[ coot 0.6.2-pre-1 r3064 ]
in the display, when contouring a map*, e/A^3 and sigma have three sigfigs, and
it appears this is hardwired - is that right?
because i have noticed that contouring a map (e.g. 2Fo-Fc, Fo-Fc), the levels
are within the sigfigs for sigma but exceed that for e/A^3. e.g.
On 23/09/10 18:52, Lepore, Bryan wrote:
>> it seems i have applied a transformation [...] the coordinates appear
>> untranformed in the display
>
>works for me (and updates the display immediately).
>Paul.
TIL :
[1] scheme knows perfectly well what newlines (or li
[ coot 0.6.2-pre-1]
[ GNU/Linux ubuntu 10.04.1 ]
it seems i have applied a transformation (perhaps an ncs operation) to an imol,
using transform-coords-molecule.
( scheme is here : http://www.biop.ox.ac.uk/coot/doc/coot/coot_002dutils.html )
the coordinates appear untranf
if surface normals of a dn6/brix map are zero in some places, is there a
specific reason it would look OK as a solid mesh in coot in ccp4 format?
i used some USF programs to write out a ccp4 map that looks like a nice closed
tube in coot. its dn6 or brix counterparts (which i admit are not for
trying to see if (toggle-idle-function) will do Draw->Spin View. didn't find it
in the scheme manual (June, 21 2009 ).
this should be able to do in scheme, yeah?
-bryan
> Well, there is Draw -> Spin View On/Off.
perfect!
... i was looking in Extensions->Views ...
-bryan
was wondering how to get a view that loops, i.e. starts over.
i.e. something like in vmd where you flick it and it spins indefinitely.
-bryan
Paul Emsley wrote :
> (define my-range (model-molecule-list)) ;; just an example, (range 1 5)
> (map graphics-to-ca-representation my-range)
cool. very.
-bryan
by the way, is there a ^e (C-e) equivalent in scheme?
i.e. where does scheme get its key bindings from?
-bryan
> > (graphics-to-ca-plus-ligands-representation range )
> >
> Sorry, Coot is just not built to do this sort of thing.
FWIW,
(graphics-to-ca-plus-ligands-representation 0 )
(graphics-to-ca-plus-ligands-representation 1 )
(graphics-to-ca-plus-ligands-representation . )
(graphics-to-ca-plus-ligand
i'd like to do this :
(graphics-to-ca-plus-ligands-representation range )
some things i tried, with error output, are
range=0-20, (unbound-variable)
range=* (expecting exact integer) <-means no range possible?
where can i read about the syntax because it seems not the same as for
(multi-read
> At the end of June (this year) I saw and (hopefully) fixed a sequence view
> problem.
i thought so too...
> That was rev 3016.
Bryan wrote :
[ coot 0.6.2-pre1 (miramar) via "sbgrid" ]
>rage< the revision... 2983...
on the plus side, this is what is meant by "free software" :^)
thank you!
[ coot 0.6.2-pre1 (miramar) via "sbgrid" ]
[ lucid lynx ]
[ nvidia etc. ]
Draw->Sequence View
is "stuck" somewhere near residue 25 unless i open the sequence window all the
way.
i can't tell what i'm doing wrong here - if i trim the .pdb down, sure it'll
fit, but ...
-bryan
[ 2nd of two emails in thread - see penultimate ]
aha - using the command line argument '--pdb filename.pdb' is correlated with
my aforementioned confusion.
i.e. launching coot without CLA's indeed respects the user preferences and i
see the expected bond with numbers and graphics.
so is this
[ coot 0.6.2-pre-1 2983 miramar via "sbgrid" ]
[ lucid lynx ]
i think i am either not setting preferences correctly, or not setting
bond-width (thickness) correctly.
i used various combinations of :
* Edit->Preferences:Bond Parameters:Molecule Bond Width [ OK ]
* adjusted Edit->Bond Parameters:
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