VMD-L Mailing List

From: Joshua Adelman (jla65_at_pitt.edu)
Date: Sun Oct 18 2009 - 22:19:28 CDT

Hi Leo,

Thanks for your response. Any idea of when the new build might be
posted on biocore? I can probably get access to a linux machine, but
it would definitely be easier to have a working os x version.

Josh

On Oct 17, 2009, at 4:26 PM, Leonardo Trabuco wrote:

> Dear Joshua,
>
> On Fri, Oct 16, 2009 at 4:20 PM, Joshua Adelman <jla65_at_pitt.edu>
> wrote:
>> I am attempting to use the MDFF plugin that is available in the
>> development
>> version of VMD. I downloaded VMD 1.8.8a1 for Intel-based OSX
>> machines from
>> Biocore. As a side note, the disk image is named properly, but for
>> some
>> reason the name of the vmd app is named 1.8.7 (when running VMD it
>> displays
>> the correct version number though).
>
> Right, John Stone is aware that he needs to change the disk image for
> the next Mac builds. :-)
>
>> After issuing the "require package mdff" commend (returns version
>> 0.2), I
>> attempt to build a simulated map using "mdff sim". When I issue the
>> tcl
>> command, I get a pop-up window:
>> "Could not locate '/Applications/VMD'"
>>
>> And then it asks if I'd like to identify the path. When I select
>> the VMD
>> app, I get a warning that '/Application/VMD 1.8.8a1.app' is not
>> executable.
>>
>> The mdff sim routine still runs, but it fails when it tries to make
>> use of
>> volutil (I assume this is what it needs to identify the VMD app in
>> order to
>> find it). I don't get any further error messages, but basically it
>> never
>> completes the low-pass filtering step, because it doesn't know
>> where volutil
>> lives.
>
> We are also aware of this problem, but haven't got around preparing a
> new build addressing it yet. According to John, we need to fix the
> plugin builds so they use the path-relative Tcl library if they are
> compiled against the VMD Tcl library rather than the system-provided
> one.
>
>> Any suggestions would be most appreciated.
>
> Please wait until a new Mac build is posted on biocore. Or, if you
> can, give the Linux version a try for now.
>
> Thanks,
> Leo
>
>> Josh
>>
>>
>>
>>
>>
>
>
>
> --
> Leonardo Trabuco, Ph.D. candidate
> Theoretical and Computational Biophysics Group
> University of Illinois at Urbana-Champaign