[Chimera-users] delphi

[Elaine Meng]

Hi everybody,
I'm happy to report that Chimera (version 1.4 builds Jan 8, 2009 and  
later) can now read electrostatic potential maps from the Intel Mac  
version of DelPhi provided by the Honig lab as of mid-2008:

<http://wiki.c2b2.columbia.edu/honiglab_public/index.php/ 
Software:DelPhi_System_Requirements>

The problem was that part of the potential file was written in double  
precision.  Their group may be updating that executable so that it  
does not write double precision, but either way, the newer builds of  
Chimera will be able to read the maps.

This does not solve the problem Darren was having, I assume using a  
PPC Mac rather than an Intel Mac.  The PPC Mac version of DelPhi from  
the Honig lab still requires certain library files that I don't think  
are freely available.  The Honig web site (URL above) does mention  
this issue.

Best,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html

On Dec 30, 2008, at 4:55 PM, Elaine Meng wrote:

> Hi Darren,
> Unfortunately it is an unsolved problem getting a pre-made delphi
> executable for Mac OSX that gives results that can be shown in
> Chimera.  Just to clarify for everybody, DelPhi is a program freely
> provided by another group, but without official support.
>
> I went through several weeks of trying to get an older executable from
> the Honig site to work, installing various files myself just as you
> have.  Here is the chimera-users message where I describe running up
> against this wall:
> <http://www.cgl.ucsf.edu/pipermail/chimera-users/2006-November/ 
> 001113.html
>>
>
> I reported these problems to the Honig group, and some months later
> (July 2008) they updated their Mac OSX Intel executable so it does not
> require these additional libraries.  Maybe you downloaded an
> executable before that time or have a PPC Mac rather than Intel.
> Honig group DelPhi download page:
> <http://wiki.c2b2.columbia.edu/honiglab_public/index.php/ 
> Software:DelPhi_System_Requirements
>>
>
> However, although the Intel executable runs nicely and can be
> controlled by DelPhiController, something about the map format changed
> and Chimera cannot read the result.  We were unable to get information
> from the Honig lab on how the format changed, or even reverse-engineer
> the changes given our example maps.  There is nothing else we can do -
> it is a limitation recorded in our database as problem report #6228.