[Dock-fans] Calcium problem with amber score

[Scott Brozell]

Hi,

> On Thu, 18 Oct 2007, Osmany Guirola wrote:
> 
> I am trying to use the amber score but i am having problems with
> the prepare_amberize.pl script...my pdb file has a Ca ion and this is the error in the log file
> 
> For atom: .R<CA 45>.A<CA 1> Could not find type: Ca
> Parameter file was not saved.
>         Quit
> 
> of course my rec*.prmtop files have 0kb size
> what can i do?

Read these:
http://blur.compbio.ucsf.edu/pipermail/dock-fans/2007-February/000896.html
http://blur.compbio.ucsf.edu/pipermail/dock-fans/2007-May/001024.html
http://blur.compbio.ucsf.edu/pipermail/dock-fans/2006-September/000723.html

Note that searching the dock fans archives at 
http://dock.compbio.ucsf.edu/DOCK_6/index.htm
is currently missing some posts due to technical issues that
we are trying to fix.

Scott