graph-tool March 2020

graph-tool@skewed.de

15 participants
26 discussions

working with hypergraphs - node_x_edge input
by Alireza Kashani 04 Mar '20

04 Mar '20

Hi, I wonder how one can work with hyper-graphs using graph-tool. For example in my work, I would like to feed a data where rows are journals and columns are papers out-going citations. I understand such a binary matrix, can not be used as an adjacency matrix but I am curious if it is possible to work with this type of input. Otherwise, I appreciate to hear your thoughts on converting this matrix into a adjacency matrix. Br Alireza

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assigning vertex properties when adding edges
by m jadidi 04 Mar '20

04 Mar '20

Hi, I was wondering if there is any way to assign vertex properties while adding edges to the graph. for example using "add_edge_list" I can assign edge properties but later I have to iterate through all vertices again to assign their properties. I know this is not a problem when the vertex property is of the type "int" or "float" because then one can use "vprop.a = values", but in case of "string" and "object" this method doesn't work What would be the best/fastest way to handle this situation. I guess it would be very helpful to extend the "add_edge_list" function to accept vertex property in some way. cheers, -- Mohsen

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does 'extract_largest_component()' preserve vertex properties?
by sam 04 Mar '20

04 Mar '20

If I create a graph g1 and give each vertex a name, and then run g2 = extract_largest_component(g1) Are the names in g2 the same? It seems that it is the case based on testing with toy examples, but I am not sure. Thanks! -- Sent from: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/

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Compile/Install draw library file mis-linkings
by Kambiz Tavabi 02 Mar '20

02 Mar '20

I’ve managed to install graph-tool version 2.29 (commit d4154c6c) via aptitude installer on Ubuntu 18.04 in a python3 miniconda venv. The following example gist causes a 127 exit code caused by some sort of fudged up library linking to libgraph_tool_draw.so with: undefined symbol: _ZN5Cairo7Context16select_font_faceERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEENS_9FontSlantENS_10FontWeightE from graph_tool.all import * g = Graph() ug = Graph(directed=False) ug = Graph() ug.set_directed(False) assert ug.is_directed() == False v1 = g.add_vertex() v2 = g.add_vertex() graph_tool.draw.graph_draw(g, vertex_text=g.vertex_index, vertex_font_size=18, output_size=(200, 200), output="test.png”) Incidentally, when try to compile graph-tool from upstream master the make routine fails with a libtools error on reading libsigc-2.0.la in my configuration using --with-python-module-path=…/miniconda3/envs/mne/lib/python3.7/site-packages. On the verge of losing more hair than I can afford. Magic fix commands appreciated. -Kam

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Installation on MacOS
by lenarpooo 02 Mar '20

02 Mar '20

Dear Tiago, Thanks for building this wonderful package! As a novice in Python I'm struggling to install this package- My operating system is MacOS and I installed graph-tool via Homebrew. It seems the installation was successful. When compiling, the command './configure' doesn't work, could you please give the further instructions? Many thanks, Yingjie -- Sent from: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/

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Installation issue on AWS
by redBlackTree 01 Mar '20

01 Mar '20

Hi all, I wanted to install graph-tool to my AWS sagemaker notebook. I have tried all installers available on anaconda.org, but none worked... Please see one examples below: Example: conda install -n python3 -c ostrokach-forge/label/dev graph-tool Solving environment: failed PackagesNotFoundError: The following packages are not available from current channels: - graph-tool - cairomm - graph-tool - cgal=4.11 - graph-tool - sparsehash Current channels: - https://conda.anaconda.org/ostrokach-forge/label/dev/linux-64 - https://conda.anaconda.org/ostrokach-forge/label/dev/noarch - https://repo.anaconda.com/pkgs/main/linux-64 - https://repo.anaconda.com/pkgs/main/noarch - https://repo.anaconda.com/pkgs/free/linux-64 - https://repo.anaconda.com/pkgs/free/noarch - https://repo.anaconda.com/pkgs/r/linux-64 - https://repo.anaconda.com/pkgs/r/noarch - https://repo.anaconda.com/pkgs/pro/linux-64 - https://repo.anaconda.com/pkgs/pro/noarch Which channels do I need to add to solve this issue? Thank you! -- Sent from: http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/

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graph-tool March 2020