#!/usr/bin/env python
from nose.tools import *
from nose import SkipTest
import networkx as nx
import io
class TestGEXF(object):
@classmethod
def setupClass(cls):
try:
import xml.etree.ElementTree
except ImportError:
raise SkipTest('xml.etree.ElementTree not available.')
def setUp(self):
self.simple_directed_data="""
"""
self.simple_directed_graph=nx.DiGraph()
self.simple_directed_graph.add_node('0',label='Hello')
self.simple_directed_graph.add_node('1',label='World')
self.simple_directed_graph.add_edge('0','1',id='0')
self.simple_directed_fh = \
io.BytesIO(self.simple_directed_data.encode('UTF-8'))
self.attribute_data="""
Gephi.org
A Web network
true
"""
self.attribute_graph=nx.DiGraph()
self.attribute_graph.graph['node_default']={'frog':True}
self.attribute_graph.add_node('0',
label='Gephi',
url='http://gephi.org',
indegree=1,
frog=False)
self.attribute_graph.add_node('1',
label='Webatlas',
url='http://webatlas.fr',
indegree=2,
frog=False)
self.attribute_graph.add_node('2',
label='RTGI',
url='http://rtgi.fr',
indegree=1,
frog=True)
self.attribute_graph.add_node('3',
label='BarabasiLab',
url='http://barabasilab.com',
indegree=1,
frog=True)
self.attribute_graph.add_edge('0','1',id='0')
self.attribute_graph.add_edge('0','2',id='1')
self.attribute_graph.add_edge('1','0',id='2')
self.attribute_graph.add_edge('2','1',id='3')
self.attribute_graph.add_edge('0','3',id='4')
self.attribute_fh = io.BytesIO(self.attribute_data.encode('UTF-8'))
self.simple_undirected_data="""
"""
self.simple_undirected_graph=nx.Graph()
self.simple_undirected_graph.add_node('0',label='Hello')
self.simple_undirected_graph.add_node('1',label='World')
self.simple_undirected_graph.add_edge('0','1',id='0')
self.simple_undirected_fh = io.BytesIO(self.simple_undirected_data.encode('UTF-8'))
def test_read_simple_directed_graphml(self):
G=self.simple_directed_graph
H=nx.read_gexf(self.simple_directed_fh)
assert_equal(sorted(G.nodes()),sorted(H.nodes()))
assert_equal(sorted(G.edges()),sorted(H.edges()))
assert_equal(sorted(G.edges(data=True)),
sorted(H.edges(data=True)))
self.simple_directed_fh.seek(0)
def test_write_read_simple_directed_graphml(self):
G=self.simple_directed_graph
fh=io.BytesIO()
nx.write_gexf(G,fh)
fh.seek(0)
H=nx.read_gexf(fh)
assert_equal(sorted(G.nodes()),sorted(H.nodes()))
assert_equal(sorted(G.edges()),sorted(H.edges()))
assert_equal(sorted(G.edges(data=True)),
sorted(H.edges(data=True)))
self.simple_directed_fh.seek(0)
def test_read_simple_undirected_graphml(self):
G=self.simple_undirected_graph
H=nx.read_gexf(self.simple_undirected_fh)
assert_equal(sorted(G.nodes()),sorted(H.nodes()))
assert_equal(
sorted(sorted(e) for e in G.edges()),
sorted(sorted(e) for e in H.edges()))
self.simple_undirected_fh.seek(0)
def test_read_attribute_graphml(self):
G=self.attribute_graph
H=nx.read_gexf(self.attribute_fh)
assert_equal(sorted(G.nodes(True)),sorted(H.nodes(data=True)))
ge=sorted(G.edges(data=True))
he=sorted(H.edges(data=True))
for a,b in zip(ge,he):
assert_equal(a,b)
self.attribute_fh.seek(0)
def test_directed_edge_in_undirected(self):
s="""
"""
fh = io.BytesIO(s.encode('UTF-8'))
assert_raises(nx.NetworkXError,nx.read_gexf,fh)
def test_undirected_edge_in_directed(self):
s="""
"""
fh = io.BytesIO(s.encode('UTF-8'))
assert_raises(nx.NetworkXError,nx.read_gexf,fh)
def test_key_error(self):
s="""
"""
fh = io.BytesIO(s.encode('UTF-8'))
assert_raises(nx.NetworkXError,nx.read_gexf,fh)
def test_relabel(self):
s="""
"""
fh = io.BytesIO(s.encode('UTF-8'))
G=nx.read_gexf(fh,relabel=True)
assert_equal(sorted(G.nodes()),["Hello","Word"])
def test_default_attribute(self):
G=nx.Graph()
G.add_node(1,label='1',color='green')
G.add_path([0,1,2,3])
G.add_edge(1,2,foo=3)
G.graph['node_default']={'color':'yellow'}
G.graph['edge_default']={'foo':7}
fh = io.BytesIO()
nx.write_gexf(G,fh)
fh.seek(0)
H=nx.read_gexf(fh,node_type=int)
assert_equal(sorted(G.nodes()),sorted(H.nodes()))
assert_equal(
sorted(sorted(e) for e in G.edges()),
sorted(sorted(e) for e in H.edges()))
# Reading a gexf graph always sets mode attribute to either
# 'static' or 'dynamic'. Remove the mode attribute from the
# read graph for the sake of comparing remaining attributes.
del H.graph['mode']
assert_equal(G.graph,H.graph)
def test_serialize_ints_to_strings(self):
G=nx.Graph()
G.add_node(1,id=7,label=77)
fh = io.BytesIO()
nx.write_gexf(G,fh)
fh.seek(0)
H=nx.read_gexf(fh,node_type=int)
assert_equal(H.nodes(),[7])
assert_equal(H.node[7]['label'],'77')
def test_write_with_node_attributes(self):
# Addresses #673.
G = nx.path_graph(4)
for i in range(4):
G.node[i]['id'] = i
G.node[i]['label'] = i
G.node[i]['pid'] = i
expected = """
"""
obtained = '\n'.join(nx.generate_gexf(G))
assert_equal( expected, obtained )
def test_bool(self):
G=nx.Graph()
G.add_node(1, testattr=True)
fh = io.BytesIO()
nx.write_gexf(G,fh)
fh.seek(0)
H=nx.read_gexf(fh,node_type=int)
assert_equal(H.node[1]['testattr'], True)