Hi!
The problem is that your computer is set up to use comma for separating
decimals: PDB files use full-stop.
The issue is covered in the coot FAQ - pasted below:
I get bizarre connectivity and other weirdness on reading files
You have a non-default language. setenv LANG C (or LANG=C if you prefer)
before starting coot. This has recently been added to the setup files in
the source code (it is not in version 0.0).
The problem may also be due to LC_ALL. So, if the above doesn't work try
also:
setenv LC_ALL C
setenv LC_NUMERIC C
if using bash, one would unset LC_ALL and unset LC_NUMERIC
Willem Bleymueller wrote:
Dear Coot Users,
I have installed several versions of coot (0.3.3, 0.4.1 and 0.5) on
Ubuntu Linux Version 8.04.1 (amd64 and i386).
With each version and on each architecture the bonds are not drawn
correct.
Several bonds are not drawn at all so that there are objects that look
like stars, which correlate with beta or gamma carbons.
I've put an image of the "Complex of Drosophila odorant binding protein
LUSH with butanol"
which you can easily get with the Accession Code 1ooh
and an image of benzene on my webserver at
http://www.crossbone.org/coot/1ooh.ppm
and
http://www.crossbone.org/coot/benzene.ppm
so you can get a better impression of what I mean.
I hope someone knows how I can solve this issue
Many Thanks Willem Bleymueller
