Best Way to Store/Access a Directed Graph

Question

I have around 3500 flood control facilities that I would like to represent as a network to determine flow paths (essentially a directed graph). I'm currently using SqlServer and a CTE to recursively examine all the nodes and their upstream components and this works as long as the upstream path doesn't fork alot. However, some queries take exponentially longer than others even when they are not much farther physically down the path (i.e. two or three segments "downstream") because of the added upstream complexity; in some cases I've let it go over ten minutes before killing the query. I'm using a simple two-column table, one column being the facility itself and the other being the facility that is upstream from the one listed in the first column.

I tried adding an index using the current facility to help speed things up but that made no difference. And, as for the possible connections in the graph, any nodes could have multiple upstream connections and could be connected to from multiple "downstream" nodes.

It is certainly possible that there are cycles in the data but I have not yet figured out a good way to verify this (other than when the CTE query reported a maximum recursive count hit; those were easy to fix).

So, my question is, am I storing this information wrong? Is there a better way other than a CTE to query the upstream points?

Answer 1

Traditionally graphs are either represented by a matrix or a vector. The matrix takes more space, but is easier to process(3500x3500 entries in your case); the vector takes less space(3500 entries, each have a list of who they connect to).

Does that help you?

Answer 2

i think your data structure is fine (for SQL Server) but a CTE may not be the most efficient solution for your queries. You might try making a stored procedure that traverses the graph using a temp table as a queue instead, this should be more efficient.

the temp table can also be used to eliminate cycles in the graph, though there shouldn't be any

Answer 3

Yes (maybe). Your data set sounds relatively small, you could load the graph to memory as an adjacency matrix or adjacency list and query the graph directly - assuming you program.

As far as on-disk format, DOT is fairly portable/popular among others. It also seems pretty common to store a list of edges in a flat file format like:

vertex1 vertex2 {edge_label1}+

Where the first line of the file contains the number of vertices in the graph, and every line after that describes edges. Whether the edges are directed or undirected is up to the implementor. If you want explicit directed edges, then describe them using directed edges like:

vertex1 vertex2
vertex2 vertex1

Answer 4

The best way to store graphs is of course to use a native graph db :-)

Take a look at neo4j. It's implemented in Java and has Python and Ruby bindings as well.

I wrote up two wiki pages with simple examples of domain models represented as graphs using neo4j: assembly and roles. More examples are found on the domain modeling gallery page.

Answer 5

My experiences with storing something like you described in a SQL Server database:

I was storing a distance matrix, telling how long does it take to travel from point A to point B. I have done the naive representation and stored them directly into a table called distances with columns A,B,distance,time.

This is very slow on simple retreival. I found it is lot better to store my whole matrix as text. Then retreive it into memory before the computations, create an matrix struxture in memory and work with it there.

I could provide with some code, but it would be C#.