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Re: [PyMOL] draw sticks between given coordinates
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From: Takanori N. <tna...@os...> - 2024-02-07 11:09:39
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Hi, Probably you need to explicitly define bonds. Relevant pages are: https://pymolwiki.org/index.php/Bond https://pymolwiki.org/index.php/Unbond https://pymolwiki.org/index.php/Sticks If these points are not atoms, you can use CGOs instead: https://pymolwiki.org/index.php/CGO_Shapes Best regards, Takanori Nakane On 2/7/24 19:25, Daniele Notarmuzi wrote: > Hello! > > I am trying to draw sticks given a set of coordinates and sometimes I > succeed, sometimes I do not. In my silly mind, what I would like to do > is to give two set of 3D coordinates and have a stick drawn between > them. For example, given the set of coordinates > > 0.0 0.0 0.0 # coord 1 start > 1.0 0.0 0.0 # coord 1 end > 0.0 0.0 0.0 # coord 2 start > 0.0 1.0 0.0 # coord 2 end > 1.0 0.0 0.0 # coord 3 start > 0.0 1.0 0.0 # coord 3 end > > I would like to obtain a triangle. This actually happens. However, if I > replace all the 1.0 with 2.0, I only get the two short sides of the > triangle and if I replace the 1.0 with 3.0 I get nothing. > > I deduce that there is a certain distance below which a stick is drawn > (?). I do not see how to make this criterion work for my problem, given > that there could be coordinates that are very close but do not need to > be connected and coordinates that are very far and that do need to be > connected. > > So my question is: how to draw sticks between points, given the "head" > and the "tail" coordinates of each stick I want to draw? > > Thank you in advance. > > PS: sorry if the question is silly, I have looked around and found > nothing... > > > > _______________________________________________ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pym...@li... > Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe |
