Oh, now I understand. I really appreciate your help. Igraph is great software. I am enjoying using it and it helps me and lot of scholars to figure out complex data structures.
Thank you! 2014-02-12 1:01 GMT+09:00 Gábor Csárdi <[email protected]>: > On Tue, Feb 11, 2014 at 10:56 AM, HIGUCHI Koichi <[email protected]> > wrote: >> >> Hi, thank you very much for your reply! >> >> I use "start" option in "layout.fruchterman.reingold()" command in the >> test code to avoid random start. So "set.seed()" does not have any >> effect on the results, does it? > > > The algorithm is randomized, in the sense that tiny random displacement > values might be added to the coordinates in each iteration. So you need to > set the seed to get the same result, although if your graph is not too > dense, then you might get away without randomization. > >> I guess the algorism has been improved and I need to use old version >> to get the same result. Maybe I can run secondary R instance with >> older Igraph to do layout, or just move to the improved layout >> function. > > > You can install another version of the same package into a different R > library directory, you just cannot load them at the same time. > > Gabor > >> >> Thanks again. >> Best regards. >> >> 2014-02-12 0:39 GMT+09:00 Gábor Csárdi <[email protected]>: >> > Hi, you also need to specify the random seed via set.seed. >> > >> > That said, you still might get different layouts with different igraph >> > versions, because we are trying to improve the algorithms. If setting >> > the >> > seed does not work, then you can generate the layout in the old version, >> > save the coordinates and then use them with the new version. >> > >> > Unfortunately R does not really support using different versions of the >> > same >> > package at the same time. >> > >> > Best, >> > Gabor >> > >> > >> > On Tue, Feb 11, 2014 at 10:35 AM, HIGUCHI Koichi >> > <[email protected]> >> > wrote: >> >> >> >> Does anybody have any ideas? >> >> >> >> Thanks. >> >> >> >> 2013-08-29 15:32 GMT+09:00 HIGUCHI Koichi <[email protected]>: >> >> > Hello. >> >> > >> >> > I am using igraph R package and moving from igraph 0.5.5 to 0.6.5. >> >> > >> >> > But I found that I can't get the same result from >> >> > layout.fruchterman.reingold function of 0.6.5 even if I specified the >> >> > same network object and the same starting positions. The output >> >> > layouts are different between 0.5.5 and 0.6.5. >> >> > >> >> > Is there any way to reproduce the same result as 0.5.5 using 0.6.5?? >> >> > >> >> > Here is my test code: >> >> > http://koichi.nihon.to/psnl/tmp/net_test.r >> >> > >> >> > igraph 0.5.5 result: >> >> > http://koichi.nihon.to/psnl/tmp/055.png >> >> > >> >> > igraph 0.6.5 result: >> >> > http://koichi.nihon.to/psnl/tmp/065.png >> >> > >> >> > New layout is not bad at all, but I would like to have the same >> >> > results when I input the same data. >> >> > >> >> > Thank you! And sorry for my poor English. >> >> > >> >> > BTW, I am developing a content analysis (text data mining) software >> >> > using the igraph package. Igraph package is really useful and nice >> >> > software! Thank you very much for the effort! >> >> > http://khc.sourceforge.net/en/gallery/ >> >> > >> >> > Koichi, Higuchi >> >> >> >> _______________________________________________ >> >> igraph-help mailing list >> >> [email protected] >> >> https://lists.nongnu.org/mailman/listinfo/igraph-help >> > >> > >> > >> > _______________________________________________ >> > igraph-help mailing list >> > [email protected] >> > https://lists.nongnu.org/mailman/listinfo/igraph-help >> >> _______________________________________________ >> igraph-help mailing list >> [email protected] >> https://lists.nongnu.org/mailman/listinfo/igraph-help > > > > _______________________________________________ > igraph-help mailing list > [email protected] > https://lists.nongnu.org/mailman/listinfo/igraph-help > -- 立命館大学 産業社会学部 准教授 樋口 耕一 〒603-8577 京都市北区等持院北町56-1 Tel: 075-466-3081 E-Mail: [email protected] Web: http://koichi.nihon.to/psnl _______________________________________________ igraph-help mailing list [email protected] https://lists.nongnu.org/mailman/listinfo/igraph-help
