graph-tool June 2014

graph-tool@skewed.de

11 participants
26 discussions

fit_to_window
by srichmo1 23 Jun '14

23 Jun '14

I'm using graphviz() to create a dot layout and GraphWindow() to create a widget in a window of said graph. When I view the graph all the vertices are overlapping and you can differentiate between them unless you zoom all the way in and use 'shift' to keep the vertices the same size and zoom back out. I've tried using fit_to_window, but every time I do it throws an AttributeError on line 568 of gtk_draw.py cr = self.get_window().cairo_create() AttributeError: 'NoneType' object has no attribute 'cairo_create' I create the window as self.win = GraphWindow(etc) so I pass the graph as self.win.graph.fit_to_window(ink=True, g=None) What exactly should I do to make the graph widget fit into the window without the vertices overlapping? -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com… Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.

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How to set the precision of clustering
by Shubham Bhushan 23 Jun '14

23 Jun '14

Hi i am trying to get global and local clustering of price network with 10k nodes but I am consistently getting 0.0 for both. How do I remedy that? -- http://about.me/shubham.bhushan

2 1

help with TypeError
by Shubham Bhushan 23 Jun '14

23 Jun '14

I am running this code def between(g): import distribution as di reload(di) btween = betweenness(g) v_btween = btween[0].get_array() e_btween = btween[1].get_array() v_dist = di.distribution(v_btween) e_dist = di.distribution(e_btween) print e_dist def distribution(inlist): import numpy as np x = np.array(inlist) c = np.bincount(x) y = np.nonzero(c)[0] value = y count = c[y] li = [value,count] return li and I am getting this error TypeError: Cannot cast array data from dtype('float64') to dtype('int64') according to the rule 'safe' i tried dtype =np.int64 but then the values are getting rounded to 0 please help. ASAP -- http://about.me/shubham.bhushan

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building the documentation locally with sphinx
by Elliot Hallmark 20 Jun '14

20 Jun '14

Hi, I'd like to get the graph-tool documentation locally. After compiling, I did this: $ cd /usr/local/share/doc/graph-tool/doc $ sphinx-build -b html ./ $DOCSPATH/graph-tool Running Sphinx v1.2.2 > loading pickled environment... not yet created > No builder selected, using default: html > loading intersphinx inventory from http://docs.python.org/objects.inv... > loading intersphinx inventory from > http://www.cairographics.org/documentation/pycairo/3/objects.inv... > loading intersphinx inventory from > http://matplotlib.sourceforge.net/objects.inv... > loading intersphinx inventory from > http://docs.scipy.org/doc/scipy/reference/objects.inv... > loading intersphinx inventory from > http://ipython.org/ipython-doc/stable/objects.inv... > loading intersphinx inventory from > http://docs.scipy.org/doc/numpy/objects.inv... > loading intersphinx inventory from > http://pandas.pydata.org/pandas-docs/stable/objects.inv... > building [html]: targets for 17 source files that are out of date > updating environment: 17 added, 0 changed, 0 removed > reading sources... [ 17%] > community > Encoding error: > 'ascii' codec can't encode character u'\xe9' in position 753: ordinal not > in range(128) > How do I acquire an offline version of the docs? Thanks.

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Offline Doc
by Shubham Bhushan 19 Jun '14

19 Jun '14

Is there any way I can get the entire documentation offline? -- http://about.me/shubham.bhushan

2 1

help with accessing property maps
by Shubham Bhushan 19 Jun '14

19 Jun '14

Can someone please help me as to how to access the property maps as an array. i want to plot the degree distribution, betweeness and other centrality measures. so please explicitly tell me how do I access the data. Thanks Shubham -- http://about.me/shubham.bhushan

2 1

Error with clustering
by Shubham Bhushan 18 Jun '14

18 Jun '14

Hi I was trying to calculate the clustering coefficients both local and global for a Price network (Nodes =100000) but instead of returning a value it just gives me zeroes for both local and global. What's wrong? SB -- http://about.me/shubham.bhushan

2 1

Drawing weight values on edges (newbie)
by jean-patrick 17 Jun '14

17 Jun '14

Hi, Following this example <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com…> , I try to draw the weight values on a graph as follow: import graph_tool.all as gt import numpy as np mG = gt.Graph(directed = False) #Defining properties edgeP_image = mG.new_edge_property("object") edgeP_weight = mG.new_edge_property("double") vertexP_image= mG.new_edge_property("object") mG.edge_properties["image"] = edgeP_image mG.edge_properties["weight"] = edgeP_weight #Building a multigraphgraph v1 = mG.add_vertex() v2 = mG.add_vertex() v3 = mG.add_vertex() mG.add_edge(v1,v1) mG.add_edge(v1,v2) mG.add_edge(v1,v2) mG.add_edge(v2,v3) mG.add_edge(v1,v3) print mG.list_properties() # How to set the edge weight? e1 = mG.edge(v1,v2) print e1.target() edgeP_weight[e1]=5 np.random.seed(42) for e in mG.edges(): edgeP_weight[e]=np.random.randint(1,20) print e gt.graph_draw(mG, eprops={"len": edgeP_weight}, output_size=(260, 260)) And this code produces the following graph: <http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com…> I tried different variations without success: {"double": edgeP_weight} {"weight": edgeP_weight} Best regards Jean-Patrick -- View this message in context: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com… Sent from the Main discussion list for the graph-tool project mailing list archive at Nabble.com.

2 2

Degree_Distribution
by Shubham Bhushan 17 Jun '14

17 Jun '14

Hi How do I efficiently plot the normalized degree distribution for a graph. Thanks SB -- http://about.me/shubham.bhushan

2 1

degree_property_map
by Shubham Bhushan 17 Jun '14

17 Jun '14

How do you define the deg type? -- http://about.me/shubham.bhushan

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graph-tool June 2014