Comments for sune lehmann

Comment on Pervasive Overlap by Sune Lehmann

Sune Lehmann — Tue, 22 Nov 2011 07:35:55 +0000

The line “python link_clustering.py -h” should work in the command prompt of windows – I haven’t really used IDLE so not sure how you run scripts from there.

Before running the command, you can check if python works on your system by typing “python” at the command prompt. If that starts python you should be all set. Otherwise, you probably have to add python to the path.

Hope this helps,
Sune

Comment on Pervasive Overlap by Alexander Semenov

Alexander Semenov — Tue, 22 Nov 2011 05:38:44 +0000

I made it space separated myself.

Does this command work in Windows: “python link_clustering.py -h”? I couldn’t run it.

Thanks for the links.

Comment on Pervasive Overlap by Sune Lehmann

Sune Lehmann — Mon, 21 Nov 2011 17:19:55 +0000

Hmm. First of all, I don’t think csv usually separates values by space (since the filename literally means “comma separated values”), so be aware of that.

If you type “python link_clustering.py -h” at the prompt you’ll see a helpstring help get you started with the options.

Also, if you’re a total newbie at Python, you may want to check out Alex Kalinka’s implementation in R

http://cran.r-project.org/web/packages/linkcomm/index.html
http://bioinformatics.oxfordjournals.org/content/early/2011/05/19/bioinformatics.btr311.abstract

as it offers a lot of functionality that’s not present in our Python version.

Cheers,
Sune

Comment on Pervasive Overlap by Alexander Semenov

Alexander Semenov — Mon, 21 Nov 2011 11:04:45 +0000

It is space separated list of edges in *.csv format

I’m a newbie in Python, so I simply put the script into the same directory with the edgelist, opened it in Python 2.7.2 IDLE and replaced “filename” in the code with edles.csv (the name of my data file). Then I tried to execute it.

Comment on Pervasive Overlap by Sune Lehmann

Sune Lehmann — Mon, 21 Nov 2011 10:54:24 +0000

Looks like you’re using the wrong number of arguments.

What does your data file look like and what precisely which command are you using to execute the script?

Cheers,
Sune

Comment on Pervasive Overlap by Alexander Semenov

Alexander Semenov — Mon, 21 Nov 2011 10:34:04 +0000

Hello!
I’ve been trying to use your clustering algorithm in Python 2.7.2 and receive the following error:
Usage: python link_clustering_test.py [options] edges_space

link_clustering_test.py: error: incorrect number of arguments

Traceback (most recent call last):
File “C:\Users\alexandrsemenov\Documents\Data\Python\link_clustering_test.py”, line 179, in
parser.error(“incorrect number of arguments”)
File “C:\Program Files\Python2\lib\optparse.py”, line 1583, in error
self.exit(2, “%s: error: %s\n” % (self.get_prog_name(), msg))
File “C:\Program Files\Python2\lib\optparse.py”, line 1573, in exit
sys.exit(status)
SystemExit: 2

How can I fix it?

Comment on NetSci 2013: Venue and Dates by Anneli Karniala

Anneli Karniala — Sat, 29 Oct 2011 00:11:49 +0000

Sune –
Did I already tell you this is rather amazing and totally fascinating? ‘Tis!!

Comment on NetSci 2013: Venue and Dates by Anneli Karniala

Anneli Karniala — Sat, 29 Oct 2011 00:07:32 +0000

Sune,
I have just checked out your entire website. Rather amazing and totally fascinating! Yes — and indeed!!

Comment on An animation by Annamaria Talas

Annamaria Talas — Thu, 13 Oct 2011 12:33:41 +0000

Hi Sune – this is Annamaria – director of the film on network science. I wonder if anyone compared the social network structure of guilds/raiding parties in World of Warcraft and that of ancient tribes as the Hadza in Tanzania.

If you have any suggestion, please contact me at
talasannamaria@gmail.com

Hope all is well!

Comment on Whitman by Feynman on Beauty … again | sune lehmann

Feynman on Beauty … again | sune lehmann — Thu, 06 Oct 2011 13:14:42 +0000

[...] while ago I wrote about beauty in Nature (seen from the perspective of a physicist and posted a video with Richard Feynman’s [...]