Encounter error when setting vertex_size = deg when drawing the largest component
Dear graph-tool owner and subscribers, I would like to draw the largest component of a directed graph g, where the vertex size = the out degree. Here's my code: g = load_graph(inFile) g=GraphView(g,vfilt=label_largest_component(g, directed=False)) g.purge_vertices() deg =g.degree_property_map("out") deg.a = (sqrt(deg.a) * 0.5 + 0.4)+1 graph_draw(g, vertex_size=deg,output="test1.pdf") But I keep getting the following error whenever I try to draw it: Traceback (most recent call last): File "/Users/enigmaFish/PycharmProjects/project/paint.py", line 49, in <module> graph_draw(g, vertex_size=deg,output="test1.pdf") File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1138, in graph_draw pad, cr) File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1312, in fit_to_view font_size, cr) File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1285, in get_bb x_delta = [x_range[0] - (pos_x.fa - delta).min(), ValueError: operands could not be broadcast together with shapes (47579,) (10438,) Note that g is <Graph object, directed, with 47579 vertices and 38781 edges at 0x1292a15d0> Upon filtering, it becomes <GraphView object, directed, with 10438 vertices and 12388 edges, edges filtered by (<PropertyMap object with key type 'Edge' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf5d0>, False), vertices filtered by (<PropertyMap object with key type 'Vertex' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf110>, False) at 0x1292bcd10> Thank you very much for your help!
On 07.08.2016 07:08, Enigma Fish wrote:
Dear graph-tool owner and subscribers,
I would like to draw the largest component of a directed graph g, where the vertex size = the out degree. Here's my code: g = load_graph(inFile) g=GraphView(g,vfilt=label_largest_component(g, directed=False)) g.purge_vertices() deg =g.degree_property_map("out") deg.a = (sqrt(deg.a) * 0.5 + 0.4)+1 graph_draw(g, vertex_size=deg,output="test1.pdf")
But I keep getting the following error whenever I try to draw it: Traceback (most recent call last): File "/Users/enigmaFish/PycharmProjects/project/paint.py", line 49, in <module> graph_draw(g, vertex_size=deg,output="test1.pdf") File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1138, in graph_draw pad, cr) File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1312, in fit_to_view font_size, cr) File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1285, in get_bb x_delta = [x_range[0] - (pos_x.fa - delta).min(), ValueError: operands could not be broadcast together with shapes (47579,) (10438,)
Note that g is <Graph object, directed, with 47579 vertices and 38781 edges at 0x1292a15d0> Upon filtering, it becomes <GraphView object, directed, with 10438 vertices and 12388 edges, edges filtered by (<PropertyMap object with key type 'Edge' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf5d0>, False), vertices filtered by (<PropertyMap object with key type 'Vertex' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf110>, False) at 0x1292bcd10>
This is a bug. I will fix it soon. In the meantime, a simple workaround is to replace g.purge_vertices() with g = Graph(g, prune=True) Best, Tiago -- Tiago de Paula Peixoto <tiago@skewed.de>
Thanks a lot for your help, Tiego! On Mon, Aug 8, 2016 at 3:46 AM, Tiago de Paula Peixoto <tiago@skewed.de> wrote:
On 07.08.2016 07:08, Enigma Fish wrote:
Dear graph-tool owner and subscribers,
I would like to draw the largest component of a directed graph g, where the vertex size = the out degree. Here's my code: g = load_graph(inFile) g=GraphView(g,vfilt=label_largest_component(g, directed=False)) g.purge_vertices() deg =g.degree_property_map("out") deg.a = (sqrt(deg.a) * 0.5 + 0.4)+1 graph_draw(g, vertex_size=deg,output="test1.pdf")
But I keep getting the following error whenever I try to draw it: Traceback (most recent call last): File "/Users/enigmaFish/PycharmProjects/project/paint.py", line 49, in <module> graph_draw(g, vertex_size=deg,output="test1.pdf") File "/opt/local/Library/Frameworks/Python.framework/ Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1138, in graph_draw pad, cr) File "/opt/local/Library/Frameworks/Python.framework/ Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1312, in fit_to_view font_size, cr) File "/opt/local/Library/Frameworks/Python.framework/ Versions/2.7/lib/python2.7/site-packages/graph_tool/draw/cairo_draw.py", line 1285, in get_bb x_delta = [x_range[0] - (pos_x.fa - delta).min(), ValueError: operands could not be broadcast together with shapes (47579,) (10438,)
Note that g is <Graph object, directed, with 47579 vertices and 38781 edges at 0x1292a15d0> Upon filtering, it becomes <GraphView object, directed, with 10438 vertices and 12388 edges, edges filtered by (<PropertyMap object with key type 'Edge' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf5d0>, False), vertices filtered by (<PropertyMap object with key type 'Vertex' and value type 'bool', for Graph 0x1292bcd10, at 0x1292cf110>, False) at 0x1292bcd10>
This is a bug. I will fix it soon.
In the meantime, a simple workaround is to replace
g.purge_vertices()
with
g = Graph(g, prune=True)
Best, Tiago
-- Tiago de Paula Peixoto <tiago@skewed.de>
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Enigma Fish -
Tiago de Paula Peixoto