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I have tried many times to install to Mac but always comes with missing moduls. Can anybody help me? Regards. Kemal |
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Hello Kemal I don't have a mac myself, but i did find this tutorial on it that seems good. If you have not tried it already, i'd give it a shot if i were you. http://zientzilaria.heroku.com/blog/2012/06/03/installing-circos-on-os-x Regards, Martin Hi Martin, Thank you very much for the quick answer.. it was very useful but I had a problem in last step ''Installing GD in Perl''. I got this error: UNRECOVERABLE ERROR Could not find gdlib-config in the search path. Please install libgd 2.0.28 or higher. If you want to try to compile anyway, please rerun this script with the option --ignore_missing_gd. Seems the gdlib-config is not on the path.. I saw some other people had same problem but really didnt understand how to fix it since I am not familiar at all with it. Any suggestions? Kemal
(23 Sep '12, 00:52)
kavican
This is very hard to help with from a distance, but I will give it a shot. Do you know where gdlib-config is on your computer? Do you see that location if you type "echo $PATH"? If not, you need to add that location to your path using "export PATH=$PATH:/folder/where/gdlib-config/is/installed If you cannot find gdlib-config anywhere on your computer, then GD is not installed correctly and you need to retry that.
(24 Sep '12, 11:02)
HenrikLantz ♦
I finally installed :) The problem was that pierrejoye-gd-libgd-5551f61978e3 and GD-2.46 had gdlib-config files. So, I uninstalled the one pierrejoye-gd-libgd-5551f61978e3 and it worked. But I got a Perl_gthr_key_pr error, that I solved by uptading Params::Validate with CPAN Thank you very much for your help :) Kemal
(24 Sep '12, 17:47)
kavican
Hi Kemal! Glad to hear that Circos is now working properly on your Mac! Dag
(24 Sep '12, 21:26)
DagAhren ♦
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Hi Kemal, I did an installation of Circos on my iMAC running snowleopard according to the instructions by zientzilaria and it worked out fine. You need the GD to work properly, so --ignore_missing_gd would probably not work out anyway. I searched for the file (actually a script) called gdlib-config and it should be located in the directory pierrejoye-gd-libgd-5551f61978e3/src/config/ Check if it is there. Otherwise download the gd-libd again and follow the installation instructions: curl -O https://bitbucket.org/pierrejoye/gd-libgd/get/GD_2_0_33.tar.gz Good luck! Dag |
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Just to add to this thread, I have also installed circos on my mac using: http://zientzilaria.heroku.com/blog/2012/06/03/installing-circos-on-os-x and experimented a bit with different options for karyotype and config files. So, please, do let me know if you could do with any assistance with later stages of analysis, and using circos to generate figures! kind regards, Lukasz ps. You might also be interested in ggbio (an R package for extending the grammar of graphics for genomic data) |
