[Chimera-users] command line

Dieter Blaas dieter.blaas at meduniwien.ac.at
Mon Feb 9 09:47:15 PST 2015

Hi Elaine,
    thanks a lot! I believe that it was the final value that confused me 
as the GUI sets it automatically to the middle of the volume! In the 
command line it must be given explicitly.
Best, Dieter

Dieter Blaas,
Max F. Perutz Laboratories
Medical University of Vienna,
Inst. Med. Biochem., Vienna Biocenter (VBC),
Dr. Bohr Gasse 9/3,
A-1030 Vienna, Austria,
Tel: 0043 1 4277 61630,
Fax: 0043 1 4277 9616,
e-mail: dieter.blaas at meduniwien.ac.at

Am 09.02.2015 um 17:32 schrieb Elaine Meng:
> Hi Dieter,
> No worries, it can be hard to find the information sometimes! There is another mandatory argument following the axis, the index of the plane to show.
> Usage of the option is given here:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/volume.html#planes>
> planes axis,start[,end[,increment[,depth]]]
> … where "start" is the index of the plane to show, could be an integer or real number.  The brackets indicate optional arguments, but start isn't optional. Thus, your command could be something like:
> volume all planes z,10
> (no space after the comma)  If you want to show planes of different indices for the different volumes, you would need to use a separate command for each with the actual model number instead of "all".  I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> On Feb 9, 2015, at 3:49 AM, Dieter Blaas <dieter.blaas at meduniwien.ac.at> wrote:
>> Hi,
>>    sorry for asking again an old question but I lost the solution:
>> how do I show single solid planes of several volumes?
>> I tried: 'vol all style solid plane one axis z' and many combinations thereof but it always tells me:
>> 'volume invalid planes argument "one": Value must be one of x,y,z, got "one"
>> when I try ' vol all style solid plane z' it tells me:
>> 'volume invalid planes argument "z"' and so on....
>> Thanks a lot for your patience, best, Dieter

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