[gmx-users] pdb2gmx input file error

Acoot Brett acootbrett at yahoo.com
Thu Mar 22 08:15:52 CET 2012

Dear All,
The problem has been solved.
When I cp the pdb file from another folder to the gromacs running folder, I find the pdb file in the gromacs running folder was not permitted to open, even by "vi"..
Then in the normal Windows system I copy the pdb file in its original folder and paste it into the gromacs running folder, in cygwin gromcas the pab can be read (or can be open by vi).
But there is still ununderstandable why by cp the pdb file is not permitted to open.

 From: Tsjerk Wassenaar <tsjerkw at gmail.com>
To: Acoot Brett <acootbrett at yahoo.com>; Discussion list for GROMACS users <gmx-users at gromacs.org> 
Sent: Thursday, 22 March 2012 4:24 PM
Subject: Re: [gmx-users] pdb2gmx input file error

Hi Acoot, 
What do you mean with 'not at all'? What is the output of pdb2gmx? Did you check what is in those pdb files? 
On Mar 22, 2012 5:06 AM, "Acoot Brett" <acootbrett at yahoo.com> wrote:
>Dear All,
>I find some pdb files downloaded from RCSB cannot be recognized by pdb2gmx at all.
>Is any server which can convert and RCSB pdb files to files readable by pdb2gmx? 
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