Generate graphML from Association Data

The makeGML script converts association files into valid graphML data.

Association File format

Association files are designed to be a simple method of capturing associations between elements. The association format is:

A:B,C
D:

In the above example, the node A is associated with nodes B and C. The node D is not associated with any other nodes.

makeGML Usage

usage: makeGML [-h] [-v] [-r] [-a GRAPH_NAME] [-p NODE_PREFIX] <file>

Convert association text file to GraphML format

positional arguments:
  <file>                input association file

optional arguments:
  -h, --help            show this help message and exit
  -v, --version         show program's version number and exit
  -r, --allow-reciprocal
                        allow reciprocal edges
  -a GRAPH_NAME, --graph-name GRAPH_NAME
                        graph name
  -p NODE_PREFIX, --node-prefix NODE_PREFIX
                        node prefix string

Example Output

The small example file above yields the following graphML:

<?xml version="1.0" encoding="UTF-8"?>
<graphml xmlns="http://graphml.graphdrawing.org/xmlns"
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
  xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns
  http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd">
  <graph id="G" edgedefault="undirected">
    <node id="A" />
    <node id="B" />
    <node id="C" />
    <node id="D" />
    <edge source="A" target="B" />
    <edge source="A" target="C" />
  </graph>
</graphml>