex.txt but marked as deprecated
  db.collection.isCapped.txt
  $natural operator

Remaining edits are cleanup of broken links

Author: Ed Costello

source/administration/security.txt

@@ -112,8 +112,8 @@ Network Interface Limitation
 
 You can limit the network exposure with the following configuration options:
 
-- the :setting:`nohttpinterface` setting for :program:`mongod` and
-  :program:`mongos` instances.
+- the :setting:`nohttpinterface <mongod --nohttpinterface>` setting for
+  :program:`mongod` and :program:`mongos` instances.
 
   Disables the "home" status page, which would run on port ``28017``
   by default. The status interface is read-only by default. You may
@@ -170,7 +170,7 @@ You can limit the network exposure with the following configuration options:
   :option:`mongos --bind_ip` option on the command line at run time to
   limit the network accessibility of a MongoDB program.
 
-  .. important:: 
+  .. important::
 
      Make sure that your :program:`mongod` and
      :program:`mongos` instances are only accessible on trusted
@@ -340,7 +340,7 @@ Be aware of the following capabilities and behaviors of the
 
 - :program:`mongo` will evaluate a ``.mongorc.js`` file before
   starting. You can disable this behavior by passing the
-  :option:`mongo --norc`` option.
+  :option:`mongo --norc` option.
 
   On Linux and Unix systems, :program:`mongo` reads the
   :file:`.mongorc.js` file from :file:`{$HOME}/.mongorc.js`

source/applications/delete.txt

@@ -36,7 +36,7 @@ following syntax:
 
 .. code-block:: javascript
 
-   db.collection.delete( <query>, <justOne> )
+   db.collection.remove( <query>, <justOne> )
 
 .. admonition:: Corresponding operation in SQL
 

source/applications/replication.txt

@@ -76,7 +76,7 @@ on a majority of the set members before returning:
    cfg.settings.getLastErrorDefaults = {w: "majority"}
    rs.reconfig(cfg)
 
-The :data:`getLastErrorDefaults` setting affects only those
+The :data:`settings.getLastErrorDefaults` setting affects only those
 :dbcommand:`getLastError` commands that have *no* other arguments.
 
 .. note::

source/core/read-operations.txt

@@ -301,7 +301,7 @@ index can: support and optimize specific queries, sort operations, and
 allow for more efficient storage utilization. For more information
 about indexes in MongoDB see: :doc:`/indexes` and :doc:`/core/indexes`.
 
-You can create indexes using the :method:`db.collection.ensureIndex{)` method
+You can create indexes using the :method:`db.collection.ensureIndex()` method
 in the :program:`mongo` shell, as in the following prototype
 operation:
 
@@ -566,7 +566,7 @@ operations for more basic data aggregation operations:
 
 - :method:`group()`
 
-- :dbcommand:`mapReduce() <mapreduce>` (See also :wiki:`MapReduce`.)
+- :dbcommand:`mapReduce() <mapReduce>` (See also :wiki:`MapReduce`.)
 
 .. index:: read operation; architecture
 .. _read-operations-architecture:

source/core/write-operations.txt

@@ -36,7 +36,6 @@ For information on specific methods used to perform write operations in the
 - :method:`db.collection.save()`
 - :method:`db.collection.findAndModify()`
 - :method:`db.collection.remove()`
-- :method:`db.collection.delete()`
 
 For information on how to perform write operations from within an
 application, see the :doc:`/applications/drivers` documentation or the

source/includes/warning-sharding-hostnames.rst

@@ -2,8 +2,9 @@
 
    If you use either "localhost" or ``127.0.0.1`` as the hostname
    portion of any host identifier, for example as the ``host`` argument
-   to :dbcommand:`addShard` or the value to the :option:`mongos
-   --configdb` run time option, then you must use "localhost" or
+   to :dbcommand:`addShard` or the value to the
+   :option:`--configdb <mongos --configdb>`
+   run time option, then you must use "localhost" or
    ``127.0.0.1`` for *all* host settings for any MongoDB instances in
    the cluster. If you mix localhost addresses and remote host address,
-   MongoDB will error.
+   MongoDB will error.

source/reference/command/applyOps.txt

@@ -9,7 +9,8 @@ applyOps (internal)
    :param array operations: an array of operations to perform.
 
    :param array preCondition: Optional. Defines one or more conditions that the destination must meet
-                              applying the entries from the ``<operations>`` array. ``ns`` to
+                              applying the entries from the ``<operations>`` array.
+                              Use ``ns`` to
                               specify a :term:`namespace`, ``q`` to specify a :term:`query` and
                               ``res`` to specify the result that the query should match. You may
                               specify zero, one, or many ``preCondition`` documents.

source/reference/configuration-options.txt

@@ -854,7 +854,7 @@ Sharding Cluster Options
       random from this list.
 
    The ping time used for a set member compared by the
-   :option:`--localThreshold` setting is a moving average of recent
+   :option:`--localThreshold <mongos --localThreshold>` setting is a moving average of recent
    ping times, calculated, at most, every 10 seconds. As a result, some queries
    may reach members above the threshold until the :program:`mongos`
    recalculates the average.

source/reference/limits.txt

@@ -78,9 +78,9 @@ Indexes
    index name is the concatenation of the field names and index
    directions.
 
-   You can explicitly specify a name to :dbcommand:`createIndex` or
-   the :method:`db.collection.ensureIndex()` helper if the default
-   index name is too long.
+   You can explicitly specific a name to the
+   :method:`~db.collection.ensureIndex()`
+   helper if the default index name is too long.
 
 .. _limit-sharding-unique-indexes:
 .. limit:: Unique Indexes in Sharded Collections
@@ -122,7 +122,7 @@ Operations
 .. limit:: Operations Unavailable in Sharded Environments
 
    The :dbcommand:`group` does not work with sharding. Use
-   :dbcommand:`mapreduce` or :dbcommand:`aggregate` instead.
+   :dbcommand:`mapReduce` or :dbcommand:`aggregate` instead.
 
    :method:`db.eval()` is incompatible with sharded collections. You may
    use :method:`db.eval()` with un-sharded collections in a shard

source/reference/method/db.collection.createIndex.txt

@@ -0,0 +1,20 @@
+===========================
+db.collection.createIndex()
+===========================
+
+.. default-domain:: mongodb
+
+.. deprecated:: 
+
+.. method:: db.collection.createIndex(keys, options)
+
+   :param document keys: A :term:`document` that contains
+                         pairs with the name of the field or
+                         fields to index and order of the index. A
+                         ``1`` specifies ascending and a ``-1``
+                         specifies descending.
+
+   :param document options: A :term:`document` that controls the creation
+                            of the index. This argument is optional.
+
+   .. seealso:: :method:`~db.collection.ensureIndex()` and :doc:`/indexes`

source/reference/method/db.collection.isCapped.txt

@@ -0,0 +1,19 @@
+==========================
+db.collection.isCapped()
+==========================
+
+.. default-domain:: mongodb
+
+.. method:: db.collection.isCapped()
+
+   Returns ``true`` if the collection is a :term:`capped collection`,
+   otherwise returns ``false``.
+
+   .. code-block:: javascript
+
+      > db.collection.isCapped()
+      true
+
+   Change ``collection`` to the name of the collection you want to check.
+
+.. seealso:: :doc:`/core/capped-collections`

source/reference/mongod.txt

@@ -57,7 +57,7 @@ Options
    the amount of output. This option suppresses: 
 
    - output from :term:`database commands <database command>`,
-     including :dbcommand:`drop`, :dbcommand:`dropIndex`,
+     including :dbcommand:`drop`, :dbcommand:`dropIndexes`,
      :dbcommand:`diagLogging`, :dbcommand:`validate`, and
      :dbcommand:`clean`.
 

source/reference/operator/natural.txt

@@ -0,0 +1,27 @@
+========
+$natural
+========
+
+.. default-domain:: mongodb
+
+.. operator:: $natural
+
+  Use the :operator:`$natural` operator to use :term:`natural order` for
+  the results of a sort operation. Natural order refers to the
+  order of documents in the file on disk.
+
+  The :operator:`$natural` operator uses the following syntax to return
+  documents in the order they exist on disk:
+
+  .. code-block:: javascript
+
+     db.collection.sort( {$natural: 1} )
+
+  Use ``-1`` to return documents in the reverse order as they occur on
+  disk:
+
+  .. code-block:: javascript
+
+     db.collection.sort( {$natural: -1} )
+
+.. seealso:: :method:`~cursor.sort()`

source/release-notes/2.0.txt

@@ -383,7 +383,7 @@ user's home directory. The shell will execute this file after connecting
 to the database and before displaying the prompt.
 
 If you would like the shell not to run the ``.mongorc.js`` file
-automatically, start the shell with :option:`--norc <mongod --norc>`.
+automatically, start the shell with :option:`--norc <mongo --norc>`.
 
 For more information, see :doc:`/reference/mongo`.
 

source/tutorial/change-oplog-size.txt

@@ -61,8 +61,10 @@ procedure for every member of the set that may become primary.
       mongod --dbpath /srv/mongodb --shutdown
 
    To restart the instance on a different port and in "standalone" mode
-   (i.e. without :setting:`replSet` or :option:`--replSet <mongod
-   --replSet>`), use a command that resembles the following:
+   (i.e. without
+   :setting:`replSet <mongod replSet>` or
+   :option:`--replSet <mongod --replSet>`),
+   use a command that resembles the following:
 
    .. code-block:: sh
 

source/tutorial/install-mongodb-on-windows.txt

@@ -270,7 +270,7 @@ Run all of the following commands in :guilabel:`Command Prompt` with
    operation. You may also specify :option:`--dbpath <mongod --dbpath>`
    on the command line; however, always prefer the configuration file.
 
-   If the :setting:`dbpath`` directory does not exist,
+   If the :setting:`dbpath` directory does not exist,
    :program:`mongod.exe` will not be able to start. The default value
    for :setting:`dbpath` is ``\data\db``.