VMD-L Mailing List

From: Nuno R. L. Ferreira (nunolf_at_ci.uc.pt)
Date: Wed Mar 09 2005 - 09:32:51 CST

Hi *

I've been out, and you have been busy ...;)
Tryed the Jérôme tip about the read permitions, and the intersurf window
pops up all right.
Thanks.
Nuno

----- Original Message -----
From: "Jérôme Hénin" <jerome.henin_at_uhp-nancy.fr>
To: "John Stone" <johns_at_ks.uiuc.edu>; "Nuno R. L. Ferreira"
<nunolf_at_ci.uc.pt>; "VMD e-mail list" <vmd-l_at_ks.uiuc.edu>
Sent: Wednesday, March 09, 2005 2:21 PM
Subject: Re: vmd-l: Intersurf plugin

> Hi guys,
>
> I think I got it. It's a problem with the ownership and permissions of the
> installed files. The 'make install' command preserves them, so that:
>
> 1) Many files under /usr/local/lib/vmd belong to an unpriviledged user.
I'm
> not sure this is what we want...
>
> 2) The permissions on intersurf_gui.tcl are -rw-------, so only the owner
can
> run it.
>
> Jerome
>
> On Tuesday 08 March 2005 17:59, John Stone wrote:
> > Hi,
> > I don't know what the problem would be off the top of my head,
> > one thing to try would be to run this command and see what it says:
> > ldd /usr/local/lib/vmd/plugins/LINUX/tcl/intersurf1.0/bin/intersurf.so
> >
> > John Stone
> > vmd_at_ks.uiuc.edu
> >
> > On Mon, Mar 07, 2005 at 07:02:11PM +0100, Jérôme Hénin wrote:
> > > Hi Nuno,
> > >
> > > I have a box with roughly the same config here, and no problem
whatsoever
> > > with Intersurf.
> > >
> > > John, do you see any dependency that could be missing from Nuno's
> > > installed system?
> > >
> > > Jerome
> > >
> > > On Monday 07 March 2005 14:40, Nuno R. L. Ferreira wrote:
> > > > Hi there.
> > > >
> > > > I'm running vmd 1.8.3 in a linux box, with Mandrake 10.1 [kernel
> > > > 2.6.8-1]. Sorry for the missing words.
> > > > Nuno
> > > >
> > > > > Hi,
> > > > > Which platform are you runnin VMD on? (Intersurf should only
show
> > > > > up in the Windows and Linux versions currently...) What version
of
> > > >
> > > > Windows/Linux
> > > >
> > > > > are you actually running? It could be that the shared library
plugin
> > > > > for Intersurf is incompatible with one of your system libraries.
> > > > >
> > > > > John Stone
> > > > > vmd_at_ks.uiuc.edu
> > > > >
> > > > > On Sat, Mar 05, 2005 at 01:27:53PM -0000, Nuno R. L. Ferreira
wrote:
> > > > > > Hi
> > > > > >
> > > > > > When I start the intersurf visualization plugin from the
extension
> > > > > > menu,
> > > >
> > > > I
> > > >
> > > > > > get the following error in the console:
> > > > > >
> > > > > > vmd > ERROR) Creation of window for 'intersurf' failed.
> > > > > >
> > > > > > I'm using the vmd v1.8.3.
> > > > > > Any help will be most appreciated.
> > > > > > Regards,
> > > > > > Nuno
> > > > > >
> > > > > > --
> > > > > > -----------------------------------------------------
> > > > > > Nuno Ricardo Santos Loureiro da Silva Ferreira
> > > > > > Ph.D student
> > > > > > Grupo de Química Biológica
> > > > > > Departamento de Química
> > > > > > Faculdade de Ciências e Tecnologia
> > > > > > Universidade de Coimbra
> > > > > > 3004-535 Coimbra
> > > > > > Portugal
> > > > > > www.biolchem.qui.uc.pt
> > > > > > -----------------------------------------------------
> > > > > > \" Do not worry about your dificulties in mathematics.
> > > > > > I can assure you that mine are still greater.\"
> > > > > > e=mc2
> > > > > > -----------------------------------------------------
> > > > >
> > > > > --
> > > > > NIH Resource for Macromolecular Modeling and Bioinformatics
> > > > > Beckman Institute for Advanced Science and Technology
> > > > > University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> > > > > Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> > > > > WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
> > >
> > > --
> > > Jérôme Hénin
> > > Equipe de Dynamique des Assemblages Membranaires
> > > Université Henri Poincaré / CNRS
> > > Tel : (33) 3 83 68 43 95 Fax : (33) 3 83 68 43 71
> > > http://www.edam.uhp-nancy.fr/
>
> --
> Jérôme Hénin
> Equipe de Dynamique des Assemblages Membranaires
> Université Henri Poincaré / CNRS
> Tel : (33) 3 83 68 43 95 Fax : (33) 3 83 68 43 71
> http://www.edam.uhp-nancy.fr/
>
>

######################################
Nuno Ricardo Santos Loureiro da Silva Ferreira
Departamento de Química
Faculdade de Ciências e Tecnologia
Universidade de Coimbra
3004-535 Coimbra - Portugal
Fax: +351 239 827703 - www.biolchem.qui.uc.pt
########################################