[gmx-users] Re: VMD_PLUGIN_PATH

[Mark Abraham]

On 11/08/2011 11:02 PM, PAUL NEWMAN wrote:
> Dear Mark,
>
> Thanks for replying. Yes I am using bash. Yes the bash recognize the 
> set path. When I do echo, I got the follwoing
>
> echo $VMD_PLUGIN_PATH
>
> /home/pet/vmd/1.9/plugins/molfile
>
> What can be wrong? Maybe the program is not in this folder? Which 
> program is searching for this pluging

Perhaps there is some mismatch in how GROMACS and VMD were compiled, but 
I have no idea how to diagnose that.

Mark

>
> Thanks for your help.
>
>
> ---------- Forwarded message ----------
> From: Mark Abraham <Mark.Abraham at anu.edu.au 
> <mailto:Mark.Abraham at anu.edu.au>>
> To: Discussion list for GROMACS users <gmx-users at gromacs.org 
> <mailto:gmx-users at gromacs.org>>
> Date: Thu, 11 Aug 2011 19:51:04 +1000
> Subject: Re: [gmx-users] VMD_PLUGIN_PATH
> On 10/08/2011 1:21 PM, PAUL NEWMAN wrote:
>> Hi Gromacs Users,
>>
>> I am using the gromacs analysing tools to analyze my DCD file 
>> produced by NAMD. I set up the VMD_PLUGIN_PATH before running however 
>> I got the error that the VMD_PLUGIN_PATH was not set up. Can anyone 
>> give me a hand? Please see below the details. Thanks for the help
>>
>> export VMD_PLUGIN_PATH=/home/pet/vmd/1.9/plugins/molfile
>
> Are you using a shell where this works? What does "echo 
> $VMD_PLUGIN_PATH" say afterwards?
>
> Mark
>
>
> g_gyrate_d -f protein.dcd -s ../IN/protein.pdb
>
> ##############################
>> ##############
>>
>> The file format of protein.dcd is not a known trajectory format to 
>> GROMACS.
>> Please make sure that the file is a trajectory!
>> GROMACS will now assume it to be a trajectory and will try to open it 
>> using the VMD plug-ins.
>> This will only work in case the VMD plugins are found and it is a 
>> trajectory format supported by VMD.
>>
>> No VMD Plugins found
>> Set the environment variable VMD_PLUGIN_PATH to the molfile folder 
>> within the
>> VMD installation.
>> The architecture (e.g. 32bit versus 64bit) of Gromacs and VMD has to 
>> match.
>>
>> -------------------------------------------------------
>> Program g_gyrate_d, VERSION 4.5.3
>> Source code file: trxio.c, line: 867
>>
>> Fatal error:
>> Not supported in read_first_frame: protein.dcd
>> For more information and tips for troubleshooting, please check the 
>> GROMACS
>> website at http://www.gromacs.org/Documentation/Errors
>> -------------------------------------------------------
>>
>> "Lets Kill the Fucking Band"  (Tom Savini - From Dusk til Dawn)
>>
>> ############################################
>>
>> -- 
>> Cheers,
>>
>> Paul
>
>
> -- 
> Cheers,
>
> Paul
>
>
>
>

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20110812/1fc778b2/attachment.html>