Change specifications links to Markdown files (#177)

Author: alcaeus

source/reference/function/with_transaction.txt

@@ -91,4 +91,4 @@ See Also
 - :php:`MongoDB\Driver\Session::startTransaction <mongodb-driver-session.starttransaction>`
 - :php:`MongoDB\Driver\Session::commitTransaction <mongodb-driver-session.committransaction>`
 - :manual:`Transactions: Drivers API </core/transactions-in-applications>` documentation in the MongoDB manual
-- `Convenient API for Transactions <https://github.com/mongodb/specifications/blob/master/source/transactions-convenient-api/transactions-convenient-api.rst>`_ specification
+- `Convenient API for Transactions <https://github.com/mongodb/specifications/blob/master/source/transactions-convenient-api/transactions-convenient-api.md>`_ specification

source/reference/method/MongoDBClient-listDatabaseNames.txt

@@ -115,5 +115,5 @@ See Also
 - :manual:`listDatabases </reference/command/listDatabases>` command reference
   in the MongoDB manual
 - `Enumerating Databases
-  <https://github.com/mongodb/specifications/blob/master/source/enumerate-databases.rst>`_
+  <https://github.com/mongodb/specifications/blob/master/source/enumerate-databases/enumerate-databases.md>`_
   specification

source/reference/method/MongoDBClient-listDatabases.txt

@@ -129,5 +129,5 @@ See Also
 - :manual:`listDatabases </reference/command/listDatabases>` command reference
   in the MongoDB manual
 - `Enumerating Databases
-  <https://github.com/mongodb/specifications/blob/master/source/enumerate-databases.rst>`_
+  <https://github.com/mongodb/specifications/blob/master/source/enumerate-databases/enumerate-databases.md>`_
   specification

source/reference/method/MongoDBClient__construct.txt

@@ -55,7 +55,7 @@ Parameters
 ``$driverOptions`` : array
   Specifies options specific to the PHP driver. In addition to driver options
   supported by the :php:`extension <mongodb-driver-manager>`, the library
-  additionally supports specifying a default 
+  additionally supports specifying a default
   :php:`type map <manual/en/mongodb.persistence.deserialization.php#mongodb.persistence.typemaps>`
   to apply to the cursors it creates.
 
@@ -218,7 +218,7 @@ Behavior
 
 A :php:`MongoDB\Driver\Manager <mongodb-driver-manager>` is constructed
 internally. Per the `Server Discovery and Monitoring
-<https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.rst#single-threaded-client-construction>`_
+<https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.md#single-threaded-client-construction>`_
 specification, :php:`MongoDB\Driver\Manager::__construct()
 <mongodb-driver-manager.construct>` performs no I/O. Connections will be
 initialized on demand, when the first operation is executed.
@@ -333,5 +333,5 @@ See Also
 - :manual:`Connection String URI Format </reference/connection-string>` in the
   MongoDB manual
 - `Server Discovery and Monitoring
-  <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.rst#single-threaded-client-construction>`_
+  <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.md#single-threaded-client-construction>`_
   specification

source/reference/method/MongoDBCollection-listIndexes.txt

@@ -131,6 +131,6 @@ See Also
 - :manual:`listIndexes </reference/command/listIndexes>` command reference in
   the MongoDB manual
 - :manual:`Index documentation </core/indexes>` in the MongoDB manual
-- `Enumerating Collections
-  <https://github.com/mongodb/specifications/blob/master/source/enumerate-indexes.rst>`_
+- `Index Management
+  <https://github.com/mongodb/specifications/blob/master/source/index-management/index-management.md>`_
   specification

source/reference/method/MongoDBDatabase-listCollectionNames.txt

@@ -137,5 +137,5 @@ See Also
 - :manual:`listCollections </reference/command/listCollections>` command
   reference in the MongoDB manual
 - `Enumerating Collections
-  <https://github.com/mongodb/specifications/blob/master/source/enumerate-collections.rst>`_
+  <https://github.com/mongodb/specifications/blob/master/source/enumerate-collections/enumerate-collections.md>`_
   specification

source/reference/method/MongoDBDatabase-listCollections.txt

@@ -162,5 +162,5 @@ See Also
 - :manual:`listCollections </reference/command/listCollections>` command
   reference in the MongoDB manual
 - `Enumerating Collections
-  <https://github.com/mongodb/specifications/blob/master/source/enumerate-collections.rst>`_
+  <https://github.com/mongodb/specifications/blob/master/source/enumerate-collections/enumerate-collections.md>`_
   specification

source/tutorial/server-selection.txt

@@ -89,8 +89,8 @@ quite a lot going on behind the scenes! Interested readers can find this process
 discussed in greater detail in the following documents:
 
 - `Single-threaded Mode <http://mongoc.org/libmongoc/current/connection-pooling.html#single-mode>`_ in the libmongoc documentation
-- `Server Discovery and Monitoring <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.rst>`_ specification
-- `Server Selection <https://github.com/mongodb/specifications/blob/master/source/server-selection/server-selection.rst>`_ specification
+- `Server Discovery and Monitoring <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-discovery-and-monitoring.md>`_ specification
+- `Server Selection <https://github.com/mongodb/specifications/blob/master/source/server-selection/server-selection.md>`_ specification
 
 Connection String Options
 -------------------------
@@ -107,7 +107,7 @@ This defaults to 10 seconds for single-threaded drivers such as PHP.
 
 When a server times out during monitoring, it will not be re-checked until at
 least five seconds
-(`cooldownMS <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-monitoring.rst#cooldownms>`_)
+(`cooldownMS <https://github.com/mongodb/specifications/blob/master/source/server-discovery-and-monitoring/server-monitoring.md#cooldownms>`_)
 have elapsed. This timeout is intended to avoid having single-threaded drivers
 block for ``connectTimeoutMS`` on *each* subsequent scan after an error.