From: John Stone (johns_at_ks.uiuc.edu)
Date: Sat Apr 06 2019 - 23:01:51 CDT

I would suggest contacting the author (Andrea Minoia) of the scripts
you're trying to use, as the odds are that they will be able to easily
answer your questions whereas anyone else would have to analyze their
code from scratch.

Best regards,
  John Stone
  vmd_at_ks.uiuc.edu

On Sat, Apr 06, 2019 at 02:15:37PM +0530, Anjali Patel wrote:
> Hello users,
>
> I am using Tk-console to removing water molecules from inside the complex
> of CNT and encapsulated residue. My problem is when i am following
> [1]http://chembytes.wikidot.com/yasc-vmd#toc0 script i am not getting any
> output file. when i am giving the fragment number, orientation, radius
> there is the the warning like¬ "Warning: file overwriting is not
> prevented!"
> what is the meaning of this exactly? after that when i m giving the .ndx
> file nothing is there. after command W its showing :
>
> 12:49:31 up 21 days,¬ 2:11,¬ 6 users,¬ load average: 0.23, 0.29, 0.25
> USER¬ ¬ ¬ ¬ TTY¬ ¬ ¬ ¬ ¬ FROM¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ LOGIN@¬ ¬
> IDLE¬ ¬ JCPU¬ ¬ PCPU WHAT
> user¬ ¬ ¬ ¬ :0¬ ¬ ¬ ¬ ¬ ¬ :0¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ 01Jan13 ?xdm?¬
> 12:17m¬ 1.66s /sbin/upstart --user
> user¬ ¬ ¬ ¬ pts/1¬ ¬ ¬ :0¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ ¬ Thu12¬ ¬
> 48:33¬ ¬ 1:18¬ ¬ 0.00s /usr/bin/w
>
> what is the meaning of this? and how can i solve this? As it is urgent for
> me
> Thank you in advance
>
> With regards
> Anjali Patel
> Research Scholar
> Department of Physics
> The M S University of Baroda, Vadodara-390002
>
> References
>
> Visible links
> 1. http://chembytes.wikidot.com/yasc-vmd#toc0

-- 
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/