VMD-L Mailing List

From: Zeinab Emami (zemami_at_ku.edu.tr)
Date: Sat Nov 08 2014 - 15:28:08 CST

Dear Ashar,

Thank you very much for your informative email.

Sure, I will check how I can use vmd GUI on the Uni linux. I will try to do
every thing on the Uni linux system from now on.

Sincerely,
Zeinab

On Sat, Nov 8, 2014 at 6:46 PM, Ashar Malik <asharjm_at_gmail.com> wrote:

> Dear Zeinab,
>
> This sounds like an OS based error. Perhaps windows is to blame. Try one
> or both of these and hopefully it might work.
>
> 1) when starting VMD .. Right click and run as administrator.
>
> 2) vmd is by default installed in Windows drive. Which is mostly drive C.
> Either install it to a different drive or like suggested when CD-ing use a
> location in a non-windows drive.
>
> Hope this helps.
> Good luck.
>
> Best,
> /A
> On Nov 9, 2014 5:33 AM, "Mayne, Christopher G" <cmayne2_at_illinois.edu>
> wrote:
>
>> Zeinab,
>>
>> Are you using the latest release of VMD 1.9.2?
>>
>> Following the conversation to the threads you linked previously...
>> http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/21652.html
>>
>> Regards,
>> Christopher Mayne
>>
>>
>> On Nov 8, 2014, at 7:40 AM, Zeinab Emami wrote:
>>
>> Dear Christopher G Mayne,
>>
>> I am getting the same error as Wenhao and *Esra Bozkurt while running
>> charge optimization:*
>>
>>
>> * error deleting "base-wat.pdb": permission denied error deleting
>> "base-wat.pdb": permission denied while executing "file delete
>> base-wat.pdb" (procedure "::ForceFieldToolKit::ChargeOpt::optimize"
>> line 125) invoked from within
>> "::ForceFieldToolKit::ChargeOpt::optimize" (procedure
>> "::ForceFieldToolKit::gui::coptRunOpt" line 55) invoked from within
>> "::ForceFieldToolKit::gui::coptRunOpt " invoked from within
>> ".fftk_gui.hlf.nb.chargeopt.runOpt invoke " invoked from within
>> ".fftk_gui.hlf.nb.chargeopt.runOpt instate {pressed !disabled} {
>> .fftk_gui.hlf.nb.chargeopt.runOpt state !pressed;
>> .fftk_gui.hlf.nb.chargeopt.runOpt in..." (command bound to event) *
>>
>> [http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/21646.html
>> http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/21195.html]
>>
>> I read your suggestion to Wenhao [cd to a local directory in which you
>> have read/write privileges, and rerun the optimization.] I was already
>> in the directory which contains all files concerning ffTK on my own P.C.
>>
>> Sincerely Yours,
>> Zeinab
>>
>>
>>