From: Norman Geist (norman.geist_at_uni-greifswald.de)
Date: Tue Feb 10 2015 - 10:30:48 CST

Hey,

with your data I was able to dig the problem down to the ~/.vmdrc which was
created before that material RTChrome has been introduced.

Thanks so far

Norman Geist

> -----Original Message-----
> From: John Stone [mailto:johns_at_ks.uiuc.edu]
> Sent: Tuesday, February 10, 2015 5:10 PM
> To: Norman Geist
> Cc: VMD Mailing List
> Subject: Re: vmd-l: BUG: vmd-1.9.2 final Representations GUI
>
> Norman,
> So far I have not been able to reproduce the problem you describe by
> following the steps you listed.
>
> I have a key question about your instructions below.
> When I follow your steps, the first new material created
> by the "create new" step is "material23" not "material22".
> This is because there are already 23 materials (indices 0 to 22)
> in the material list. The last one shown is "RTChrome", which is
> index 22.
>
> What do you get from these commands if you run them from a fresh
> VMD session without loading anything?:
> llength [material list]
> material list
>
> If I run these from a fresh VMD I get:
> vmd > llength [material list]
> 23
> vmd > material list
> Opaque Transparent BrushedMetal Diffuse Ghost Glass1 Glass2 Glass3
> Glossy HardPlastic MetallicPastel Steel Translucent Edgy EdgyShiny
> EdgyGlass Goodsell AOShiny AOChalky AOEdgy BlownGlass GlassBubble
> RTChrome
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Tue, Feb 10, 2015 at 12:01:19PM +0100, Norman Geist wrote:
> > Hey,
> >
> > easy procedure to reproduce:
> >
> > 1. open vmd
> > 2. mol new 2WXC
> > 3. menu material on
> > 4. press 3x times on "create new"
> > 5. menu graphics on
> > 6. change material to "material22" <-- It will always show
> "material23"
> >
> > I'm using final VMD-1.9.2, OpenSuse 13.1
> >
> > Norman Geist.
> >
> > > -----Original Message-----
> > > From: John Stone [mailto:johns_at_ks.uiuc.edu]
> > > Sent: Monday, February 09, 2015 10:38 PM
> > > To: Maxim Belkin
> > > Cc: Norman Geist; VMD Mailing List
> > > Subject: Re: vmd-l: BUG: vmd-1.9.2 final Representations GUI
> > >
> > > Hi,
> > > I'm just catching up after being out of town last week.
> > > Has anyone else run into the problem that Norman has described
> > > with changes to the material list? We haven't seen this problem
> > > locally (yet), but I want to keep and eye on this as it could be
> > > a symptom of some memory corruption of some kind. Norman,
> > > if you can provide any additional details about your machine/OS and
> > > or what files you typically work with that might be useful.
> > > Can you cause it to malfunction even if no molecule is loaded yet?
> > >
> > > Cheers,
> > > John
> > >
> > > On Mon, Feb 02, 2015 at 05:39:53AM -0600, Maxim Belkin wrote:
> > > > Hi Norman,
> > > > How many materials do you have defined? I have quite a few
> extra
> > > materials
> > > > defined myself and havenā**t encountered any issues (yet?).
> > > > Maxim
> > > >
> > > > On Feb 2, 2015, at 05:30, Norman Geist
> > > > <[1]norman.geist_at_uni-greifswald.de> wrote:
> > > > Seems the issue isnā**t related to the number of materials,
> but
> > > to
> > > > having added/removed something in the materials list. Anyway
> the
> > > shown
> > > > assignment of materials to representations in the GUI is
> messed
> > > up.
> > > >
> > > > Norman Geist.
> > > >
> > > > From: [2]owner-vmd-l_at_ks.uiuc.edu [[3]mailto:owner-vmd-
> > > l_at_ks.uiuc.edu] On
> > > > Behalf Of Norman Geist
> > > > Sent: Monday, February 02, 2015 10:53 AM
> > > > To: VMD Mailing List
> > > > Subject: vmd-l: BUG: vmd-1.9.2 final Representations GUI
> > > >
> > > > Hey there,
> > > >
> > > > seems I encountered a bug in the representations GUI. If
> there
> > > are too
> > > > many materials the assigning shown in the GUI gets wrong,
> > > although it
> > > > still uses the correct material in the background.
> Nevertheless
> > > its
> > > > quite confusing. Deleting some of the materials made it work
> > > again.
> > > >
> > > > Norman Geist
> > > >
> > > > References
> > > >
> > > > Visible links
> > > > 1. mailto:norman.geist_at_uni-greifswald.de
> > > > 2. mailto:owner-vmd-l_at_ks.uiuc.edu
> > > > 3. mailto:owner-vmd-l_at_ks.uiuc.edu
> > >
> > > --
> > > NIH Center for Macromolecular Modeling and Bioinformatics
> > > Beckman Institute for Advanced Science and Technology
> > > University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> > > http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> > > http://www.ks.uiuc.edu/Research/vmd/
> >
>
> --
> NIH Center for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/