VMD-L Mailing List
From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Sep 21 2011 - 11:32:57 CDT
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Hi,
This looks to me like it might be a bug in the membrane builder plugin
where it is not correctly handling filenames that contain spaces.
I will have a look at it today.
Cheers,
John Stone
vmd_at_ks.uiuc.edu
On Mon, Sep 19, 2011 at 12:19:41PM -0500, Maggie Pruitt wrote:
> Dear VMD Community,
>
> I'm trying to build a protein-membrane system following the Membrane Proteins Tutorial. However, I keep receiving the error pasted below each time I try to build a POPE membrane with the Membrane Builder plugin using the CHARMM36 topology file (VMD 1.9 MacOS X OpenGL, CUDA (Intel x86)). Could anyone please give me some insight into what is wrong? Or could this be a bug in VMD 1.9? If it helps, I can successfully build a POPC membrane with the plugin using C36 and also a POPE membrane using C27.
>
> Thanks in advance for your help,
>
>
> Maggie Pruitt
>
>
> ERROR: Unable to open psf file /Applications/VMD 1.9.app/Contents/vmd/plugins/noarch/tcl/membrane1.1/pope36_box.psf
> MOLECULE DESTROYED BY FATAL ERROR! Use resetpsf to start over.
> ERROR: Unable to open psf file /Applications/VMD 1.9.app/Contents/vmd/plugins/noarch/tcl/membrane1.1/pope36_box.psf
> MOLECULE DESTROYED BY FATAL ERROR! Use resetpsf to start over.
> while executing
> "readpsf $psffile"
> (procedure "membrane_core" line 81)
> invoked from within
> "membrane_core -l "$uselipid" -x "$xdim" -y "$ydim" -o "$prefix" -top "$useTop""
> (in namespace inscope "::Membrane" script line 4)
> invoked from within
> "::namespace inscope ::Membrane {
> puts "membrane_core -l $uselipid -x $xdim -y $ydim -o $prefix -top $useTop"
> # membrane_core -l POPC -x..."
> invoked from within
> ".membrane.gobutton invoke"
> ("uplevel" body line 1)
> invoked from within
> "uplevel #0 [list $w invoke]"
> (procedure "tk::ButtonUp" line 23)
> invoked from within
> "tk::ButtonUp .membrane.gobutton"
> (command bound to event)
-- NIH Resource 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/ Fax: 217-244-6078
- Next message: kirtana S: "redirecting to output"
- Previous message: John Stone: "Re: radial pair distribution problems"
- In reply to: Maggie Pruitt: "Problem building POPE membrane with plugin using CHARMM36"
- Next in thread: JC Gumbart: "RE: Problem building POPE membrane with plugin using CHARMM36"
- Reply: JC Gumbart: "RE: Problem building POPE membrane with plugin using CHARMM36"
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