docs: modifying documentation examples (now code in the documentation is taken from real code in examples/ folder)
diff --git a/docs/source/conf.py b/docs/source/conf.py
index 57ca4d0..0f9029a 100644
--- a/docs/source/conf.py
+++ b/docs/source/conf.py
@@ -249,3 +249,6 @@
 
 googleanalytics_enabled = True
 
+# aafig_format = dict(latex='pdf', html='png', text=None)
+
+# aafig_default_options = dict(Fixed=True)
diff --git a/docs/source/examples.rst b/docs/source/examples.rst
index d65f4eb..1f41990 100644
--- a/docs/source/examples.rst
+++ b/docs/source/examples.rst
@@ -30,64 +30,11 @@
 The following code represents all that is necessary to run such a
 simple scenario
 
-.. code-block:: c++
-
-    #include "ns3/core-module.h"
-    #include "ns3/network-module.h"
-    #include "ns3/point-to-point-module.h"
-    #include "ns3/ndnSIM-module.h"
-
-    using namespace ns3;
-
-    int
-    main (int argc, char *argv[])
-    {
-      // setting default parameters for PointToPoint links and channels
-      Config::SetDefault ("ns3::PointToPointNetDevice::DataRate", StringValue ("1Mbps"));
-      Config::SetDefault ("ns3::PointToPointChannel::Delay", StringValue ("10ms"));
-      Config::SetDefault ("ns3::DropTailQueue::MaxPackets", StringValue ("20"));
-
-      // Read optional command-line parameters (e.g., enable visualizer with ./waf --run=<> --visualize
-      CommandLine cmd;
-      cmd.Parse (argc, argv);
-
-      // Creating nodes
-      NodeContainer nodes;
-      nodes.Create (3);
-
-      // Connecting nodes using two links
-      PointToPointHelper p2p;
-      p2p.Install (nodes.Get (0), nodes.Get (1));
-      p2p.Install (nodes.Get (1), nodes.Get (2));
-
-      // Install CCNx stack on all nodes
-      ndn::StackHelper ccnxHelper;
-      ccnxHelper.SetDefaultRoutes (true);
-      ccnxHelper.InstallAll ();
-
-      // Installing applications
-
-      // Consumer
-      ndn::AppHelper consumerHelper ("ns3::ndn::ConsumerCbr");
-      // Consumer will request /prefix/0, /prefix/1, ...
-      consumerHelper.SetPrefix ("/prefix");
-      consumerHelper.SetAttribute ("Frequency", StringValue ("10")); // 10 interests a second
-      consumerHelper.Install (nodes.Get (0)); // first node
-
-      // Producer
-      ndn::AppHelper producerHelper ("ns3::ndn::Producer");
-      // Producer will reply to all requests starting with /prefix
-      producerHelper.SetPrefix ("/prefix");
-      producerHelper.SetAttribute ("PayloadSize", StringValue("1024"));
-      producerHelper.Install (nodes.Get (2)); // last node
-
-      Simulator::Stop (Seconds (20.0));
-
-      Simulator::Run ();
-      Simulator::Destroy ();
-
-      return 0;
-    }
+.. literalinclude:: ../../examples/ndn-simple.cc
+   :language: c++
+   :linenos:
+   :lines: 20-27,50-
+   :emphasize-lines: 30-33,37-49
 
 If this code is placed into ``scratch/ndn-simple.cc`` and NS-3 is compiled in debug mode, you can run and see progress of the
 simulation using the following command (in optimized mode nothing will be printed out)::
@@ -100,7 +47,7 @@
 9-node grid example
 -------------------
 
-This scenario (``ndn-grid.cc``) simulates using a grid topology build with PointToPointGrid NS-3 module
+This scenario (``ndn-grid.cc``) simulates a grid topology, which is constructed using PointToPointLayout NS-3 module
 
 .. aafig::
     :aspect: 60
@@ -130,76 +77,13 @@
 
 Producer is simulated using :ndnsim:`Producer` class, which is used to satisfy all incoming Interests with virtual payload data (1024 bytes).
 
+The following code represents all that is necessary to run such a simple scenario
 
-The following code represents all that is necessary to run such a
-simple scenario
-
-.. code-block:: c++
-
-    #include "ns3/core-module.h"
-    #include "ns3/network-module.h"
-    #include "ns3/point-to-point-module.h"
-    #include "ns3/point-to-point-grid.h"
-    #include "ns3/ndnSIM-module.h"
-    
-    using namespace ns3;
-    
-    int 
-    main (int argc, char *argv[])
-    {
-      // Setting default parameters for PointToPoint links and channels
-      Config::SetDefault ("ns3::PointToPointNetDevice::DataRate", StringValue ("1Mbps"));
-      Config::SetDefault ("ns3::PointToPointChannel::Delay", StringValue ("10ms"));
-      Config::SetDefault ("ns3::DropTailQueue::MaxPackets", StringValue ("20"));
-        
-      // Read optional command-line parameters (e.g., enable visualizer with ./waf --run=<> --visualize
-      CommandLine cmd;
-      cmd.Parse (argc, argv);
-
-      // Creating 3x3 topology
-      PointToPointHelper p2p;
-      PointToPointGridHelper grid (3, 3, p2p);
-      grid.BoundingBox(100,100,200,200);
-    
-      // Install CCNx stack on all nodes
-      ndn::StackHelper ccnxHelper;
-      ccnxHelper.InstallAll ();
-    
-      // Installing global routing interface on all nodes
-      ndn::GlobalRoutingHelper ccnxGlobalRoutingHelper;
-      ccnxGlobalRoutingHelper.InstallAll ();
-      
-      // Getting containers for the consumer/producer
-      Ptr<Node> producer = grid.GetNode (nGrid-1, nGrid-1);
-      NodeContainer consumerNodes;
-      consumerNodes.Add (grid.GetNode (0,0));
-      
-      // Install CCNx applications
-      std::string prefix = "/prefix";
-      
-      ndn::AppHelper consumerHelper ("ns3::ndn::ConsumerCbr");
-      consumerHelper.SetPrefix (prefix);
-      consumerHelper.SetAttribute ("Frequency", StringValue ("10")); // 10 interests a second
-      consumerHelper.Install (consumerNodes);
-      
-      ndn::AppHelper producerHelper ("ns3::ndn::Producer");
-      producerHelper.SetPrefix (prefix);
-      producerHelper.SetAttribute ("PayloadSize", StringValue("1024"));
-      producerHelper.Install (producer);
-    
-      // Add /prefix origins to ndn::GlobalRouter
-      ccnxGlobalRoutingHelper.AddOrigins (prefix, producer);
-    
-      // Calculate and install FIBs
-      ccnxGlobalRoutingHelper.CalculateRoutes ();
-      
-      Simulator::Stop (Seconds (20.0));
-        
-      Simulator::Run ();
-      Simulator::Destroy ();
-        
-      return 0;
-    }
+.. literalinclude:: ../../examples/ndn-grid.cc
+   :language: c++
+   :linenos:
+   :lines: 20-27,55-
+   :emphasize-lines: 30-32,34-37,52-56
     
 
 If this code is placed into ``scratch/ndn-grid.cc`` and NS-3 is compiled in debug mode, you can run and see progress of the
@@ -215,110 +99,20 @@
 Instead of defining topology directly as in :ref:`simple-scenario` or using specialized helpers as in :ref:`9-node-grid-example`, ndnSIM provides experimental extended versions of TopologyReader classes: :ndnsim:`AnnotatedTopologyReader` and :ndnsim:`RocketfuelWeightsReader`.
 
 While :ndnsim:`RocketfuelWeightsReader` is a specialized version intended to be used with `Rocketfuel <http://www.cs.washington.edu/research/networking/rocketfuel/>`_ topology and link weights files (examples will be provided later), :ndnsim:`AnnotatedTopologyReader` is a general-use tool that allows creation of any custom topologies.  
-The based format for the input file the :ndnsim:`AnnotatedTopologyReader` expects::
+The based format for the input file the :ndnsim:`AnnotatedTopologyReader` expects:
 
-    # any empty lines and lines starting with '#' symbol is ignored
+.. literalinclude:: ../../examples/topologies/topo-grid-3x3.txt
+   :language: bash
+   :linenos:
+   :emphasize-lines: 8,24
 
-    # The file should contain exactly two sections: router and link, each starting with the corresponding keyword
+If you save the topology file to `topo-grid-3x3.txt` into ``src/ndnSIM/examples/topology/topo-grid-3x3.txt`` directory, then the following code will duplicate the functionality of :ref:`9-node-grid-example` but with the use of :ndnsim:`AnnotatedTopologyReader`:
 
-    # router section defines topology nodes and their relative positions (e.g., to use in visualizer)
-    router
-
-    # each line in this section represents one router and should have the following data
-    # node  comment     yPos    xPos
-    Node0   NA          3       1
-    Node1   NA          3       2
-    Node2   NA          3       3
-    Node3   NA          2       1
-    Node4   NA          2       2
-    Node5   NA          2       3
-    Node6   NA          1       1
-    Node7   NA          1       2
-    Node8   NA          1       3
-    # Note that `node` can be any string. It is possible to access to the node by name using Names::Find, see examples.
-
-    # link section defines point-to-point links between nodes and characteristics of these links
-    link
-
-    # Each line should be in the following format (only first two are required, the rest can be omitted)
-    # srcNode   dstNode     bandwidth   metric  delay   queue
-    # bandwidth: link bandwidth
-    # metric: routing metric
-    # delay:  link delay
-    # queue:  MaxPackets for transmission queue on the link (both directions)
-    Node0       Node1       1Mbps       1       10ms    10
-    Node0       Node3       1Mbps       1       10ms    10
-    Node1       Node2       1Mbps       1       10ms    10
-    Node1       Node4       1Mbps       1       10ms    10
-    Node2       Node5       1Mbps       1       10ms    10
-    Node3       Node4       1Mbps       1       10ms    10
-    Node3       Node6       1Mbps       1       10ms    10
-    Node4       Node5       1Mbps       1       10ms    10
-    Node4       Node7       1Mbps       1       10ms    10
-    Node5       Node8       1Mbps       1       10ms    10
-    Node6       Node7       1Mbps       1       10ms    10
-    Node7       Node8       1Mbps       1       10ms    10
-
-
-If you save the topology file to `topo.txt` in the current directory, then the following code will duplicate the functionality of :ref:`9-node-grid-example` but with the use of :ndnsim:`AnnotatedTopologyReader`:
-
-.. code-block:: c++
-
-    #include "ns3/core-module.h"
-    #include "ns3/network-module.h"
-    #include "ns3/ndnSIM-module.h"
-    
-    using namespace ns3;
-    
-    int 
-    main (int argc, char *argv[])
-    {
-      CommandLine cmd;
-      cmd.Parse (argc, argv);
-    
-      AnnotatedTopologyReader topologyReader ("", 25);
-      topologyReader.SetFileName ("topo.txt");
-      topologyReader.Read (); 
-        
-      // Install CCNx stack on all nodes
-      ndn::StackHelper ccnxHelper;
-      ccnxHelper.InstallAll ();
-        
-      // Installing global routing interface on all nodes
-      ndn::GlobalRoutingHelper ccnxGlobalRoutingHelper;
-      ccnxGlobalRoutingHelper.InstallAll ();
-          
-      // Getting containers for the consumer/producer
-      Ptr<Node> producer = Names::Find<Node> ("Node8");
-      NodeContainer consumerNodes;
-      consumerNodes.Add (Names::Find<Node> ("Node0"));
-          
-      // Install CCNx applications
-      std::string prefix = "/prefix";
-          
-      ndn::AppHelper consumerHelper ("ns3::ndn::ConsumerCbr");
-      consumerHelper.SetPrefix (prefix);
-      consumerHelper.SetAttribute ("Frequency", StringValue ("100")); // 100 interests a second
-      consumerHelper.Install (consumerNodes);
-          
-      ndn::AppHelper producerHelper ("ns3::ndn::Producer");
-      producerHelper.SetPrefix (prefix);
-      producerHelper.SetAttribute ("PayloadSize", StringValue("1024"));
-      producerHelper.Install (producer);
-        
-      // Add /prefix origins to ndn::GlobalRouter
-      ccnxGlobalRoutingHelper.AddOrigins (prefix, producer);
-        
-      // Calculate and install FIBs
-      ccnxGlobalRoutingHelper.CalculateRoutes ();
-          
-      Simulator::Stop (Seconds (20.0));
-            
-      Simulator::Run ();
-      Simulator::Destroy ();
-            
-      return 0;
-    }
+.. literalinclude:: ../../examples/ndn-grid-topo-plugin.cc
+   :language: c++
+   :linenos:
+   :lines: 20-25,53-
+   :emphasize-lines: 13-15,26-28
     
 As you can see, scenario code became more compact and more readable.
 
@@ -329,3 +123,40 @@
 For this purpose,:ndnsim:`AnnotatedTopologyReader` automatically registers all created nodes with names specified in topology file.
 For more information about `Names` class, please refer to `NS-3 documentation <.. http://www.nsnam.org/doxygen/classns3_1_1_names.html>`_
 .
+
+If the topology file is placed into ``src/ndnSIM/examples/topology/topo-grid-3x3.txt`` and the code is placed into ``scratch/ndn-grid-topo-plugin.cc``, you can run and see progress of the simulation using the following command (in optimized mode nothing will be printed out)::
+
+    NS_LOG=ndn.Consumer:ndn.Producer ./waf --run=ndn-grid-topo-plugin
+
+
+6-node topology
+---------------
+
+This scenario can be used for congestion-related scenarios 
+
+.. aafig::
+    :aspect: 60
+    :scale: 120
+
+    /------\	                                                /------\
+    | Src1 |<--+                                            +-->| Dst1 |
+    \------/    \                                          /    \------/
+	     	 \                                        /     
+                  +-->/------\   "bottleneck"  /------\<-+      
+                      | Rtr1 |<===============>| Rtr2 |         
+                  +-->\------/                 \------/<-+      
+                 /                                        \
+    /------\    /                                          \    /------\
+    | Src2 |<--+                                            +-->| Dst2 |
+    \------/                                                    \------/
+
+.. literalinclude:: ../../examples/topologies/topo-6-node.txt
+    :language: bash
+    :emphasize-lines: 3,13
+   
+.. literalinclude:: ../../examples/ndn-congestion-topo-plugin.cc
+   :language: c++
+   :linenos:
+
+.. :lines: 20-25,53-
+.. :emphasize-lines: 13-15,26-28