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Re: [igraph] infomap unresponsive? on large graph in R env

From: Peter Smits
Subject: Re: [igraph] infomap unresponsive? on large graph in R env
Date: Mon, 12 May 2014 11:17:08 -0500


Something you might consider is using the Map Equation software provided by the developers. http://mapequation.org/code.html

I've found it is very very fast, allowing for multiple processors. You just need the graph in question in pajek format, which igraph can export. After this, you can bring the results back into R. It could be automated easily with some shell scripting.



On Mon, May 12, 2014 at 6:42 AM, Alexander Struck <address@hidden> wrote:

has anyone any info on a memory limit of igraph which I may have missed in the documentation?
I'd really like to use igraph's implementation of InfoMap but run into the problem described below.


On May 6, 2014, at 11:21 AM, Alexander Struck <address@hidden> wrote:

> Dear all,
> while InfoMap runs smoothly on small graphs it appears to become unresponsive on larger ones. My .RObj has the size of 28 MB and igraph reports:
>> G
> IGRAPH DN-- 1282336 2507034 --
> + attr: name (v/c)
> The R v3.0.2 process now runs 14+ hours on one core out of 16, Ubuntu 12.04 uses 16 of the available 72 GB RAM.  The latest igraph library version is installed.
> Should I be more patient? What are my options here? I could make the .RObj available on request.
> Many thanks and best regards,
> Alexander
> _______________________________________________
> igraph-help mailing list
> address@hidden
> https://lists.nongnu.org/mailman/listinfo/igraph-help

Image Knowledge Gestaltung. An Interdisciplinary Laboratory
Cluster of Excellence Humboldt-Universität zu Berlin

Alexander Struck
Shaping Knowledge

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Peter D Smits
Grad student
Committee on Evolutionary Biology
University of Chicago

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