From: BIN ZHANG (zhngbn_at_gmail.com)
Date: Wed Apr 22 2009 - 14:53:11 CDT

Hi, Rogan:

Thanks for your suggestion. I guess I never know you can draw the
arrows on the fly. Cool.

Bin

On Apr 22, 2009, at 9:29 AM, Rogan Carr wrote:

> Hi Bin,
>
> If you just need to visualize the restraints, why don't you use
> 'draw' commands? Check out the Images and Movies tutorial for
> drawing arrows and such on the fly.
>
> http://www.ks.uiuc.edu/Training/Tutorials/vmd-ref/imgmv/tutorial-html/index.html
>
> Rogan
>
> On Apr 21, 2009, at 11:48 PM, zhngbn_at_gmail.com wrote:
>
>> Hi, John:
>>
>> Thanks a lot for your comment.
>>
>> I'm actually trying to visualize some of the harmonic restraints
>> applied for a particular atom.
>>
>> Thank,
>> Bin
>>
>>
>> On Apr 21, 2009 9:44pm, John Stone <johns_at_ks.uiuc.edu> wrote:
>> >
>> >
>> > Hi,
>> >
>> > For performance and memory consumption reasons, VMD uses a
>> >
>> > fixed-sized bond list for each atom. The standard VMD builds
>> >
>> > limit the maximum number of bonds for a single atom to 12.
>> >
>> > If you have a genuine need to define more than 12 bonds for a
>> >
>> > single atom, VMD can be built to allow a larger maximum
>> >
>> > value, by editing the definition of the MAXATOMBONDS macro
>> >
>> > at the top of Atom.h and recompiling the source code.
>> >
>> >
>> >
>> > What kind of structure are you working with such that you need
>> >
>> > so many bonds?
>> >
>> >
>> >
>> > Cheers,
>> >
>> > John Stone
>> >
>> > vmd_at_ks.uiuc.edu
>> >
>> >
>> >
>> > On Tue, Apr 21, 2009 at 09:01:35PM -0700, BIN ZHANG wrote:
>> >
>> > > Dear All:
>> >
>> > >
>> >
>> > > While I was using the "setbonds" command in VMD, I got the
>> following
>> >
>> > > error:
>> >
>> > >
>> >
>> > > atomsel: setbonds: too many bonds in bondlist: 402 404 406 468
>> 284 418
>> >
>> > > 414 416 227 420 470 411 409
>> >
>> > > Maximum of 12 bonds
>> >
>> > >
>> >
>> > > I wonder why would this be necessary? Is there anyway to turn
>> it off?
>> >
>> > >
>> >
>> > > Thanks,
>> >
>> > > Bin
>> >
>> > >
>> >
>> >
>> >
>> > --
>> >
>> > NIH Resource for Macromolecular Modeling and Bioinformatics
>> >
>> > Beckman Institute for Advanced Science and Technology
>> >
>> > University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
>> >
>> > Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
>> >
>> > WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
>> >
>