Hi,
This is my input file for calculating bilayer thickness in absence of peptide:
## Input file and input file parameters
coord_file md.gro
file_type gro
num_frames 1
num_lipid_types1
resname1POPC
atomname1 P8
Can this file be opened in VMD itself?
Mark
On Oct 18, 2013 6:21 AM, anu chandra anu80...@gmail.com wrote:
Dear Gromacs users,
I am trying to use Gromacs to read AMBER trajectories (mdcrd) for doing few
analysis. Unfortunately I ended-up with the following error.
On 10/18/13 2:54 AM, Archana Sonawani-Jagtap wrote:
Hi,
This is my input file for calculating bilayer thickness in absence of peptide:
## Input file and input file parameters
coord_file md.gro
file_type gro
num_frames 1
num_lipid_types1
Hi Mark,
Yes. I do can able to load the trajectories successfully in VMD with the
file format option of ' AMBER coordinate with periodic box'. I am using VMD
1.9 version.
Regards
Anu
On Fri, Oct 18, 2013 at 1:05 PM, Mark Abraham mark.j.abra...@gmail.comwrote:
Can this file be opened in VMD
thank you so much. It was such a stupid error from my side.
On Fri, Oct 18, 2013 at 5:08 PM, Justin Lemkul jalem...@vt.edu wrote:
On 10/18/13 2:54 AM, Archana Sonawani-Jagtap wrote:
Hi,
This is my input file for calculating bilayer thickness in absence of
peptide:
## Input file and
OK. All GROMACS does is feed your filename extension to the VMD library and
let it choose how to read the file based on that. If that doesn't make
sense (and it seems it doesn't, because GROMACS wasn't told about the
number of atoms, and it needs to know), then the ball is back to you to
choose
Dear GROMACS users,I went through the mailing list but I am still not sure about my problem. I am going to simulate two chains in a tube using GROMACS. The chains are modeled as strings of connected beads and I would like to describe the interaction with the tube aligned with z axis and passing
Hi :)
Apologies if this seems inappropriate, but I would like to ask as many
people as I can to give support for the molecular modeling LEGO project at
http://lego.cuusoo.com/ideas/view/51273. With 10 000 votes, LEGO will
consider producing the bricks required for such models, and we can add cool
Hi Tsjerk,
In my opinion, we don't need to develop LEGO specifically for this -
something already exists, which I played with in school. The molymod
pieces (http://www.molymod.com/) already include bendy pieces, which are
the next step on the lego website you advertise.
Best wishes
James
Hi :)
Hi James,
There are models, yes. But if a manufacturer like LEGO is taking this up,
it can make the models much cheaper and more easily available. In addition,
the LEGO models would allow more flexibility in building and handling. And
you can combine it with your other LEGO ;)
And, yes, bendy
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