Thanks,
But this is my first real simulation, So I'll appreciate it if you can tell
me how to determine the number of ions to add with genion.
Thanks
John
From: Alan Dodd <[EMAIL PROTECTED]>
Reply-To: Discussion list for GROMACS users <[email protected]>
To: Discussion list for GROMACS users <[email protected]>
Subject: Re: [gmx-users] Coordinate file does not match topology
Date: Thu, 7 Jun 2007 23:26:01 -0700 (PDT)
Small errors like that are usually down to things like running genion and
not changing the .top. I think I made a problem for myself once with
non-consecutive atom numbering, too.
----- Original Message ----
From: Mark Abraham <[EMAIL PROTECTED]>
To: Discussion list for GROMACS users <[email protected]>
Sent: Friday, June 8, 2007 3:48:28 AM
Subject: Re: [gmx-users] Coordinate file does not match topology
Sheyore Omovie wrote:
> Dear gromacs users,
> While trying to preprocess my files with grompp, i got the ff error
> message:
> "Number of coordinates in coordinate file (b4em.gro, 2312) does not
> match topology (twopolypeptide.top, 2291)"
> How can I fix this?
Make them match. Assuming you haven't managed a gross mismatch of files,
your [molecules] section of your .top probably isn't right. Chapter five
of the manual is your friend here.
Mark
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