[gmx-users] segmentation fault with grompp

[Justin A. Lemkul]

Gard Nelson wrote:
> Hi all,
> I'm trying to simulate a solvated membrane using Berger's lipids.  When 
> I run grompp, i get the following error:
> 
> checking input for internal consistency...
> processing topology...
> Opening library file ...lipid.itp
> Opening library file ...nb_lipid.itp
> Opening library file ...bon_lipid.itp
> Opening library file ...ff_dum.itp
> Segmentation fault (core dumped)
> 
> I've tried this on two different machines with two different ff_dum.itp 
> files with the same results. Moreover, I've never touched the ff_dum.itp 
> file.  I have modified the other forcefield files, both to include 
> Berger's lipids as well as other non-standard residues.  It runs fine 
> with solvated proteins, but this is the first time I've run a system 
> with the membrane, so i'm guessing the error is coming from there.  I've 
> looked through my files and cant find any errors.  Does anyone have any 
> ideas of what might be causing this?
> 

Lots of things.  But to get better help, you'll have to provide some more 
information:

1. Gromacs version
2. Platform
3. How Gromacs was compiled (commands, compilers used, etc)

-Justin

> Thanks
> Gard Nelson
> 

-- 
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Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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