VMD-L Mailing List
From: Sourav Ray (souravray90_at_gmail.com)
Date: Wed Sep 16 2015 - 04:34:43 CDT
- Next message: Miroslav Krepl: "Re: Text size in the VMD at high-resolutions"
- Previous message: Anders Gabrielsson: "PMEPot plugin: epilon-surface"
- Next in thread: conor parks: "Re: Bonds appearing as elongated lines"
- Reply: conor parks: "Re: Bonds appearing as elongated lines"
- Reply: Josh Vermaas: "Re: Bonds appearing as elongated lines"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]
Hello
After running simulation of a peptide molecule for 30ns (2fs times steps)
under periodic box and NVT conditions. Upon unwrapping the atoms, I am
getting bonds between certain atoms as elongated lines, the probable reason
being one atom of the bond is in one periodic box and the other in the next
one.
Can someone please suggest any remedial action so that I may extract normal
bond visualizations after the necessary processing.
Thanks and regards
Sourav Ray
- Next message: Miroslav Krepl: "Re: Text size in the VMD at high-resolutions"
- Previous message: Anders Gabrielsson: "PMEPot plugin: epilon-surface"
- Next in thread: conor parks: "Re: Bonds appearing as elongated lines"
- Reply: conor parks: "Re: Bonds appearing as elongated lines"
- Reply: Josh Vermaas: "Re: Bonds appearing as elongated lines"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]