Thank you yes i removed the Remove unnecessary lines ... i found the inflategro.pl when i click on the rl inflategro.pl it gives me Firefox can't find the server at inflategro.pl.
<http://inflategro.pl/> On Wed, Aug 17, 2011 at 3:17 PM, Justin A. Lemkul <jalem...@vt.edu> wrote: > > > Sara baretller wrote: > >> I am doing the protein in lipid tutorial . http://www.bevanlab.biochem.** >> vt.edu/Pages/Personal/justin/**gmx-tutorials/membrane_** >> protein/02_topology.html<http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/membrane_protein/02_topology.html> >> >> Pack the lipids around the protein, i dont see where is the script perl >> inflategro.pl <http://inflategro.pl> >> >> >> I googled It and did not find it. Can you please send me the script or >> tell me where I can find it >> >> >> > Then Google again :) If you search "Inflategro" it is the first result > that comes up. > > > Also I used the cat KALP_newbox.gro dppc128_whole.gro > system.gro >> >> so I checked the system.gro in vmd and did not load anything. I was able >> to vew the KALP_newbox.gro and the dppc128_whole.gro but not the system.gro >> >> do I have to organize the system.gro because I can see that the protein in >> numbered from 1 to … then the lipids start from 1 ….end .. will that cause a >> problem >> >> > Numbering is irrelevant. You probably didn't clean up the file as > instructed in the tutorial: > > "Remove unnecessary lines (the box vectors from the KALP structure, the > header information from the DPPC structure) and update the second line of > the coordinate file (total number of atoms) accordingly." > > -Justin > > -- > ==============================**========== > > 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<http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin> > > ==============================**========== > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/**mailman/listinfo/gmx-users<http://lists.gromacs.org/mailman/listinfo/gmx-users> > Please search the archive at http://www.gromacs.org/** > Support/Mailing_Lists/Search<http://www.gromacs.org/Support/Mailing_Lists/Search>before > posting! > Please don't post (un)subscribe requests to the list. Use the www interface > or send it to gmx-users-requ...@gromacs.org. > Can't post? Read > http://www.gromacs.org/**Support/Mailing_Lists<http://www.gromacs.org/Support/Mailing_Lists> >
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