VMD-L Mailing List

From: Joe Konecny (joe_at_freakyacres.com)
Date: Thu Feb 20 2020 - 13:13:47 CST

Can anyone confirm what the plugin directory is supposed to look
like? After an apparently successful compile and install here is what I
see...

(I've linked it with pastebin because it's a large tree listing)

In ~/vmd-1.9.4a38/plugins

https://pastebin.com/HrmQMTYs

On 2/19/20 2:00 PM, John Stone wrote:
> Hi,
> I've got to run to a meeting, but you're a reasonable fraction of
> the way there. It appears that something went wrong in terms of your
> compilation/installation of the VMD plugins, but otherwise the startup
> messages are fairly reasonable. I don't think a Pi can handle GLSL, so
> that's no surprise.
>
> Best,
> John
>
> On Wed, Feb 19, 2020 at 10:39:31AM -0500, Joe Konecny wrote:
>> I have absolutely zero knowledge on what vmd does but a friend asked
>> me to get it running on raspberry pi. So I did but I noticed a few
>> messages on startup that makes me wonder if it will work correctly
>> for him. Mainly with GLSL rendering and packages that could not be
>> loaded. Can anyone comment on these messages and how they will
>> affect the ability of vmd to do what it's supposed to do?
>>
>>
>> pi_at_raspberrypi:~/vmd-1.9.4a38/LINUXAARCH64ARM $ ./vmd_LINUXAARCH64ARM
>> Info) VMD for LINUXAARCH64ARM, version 1.9.4a38 (February 19, 2020)
>> Info) http://www.ks.uiuc.edu/Research/vmd/
>> Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
>> Info) Please include this reference in published work using VMD:
>> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
>> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
>> Info) -------------------------------------------------------------
>> Info) Multithreading available, 4 CPUs detected.
>> Info) Free system memory: 3695MB (94%)
>> Warning) Detected X11 'Composite' extension: if incorrect display occurs
>> Warning) try disabling this X server option. Most OpenGL drivers
>> Warning) disable stereoscopic display when 'Composite' is enabled.
>> Warning) Simple graphics mode: OpenGL 1.0, no extensions
>> Info) OpenGL renderer: V3D 4.2
>> Info) Features:
>> Info) GLSL rendering mode is NOT available.
>> The irspecgui package could not be loaded:
>>
>> The multiseq package could not be loaded:
>>
>> The networkview package could not be loaded:
>>
>> The pmepot_gui package could not be loaded:
>>
>> The autoionizegui package could not be loaded:
>>
>> The solvate package could not be loaded:
>>
>> The autopsf package could not be loaded:
>>
>> The cggui package could not be loaded:
>>
>> The dowser_gui package could not be loaded:
>>
>> The chirality_gui package could not be loaded:
>>
>> The cispeptide_gui package could not be loaded:
>>
>> The forcefieldtoolkit package could not be loaded:
>>
>> The mdff_gui package could not be loaded:
>>
>> The membrane package could not be loaded:
>>
>> The mergestructs package could not be loaded:
>>
>> The molefacture package could not be loaded:
>>
>> The mutator package could not be loaded:
>>
>> The alascan package could not be loaded:
>>
>> The autoimd package could not be loaded:
>>
>> The qwikmd package could not be loaded:
>>
>> vmd > Info) Using plugin pdb for structure file /home/pi/m.pdb
>> Info) Using plugin pdb for coordinates from file /home/pi/m.pdb
>> Info) Determining bond structure from distance search ...
>> Info) Analyzing structure ...
>> Info) Atoms: 17
>> Info) Bonds: 16
>> Info) Angles: 0 Dihedrals: 0 Impropers: 0 Cross-terms: 0
>> Info) Bondtypes: 0 Angletypes: 0 Dihedraltypes: 0 Impropertypes: 0
>> Info) Residues: 2
>> Info) Waters: 0
>> Info) Segments: 1
>> Info) Fragments: 1 Protein: 1 Nucleic: 0
>> Info) Finished with coordinate file /home/pi/m.pdb.
>> Info) VMD for LINUXAARCH64ARM, version 1.9.4a38 (February 19, 2020)
>> Info) Exiting normally.
>