Hi, digging to this old question, I eventualy installed the git version and, unfortunately, I still have the problem of edge id...

>>> from graph_tool.all import *
>>> g=load_graph('test.xml')
>>>
>>> _vertexIds = g.vertex_properties["_graphml_vertex_id"]
>>> _edgeIds = g.edge_properties["_graphml_edge_id"]
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/lib/python2.7/site-packages/graph_tool/__init__.py", line 1049, in __getitem__
    val = self.get_func(self.g, key)
  File "/usr/lib/python2.7/site-packages/graph_tool/__init__.py", line 1542, in <lambda>
    lambda g, k: g.__properties[("e", k)],
KeyError: ('e', '_graphml_edge_id')
>>> g.list_properties()
destination    (vertex)  (type: long double)
origin         (vertex)  (type: long double)
_graphml_vertex_id (vertex)  (type: string)
name           (edge)    (type: int32_t)
weight         (edge)    (type: long double)

test.xml:
<?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">
<key id="o" for="node" attr.name="origin" attr.type="double"/>
<key id="d" for="node" attr.name="destination" attr.type="double"/>
<key id="w" for="edge" attr.name="weight" attr.type="double"/>
<key id="n" for="edge" attr.name="name" attr.type="int"/>
<graph id="G" edgedefault="directed">
<node id="65091">
<data key="o">0.0</data>
<data key="d">6.76759405264e-06</