[Dock-fans] Error while running sphgen

Terry Lang terry at cgl.ucsf.edu
Thu May 11 11:35:00 PDT 2006


Dear Senthil,

          This problem usually occurs when there is something in the pdb 
file that sphgen cannot recognize.  Try checking for TER statements and 
HETATM labels.

Sincerely,
Terry


Senthil Kumar wrote:

>Dear all,
>
>I am repeatedly coming across the same error while running sphgen in DOCK.
>
>verbal output during dms run:
>
>4671 atoms
>        S       24
>        O       852
>        N       799
>        C       2996
>Servers initialized
>Neighbors computed
>Probes computed
>Neighbors sent
>Surface computed
>Server request count:
>        localhost       180260
>126879 points   (35381 contact, 91498 reentrant)
>23490.35 sq. A  (6899.75 contact, 16590.60 reentrant)
>5.40 pts/sq.A   (5.13 contact, 5.52 reentrant)
>
>my INSPH file is as follows:
>
>rec.ms
>R
>X
>0.0
>4.0
>1.4
>rec.sph
>
>and I ran with sphgen
>
># ../../bin/sphgen
>fmt: read unexpected character
>apparent state: unit 2 named temp2.sph
>last format: (2I5,F8.4,I8,4F12.6)
>lately reading sequential formatted external IO
>Aborted
>
>can anyone pls throw some light on this error message!!!
>
>thanks in advance.
>
>
>Senthil Kumar Natesan,
>M.Tech(IT), Final sem.,
>specialization in Bioinformatics,
>Indian Institute of Information Technology,
>Allahabad, India 211012.
>
>
>_______________________________________________
>Dock-fans mailing list
>Dock-fans at docking.org
>http://blur.compbio.ucsf.edu/mailman/listinfo/dock-fans
>  
>

-- 
P. Therese Lang
Kuntz and James Labs
UCSF--Chemistry and Chemical Biology
Phone: (415)476-3986

 





More information about the Dock-fans mailing list