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This also includes the library CGAL as a dependency.

This returns the union of two graphs, and optionally specified property
maps.

This is a large commit which replaces lambda::bind with boost::bind in
most parts of the code. This improves compilation time, and slightly
decreases compilation memory usage in some cases.

random_graph() now uses a modified algorithm for generation of
correlated graphs, which is more efficient. Instead of giving a function
which returns a sample of the correlated target degree, the user must
give a function which will just compute its probability. This
probability will then be used to choose the edges.

The generators from boost::random seem to have a bug which causes them
to be biased. The generators from tr1::random seem to be in better
shape.

See: http://thread.gmane.org/gmane.comp.lib.boost.user/48006

It is now much simpler, and works better.

This commit splits libraph_tool into different libraries:
 
   - libgraph_tool_core
   - libgraph_tool_clustering (*)
   - libgraph_tool_community (*)
   - libgraph_tool_correlations (*)
   - libgraph_tool_distance (*)
   - libgraph_tool_generation (*)
   - libgraph_tool_layout (*)
   - libgraph_tool_misc (*)
   - libgraph_tool_stats (*)

It also adds the python sub-module 'test', which provides extensive unit
testing of the core functionality. The core library is fully functional
and all test pass successfully.

(*) -> module needs to be ported to new refactoring, and does not yet build

This is a huge commit which completely refactors the metaprogramming
engine which generates and selects (at run time) the graph view type and
the desired algorithm implementation (template instantiation) that runs
on it.

Things are laid out now as following. There exists a main underlying
graph type (GraphInterface::multigraph_t) and several other template
classes that mask it some way or another, in a hierarchic fashion:

     multigraph_t -> filtered_graph (edges only, vertices only, both)
         |                               |           |           |
         |                               |           |           |
         |-------(reversed_graph)--------|-----------|-----------|
         |                               |           |           |
         \------(UndirectedAdaptor)------------------------------/

The filtered_graph filters out edges and/or vertices from the graph
based on some scalar boolean property. The reversed_graph reversed the
direction of the edges and, finally, the UndirectedAdaptor treats the
original directed graphs as undirected, transversing the in- and
out-edges of each vertex indifferently. Thus, the total number of graph
view types is 12. (The option --disable-graph-filtering can be passed to
the configure script, which will disable graph filtering altogether and
bring the total number down to 3, to reduce compile time and memory
usage)

In general, some specific algorithm, implemented as a template function
object, needs to be instantiated for each of those types. Furthermore,
the algorithm may also depend on other types, such as specific
property_maps. Thus, the following scheme is used:

    struct my_algorithm // algorithm to be implemented
    {
        template <class Graph, class PropertyMap>
        void operator()(Graph *g, PropertyMap p, double& result) const
        {
            // ...
        }
    };

    // in order for the above code to be instantiated at compile time
    // and selected at run time, the run_action template function object
    // is used from a member function of the GraphInterface class:

    double GraphInterface::MyAlgorithm(string prop_name)
    {
        double result;
        boost::any vprop = prop(property, _vertex_index, _properties);
        run_action<>()(*this, bind<void>(my_algorithm(), _1, _2,
                                         var(result)),
                       vertex_scalar_properties())(vprop);
        return result;
    }

The whole code was changed to reflect this scheme, but now things are
more centralized and less ad-hoc code needed to be
written. Unfortunately, due to GCC's high memory usage during template
instantiations, some of the code (namely all the degree correlation
things) had to be split in multiple compilation units... Maybe this will
change in the future if GCC gets optimized.

This commit also touches other parts of code. More specifically, the way
filtering gets done is very different. Now we only filter on boolean
properties, and with the above scheme, the desired implementation runs
with the correct chosen type, and no implicit type conversions should
ever happen, which would have a bad impact on performance.

Vertices and edges can be accessed from the graph class, as such:

    import graph_tool
    g = graph_tool.Graph()
    for v in g.vertices():
        for e in v.out_edges():
           # do something...

Additionally, the --edit-{vertex|edge|graph}-property was ported to the
new interface, and is working again, as it used to.

The Vertex and Edge class no longer have the 'get_property' and
'set_property' method. They'll be replaced by a new method of accessing
property maps.

Line breaks at column 80 were added, and all trailing whitespace was deleted. Code
comments were modified and some more were added.

        * ChangeLog: updated ChangeLog file with svn history

        * src/graph/graph_filtering.hh: added add_edge() and remove_edge() functions for filtered graphs

        * src/graph/shared_map.hh: included SharedContainer

        * src/graph/graph_rewiring.cc: initial support for random graph rewiring



git-svn-id: https://svn.forked.de/graph-tool/trunk@114 d4600afd-f417-0410-95de-beed9576f240

git-svn-id: https://svn.forked.de/graph-tool/trunk@101 d4600afd-f417-0410-95de-beed9576f240

git-svn-id: https://svn.forked.de/graph-tool/trunk@59 d4600afd-f417-0410-95de-beed9576f240

git-svn-id: https://svn.forked.de/graph-tool/trunk@58 d4600afd-f417-0410-95de-beed9576f240

* fix command line help


git-svn-id: https://svn.forked.de/graph-tool/trunk@49 d4600afd-f417-0410-95de-beed9576f240

* fixed bug related to negative sampled degrees


git-svn-id: https://svn.forked.de/graph-tool/trunk@14 d4600afd-f417-0410-95de-beed9576f240

git-svn-id: https://svn.forked.de/graph-tool/trunk@12 d4600afd-f417-0410-95de-beed9576f240

git-svn-id: https://svn.forked.de/graph-tool/trunk@1 d4600afd-f417-0410-95de-beed9576f240