VMD-L Mailing List

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About this archive

Starting: Thu Dec 19 1996 - 11:40:41 CST
Ending: Wed May 23 2012 - 11:22:52 CDT

7th Industrial Fluid Properties Simulation Challenge Joshua D. Moore (Wed May 23 2012 - 11:22:23 CDT)
Regarding the Use of STL Files as Boundary Features Phelan Jr, Frederick R. Dr. (Wed May 23 2012 - 11:05:46 CDT)
pbc-box mohammad agha (Wed May 23 2012 - 10:31:08 CDT)
vmd on Ubuntu: tcl howto Eros Albertazzi (Wed May 23 2012 - 05:37:57 CDT)
- Re: vmd on Ubuntu: tcl howto Axel Kohlmeyer (Wed May 23 2012 - 07:09:28 CDT)
Aspen Center for Physics 2013 Workshop MARK PLUMMER (Tue May 22 2012 - 14:58:42 CDT)
Polymer Building in VMD Gkourmpis, Thomas (Tue May 22 2012 - 08:21:12 CDT)
Fw: pbc-box mohammad agha (Mon May 21 2012 - 23:30:38 CDT)
- Re: Fw: pbc-box Olaf Lenz (Tue May 22 2012 - 02:42:45 CDT)
  - pbc-box mohammad agha (Tue May 22 2012 - 08:10:30 CDT)
    - Re: pbc-box Olaf Lenz (Wed May 23 2012 - 01:31:41 CDT)
RMSF and bigdcd Raul Araya (Mon May 21 2012 - 09:39:45 CDT)
- Re: RMSF and bigdcd John Stone (Tue May 22 2012 - 18:02:31 CDT)
  - Re: RMSF and bigdcd Axel Kohlmeyer (Tue May 22 2012 - 18:53:22 CDT)
FFTK plugin: in which order should the components be run? Francesco Pietra (Mon May 21 2012 - 04:20:58 CDT)
- Re: FFTK plugin: in which order should the components be run? Wang Yi (Mon May 21 2012 - 08:47:10 CDT)
- Re: FFTK plugin: in which order should the components be run? Mayne, Christopher G (Tue May 22 2012 - 11:00:41 CDT)
pbc-box mohammad agha (Sat May 19 2012 - 08:02:59 CDT)
cg_bonds.tcl mohammad agha (Sat May 19 2012 - 00:32:37 CDT)
- Re: cg_bonds.tcl Ajasja LjubetiÄ (Sat May 19 2012 - 15:07:20 CDT)
  - cg_bonds.tcl mohammad agha (Sat May 19 2012 - 15:56:00 CDT)
libGLU.so missing? Fatemesadat Emami (Fri May 18 2012 - 18:55:21 CDT)
- Re: libGLU.so missing? Axel Kohlmeyer (Fri May 18 2012 - 19:53:59 CDT)
Waters enclosed in internal cavities Wendy González (Fri May 18 2012 - 04:46:53 CDT)
- Re: Waters enclosed in internal cavities Vivek Sharma (Fri May 18 2012 - 06:23:52 CDT)
- Re: Waters enclosed in internal cavities Vlad Cojocaru (Fri May 18 2012 - 06:26:55 CDT)
file splitting P.-L. Chau (Thu May 17 2012 - 03:19:50 CDT)
- Re: file splitting Axel Kohlmeyer (Thu May 17 2012 - 07:34:47 CDT)
  - Re: file splitting P.-L. Chau (Thu May 17 2012 - 07:42:58 CDT)
    - Re: file splitting Grace Brannigan (Thu May 17 2012 - 10:40:25 CDT)
    - Re: file splitting Axel Kohlmeyer (Thu May 17 2012 - 11:11:00 CDT)
how to calculate PBC box volume in VMD? Albert (Thu May 17 2012 - 01:26:36 CDT)
- Re: how to calculate PBC box volume in VMD? Ajasja LjubetiÄ (Thu May 17 2012 - 02:25:15 CDT)
- Re: how to calculate PBC box volume in VMD? Axel Kohlmeyer (Thu May 17 2012 - 02:31:06 CDT)
Docking protein-protein vladanstefanovic_at_kg.ac.rs (Wed May 16 2012 - 16:08:22 CDT)
panel missing! Reza Khalkhali (Wed May 16 2012 - 10:49:51 CDT)
- Re: panel missing! Axel Kohlmeyer (Wed May 16 2012 - 12:23:18 CDT)
  - Re: panel missing! Reza Khalkhali (Thu May 17 2012 - 03:51:38 CDT)
    - Re: panel missing! Axel Kohlmeyer (Thu May 17 2012 - 10:16:40 CDT)
Getting PSF in right format from .gro file Donovan B.T. (Wed May 16 2012 - 08:54:59 CDT)
Making only a subset of atoms transparent (or otherwise non-emphasized) Andrew DeYoung (Tue May 15 2012 - 12:49:22 CDT)
- Re: Making only a subset of atoms transparent (or otherwise non-emphasized) Wang Yi (Tue May 15 2012 - 13:44:17 CDT)
- Re: Making only a subset of atoms transparent (or otherwise non-emphasized) Axel Kohlmeyer (Tue May 15 2012 - 13:38:17 CDT)
APBS for small molecules jcorradi_at_criba.edu.ar (Sun May 13 2012 - 22:00:08 CDT)
- Re: APBS for small molecules Axel Kohlmeyer (Tue May 15 2012 - 00:41:56 CDT)
  - Re: APBS for small molecules jcorradi_at_criba.edu.ar (Tue May 15 2012 - 08:28:28 CDT)
Suggestion for measure cluster Jérôme Hénin (Fri May 11 2012 - 04:32:39 CDT)
- Re: Suggestion for measure cluster Jérôme Hénin (Fri May 11 2012 - 04:35:07 CDT)
Loop for Andrés Morales (Thu May 10 2012 - 18:40:58 CDT)
- Re: Loop for Axel Kohlmeyer (Thu May 10 2012 - 20:00:51 CDT)
- RE: Loop for Bennion, Brian (Thu May 10 2012 - 21:17:27 CDT)
  - Re: Loop for Axel Kohlmeyer (Thu May 10 2012 - 22:06:41 CDT)
VMD1.9.1 is crashing my system mpincu (Thu May 10 2012 - 16:24:27 CDT)
- Re: VMD1.9.1 is crashing my system John Stone (Thu May 10 2012 - 16:38:09 CDT)
- Re: VMD1.9.1 is crashing my system Axel Kohlmeyer (Thu May 10 2012 - 17:19:50 CDT)
- Re: VMD1.9.1 is crashing my system Mirco Wahab (Fri May 11 2012 - 11:19:38 CDT)
  - Re: VMD1.9.1 is crashing my system Gianluca Interlandi (Fri May 11 2012 - 16:58:47 CDT)
Clustering plugin updated to v2.0 Luis Gracia (Thu May 10 2012 - 12:54:20 CDT)
PBC missed in Amber MD Albert (Thu May 10 2012 - 02:53:00 CDT)
- Re: PBC missed in Amber MD Axel Kohlmeyer (Thu May 10 2012 - 09:05:04 CDT)
  - Re: PBC missed in Amber MD Axel Kohlmeyer (Thu May 10 2012 - 13:43:31 CDT)
flashing the VMD mohammad agha (Thu May 10 2012 - 02:00:37 CDT)
- Re: flashing the VMD Wang Yi (Thu May 10 2012 - 09:57:19 CDT)
  - Re: flashing the VMD Axel Kohlmeyer (Thu May 10 2012 - 10:49:11 CDT)
    - Re: flashing the VMD Wang Yi (Thu May 10 2012 - 11:17:11 CDT)
  - flashing the VMD mohammad agha (Sat May 19 2012 - 02:49:39 CDT)
flashing the VMD mohammad agha (Thu May 10 2012 - 01:56:22 CDT)
- Re: flashing the VMD Axel Kohlmeyer (Thu May 10 2012 - 08:41:00 CDT)
New crystallography plugin Dan Michael O. HeggÃ¸ (Wed May 09 2012 - 17:33:04 CDT)
New crystallography plugin Dan Michael O. HeggÃ¸ (Wed May 09 2012 - 16:31:33 CDT)
Add-H for crystallization water only Francesco Pietra (Wed May 09 2012 - 15:08:09 CDT)
flashing the VMD mohammad agha (Wed May 09 2012 - 12:26:10 CDT)
flashing the VMD mohammad agha (Wed May 09 2012 - 11:16:02 CDT)
flashing the VMD mohammad agha (Tue May 08 2012 - 14:52:53 CDT)
- Re: flashing the VMD Axel Kohlmeyer (Tue May 08 2012 - 16:26:26 CDT)
  - flashing the VMD mohammad agha (Wed May 09 2012 - 10:00:54 CDT)
counting specific atom types winardi, erik (Tue May 08 2012 - 08:37:01 CDT)
- Re: counting specific atom types Ana Celia Vila Verde (Tue May 08 2012 - 09:31:23 CDT)
- Re: counting specific atom types Axel Kohlmeyer (Tue May 08 2012 - 09:24:20 CDT)
diffusion coefficient plug-in in VMD fariba taghavi (Tue May 08 2012 - 07:06:31 CDT)
- Re: diffusion coefficient plug-in in VMD Axel Kohlmeyer (Tue May 08 2012 - 08:12:35 CDT)
  - Re: diffusion coefficient plug-in in VMD fariba taghavi (Tue May 08 2012 - 09:14:54 CDT)
- Re: diffusion coefficient plug-in in VMD Ana Celia Vila Verde (Tue May 08 2012 - 11:17:41 CDT)
flashing the VMD mohammad agha (Tue May 08 2012 - 05:18:04 CDT)
- Re: flashing the VMD Wang Yi (Tue May 08 2012 - 08:19:43 CDT)
  - Re: flashing the VMD Axel Kohlmeyer (Tue May 08 2012 - 09:09:27 CDT)
  - Re: flashing the VMD Gianluca Interlandi (Tue May 08 2012 - 11:23:06 CDT)
    - flashing the VMD mohammad agha (Tue May 08 2012 - 15:32:31 CDT)
    - Re: flashing the VMD Axel Kohlmeyer (Tue May 08 2012 - 16:22:57 CDT)
flasshing the VMD mohammad agha (Mon May 07 2012 - 21:13:43 CDT)
- Re: flasshing the VMD Axel Kohlmeyer (Mon May 07 2012 - 22:10:30 CDT)
  - flasshing the VMD mohammad agha (Mon May 07 2012 - 22:25:58 CDT)
    - Re: flasshing the VMD Axel Kohlmeyer (Tue May 08 2012 - 08:16:53 CDT)
strange coloring Wei Chen (Mon May 07 2012 - 15:17:21 CDT)
- Re: strange coloring John Stone (Mon May 07 2012 - 15:39:26 CDT)
  - Re: strange coloring Wei Chen (Mon May 07 2012 - 15:54:51 CDT)
    - Re: strange coloring John Stone (Mon May 07 2012 - 16:19:34 CDT)
    - Re: strange coloring Wei Chen (Mon May 07 2012 - 16:44:19 CDT)
- Re: strange coloring Axel Kohlmeyer (Mon May 07 2012 - 16:05:49 CDT)
.trr files slow to load patrick wintrode (Mon May 07 2012 - 12:00:19 CDT)
- Re: .trr files slow to load John Stone (Mon May 07 2012 - 12:40:13 CDT)
- Re: .trr files slow to load Axel Kohlmeyer (Mon May 07 2012 - 12:55:52 CDT)
what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? Albert (Mon May 07 2012 - 10:07:43 CDT)
- Re: what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? santhu kumar (Mon May 07 2012 - 11:10:40 CDT)
  - Re: what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? Barry Isralewitz (Mon May 07 2012 - 12:32:42 CDT)
Fwd: VMD Stereo does not work Quadbufferd Christian Wohlschlager (Mon May 07 2012 - 02:46:23 CDT)
- Re: Fwd: VMD Stereo does not work Quadbufferd John Stone (Mon May 07 2012 - 03:03:38 CDT)
  - Re: Fwd: VMD Stereo does not work Quadbufferd Christian Wohlschlager (Fri May 11 2012 - 03:45:12 CDT)
    - RE: Fwd: VMD Stereo does not work Quadbufferd Mark Cunningham (Fri May 11 2012 - 09:54:45 CDT)
%-sign shortcut for mouse->force->atom not working Christopher Neale (Sun May 06 2012 - 12:21:38 CDT)
- Re: %-sign shortcut for mouse->force->atom not working Axel Kohlmeyer (Sun May 06 2012 - 14:01:37 CDT)
Save/restore display parameters Jérôme Hénin (Fri May 04 2012 - 09:51:28 CDT)
- Re: Save/restore display parameters John Stone (Mon May 07 2012 - 10:40:59 CDT)
gromacs trajectory file ahmet yýldýrým (Thu May 03 2012 - 01:49:13 CDT)
- Re: gromacs trajectory file amin_at_imtech.res.in (Thu May 03 2012 - 02:51:23 CDT)
N-methylated amino acid topologies Joakim Swedberg (Wed May 02 2012 - 19:20:41 CDT)
Free software for building peptide meisam valizadeh kiamahalleh (Wed May 02 2012 - 01:34:20 CDT)
- Re: Free software for building peptide Thomas Evangelidis (Wed May 02 2012 - 04:01:09 CDT)
- Re: Free software for building peptide amin_at_imtech.res.in (Wed May 02 2012 - 04:06:30 CDT)
- Re: Free software for building peptide sajad falsafi (Wed May 02 2012 - 06:56:14 CDT)
Problem with moving protein for all frames gökçe ayþe güven (Tue May 01 2012 - 16:14:24 CDT)
- Re: Problem with moving protein for all frames Axel Kohlmeyer (Tue May 01 2012 - 17:04:37 CDT)
- Re: Problem with moving protein for all frames Jeffrey Potoff (Tue May 01 2012 - 19:53:12 CDT)
Make "Load all at once" the default? Adding representations? Heather Mayes (Tue May 01 2012 - 15:45:39 CDT)
- Re: Make "Load all at once" the default? Adding representations? Axel Kohlmeyer (Tue May 01 2012 - 16:54:49 CDT)
  - Re: Make "Load all at once" the default? Adding representations? Heather Mayes (Tue May 01 2012 - 17:18:41 CDT)
    - Re: Make "Load all at once" the default? Adding representations? Axel Kohlmeyer (Tue May 01 2012 - 19:13:11 CDT)
    - Re: Make "Load all at once" the default? Adding representations? Heather Mayes (Wed May 02 2012 - 15:50:28 CDT)
helical content script Ban Arn (Tue May 01 2012 - 05:55:51 CDT)
- Re: helical content script francesco oteri (Tue May 01 2012 - 07:09:03 CDT)
- Re: helical content script Axel Kohlmeyer (Tue May 01 2012 - 07:28:05 CDT)
  - Re: helical content script Ban Arn (Tue May 01 2012 - 09:23:52 CDT)
visualization of HOMO&LUMO in vmd leila karami (Tue May 01 2012 - 04:26:06 CDT)
- Re: visualization of HOMO&LUMO in vmd Axel Kohlmeyer (Tue May 01 2012 - 07:31:29 CDT)
3D density in the specific part of the simulation box fariba taghavi (Tue May 01 2012 - 00:48:35 CDT)
- Re: 3D density in the specific part of the simulation box Axel Kohlmeyer (Tue May 01 2012 - 07:34:55 CDT)
In-Residence Training at the Theoretical & Computational Biophysics Group, July 16-27, 2012 TCBG Workshop (Mon Apr 30 2012 - 17:02:14 CDT)
how to use the AutoIMD "Tool control" panel. Christopher Neale (Mon Apr 30 2012 - 11:28:19 CDT)
- Re: how to use the AutoIMD "Tool control" panel. Axel Kohlmeyer (Mon Apr 30 2012 - 12:34:07 CDT)
  - Re: how to use the AutoIMD "Tool control" panel. Thomas C. Bishop (Mon Apr 30 2012 - 13:52:14 CDT)
writing pair/bond/angle/dihedral information for lammps input winardi, erik (Sun Apr 29 2012 - 17:17:14 CDT)
- Re: writing pair/bond/angle/dihedral information for lammps input Axel Kohlmeyer (Sun Apr 29 2012 - 18:18:24 CDT)
  - Re: writing pair/bond/angle/dihedral information for lammps input winardi, erik (Sun Apr 29 2012 - 23:21:01 CDT)
    - Re: writing pair/bond/angle/dihedral information for lammps input Axel Kohlmeyer (Sun Apr 29 2012 - 23:52:25 CDT)
Force Field ToolKit - Angles DENILSON FERREIRA DE OLIVEIRA (Sun Apr 29 2012 - 14:39:52 CDT)
- RE: Force Field ToolKit - Angles JC Gumbart (Sun Apr 29 2012 - 14:57:33 CDT)
  - RE: Force Field ToolKit - Angles Mayne, Christopher G (Sun Apr 29 2012 - 16:28:16 CDT)
  - RE: Force Field ToolKit - Angles DENILSON FERREIRA DE OLIVEIRA (Sun Apr 29 2012 - 19:29:33 CDT)
Force Field Toolkit: scaling, weight etc DENILSON FERREIRA DE OLIVEIRA (Sun Apr 29 2012 - 06:37:04 CDT)
- Re: Force Field Toolkit: scaling, weight etc Mayne, Christopher G (Sun Apr 29 2012 - 16:13:30 CDT)
  - Re: Force Field Toolkit: scaling, weight etc DENILSON FERREIRA DE OLIVEIRA (Sun Apr 29 2012 - 18:11:56 CDT)
measure gofr script Emiliano Ippoliti (Sat Apr 28 2012 - 08:51:58 CDT)
- Re: measure gofr script Axel Kohlmeyer (Sat Apr 28 2012 - 10:11:58 CDT)
  - Re: measure gofr script Emiliano Ippoliti (Sat Apr 28 2012 - 11:17:00 CDT)
    - Re: measure gofr script Axel Kohlmeyer (Sat Apr 28 2012 - 12:33:09 CDT)
water mean residence time jampani srinivas (Fri Apr 27 2012 - 17:23:53 CDT)
- Re: water mean residence time Axel Kohlmeyer (Fri Apr 27 2012 - 18:30:21 CDT)
PSF generation for proteins with isopeptide bonds Zack Scholl (Thu Apr 26 2012 - 19:57:48 CDT)
VMD Stereo not work Christian Wohlschlager (Thu Apr 26 2012 - 08:32:48 CDT)
Problem with generating psf using CGENFF amin_at_imtech.res.in (Thu Apr 26 2012 - 04:42:40 CDT)
- Re: Problem with generating psf using CGENFF Chris Harrison (Thu Apr 26 2012 - 06:23:08 CDT)
  - Re: Problem with generating psf using CGENFF amin_at_imtech.res.in (Thu Apr 26 2012 - 11:37:56 CDT)
- Re:Problem with generating psf using CGENFF amin_at_imtech.res.in (Fri Apr 27 2012 - 22:35:16 CDT)
  - RE: Re:Problem with generating psf using CGENFF Bennion, Brian (Mon Apr 30 2012 - 13:26:00 CDT)
- Re:Problem with generating psf using CGENFF amin_at_imtech.res.in (Fri Apr 27 2012 - 22:46:21 CDT)
VMD Question: How to build a polymer in VMD? Gkourmpis, Thomas (Thu Apr 26 2012 - 03:51:45 CDT)
how to center protein? Chirag Vora (Tue Apr 24 2012 - 00:04:09 CDT)
- Re: how to center protein? Hitesh Patel (Tue Apr 24 2012 - 11:34:00 CDT)
H-H dynamic bonds Q=A3ukasz_Pi=EAko=B6=22?= (Mon Apr 23 2012 - 17:21:42 CDT)
- Re: H-H dynamic bonds Axel Kohlmeyer (Mon Apr 23 2012 - 18:10:58 CDT)
Hydrophobic mismatch script Ban Arn (Mon Apr 23 2012 - 04:08:28 CDT)
- Re: Hydrophobic mismatch script francesco oteri (Mon Apr 23 2012 - 05:17:13 CDT)
  - Re: Hydrophobic mismatch script Ban Arn (Mon Apr 23 2012 - 05:29:34 CDT)
  - Re: Hydrophobic mismatch script kanchi subbarao rao (Mon Apr 23 2012 - 06:11:24 CDT)
Movie Plugin Engelman, Joshua (Sat Apr 21 2012 - 15:54:54 CDT)
- Re: Movie Plugin Engelman, Joshua (Sat Apr 21 2012 - 16:50:59 CDT)
  - Re: Re: Movie Plugin Axel Kohlmeyer (Sun Apr 22 2012 - 12:32:41 CDT)
- Re: Movie Plugin John Stone (Mon Apr 23 2012 - 15:52:40 CDT)
  - Re: Movie Plugin Engelman, Joshua (Mon Apr 23 2012 - 16:32:01 CDT)
openGL x,y position Mayne, Christopher G (Sat Apr 21 2012 - 14:01:51 CDT)
- Re: openGL x,y position Axel Kohlmeyer (Sun Apr 22 2012 - 21:46:14 CDT)
  - Re: openGL x,y position Mayne, Christopher G (Sun Apr 22 2012 - 22:08:59 CDT)
HOOMD problems Engelman, Joshua (Fri Apr 20 2012 - 15:35:52 CDT)
- Re: HOOMD problems John Stone (Fri Apr 20 2012 - 15:51:16 CDT)
  - Re: HOOMD problems Axel Kohlmeyer (Fri Apr 20 2012 - 20:19:43 CDT)
- Re: HOOMD problems Axel Kohlmeyer (Fri Apr 20 2012 - 16:37:56 CDT)
stereo images for publication Vlad Cojocaru (Fri Apr 20 2012 - 09:59:21 CDT)
- Re: stereo images for publication Vlad Cojocaru (Fri Apr 20 2012 - 10:04:39 CDT)
Anaglyph stereo with other colors Luis M. Sánchez (Fri Apr 20 2012 - 08:09:19 CDT)
- Re: Anaglyph stereo with other colors John Stone (Fri Apr 20 2012 - 17:27:39 CDT)
  - Re: Anaglyph stereo with other colors flavio seixas (Sat Apr 21 2012 - 13:36:01 CDT)
gofr limit, Kirkwood-Buff integrals Ivan Vyalov (Fri Apr 20 2012 - 05:43:18 CDT)
- Re: gofr limit, Kirkwood-Buff integrals Axel Kohlmeyer (Fri Apr 20 2012 - 14:11:28 CDT)
  - Re: gofr limit, Kirkwood-Buff integrals Ivan Vyalov (Fri Apr 20 2012 - 14:49:21 CDT)
    - Re: gofr limit, Kirkwood-Buff integrals Axel Kohlmeyer (Fri Apr 20 2012 - 17:50:26 CDT)
    - Re: gofr limit, Kirkwood-Buff integrals Ivan Vyalov (Sat Apr 21 2012 - 14:13:37 CDT)
AutoPSF Donovan B.T. (Fri Apr 20 2012 - 04:29:53 CDT)
Re: Thickness of bilayer script Andrés Morales (Thu Apr 19 2012 - 20:58:35 CDT)
- Re: Re: Thickness of bilayer script Ban Arn (Fri Apr 20 2012 - 05:30:38 CDT)
segmentation fault with NAMDenergy amin_at_imtech.res.in (Thu Apr 19 2012 - 20:12:53 CDT)
- Re: segmentation fault with NAMDenergy John Stone (Thu Apr 19 2012 - 20:59:32 CDT)
Problem with hydration script Bryan Roessler (Thu Apr 19 2012 - 13:17:39 CDT)
- RE: Problem with hydration script Bennion, Brian (Thu Apr 19 2012 - 14:32:53 CDT)
- RE: Problem with hydration script Joaquim Rui de Castro Rodrigues (Thu Apr 19 2012 - 14:23:33 CDT)
  - Re: Problem with hydration script Bryan Roessler (Thu Apr 19 2012 - 15:17:35 CDT)
Valence bond force field in NAMD Ganesh Kamath (Thu Apr 19 2012 - 09:26:35 CDT)
- Re: Valence bond force field in NAMD Axel Kohlmeyer (Thu Apr 19 2012 - 12:53:26 CDT)
Units of Isovalue Slider in Isovalue Drawing Method Andrew DeYoung (Wed Apr 18 2012 - 20:08:53 CDT)
- Re: Units of Isovalue Slider in Isovalue Drawing Method John Stone (Wed Apr 18 2012 - 20:49:08 CDT)
  - RE: Units of Isovalue Slider in Isovalue Drawing Method Andrew DeYoung (Wed Apr 18 2012 - 20:52:13 CDT)
- Re: Units of Isovalue Slider in Isovalue Drawing Method Axel Kohlmeyer (Wed Apr 18 2012 - 21:10:24 CDT)
Average pocket size? patrick wintrode (Wed Apr 18 2012 - 11:45:04 CDT)
- Re: Average pocket size? Thomas Evangelidis (Wed Apr 18 2012 - 13:51:11 CDT)
Saving coordinates that meet selection criteria for each frame Ben Rodriguez (Tue Apr 17 2012 - 18:28:43 CDT)
- Re: Saving coordinates that meet selection criteria for each frame Axel Kohlmeyer (Tue Apr 17 2012 - 19:20:56 CDT)
- Re: Saving coordinates that meet selection criteria for each frame Wang Yi (Tue Apr 17 2012 - 19:23:15 CDT)
Misfunction of some plugins if compiled Vlastimil ZÃma (Tue Apr 17 2012 - 12:28:10 CDT)
- Re: Misfunction of some plugins if compiled Axel Kohlmeyer (Wed Apr 18 2012 - 21:18:53 CDT)
Saving of pdb-trajectory in NMR-like format James Starlight (Tue Apr 17 2012 - 09:21:40 CDT)
Using Measure SASA in NAMD Simulation Ajith Rathnaweera Rajapaksha Mudalige (Mon Apr 16 2012 - 18:54:32 CDT)
- Re: Using Measure SASA in NAMD Simulation John Stone (Mon Apr 16 2012 - 23:39:24 CDT)
lipid order parameter Ban Arn (Mon Apr 16 2012 - 05:16:31 CDT)
- Re: lipid order parameter John Stone (Tue Apr 17 2012 - 00:01:18 CDT)
align electron density map onto simulated structure (with different center) Magnus Andersson (Sun Apr 15 2012 - 18:42:21 CDT)
- Re: align electron density map onto simulated structure (with different center) John Stone (Tue Apr 17 2012 - 00:13:31 CDT)
Dynamical Network Analysis programs gncommunities and subopt elena ermakova (Sat Apr 14 2012 - 01:40:33 CDT)
Is it possible to save the position and angle of the camera for future VMD sessions? Andrew DeYoung (Fri Apr 13 2012 - 13:07:20 CDT)
- Re: Is it possible to save the position and angle of the camera for future VMD sessions? Axel Kohlmeyer (Fri Apr 13 2012 - 18:57:22 CDT)
Default representation style in command line Paulo E. Abreu (Fri Apr 13 2012 - 06:10:43 CDT)
- Re: Default representation style in command line Nuno Sousa Cerqueira (Fri Apr 13 2012 - 07:08:18 CDT)
- Re: Default representation style in command line Axel Kohlmeyer (Fri Apr 13 2012 - 07:21:39 CDT)
(no subject) rainy908_at_yahoo.com (Thu Apr 12 2012 - 20:54:30 CDT)
Drawing a high resolution transparent or translucent sphere Andrew DeYoung (Wed Apr 11 2012 - 20:37:20 CDT)
- Re: Drawing a high resolution transparent or translucent sphere John Stone (Wed Apr 11 2012 - 21:26:58 CDT)
- Re: Drawing a high resolution transparent or translucent sphere Axel Kohlmeyer (Wed Apr 11 2012 - 23:45:18 CDT)
saving dcd file different if by script or by interactive mode Jose Borreguero (Tue Apr 10 2012 - 17:32:11 CDT)
- Re: saving dcd file different if by script or by interactive mode Axel Kohlmeyer (Tue Apr 10 2012 - 18:16:03 CDT)
  - Re: saving dcd file different if by script or by interactive mode Jose Borreguero (Tue Apr 10 2012 - 18:23:01 CDT)
- RE: saving dcd file different if by script or by interactive mode Kei Sit (Tue Apr 10 2012 - 19:24:56 CDT)
topotools writelammps data winardi, erik (Tue Apr 10 2012 - 17:24:48 CDT)
- Re: topotools writelammps data Axel Kohlmeyer (Tue Apr 10 2012 - 18:15:16 CDT)
Problems with for loop Andrés Morales (Tue Apr 10 2012 - 11:43:10 CDT)
- Re: Problems with for loop John Stone (Tue Apr 10 2012 - 14:15:07 CDT)
VMD QUESTION( Movie making ) james Fernandez (Mon Apr 09 2012 - 16:49:21 CDT)
- Re: VMD QUESTION( Movie making ) Axel Kohlmeyer (Mon Apr 09 2012 - 17:45:21 CDT)
- Re: VMD QUESTION( Movie making ) John Stone (Mon Apr 09 2012 - 19:22:11 CDT)
Average angle between the lipid dipole vector and the bilayer normal. Andrés Morales (Mon Apr 09 2012 - 12:45:44 CDT)
- Average angle between the lipid dipole vector and the bilayer normal. Andrés Morales (Mon Apr 09 2012 - 12:55:17 CDT)
- Re: Average angle between the lipid dipole vector and the bilayer normal. John Stone (Wed Apr 11 2012 - 14:06:52 CDT)
  - Re: Average angle between the lipid dipole vector and the bilayer normal. Andrés Morales (Wed Apr 11 2012 - 16:43:01 CDT)
Re: problems with MDFF Gregorio Fernandez (Mon Apr 09 2012 - 06:21:33 CDT)
IMD - remove forces on mouse release jonathan KHAO (Sun Apr 08 2012 - 13:05:45 CDT)
- Re: IMD - remove forces on mouse release Axel Kohlmeyer (Sun Apr 08 2012 - 14:12:19 CDT)
  - Re: IMD - remove forces on mouse release jonathan KHAO (Sun Apr 08 2012 - 15:50:44 CDT)
Mac OS compilation… what could be going wrongQ?= FX (Sun Apr 08 2012 - 12:03:42 CDT)
- Re: Mac OS compilation? what could be going wrong? John Stone (Mon Apr 09 2012 - 10:11:17 CDT)
  - Re: Mac OS compilation? what could be going wrong? FX (Mon Apr 09 2012 - 14:06:06 CDT)
an old question Albert (Sat Apr 07 2012 - 00:28:29 CDT)
- Re: an old question John Stone (Mon Apr 09 2012 - 10:30:33 CDT)
  - Re: an old question Albert (Mon Apr 09 2012 - 23:36:16 CDT)
problems with MDFF Gregorio Fernandez (Fri Apr 06 2012 - 02:42:22 CDT)
Lipid order paramaeter script Ban Arn (Thu Apr 05 2012 - 04:35:52 CDT)
Regarding saving data snoze pa (Wed Apr 04 2012 - 12:21:39 CDT)
- Re: Regarding saving data John Stone (Wed Apr 04 2012 - 15:10:03 CDT)
using min. image. conven. for transport properties Papan S (Wed Apr 04 2012 - 08:16:00 CDT)
- Re: using min. image. conven. for transport properties Axel Kohlmeyer (Wed Apr 04 2012 - 09:13:37 CDT)
  - Re: using min. image. conven. for transport properties Papan S (Wed Apr 04 2012 - 23:06:18 CDT)
Auto Bead Display Size using topotools Phelan Jr, Frederick R. Dr. (Mon Apr 02 2012 - 14:50:47 CDT)
- Re: Auto Bead Display Size using topotools Axel Kohlmeyer (Mon Apr 02 2012 - 15:59:06 CDT)
python error? Albert (Mon Apr 02 2012 - 11:28:14 CDT)
- Re: python error? Axel Kohlmeyer (Mon Apr 02 2012 - 13:48:02 CDT)
  - Re: python error? Albert (Mon Apr 02 2012 - 14:17:08 CDT)
psfgen tyrosine anion-Fe bond Francesco Pietra (Sun Apr 01 2012 - 09:53:13 CDT)
- Re: namd-l: psfgen tyrosine anion-Fe bond Francesco Pietra (Sun Apr 01 2012 - 12:03:17 CDT)
  - Re: namd-l: psfgen tyrosine anion-Fe bond Francesco Pietra (Sun Apr 01 2012 - 12:14:27 CDT)
FW: How to set VMD_Plugin_path? a a (Sat Mar 31 2012 - 23:25:30 CDT)
- Re: FW: How to set VMD_Plugin_path? John Stone (Mon Apr 02 2012 - 10:58:28 CDT)
Printing Coordinates with Tcl/Tk Mr Bernard Ramos (Fri Mar 30 2012 - 12:16:00 CDT)
- Re: Printing Coordinates with Tcl/Tk Axel Kohlmeyer (Fri Mar 30 2012 - 13:38:57 CDT)
Plotting of Co-ordinates on VMD james Fernandez (Fri Mar 30 2012 - 11:37:07 CDT)
- Re: Plotting of Co-ordinates on VMD Axel Kohlmeyer (Fri Mar 30 2012 - 12:49:51 CDT)
- Re: Plotting of Co-ordinates on VMD Jeffrey Potoff (Fri Mar 30 2012 - 14:04:27 CDT)
  - Re: Plotting of Co-ordinates on VMD Barry Isralewitz (Fri Mar 30 2012 - 14:25:06 CDT)
bondsrecalc question Denis Davydov (Fri Mar 30 2012 - 11:10:14 CDT)
- Re: bondsrecalc question Axel Kohlmeyer (Fri Mar 30 2012 - 12:46:52 CDT)
Dynamically displaying the length of hydrogen bonds Andrew DeYoung (Fri Mar 30 2012 - 10:30:08 CDT)
- Re: Dynamically displaying the length of hydrogen bonds Wang Yi (Fri Mar 30 2012 - 11:24:22 CDT)
  - RE: Dynamically displaying the length of hydrogen bonds Andrew DeYoung (Fri Mar 30 2012 - 11:54:56 CDT)
    - Re: Dynamically displaying the length of hydrogen bonds Axel Kohlmeyer (Fri Mar 30 2012 - 12:44:35 CDT)
RE: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? Phelan Jr, Frederick R. Dr. (Thu Mar 29 2012 - 15:32:59 CDT)
- Re: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? Axel Kohlmeyer (Fri Mar 30 2012 - 08:13:09 CDT)
Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? Phelan Jr, Frederick R. Dr. (Thu Mar 29 2012 - 14:31:58 CDT)
- Re: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? John Stone (Thu Mar 29 2012 - 14:44:28 CDT)
Possible MPI code problem (and fix) Christoph Willing (Thu Mar 29 2012 - 07:30:12 CDT)
- Re: Possible MPI code problem (and fix) John Stone (Thu Mar 29 2012 - 09:58:15 CDT)
kill source'd tcl script Philippe Bopp / temporary (Wed Mar 28 2012 - 03:37:12 CDT)
- RE: kill source'd tcl script Mikkel Vestergaard (Wed Mar 28 2012 - 04:41:15 CDT)
  - Re: kill source'd tcl script Axel Kohlmeyer (Wed Mar 28 2012 - 08:50:02 CDT)
Can't set graphics window position to 0,0 Christoph Willing (Tue Mar 27 2012 - 18:17:10 CDT)
- Re: Can't set graphics window position to 0,0 John Stone (Thu Mar 29 2012 - 10:20:27 CDT)
secondary structure calculation Ban Arn (Tue Mar 27 2012 - 11:55:24 CDT)
- Re: secondary structure calculation Barry Isralewitz (Tue Mar 27 2012 - 12:44:38 CDT)
- Re: secondary structure calculation Axel Kohlmeyer (Tue Mar 27 2012 - 15:26:26 CDT)
  - Re: secondary structure calculation Ban Arn (Wed Mar 28 2012 - 04:47:27 CDT)
    - Re: secondary structure calculation Ban Arn (Thu Mar 29 2012 - 05:05:38 CDT)
    - Re: secondary structure calculation Axel Kohlmeyer (Thu Mar 29 2012 - 08:01:38 CDT)
COORDINATES extraction of molecule's centers of mass VladanStefanovic_at_kg.ac.rs (Tue Mar 27 2012 - 01:37:23 CDT)
- Re: COORDINATES extraction of molecule's centers of mass John Stone (Wed Mar 28 2012 - 11:40:54 CDT)
autopsf: can't read "logfilename" Francesco Pietra (Sat Mar 24 2012 - 11:46:15 CDT)
- Re: autopsf: can't read "logfilename" John Stone (Thu Mar 29 2012 - 10:44:28 CDT)
(no subject) rainy908_at_yahoo.com (Fri Mar 23 2012 - 07:55:48 CDT)
(no subject) rainy908_at_yahoo.com (Thu Mar 22 2012 - 17:42:38 CDT)
(no subject) rainy908_at_yahoo.com (Thu Mar 22 2012 - 15:06:33 CDT)
adding patches via autopsf Bennion, Brian (Wed Mar 21 2012 - 11:34:47 CDT)
starting tkcon mbcx7sa3_at_zedat.fu-berlin.de (Wed Mar 21 2012 - 10:17:30 CDT)
- Re: starting tkcon John Stone (Wed Mar 21 2012 - 11:09:16 CDT)
  - Re: starting tkcon mbcx7sa3_at_zedat.fu-berlin.de (Wed Mar 21 2012 - 17:34:10 CDT)
- Re: starting tkcon Axel Kohlmeyer (Wed Mar 21 2012 - 11:20:36 CDT)
- Re: starting tkcon Olaf Lenz (Wed Mar 21 2012 - 11:56:20 CDT)
solvent radius setyanto md (Tue Mar 20 2012 - 01:03:29 CDT)
lib/stride/README Benjamin Kaduk (Mon Mar 19 2012 - 21:57:22 CDT)
- Re: lib/stride/README Ajasja LjubetiÄ (Tue Mar 20 2012 - 02:39:29 CDT)
  - Re: lib/stride/README John Stone (Wed Mar 21 2012 - 11:13:32 CDT)
plugins/hesstrans/Makefile recurses on CXXFLAGS Benjamin Kaduk (Mon Mar 19 2012 - 21:42:36 CDT)
- Re: plugins/hesstrans/Makefile recurses on CXXFLAGS John Stone (Wed Mar 21 2012 - 11:15:38 CDT)
Define "color Element" through rgb values Roger Nadler (Mon Mar 19 2012 - 11:47:14 CDT)
- Re: Define "color Element" through rgb values Axel Kohlmeyer (Mon Mar 19 2012 - 12:55:31 CDT)
- Re: Define "color Element" through rgb values John Stone (Wed Mar 21 2012 - 11:34:24 CDT)
  - Re: Define "color Element" through rgb values Roger Nadler (Wed Mar 21 2012 - 12:20:50 CDT)
bond cutoff Zhuyi Xue (Mon Mar 19 2012 - 08:45:34 CDT)
- Re: bond cutoff John Stone (Wed Mar 21 2012 - 11:29:49 CDT)
RMSD George Tzotzos (Sun Mar 18 2012 - 06:47:36 CDT)
- Re: RMSD John Stone (Sun Mar 18 2012 - 12:26:39 CDT)
- Re: RMSD Alexander Balaeff (Sun Mar 18 2012 - 12:59:28 CDT)
turns, using Stride Neelanjana Sengupta (Sat Mar 17 2012 - 02:03:52 CDT)
- Re: turns, using Stride John Stone (Wed Mar 21 2012 - 13:12:45 CDT)
Simulations with alpha methylated amino acids amin_at_imtech.res.in (Wed Mar 14 2012 - 20:17:04 CDT)
writepdb, wrong lines in output Francois Martz (Wed Mar 14 2012 - 12:15:22 CDT)
- Re: writepdb, wrong lines in output John Stone (Wed Mar 14 2012 - 12:31:18 CDT)
  - Re: writepdb, wrong lines in output Francois Martz (Thu Mar 15 2012 - 04:51:54 CDT)
Desmond Trajectory Files on the fly in VMD Hitesh Patel (Tue Mar 13 2012 - 05:13:34 CDT)
- Re: Desmond Trajectory Files on the fly in VMD Axel Kohlmeyer (Tue Mar 13 2012 - 08:56:45 CDT)
tutorial on inorganic builder setyanto md (Tue Mar 13 2012 - 03:56:35 CDT)
- Re: tutorial on inorganic builder John Stone (Tue Mar 13 2012 - 14:52:28 CDT)
load propka3.1 results error Albert (Mon Mar 12 2012 - 15:24:37 CDT)
- Re: load propka3.1 results error John Stone (Mon Mar 12 2012 - 15:36:25 CDT)
  - Re: load propka3.1 results error Albert (Mon Mar 12 2012 - 15:40:12 CDT)
how to configure PROPKA3 in VMD 1.91? Albert (Mon Mar 12 2012 - 15:11:39 CDT)
Drawing the simulation box from a Gromacs trajectory Andrew DeYoung (Mon Mar 12 2012 - 12:43:23 CDT)
- Re: Drawing the simulation box from a Gromacs trajectory Axel Kohlmeyer (Mon Mar 12 2012 - 14:30:23 CDT)
Force field toolkit (ffTK) - problem of reading Gaussian log file Wang Yi (Sat Mar 10 2012 - 13:58:20 CST)
- Re: Force field toolkit (ffTK) - problem of reading Gaussian log file Wang Yi (Sat Mar 10 2012 - 15:14:20 CST)
- Re: Force field toolkit (ffTK) - problem of reading Gaussian log file Mayne, Christopher G (Sat Mar 10 2012 - 15:44:06 CST)
Re: get avg ca distance Ana Celia Vila Verde (Fri Mar 09 2012 - 02:10:56 CST)
- Re: get avg ca distance Murpholino Peligro (Fri Mar 09 2012 - 11:09:08 CST)
VMD Display Error - Detected X11 'Composite' extension Shalabh Maroo (Thu Mar 08 2012 - 17:53:05 CST)
- Re: VMD Display Error - Detected X11 'Composite' extension Gianluca Interlandi (Thu Mar 08 2012 - 20:55:14 CST)
- Re: VMD Display Error - Detected X11 'Composite' extension Axel Kohlmeyer (Thu Mar 08 2012 - 21:06:08 CST)
  - Re: VMD Display Error - Detected X11 'Composite' extension John Stone (Thu Mar 08 2012 - 22:29:26 CST)
    - Re: VMD Display Error - Detected X11 'Composite' extension Shalabh Maroo (Fri Mar 09 2012 - 10:50:14 CST)
get avg ca distance Murpholino Peligro (Thu Mar 08 2012 - 15:33:19 CST)
positively charged portion of the protein surface Thomas Evangelidis (Thu Mar 08 2012 - 06:23:20 CST)
Re: [AMBER] Viewing with VMD bonds set by the "bond" command Francesco Pietra (Thu Mar 08 2012 - 03:48:48 CST)
- Re: [AMBER] Viewing with VMD bonds set by the "bond" command Francesco Pietra (Thu Mar 08 2012 - 12:27:58 CST)
  - Fwd: Re: [AMBER] Viewing with VMD bonds set by the "bond" command Francesco Pietra (Fri Mar 09 2012 - 01:39:17 CST)
    - Re: Re: Viewing with VMD bonds set by the "bond" command FyD (Fri Mar 09 2012 - 12:10:27 CST)
namd2 unable to find bond. Dave Arias (NelsonDa) (Wed Mar 07 2012 - 14:58:39 CST)
Memory used by VMD is much less than installed Meyer-Almes, Franz-Josef, Prof. Dr. (Wed Mar 07 2012 - 05:03:08 CST)
- Re: Memory used by VMD is much less than installed Axel Kohlmeyer (Wed Mar 07 2012 - 06:34:44 CST)
- Re: Memory used by VMD is much less than installed Ajasja LjubetiÄ (Wed Mar 07 2012 - 07:11:22 CST)
- Re: Memory used by VMD is much less than installed PaweÅ‚ KÄ™dzierski (Wed Mar 07 2012 - 08:15:54 CST)
rmsf to b-factor conversion abinayar_at_imsc.res.in (Wed Mar 07 2012 - 04:06:29 CST)
Individual components of RMSD? patrick wintrode (Tue Mar 06 2012 - 11:36:44 CST)
- Re: Individual components of RMSD? Andrew Jewett (Tue Mar 06 2012 - 20:31:31 CST)
  - Re: Individual components of RMSD? John Stone (Thu Mar 08 2012 - 12:15:47 CST)
    - Re: Individual components of RMSD? Axel Kohlmeyer (Thu Mar 08 2012 - 13:07:49 CST)
make movies with user-defined script lam nguyen (Mon Mar 05 2012 - 12:49:00 CST)
- Re: make movies with user-defined script John Stone (Thu Mar 08 2012 - 12:12:06 CST)
  - Re: make movies with user-defined script lam nguyen (Fri Mar 09 2012 - 12:10:05 CST)
information regarding tcl script for cell volume changing with each frame siladitya mukherjee (Sat Mar 03 2012 - 13:50:09 CST)
- Re: information regarding tcl script for cell volume changing with each frame Axel Kohlmeyer (Sat Mar 03 2012 - 14:45:14 CST)
  - Re: information regarding tcl script for cell volume changing with each frame siladitya mukherjee (Sat Mar 03 2012 - 16:18:07 CST)
    - Re: information regarding tcl script for cell volume changing with each frame Axel Kohlmeyer (Sat Mar 03 2012 - 17:25:43 CST)
Bug in VMD main? Ahmet Bakan (Sat Mar 03 2012 - 12:25:05 CST)
- Re: Bug in VMD main? John Stone (Sat Mar 03 2012 - 12:37:43 CST)
Re: Using VMD to plot coordination number of solvated ion v/s time Ana Celia Vila Verde (Fri Mar 02 2012 - 10:15:23 CST)
- Re: Using VMD to plot coordination number of solvated ion v/s time skolev_at_mnet.bg (Fri Mar 02 2012 - 12:33:57 CST)
Using VMD to plot coordination number of solvated ion v/s time skolev_at_mnet.bg (Fri Mar 02 2012 - 09:33:07 CST)
exporting marching cubes data from QuickSurf Zhe Wu (Thu Mar 01 2012 - 21:40:11 CST)
- Re: exporting marching cubes data from QuickSurf John Stone (Thu Mar 01 2012 - 22:18:48 CST)
  - RE: exporting marching cubes data from QuickSurf Zhe Wu (Fri Mar 02 2012 - 15:04:18 CST)
Calculating RDF from xyz file siladitya mukherjee (Thu Mar 01 2012 - 16:38:54 CST)
- Re: Calculating RDF from xyz file Axel Kohlmeyer (Thu Mar 01 2012 - 17:36:46 CST)
measure sasa Aaron Oakley (Wed Feb 29 2012 - 17:50:08 CST)
- Re: measure sasa John Stone (Thu Mar 01 2012 - 10:06:21 CST)
how to place a membrane protein with OPM ? Albert (Wed Feb 29 2012 - 15:33:44 CST)
- Re: how to place a membrane protein with OPM ? Andrew Jewett (Wed Feb 29 2012 - 19:24:10 CST)
  - Re: how to place a membrane protein with OPM ? Albert (Wed Feb 29 2012 - 23:54:35 CST)
- Re: how to place a membrane protein with OPM ? Chris Harrison (Wed Feb 29 2012 - 21:35:28 CST)
  - Re: how to place a membrane protein with OPM ? Chris Harrison (Wed Feb 29 2012 - 21:36:32 CST)
  - Re: how to place a membrane protein with OPM ? Albert (Wed Feb 29 2012 - 23:54:00 CST)
    - Re: how to place a membrane protein with OPM ? Chris Harrison (Thu Mar 01 2012 - 00:13:58 CST)
Adsorption VMD Tcl script error vladanstefanovic_at_kg.ac.rs (Wed Feb 29 2012 - 13:51:58 CST)
- Re: Adsorption VMD Tcl script error John Stone (Wed Feb 29 2012 - 14:05:21 CST)
  - Re: Adsorption VMD Tcl script error Ajasja LjubetiÄ (Wed Feb 29 2012 - 16:09:59 CST)
    - Re: Adsorption VMD Tcl script error Axel Kohlmeyer (Wed Feb 29 2012 - 16:56:31 CST)
Lipid order parameters Ganesh Kamath (Mon Feb 27 2012 - 14:21:13 CST)
Problems with PSFGEN Dave Arias (NelsonDa) (Mon Feb 27 2012 - 13:18:07 CST)
Plugins use after compilation question Anthony Cruz Balberdi (Mon Feb 27 2012 - 12:38:01 CST)
- Re: Plugins use after compilation question Axel Kohlmeyer (Mon Feb 27 2012 - 13:30:49 CST)
How to change the python include and linkage path in configure script Haw-Zan Goh (Mon Feb 27 2012 - 12:15:06 CST)
- Re: How to change the python include and linkage path in configure script Axel Kohlmeyer (Mon Feb 27 2012 - 13:33:18 CST)
From Vmd to lammps data file Dimitrios Mantzalis (Mon Feb 27 2012 - 06:55:34 CST)
- Re: From Vmd to lammps data file Axel Kohlmeyer (Mon Feb 27 2012 - 08:07:24 CST)
  - Re: From Vmd to lammps data file Dimitrios Mantzalis (Mon Feb 27 2012 - 09:07:05 CST)
    - Re: From Vmd to lammps data file Axel Kohlmeyer (Mon Feb 27 2012 - 09:19:31 CST)
possible memory leak with pbc wrap Ana Celia Vila Verde (Fri Feb 24 2012 - 09:16:59 CST)
- Re: possible memory leak with pbc wrap John Stone (Tue Feb 28 2012 - 14:20:14 CST)
Input selection as xyz co-ordinates Ban Arn (Wed Feb 22 2012 - 09:09:33 CST)
- Re: Input selection as xyz co-ordinates John Stone (Wed Feb 22 2012 - 22:43:52 CST)
Release of the R.E.D.-III.5 tools FyD (Wed Feb 22 2012 - 05:00:23 CST)
Secondary structure assignment Zhuyi Xue (Tue Feb 21 2012 - 21:24:14 CST)
- Re: Secondary structure assignment Peter C. Lai (Wed Feb 22 2012 - 00:31:39 CST)
- Re: Secondary structure assignment sajad falsafi (Wed Feb 22 2012 - 01:39:07 CST)
[request] Best practices for rendering frames and making movies Diego Enry Barreto Gomes (Tue Feb 21 2012 - 17:22:56 CST)
- Re: [request] Best practices for rendering frames and making movies Axel Kohlmeyer (Tue Feb 21 2012 - 18:29:19 CST)
  - mono2poly question Joseph Bylund (Sun Feb 26 2012 - 23:24:00 CST)
- Re: [request] Best practices for rendering frames and making movies John Stone (Wed Feb 22 2012 - 11:12:27 CST)
SASA -tcl script Ban Arn (Tue Feb 21 2012 - 12:36:07 CST)
- Re: SASA -tcl script John Stone (Tue Feb 21 2012 - 14:31:09 CST)
incorrect number of coordinates in .dcd file error abinayar_at_imsc.res.in (Tue Feb 21 2012 - 00:53:08 CST)
- Re: incorrect number of coordinates in .dcd file error Ajasja LjubetiÄ (Tue Feb 21 2012 - 02:17:37 CST)
how to add spring between two atoms SONY kaur (Mon Feb 20 2012 - 13:05:40 CST)
- Re: how to add spring between two atoms John Stone (Mon Feb 20 2012 - 13:17:23 CST)
.xyz bond winardi, erik (Mon Feb 20 2012 - 05:15:05 CST)
- Re: .xyz bond Axel Kohlmeyer (Mon Feb 20 2012 - 06:07:02 CST)
Distance between center of mass of two amino acid residues. mish (Sun Feb 19 2012 - 10:27:45 CST)
- Re: Distance between center of mass of two amino acid residues. Axel Kohlmeyer (Sun Feb 19 2012 - 11:37:25 CST)
- R: Distance between center of mass of two amino acid residues. Cosseddu, Salvatore (Sun Feb 19 2012 - 13:50:37 CST)
  - Re: Distance between center of mass of two amino acid residues. Axel Kohlmeyer (Sun Feb 19 2012 - 14:43:17 CST)
quicksurf and PBC Philippe Bopp / temporary (Sat Feb 18 2012 - 09:45:48 CST)
- Re: quicksurf and PBC Axel Kohlmeyer (Sat Feb 18 2012 - 10:57:01 CST)
- Re: quicksurf and PBC John Stone (Sat Feb 18 2012 - 11:14:25 CST)
About FFTP with transition metal complexes Francesco Pietra (Sat Feb 18 2012 - 00:23:01 CST)
- Re: About FFTP with transition metal complexes Mayne, Christopher G (Sat Feb 18 2012 - 15:39:58 CST)
  - RE: Re: About FFTP with transition metal complexes JC Gumbart (Sat Feb 18 2012 - 16:39:55 CST)
    - Re: Re: About FFTP with transition metal complexes Francesco Pietra (Wed Feb 29 2012 - 05:52:03 CST)
    - Re: Re: About FFTP with transition metal complexes JC Gumbart (Wed Feb 29 2012 - 20:36:18 CST)
trajector@VMD Turgay Cakmak (Fri Feb 17 2012 - 08:54:15 CST)
- Re: trajector@VMD Axel Kohlmeyer (Fri Feb 17 2012 - 09:38:26 CST)
  - Re: trajector@VMD John Stone (Fri Feb 17 2012 - 10:17:12 CST)
append glow lights to a VMD/Tachyon scene Filip Persson (Fri Feb 17 2012 - 03:11:53 CST)
- Re: append glow lights to a VMD/Tachyon scene Axel Kohlmeyer (Fri Feb 17 2012 - 08:11:53 CST)
pdb reader/writer appears to corrupt pdb output Bennion, Brian (Thu Feb 16 2012 - 14:49:06 CST)
- Re: pdb reader/writer appears to corrupt pdb output John Stone (Thu Feb 16 2012 - 15:51:08 CST)
  - RE: pdb reader/writer appears to corrupt pdb output Bennion, Brian (Thu Feb 16 2012 - 16:04:27 CST)
    - Re: pdb reader/writer appears to corrupt pdb output John Stone (Thu Feb 16 2012 - 16:21:53 CST)
Membrane and box with PBC Ricardo Soares (Thu Feb 16 2012 - 12:28:06 CST)
Create multiple tcl interpreter child instances within VMD to run several scripts at once Salvatore Mario Cosseddu (Thu Feb 16 2012 - 11:23:15 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once John Stone (Thu Feb 16 2012 - 11:40:11 CST)
  - Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once Salvatore Mario Cosseddu (Thu Feb 16 2012 - 11:49:55 CST)
    - Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once John Stone (Thu Feb 16 2012 - 11:52:15 CST)
    - Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once Salvatore Mario Cosseddu (Thu Feb 16 2012 - 12:04:17 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once Axel Kohlmeyer (Thu Feb 16 2012 - 12:46:48 CST)
quick-surf and throb Philippe Bopp / temporary (Thu Feb 16 2012 - 03:55:32 CST)
- Re: quick-surf and throb John Stone (Thu Feb 16 2012 - 09:40:44 CST)
Re: [Stefan_Franzen@ncsu.edu: Patch for deoxy and dideoxy nucleotides] Jim Phillips (Wed Feb 15 2012 - 10:24:11 CST)
ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: Urszula Uciechowska (Wed Feb 15 2012 - 07:59:30 CST)
installation error Urszula Uciechowska (Wed Feb 15 2012 - 03:28:59 CST)
ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: Urszula Uciechowska (Wed Feb 15 2012 - 01:48:52 CST)
- Re: ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: John Stone (Wed Feb 15 2012 - 10:08:38 CST)
Hbonds Analysis Aric Newton (Tue Feb 14 2012 - 14:22:27 CST)
- Re: Hbonds Analysis Axel Kohlmeyer (Tue Feb 14 2012 - 15:36:13 CST)
  - Re: Hbonds Analysis John Stone (Wed Feb 15 2012 - 10:13:18 CST)
Timestep Molybdos Kirkimpolakis (Mon Feb 13 2012 - 15:53:15 CST)
- Re: Timestep Axel Kohlmeyer (Mon Feb 13 2012 - 16:57:22 CST)
radial distribution funtion Paymon Pirzadeh (Mon Feb 13 2012 - 15:21:25 CST)
- Re: radial distribution funtion Axel Kohlmeyer (Mon Feb 13 2012 - 16:21:16 CST)
  - Re: radial distribution funtion Paymon Pirzadeh (Mon Feb 13 2012 - 21:43:54 CST)
    - Re: radial distribution funtion Axel Kohlmeyer (Mon Feb 13 2012 - 21:59:32 CST)
Spatial (angular) distribution function David Cohen-Tanugi (Mon Feb 13 2012 - 13:38:11 CST)
- Re: Spatial (angular) distribution function John Stone (Wed Feb 15 2012 - 10:17:06 CST)
Patch for deoxy and dideoxy nucleotides Stefan Franzen (Mon Feb 13 2012 - 09:31:12 CST)
Problem with VMD 1.9.1 (CUDA) on Snow Leopard Christian Mücksch (Mon Feb 13 2012 - 05:02:54 CST)
- Re: Problem with VMD 1.9.1 (CUDA) on Snow Leopard John Stone (Tue Feb 14 2012 - 11:52:24 CST)
Meadionize lecan (Sun Feb 12 2012 - 21:05:15 CST)
- RE: Meadionize Mark Cunningham (Mon Feb 13 2012 - 09:15:18 CST)
PROPKA doesn't work in recent VMD1.9.1 Albert (Sun Feb 12 2012 - 05:25:14 CST)
- Re: PROPKA doesn't work in recent VMD1.9.1 Axel Kohlmeyer (Sun Feb 12 2012 - 09:47:21 CST)
problem with catdcd Albert (Sun Feb 12 2012 - 02:23:40 CST)
- RE: problem with catdcd JC Gumbart (Sun Feb 12 2012 - 08:21:18 CST)
  - Re: problem with catdcd Albert (Sun Feb 12 2012 - 08:24:29 CST)
    - RE: problem with catdcd JC Gumbart (Sun Feb 12 2012 - 08:34:56 CST)
- Re: problem with catdcd Joshua Adelman (Sun Feb 12 2012 - 08:38:22 CST)
charges in VMD 1.9 vs. VMD 1.8.7 Philippe Bopp / temporary (Fri Feb 10 2012 - 07:43:17 CST)
- Re: charges in VMD 1.9 vs. VMD 1.8.7 Axel Kohlmeyer (Fri Feb 10 2012 - 08:38:12 CST)
Stand-alone VMD ? R. Charbel Maroun (Fri Feb 10 2012 - 05:26:38 CST)
- Re: Stand-alone VMD ? Ajasja LjubetiÄ (Fri Feb 10 2012 - 07:29:36 CST)
  - Re: Stand-alone VMD ? R. Charbel Maroun (Fri Feb 10 2012 - 09:25:21 CST)
  - Re: Stand-alone VMD ? R. Charbel Maroun (Mon Feb 13 2012 - 05:58:52 CST)
    - Re: Stand-alone VMD ? Salvatore Mario Cosseddu (Mon Feb 13 2012 - 08:03:43 CST)
- Re: Stand-alone VMD ? Salvatore Mario Cosseddu (Fri Feb 10 2012 - 08:49:55 CST)
- RE: Stand-alone VMD ? Yamada, Masako (GE Global Research) (Fri Feb 10 2012 - 09:41:49 CST)
multiseq doesn't respond to ctrl key correctly charles sun (Thu Feb 09 2012 - 22:58:45 CST)
- Re: multiseq doesn't respond to ctrl key correctly Kirby Vandivort (Fri Feb 10 2012 - 10:19:22 CST)
radial distribution function Paymon Pirzadeh (Thu Feb 09 2012 - 20:15:15 CST)
- Re: radial distribution function Axel Kohlmeyer (Thu Feb 09 2012 - 21:09:54 CST)
change of font lecan (Thu Feb 09 2012 - 20:01:17 CST)
- Re: change of font John Stone (Fri Feb 10 2012 - 09:04:57 CST)
- Re: change of font Salvatore Mario Cosseddu (Fri Feb 10 2012 - 09:12:46 CST)
Source Command MARK PLUMMER (Thu Feb 09 2012 - 10:06:42 CST)
Source Command MARK PLUMMER (Thu Feb 09 2012 - 09:53:36 CST)
- Re: Source Command Salvatore Mario Cosseddu (Thu Feb 09 2012 - 13:42:10 CST)
Use of coarse grain plugin kirtana S (Wed Feb 08 2012 - 17:35:26 CST)
- Re: Use of coarse grain plugin Dudo (Wed Feb 08 2012 - 18:47:01 CST)
- Re: Use of coarse grain plugin Kirby Vandivort (Tue Feb 28 2012 - 16:53:50 CST)
VMD Contact map through time Zack Scholl (Wed Feb 08 2012 - 16:09:04 CST)
- Re: VMD Contact map through time Barry Isralewitz (Wed Feb 08 2012 - 16:47:22 CST)
charge visualization niladri patra (Tue Feb 07 2012 - 18:41:37 CST)
- Re: charge visualization Axel Kohlmeyer (Tue Feb 07 2012 - 19:49:17 CST)
Use variable in atomselect command Brian Kim (Tue Feb 07 2012 - 15:16:17 CST)
- Re: Use variable in atomselect command Axel Kohlmeyer (Tue Feb 07 2012 - 16:15:55 CST)
  - Re: Use variable in atomselect command Brian Kim (Tue Feb 07 2012 - 16:40:24 CST)
  - Re: Use variable in atomselect command Brian Kim (Tue Feb 07 2012 - 19:11:27 CST)
NAMDenergy plugin_VMD_van der Waal interactions Bruno Luís Pinto de Oliveira (Tue Feb 07 2012 - 09:20:23 CST)
- NAMDenergy plugin_VMD_van der Waal interactions Bruno Luís Pinto de Oliveira (Wed Feb 08 2012 - 10:05:41 CST)
  - NAMDenergy plugin_VMD_van der Waal interactions Bruno Luís Pinto de Oliveira (Wed Feb 08 2012 - 12:40:57 CST)
Configure VMD while GROMACS Installation Hitesh Patel (Tue Feb 07 2012 - 03:39:30 CST)
- Re: Configure VMD while GROMACS Installation Axel Kohlmeyer (Tue Feb 07 2012 - 05:52:22 CST)
testing vmd1.9.1 Bennion, Brian (Mon Feb 06 2012 - 18:19:19 CST)
- Re: testing vmd1.9.1 John Stone (Wed Feb 08 2012 - 13:34:10 CST)
Tcl script error Ban Arn (Mon Feb 06 2012 - 10:50:14 CST)
- Re: Tcl script error John Stone (Mon Feb 06 2012 - 10:58:26 CST)
  - Re: Tcl script error Ban Arn (Mon Feb 06 2012 - 11:12:12 CST)
    - Re: Tcl script error John Stone (Mon Feb 06 2012 - 11:23:05 CST)
    - Re: Tcl script error Ban Arn (Mon Feb 06 2012 - 11:28:12 CST)
  - Re: Tcl script error Axel Kohlmeyer (Mon Feb 06 2012 - 11:54:35 CST)
- Re: Tcl script error Axel Kohlmeyer (Mon Feb 06 2012 - 11:46:43 CST)
PSFGEN and Reading Bonds from PDB Files Rajan Vatassery (Sun Feb 05 2012 - 14:13:43 CST)
- Re: PSFGEN and Reading Bonds from PDB Files Axel Kohlmeyer (Sun Feb 05 2012 - 15:36:29 CST)
- Re: PSFGEN and Reading Bonds from PDB Files Chris Harrison (Sun Feb 05 2012 - 15:45:19 CST)
- Re: PSFGEN and Reading Bonds from PDB Files flavio seixas (Sun Feb 05 2012 - 18:24:40 CST)
- Re: PSFGEN and Reading Bonds from PDB Files Rajan Vatassery (Mon Feb 06 2012 - 11:02:14 CST)
  - Re: PSFGEN and Reading Bonds from PDB Files Axel Kohlmeyer (Mon Feb 06 2012 - 11:52:27 CST)
ffTK in the just released VMD 1.9.1 JC Gumbart (Sat Feb 04 2012 - 15:04:05 CST)
Announce: VMD 1.9.1 released John Stone (Sat Feb 04 2012 - 14:25:58 CST)
- The spheres become oval, getting close to the screen borders Cosseddu, Salvatore (Sun Feb 05 2012 - 09:53:57 CST)
  - Re: The spheres become oval, getting close to the screen borders John Stone (Sun Feb 05 2012 - 10:44:57 CST)
    - RE: The spheres become oval, getting close to the screen borders Cosseddu, Salvatore (Sun Feb 05 2012 - 11:43:11 CST)
  - Re: The spheres become oval, getting close to the screen borders Axel Kohlmeyer (Sun Feb 05 2012 - 11:07:34 CST)
create images in vmd oguz gurbulak (Fri Feb 03 2012 - 05:34:54 CST)
- create images in vmd oguz gurbulak (Fri Feb 03 2012 - 06:21:28 CST)
- Re: create images in vmd Axel Kohlmeyer (Fri Feb 03 2012 - 06:34:53 CST)
how to display the full molecule when use "within" option? Albert (Fri Feb 03 2012 - 05:31:10 CST)
- Re: how to display the full molecule when use "within" option? Ajasja LjubetiÄ (Fri Feb 03 2012 - 06:21:29 CST)
- Re: how to display the full molecule when use "within" option? Axel Kohlmeyer (Fri Feb 03 2012 - 06:32:34 CST)
floating error - tcl script Ban Arn (Fri Feb 03 2012 - 04:51:11 CST)
Error while running steered MD script Ban Arn (Thu Feb 02 2012 - 10:24:18 CST)
- Re: Error while running steered MD script John Stone (Thu Feb 02 2012 - 17:10:01 CST)
  - Re: Error while running steered MD script Ban Arn (Thu Feb 02 2012 - 17:29:02 CST)
    - Re: Error while running steered MD script John Stone (Thu Feb 02 2012 - 18:18:20 CST)
    - Re: Error while running steered MD script Ban Arn (Fri Feb 03 2012 - 03:07:34 CST)
how to measure residues' chi angle in VMD? Albert (Thu Feb 02 2012 - 03:34:27 CST)
how to merge two PDB trajectories? Albert (Wed Feb 01 2012 - 23:34:31 CST)
- Re: how to merge two PDB trajectories? John Stone (Wed Feb 01 2012 - 23:40:45 CST)
is it possible to enable GPU rendering? Albert (Wed Feb 01 2012 - 14:04:02 CST)
- Re: is it possible to enable GPU rendering? John Stone (Wed Feb 01 2012 - 14:12:47 CST)
Save coor coordinates as pdb R. Charbel Maroun (Wed Feb 01 2012 - 12:26:31 CST)
- Re: Save coor coordinates as pdb John Stone (Wed Feb 01 2012 - 13:53:58 CST)
Gromacs analysis tools for Namd output PAUL NEWMAN (Wed Feb 01 2012 - 11:41:40 CST)
- Re: namd-l: Gromacs analysis tools for Namd output Axel Kohlmeyer (Wed Feb 01 2012 - 11:48:47 CST)
- Re: Gromacs analysis tools for Namd output John Stone (Wed Feb 01 2012 - 11:47:43 CST)
- RE: Gromacs analysis tools for Namd output Kei Sit (Wed Feb 01 2012 - 17:33:01 CST)
Re: RE : PCA of desmond trajectories Hitesh Patel (Wed Feb 01 2012 - 10:26:44 CST)
- Re: RE : PCA of desmond trajectories John Stone (Wed Feb 01 2012 - 10:41:58 CST)
Unusual visualisations Ben Hall (Wed Feb 01 2012 - 09:54:01 CST)
- Re: Unusual visualisations John Stone (Wed Feb 01 2012 - 10:50:30 CST)
  - Re: Unusual visualisations John Stone (Wed Feb 01 2012 - 16:11:07 CST)
PCA of desmond trajectories Hitesh Patel (Wed Feb 01 2012 - 09:29:15 CST)
Rmsd script with arguments Mustafa Tekpinar (Tue Jan 31 2012 - 13:48:40 CST)
- Re: Rmsd script with arguments Axel Kohlmeyer (Tue Jan 31 2012 - 15:55:06 CST)
  - Re: Rmsd script with arguments Mustafa Tekpinar (Wed Feb 01 2012 - 13:38:34 CST)
Quantitative meaning of volmap isosurface Ben Hall (Tue Jan 31 2012 - 06:01:20 CST)
- Re: Quantitative meaning of volmap isosurface Axel Kohlmeyer (Tue Jan 31 2012 - 07:25:02 CST)
  - Re: Quantitative meaning of volmap isosurface Benjamin Hall (Tue Jan 31 2012 - 07:32:50 CST)
how to fix structural alignment pdbs thereal sisterdot (Tue Jan 31 2012 - 03:04:52 CST)
- Re: how to fix structural alignment pdbs Axel Kohlmeyer (Tue Jan 31 2012 - 07:22:44 CST)
how to configure Tachyon image render size? Albert (Mon Jan 30 2012 - 11:52:02 CST)
- Re: how to configure Tachyon image render size? Jeffrey Potoff (Mon Jan 30 2012 - 14:14:09 CST)
  - Re: how to configure Tachyon image render size? Axel Kohlmeyer (Mon Jan 30 2012 - 15:46:42 CST)
NewRibbons/NewCartoon problem due to missing CUDA ? thereal sisterdot (Mon Jan 30 2012 - 05:27:33 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? Axel Kohlmeyer (Tue Jan 31 2012 - 07:18:10 CST)
  - Re: NewRibbons/NewCartoon problem due to missing CUDA ? Ajasja LjubetiÄ (Tue Jan 31 2012 - 08:32:01 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? John Stone (Tue Jan 31 2012 - 15:47:00 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? thereal sisterdot (Thu Feb 02 2012 - 05:49:34 CST)
  - Re: NewRibbons/NewCartoon problem due to missing CUDA ? Axel Kohlmeyer (Thu Feb 02 2012 - 07:52:24 CST)
Calculation of ligand displacement Vs time Ban Arn (Mon Jan 30 2012 - 03:53:27 CST)
problem with new plugin installation. Albert (Sat Jan 28 2012 - 01:18:14 CST)
- problem with new plugin installation. Albert (Sat Jan 28 2012 - 08:08:16 CST)
  - Re: problem with new plugin installation. Axel Kohlmeyer (Sat Jan 28 2012 - 10:33:50 CST)
    - Re: problem with new plugin installation. John Stone (Sat Jan 28 2012 - 11:25:14 CST)
Cutting a sphere with a specified radius along a trajectory Mustafa Tekpinar (Fri Jan 27 2012 - 16:26:29 CST)
- Re: Cutting a sphere with a specified radius along a trajectory John Stone (Fri Jan 27 2012 - 17:17:43 CST)
- Re: Cutting a sphere with a specified radius along a trajectory Axel Kohlmeyer (Fri Jan 27 2012 - 17:24:23 CST)
Re: how to enlarge the menu font? Albert (Fri Jan 27 2012 - 01:33:48 CST)
- Re: how to enlarge the menu font? John Stone (Fri Jan 27 2012 - 01:42:20 CST)
how to enlarge the menu font? Albert (Fri Jan 27 2012 - 00:18:36 CST)
- Re: how to enlarge the menu font? Ajasja LjubetiÄ (Fri Jan 27 2012 - 01:29:11 CST)
Viewing "other" data as a trajectory plays J. Nathan Scott (Thu Jan 26 2012 - 11:40:08 CST)
- Re: Viewing "other" data as a trajectory plays John Stone (Thu Jan 26 2012 - 12:19:32 CST)
  - Re: Viewing "other" data as a trajectory plays J. Nathan Scott (Thu Jan 26 2012 - 13:07:28 CST)
package ::struct::set not available Ana Celia Vila Verde (Thu Jan 26 2012 - 08:36:56 CST)
- Re: package ::struct::set not available Axel Kohlmeyer (Thu Jan 26 2012 - 09:40:06 CST)
VMD 1.9.1 beta 2 to be posted tonight... John Stone (Wed Jan 25 2012 - 16:08:28 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... John Stone (Wed Jan 25 2012 - 19:35:42 CST)
  - Re: VMD 1.9.1 beta 2 to be posted tonight... Ajasja LjubetiÄ (Thu Jan 26 2012 - 03:04:29 CST)
unit cell volume is zero jeela keel (Wed Jan 25 2012 - 15:56:40 CST)
- Re: unit cell volume is zero Axel Kohlmeyer (Wed Jan 25 2012 - 16:03:04 CST)
  - Re: Re: unit cell volume is zero jeela keel (Wed Jan 25 2012 - 16:59:19 CST)
- Re: unit cell volume is zero John Stone (Wed Jan 25 2012 - 16:03:35 CST)
Looking for nice example images for VMD 1.9.1 release page... John Stone (Wed Jan 25 2012 - 14:29:39 CST)
- Re: Looking for nice example images for VMD 1.9.1 release page... Toni Giorgino (Fri Jan 27 2012 - 16:38:04 CST)
  - Re: Looking for nice example images for VMD 1.9.1 release page... John Stone (Fri Jan 27 2012 - 17:10:57 CST)
atomselect counting jeela keel (Wed Jan 25 2012 - 08:39:47 CST)
- Re: atomselect counting Axel Kohlmeyer (Wed Jan 25 2012 - 09:12:16 CST)
  - Re: Re: atomselect counting jeela keel (Wed Jan 25 2012 - 13:48:18 CST)
    - Re: Re: atomselect counting Axel Kohlmeyer (Wed Jan 25 2012 - 14:46:05 CST)
    - Re: Re: atomselect counting Peter C. Lai (Wed Jan 25 2012 - 16:51:49 CST)
- Re: atomselect counting Bryan Roessler (Thu Feb 02 2012 - 13:20:38 CST)
Topotools - limit to size of system it can be used for? Michael Doig (Tue Jan 24 2012 - 05:48:04 CST)
- Re: Topotools - limit to size of system it can be used for? Axel Kohlmeyer (Tue Jan 24 2012 - 07:13:27 CST)
ImportError: cannot import name AtomSel Wim R. Cardoen (Mon Jan 23 2012 - 15:36:19 CST)
- Re: ImportError: cannot import name AtomSel Axel Kohlmeyer (Mon Jan 23 2012 - 16:33:29 CST)
- Re: ImportError: cannot import name AtomSel John Stone (Mon Jan 23 2012 - 16:35:53 CST)
  - Re: ImportError: cannot import name AtomSel Wim R. Cardoen (Tue Jan 24 2012 - 11:26:23 CST)
Calling all DCD files in a directory sequentially using CatDCD Bryan Roessler (Mon Jan 23 2012 - 15:11:34 CST)
- Re: Calling all DCD files in a directory sequentially using CatDCD John Stone (Mon Jan 23 2012 - 15:24:51 CST)
  - Re: Calling all DCD files in a directory sequentially using CatDCD Bryan Roessler (Mon Jan 23 2012 - 16:15:48 CST)
    - Re: Calling all DCD files in a directory sequentially using CatDCD Bryan Roessler (Mon Jan 23 2012 - 18:24:07 CST)
    - RE: Calling all DCD files in a directory sequentially using CatDCD Cosseddu, Salvatore (Tue Jan 24 2012 - 03:47:29 CST)
script to modify cysteines with spinlabel Anna Kuznetsova (Mon Jan 23 2012 - 14:55:50 CST)
- Re: script to modify cysteines with spinlabel Ajasja LjubetiÄ (Tue Jan 24 2012 - 13:35:22 CST)
VMD and Centos 6 Irene Newhouse (Sat Jan 21 2012 - 22:49:47 CST)
- Re: VMD and Centos 6 Axel Kohlmeyer (Sun Jan 22 2012 - 10:19:06 CST)
  - RE: VMD and Centos 6 Irene Newhouse (Sun Jan 22 2012 - 14:39:16 CST)
    - RE: VMD and Centos 6 Irene Newhouse (Sun Jan 22 2012 - 16:17:15 CST)
ERROR) measure gofr: bad frame range given. max jeela keel (Fri Jan 20 2012 - 14:43:13 CST)
- Re: ERROR) measure gofr: bad frame range given. max jeela keel (Mon Jan 23 2012 - 08:09:54 CST)
  - Re: ERROR) measure gofr: bad frame range given. max Axel Kohlmeyer (Mon Jan 23 2012 - 09:29:37 CST)
is it possible to hide ONLY non-polar hydrogens? Albert (Fri Jan 20 2012 - 03:54:32 CST)
- Re: is it possible to hide ONLY non-polar hydrogens? Ajasja LjubetiÄ (Fri Jan 20 2012 - 04:49:36 CST)
- Re: is it possible to hide ONLY non-polar hydrogens? poker_at_physics.usyd.edu.au (Fri Jan 20 2012 - 16:41:14 CST)
(no subject) vaneeta bala (Fri Jan 20 2012 - 01:11:06 CST)
ionic radii of sodium and chloride Zumot, Elia Nabil (Thu Jan 19 2012 - 20:12:38 CST)
- Re: ionic radii of sodium and chloride Axel Kohlmeyer (Thu Jan 19 2012 - 21:12:49 CST)
  - RE: ionic radii of sodium and chloride Zumot, Elia Nabil (Fri Jan 20 2012 - 10:57:19 CST)
  - Re: ionic radii of sodium and chloride Alexander Balaeff (Fri Jan 20 2012 - 13:59:55 CST)
Generating a psf file using VMD Ganesh Kamath (Thu Jan 19 2012 - 16:56:47 CST)
- Re: Generating a psf file using VMD Axel Kohlmeyer (Thu Jan 19 2012 - 17:55:01 CST)
- Re: Generating a psf file using VMD John Stone (Mon Jan 23 2012 - 10:58:38 CST)
rendering question Alex Angerhofer (Thu Jan 19 2012 - 10:56:59 CST)
- Re: rendering question John Stone (Thu Jan 19 2012 - 11:31:20 CST)
- Re: rendering question Axel Kohlmeyer (Thu Jan 19 2012 - 11:55:22 CST)
Use "Metal complexes/FeS-clusters" in VMD paratool Jiajian Li (Wed Jan 18 2012 - 16:01:10 CST)
- Re: Use "Metal complexes/FeS-clusters" in VMD paratool John Stone (Wed Feb 01 2012 - 23:21:49 CST)
Haptic devices for IMD gpat_at_bioacademy.gr (Wed Jan 18 2012 - 09:56:21 CST)
- Re: Haptic devices for IMD John Stone (Wed Jan 18 2012 - 10:57:05 CST)
- Re: Haptic devices for IMD Axel Kohlmeyer (Wed Jan 18 2012 - 11:24:19 CST)
  - Re: Haptic devices for IMD gpat_at_bioacademy.gr (Fri Jan 20 2012 - 05:01:35 CST)
- Re: Haptic devices for IMD Marc Baaden (Wed Jan 18 2012 - 12:27:55 CST)
New "surf" calculations in VMD 1.9.1 beta FX (Wed Jan 18 2012 - 06:12:08 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta Ajasja LjubetiÄ (Wed Jan 18 2012 - 07:17:32 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta Axel Kohlmeyer (Wed Jan 18 2012 - 08:00:54 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta John Stone (Wed Jan 18 2012 - 11:01:13 CST)
Using threads in VMD's tcl Víctor (Tue Jan 17 2012 - 10:04:57 CST)
- Re: Using threads in VMD's tcl Axel Kohlmeyer (Tue Jan 17 2012 - 11:05:20 CST)
- Re: Using threads in VMD's tcl Ajasja LjubetiÄ (Tue Jan 17 2012 - 12:40:13 CST)
  - Re: Using threads in VMD's tcl Víctor (Tue Jan 17 2012 - 16:03:38 CST)
    - Re: Using threads in VMD's tcl Axel Kohlmeyer (Tue Jan 17 2012 - 17:17:25 CST)
    - Re: Using threads in VMD's tcl Víctor (Tue Jan 17 2012 - 17:19:48 CST)
Question regarding HBond analysis Ganesh Kamath (Mon Jan 16 2012 - 17:05:19 CST)
- Re: Question regarding HBond analysis Axel Kohlmeyer (Mon Jan 16 2012 - 18:13:55 CST)
  - Fwd: Question regarding HBond analysis Ganesh Kamath (Tue Jan 17 2012 - 12:26:01 CST)
    - Re: Question regarding HBond analysis Axel Kohlmeyer (Tue Jan 17 2012 - 13:19:21 CST)
using vmd to apply symmetry transformations Bennion, Brian (Fri Jan 13 2012 - 09:21:39 CST)
- Re: using vmd to apply symmetry transformations John Stone (Fri Jan 13 2012 - 10:58:08 CST)
  - RE: using vmd to apply symmetry transformations Bennion, Brian (Fri Jan 13 2012 - 11:06:27 CST)
Yet another python question: how to run a python script from the vmd console ? maria goranovic (Fri Jan 13 2012 - 05:04:16 CST)
- Re: Yet another python question: how to run a python script from the vmd console ? John Stone (Wed Feb 01 2012 - 23:33:46 CST)
precompiled python libraries still work for vmd 1.9 maria goranovic (Fri Jan 13 2012 - 04:50:12 CST)
- Re: precompiled python libraries still work for vmd 1.9 John Stone (Fri Jan 13 2012 - 11:24:56 CST)
using fit_angle.py over a trajectory maria goranovic (Fri Jan 13 2012 - 03:36:26 CST)
Problems in setting up low pH systems Sheng, Zi-Zhang (Wed Jan 11 2012 - 10:03:10 CST)
- Re: Problems in setting up low pH systems Sheng, Zi-Zhang (Wed Jan 11 2012 - 20:26:49 CST)
  - Re: Problems in setting up low pH systems Axel Kohlmeyer (Wed Jan 11 2012 - 21:26:28 CST)
camera position and scale Arham Amouie (Mon Jan 09 2012 - 08:09:46 CST)
- Re: camera position and scale John Stone (Wed Feb 01 2012 - 23:18:23 CST)
Implicit Ligand Sampling-molecule rotation issue Aaron Oakley (Sun Jan 08 2012 - 18:30:08 CST)
- Re: Implicit Ligand Sampling-molecule rotation issue Jérôme Hénin (Mon Jan 09 2012 - 05:11:19 CST)
vmd-density-profile subrata paul (Sat Jan 07 2012 - 07:11:26 CST)
- Re: vmd-density-profile Axel Kohlmeyer (Sat Jan 07 2012 - 10:23:44 CST)
  - Re: vmd-density-profile Toni Giorgino (Mon Jan 09 2012 - 05:30:22 CST)
method for user-defined coloring JhonY. I. (Fri Jan 06 2012 - 11:53:37 CST)
- Re: method for user-defined coloring Axel Kohlmeyer (Fri Jan 06 2012 - 12:44:15 CST)
Coloring by RMSD during trajectory Joseph Bylund (Fri Jan 06 2012 - 11:40:27 CST)
- Re: Coloring by RMSD during trajectory John Stone (Wed Feb 01 2012 - 23:14:38 CST)
  - Re: Coloring by RMSD during trajectory Joseph Bylund (Wed Feb 01 2012 - 23:49:19 CST)
    - Re: Coloring by RMSD during trajectory John Stone (Thu Feb 02 2012 - 00:00:15 CST)
vmd 1.9.1 beta - quicksurf rendering artifacts Ajasja LjubetiÄ (Wed Jan 04 2012 - 05:08:18 CST)
- Re: vmd 1.9.1 beta - quicksurf rendering artifacts Ajasja LjubetiÄ (Wed Jan 04 2012 - 05:28:06 CST)
  - Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts John Stone (Wed Jan 04 2012 - 09:28:23 CST)
    - Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts Ajasja LjubetiÄ (Wed Jan 04 2012 - 13:52:28 CST)
    - Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts John Stone (Thu Jan 05 2012 - 14:08:48 CST)
select whole residues Peter C. Lai (Tue Jan 03 2012 - 17:50:00 CST)
- Re: select whole residues Chris Harrison (Tue Jan 03 2012 - 18:37:13 CST)
- Re: select whole residues Axel Kohlmeyer (Tue Jan 03 2012 - 18:39:05 CST)
represent water molecules oguz gurbulak (Mon Jan 02 2012 - 05:48:41 CST)
- water molecules oguz gurbulak (Mon Jan 02 2012 - 07:49:12 CST)
- Re: represent water molecules Dudo (Mon Jan 02 2012 - 08:49:57 CST)
  - Re: represent water molecules oguz gurbulak (Tue Jan 03 2012 - 03:09:43 CST)
- Re: represent water molecules Axel Kohlmeyer (Mon Jan 02 2012 - 11:42:41 CST)
  - Re: represent water molecules oguz gurbulak (Mon Jan 02 2012 - 13:07:45 CST)
    - Re: represent water molecules Axel Kohlmeyer (Mon Jan 02 2012 - 13:19:41 CST)
external field application sarah k (Sun Jan 01 2012 - 03:57:21 CST)
- Re: external field application Axel Kohlmeyer (Sun Jan 01 2012 - 11:11:24 CST)
  - Re: external field application sarah k (Mon Jan 02 2012 - 06:22:10 CST)
    - Re: external field application Axel Kohlmeyer (Mon Jan 02 2012 - 12:21:06 CST)
CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? Joshua D. Moore (Fri Dec 30 2011 - 19:07:05 CST)
- Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? Joshua D. Moore (Fri Dec 30 2011 - 19:30:45 CST)
  - Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? John Stone (Thu Jan 05 2012 - 15:14:17 CST)
VMD 1.9.1 beta 1 posted for download... John Stone (Fri Dec 30 2011 - 01:02:15 CST)
- Re: VMD 1.9.1 beta 1 posted for download... Bjoern Olausson (Tue Jan 03 2012 - 01:32:26 CST)
  - Re: VMD 1.9.1 beta 1 (RMSDTT bug) John Stone (Tue Jan 03 2012 - 10:11:29 CST)
  - Re: VMD 1.9.1 beta 1 posted for download... FX (Thu Jan 05 2012 - 15:28:58 CST)
- out-of-core visualization of large trajectories Marc Baaden (Tue Jan 17 2012 - 12:08:31 CST)
  - Re: out-of-core visualization of large trajectories John Stone (Tue Jan 17 2012 - 12:19:40 CST)
using xtc file to generate pdb's J. Matthew Franklin (Tue Dec 27 2011 - 15:38:23 CST)
- Re: using xtc file to generate pdb's Axel Kohlmeyer (Tue Dec 27 2011 - 17:32:59 CST)
- Re: using xtc file to generate pdb's Bogdan Costescu (Wed Dec 28 2011 - 07:01:39 CST)
paratool CHARMM style charges Adrian Jasiñski (Tue Dec 27 2011 - 08:24:49 CST)
- Re: paratool CHARMM style charges Axel Kohlmeyer (Tue Dec 27 2011 - 09:46:32 CST)
- Re: paratool CHARMM style charges Jeffrey Potoff (Tue Dec 27 2011 - 13:55:04 CST)
problem generating NAD Magnus Andersson (Fri Dec 23 2011 - 13:37:19 CST)
- Re: problem generating NAD flavio seixas (Fri Dec 23 2011 - 17:42:12 CST)
Parse Fep plugin error Joseph Antoine Garate (Fri Dec 23 2011 - 08:27:39 CST)
Change Color Scale Joshua D. Moore (Wed Dec 21 2011 - 13:57:10 CST)
- Re: Change Color Scale John Stone (Wed Dec 21 2011 - 15:09:09 CST)
  - Re: Change Color Scale Joshua D. Moore (Wed Dec 21 2011 - 15:49:50 CST)
- Re: Change Color Scale Axel Kohlmeyer (Wed Dec 21 2011 - 15:04:07 CST)
Ionization Yu Zhou (Tue Dec 20 2011 - 21:23:41 CST)
- Re: Ionization Axel Kohlmeyer (Wed Dec 21 2011 - 08:25:16 CST)
Hbond analysis George Tzotzos (Tue Dec 20 2011 - 13:46:38 CST)
- Recall: Hbond analysis message George Tzotzos (Tue Dec 20 2011 - 13:52:02 CST)
Protein-ligand contact flavio seixas (Tue Dec 20 2011 - 08:10:15 CST)
- Re: Protein-ligand contact Dong Luo (Wed Dec 21 2011 - 11:13:26 CST)
  - Re: Protein-ligand contact flavio seixas (Mon Apr 30 2012 - 18:29:17 CDT)
I: vmd on windows Sergio Decherchi (Tue Dec 20 2011 - 07:48:55 CST)
- Re: I: vmd on windows Sergio Decherchi (Tue Dec 20 2011 - 16:18:14 CST)
  - Re: I: vmd on windows John Stone (Thu Dec 29 2011 - 22:21:19 CST)
Re: About open file .pdbqt in VMD software John Stone (Mon Dec 19 2011 - 17:29:30 CST)
VMD on Windows64 Mirco Wahab (Mon Dec 19 2011 - 16:51:45 CST)
- Re: VMD on Windows64 John Stone (Mon Dec 19 2011 - 16:57:52 CST)
VMD stereo for NVidia Quadro 5000? Alexander Balaeff (Mon Dec 19 2011 - 12:07:18 CST)
- Re: VMD stereo for NVidia Quadro 5000? John Stone (Mon Dec 19 2011 - 17:23:53 CST)
Assign velocities so I can color by velocity Joshua D. Moore (Mon Dec 19 2011 - 10:48:36 CST)
- Re: Assign velocities so I can color by velocity Alexander Balaeff (Mon Dec 19 2011 - 11:37:36 CST)
- Re: Assign velocities so I can color by velocity Axel Kohlmeyer (Mon Dec 19 2011 - 12:05:45 CST)
  - Re: Assign velocities so I can color by velocity Joshua D. Moore (Mon Dec 19 2011 - 12:26:57 CST)
    - Re: Assign velocities so I can color by velocity Axel Kohlmeyer (Mon Dec 19 2011 - 12:32:34 CST)
    - Re: Assign velocities so I can color by velocity Joshua D. Moore (Mon Dec 19 2011 - 20:54:02 CST)
vmd-l DynamicBond between two given type of atoms Salvatore Mario Cosseddu (Mon Dec 19 2011 - 10:44:17 CST)
- Re: vmd-l DynamicBond between two given type of atoms Axel Kohlmeyer (Mon Dec 19 2011 - 12:08:37 CST)
  - Re: vmd-l DynamicBond between two given type of atoms Salvatore Mario Cosseddu (Mon Dec 19 2011 - 14:27:53 CST)
  - Re: vmd-l DynamicBond between two given type of atoms PaweÅ‚ KÄ™dzierski (Mon Dec 19 2011 - 14:42:33 CST)
    - Re: vmd-l DynamicBond between two given type of atoms Salvatore Mario Cosseddu (Mon Dec 19 2011 - 15:16:03 CST)
    - Re: vmd-l DynamicBond between two given type of atoms John Stone (Mon Dec 19 2011 - 17:21:29 CST)
vmd ligand fluctuation analysis Ban Arn (Fri Dec 16 2011 - 09:28:41 CST)
vmd on windows Sergio Decherchi (Fri Dec 16 2011 - 09:16:42 CST)
- Re: vmd on windows John Stone (Mon Dec 19 2011 - 17:26:39 CST)
Multiple Stream Files: What Order? Bryan Roessler (Wed Dec 14 2011 - 11:20:25 CST)
Solvating with Nonaqueous Solvent Rajan Vatassery (Tue Dec 13 2011 - 12:46:50 CST)
- Re: Solvating with Nonaqueous Solvent Axel Kohlmeyer (Tue Dec 13 2011 - 14:16:12 CST)
  - Re: Solvating with Nonaqueous Solvent Rajan Vatassery (Thu Dec 15 2011 - 16:30:47 CST)
    - Re: Solvating with Nonaqueous Solvent Axel Kohlmeyer (Thu Dec 15 2011 - 16:38:26 CST)
    - Re: Solvating with Nonaqueous Solvent Rajan Vatassery (Thu Dec 15 2011 - 16:58:43 CST)
package MDEnergy menica dibenedetto (Tue Dec 13 2011 - 12:13:02 CST)
- Re: package MDEnergy Axel Kohlmeyer (Tue Dec 13 2011 - 13:44:01 CST)
Povray renders labels always centered Bjoern Olausson (Mon Dec 12 2011 - 01:37:04 CST)
- Re: Povray renders labels always centered Axel Kohlmeyer (Mon Dec 12 2011 - 10:08:49 CST)
  - Re: Povray renders labels always centered Bjoern Olausson (Tue Dec 13 2011 - 09:31:52 CST)
    - Re: Povray renders labels always centered John Stone (Fri Dec 23 2011 - 17:39:06 CST)
Re: VMD and 3D visualization problems with Nvidia Quadro 4000 Karel Berka (Sat Dec 10 2011 - 15:29:36 CST)
- Re: Re: VMD and 3D visualization problems with Nvidia Quadro 4000 John Stone (Tue Jan 10 2012 - 14:43:54 CST)
  - Re: Re: VMD and 3D visualization problems with Nvidia Quadro 4000 Karel Berka (Wed Jan 11 2012 - 10:43:13 CST)
get Ramachadran plot using textmode Gurunath Katagi (Fri Dec 09 2011 - 22:00:28 CST)
- Re: get Ramachadran plot using textmode John Stone (Fri Dec 23 2011 - 17:46:46 CST)
Tachyon render problem Töre Han Balta (Fri Dec 09 2011 - 02:45:09 CST)
- Re: Tachyon render problem Ajasja LjubetiÄ (Fri Dec 09 2011 - 08:22:26 CST)
  - Re: Tachyon render problem Axel Kohlmeyer (Sun Dec 11 2011 - 18:09:43 CST)
  - Re: Tachyon render problem Töre Han Balta (Sun Dec 11 2011 - 18:24:40 CST)
- Re: Tachyon render problem Axel Kohlmeyer (Fri Dec 09 2011 - 09:55:22 CST)
RE: TCL strangeness Gianluca Interlandi (Thu Dec 08 2011 - 20:27:28 CST)
Tip to start VMD with external terminal Gianluca Interlandi (Thu Dec 08 2011 - 16:06:27 CST)
- TCL strangeness Gianluca Interlandi (Thu Dec 08 2011 - 18:09:20 CST)
  - Re: TCL strangeness Ben Roberts (Thu Dec 08 2011 - 20:07:16 CST)
    - Re: TCL strangeness Ben Roberts (Thu Dec 08 2011 - 21:17:45 CST)
    - Re: TCL strangeness Axel Kohlmeyer (Thu Dec 08 2011 - 22:37:16 CST)
to use tcl script in command line Sangita Kachhap (Thu Dec 08 2011 - 04:14:59 CST)
- Re: to use tcl script in command line Joshua Adelman (Thu Dec 08 2011 - 07:32:08 CST)
- Re: to use tcl script in command line Anthony Rey (Thu Dec 08 2011 - 07:38:04 CST)
- Re: to use tcl script in command line Chris Harrison (Thu Dec 08 2011 - 08:30:37 CST)
Coloring particular atom with particular index Töre Han Balta (Wed Dec 07 2011 - 11:51:00 CST)
- Re: Coloring particular atom with particular index Ajasja LjubetiÄ (Wed Dec 07 2011 - 12:57:42 CST)
- Re: Coloring particular atom with particular index Töre Han Balta (Thu Dec 08 2011 - 16:15:26 CST)
Analyzing a 10ns simulation on Mac aborts Anthony Rey (Tue Dec 06 2011 - 23:25:17 CST)
- Re: Analyzing a 10ns simulation on Mac aborts Peter C. Lai (Wed Dec 07 2011 - 01:47:12 CST)
- Re: Analyzing a 10ns simulation on Mac aborts John Stone (Thu Dec 29 2011 - 22:49:32 CST)
Script for Angular Distribution Function? David Cohen-Tanugi (Tue Dec 06 2011 - 09:45:36 CST)
- Re: Script for Angular Distribution Function? Dudo (Tue Dec 06 2011 - 10:30:41 CST)
  - Re: Script for Angular Distribution Function? Axel Kohlmeyer (Wed Dec 07 2011 - 10:48:47 CST)
mmView - a tool for mmCIF exploration Daniel Svozil (Tue Dec 06 2011 - 05:38:03 CST)
topology and parameter files for H2 and O2 Yungok Ihm (Tue Dec 06 2011 - 03:52:31 CST)
- Re: topology and parameter files for H2 and O2 Axel Kohlmeyer (Tue Dec 06 2011 - 07:46:33 CST)
- Re: topology and parameter files for H2 and O2 flavio seixas (Wed Dec 07 2011 - 13:49:51 CST)
Binding site similarity Ban Arn (Mon Dec 05 2011 - 09:51:55 CST)
Improve OFF plugin: handle colors FX (Mon Dec 05 2011 - 07:20:06 CST)
- Re: Improve OFF plugin: handle colors John Stone (Wed Dec 07 2011 - 00:56:19 CST)
Rendering long and high-quality movies from VMD David Cohen-Tanugi (Sun Dec 04 2011 - 21:35:40 CST)
- Re: Rendering long and high-quality movies from VMD Axel Kohlmeyer (Sun Dec 04 2011 - 23:19:35 CST)
  - Re: Rendering long and high-quality movies from VMD Axel Kohlmeyer (Sun Dec 04 2011 - 23:27:48 CST)
    - Re: Rendering long and high-quality movies from VMD Bjoern Olausson (Wed Dec 07 2011 - 10:58:01 CST)
Re: out-of-order writegmx with topotools 1.2 Axel Kohlmeyer (Sat Dec 03 2011 - 18:18:38 CST)
- Re: out-of-order writegmx with topotools 1.2 Axel Kohlmeyer (Mon Dec 05 2011 - 00:07:18 CST)
Viewing System of Molecules where coordinates are in text file. Joey Vella (Thu Dec 01 2011 - 20:43:45 CST)
- Re: Viewing System of Molecules where coordinates are in text file. Axel Kohlmeyer (Thu Dec 01 2011 - 22:28:12 CST)
How to disable CUDA in VMD-1.9? Joaim Swedberg (Wed Nov 30 2011 - 20:29:48 CST)
- Re: How to disable CUDA in VMD-1.9? John Stone (Wed Nov 30 2011 - 21:18:23 CST)
- RE: How to disable CUDA in VMD-1.9? Ismail, Mohd F. (Wed Nov 30 2011 - 22:31:31 CST)
Reading the SMD information form the log file Molybdos Kirkimpolakis (Wed Nov 30 2011 - 14:54:45 CST)
- Re: Reading the SMD information form the log file Molybdos Kirkimpolakis (Fri Dec 02 2011 - 10:34:27 CST)
  - Re: Reading the SMD information form the log file Chris Harrison (Fri Dec 02 2011 - 11:37:38 CST)
Get the camera position SAPAY Nicolas 232321 (Wed Nov 30 2011 - 10:20:52 CST)
- RE : Get the camera position SAPAY Nicolas 232321 (Thu Dec 01 2011 - 04:22:34 CST)
Re: simulation bharat gupta (Wed Nov 30 2011 - 05:50:56 CST)
convertind dcd to xyz file siladitya mukherjee (Tue Nov 29 2011 - 16:39:22 CST)
- Re: convertind dcd to xyz file Axel Kohlmeyer (Tue Nov 29 2011 - 17:43:05 CST)
- Re: convertind dcd to xyz file Thomas Bishop (Mon Dec 05 2011 - 08:54:11 CST)
Save pdb with original numbering Ricardo Soares (Tue Nov 29 2011 - 05:47:33 CST)
- Re: Save pdb with original numbering John Stone (Tue Nov 29 2011 - 10:25:22 CST)
  - Re: Save pdb with original numbering Ricardo Soares (Tue Nov 29 2011 - 13:25:16 CST)
    - Re: Save pdb with original numbering Peter C. Lai (Tue Nov 29 2011 - 17:22:35 CST)
    - Re: Save pdb with original numbering Ricardo Soares (Tue Nov 29 2011 - 18:58:56 CST)
- Re: Save pdb with original numbering Dong Luo (Tue Nov 29 2011 - 10:12:44 CST)
Can Catdcd Write Out Periodic Cell Size Information? Tessa Young (Mon Nov 28 2011 - 01:20:31 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? Pablo M. De Biase (Mon Nov 28 2011 - 10:39:55 CST)
  - Re: Can Catdcd Write Out Periodic Cell Size Information? Jeffrey Potoff (Mon Nov 28 2011 - 16:30:08 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? Axel Kohlmeyer (Mon Nov 28 2011 - 11:45:47 CST)
  - Re: Can Catdcd Write Out Periodic Cell Size Information? Jeffrey Potoff (Mon Nov 28 2011 - 15:00:35 CST)
vmd solvate Pavan Ghatty (Sun Nov 27 2011 - 13:56:17 CST)
- Re: vmd solvate Axel Kohlmeyer (Sun Nov 27 2011 - 15:00:26 CST)
tcl script Ban Arn (Fri Nov 25 2011 - 12:16:47 CST)
- Re: tcl script Axel Kohlmeyer (Fri Nov 25 2011 - 13:16:32 CST)
- Re: tcl script Thomas Evangelidis (Fri Nov 25 2011 - 13:51:07 CST)
  - Re: tcl script Axel Kohlmeyer (Fri Nov 25 2011 - 14:52:32 CST)
average structure script flavio seixas (Fri Nov 25 2011 - 09:52:40 CST)
- Re: average structure script Ajasja LjubetiÄ (Fri Nov 25 2011 - 11:09:59 CST)
- Re: average structure script Toni Giorgino (Fri Nov 25 2011 - 11:21:28 CST)
q4md-forcefieldtools.org announcement FyD (Fri Nov 25 2011 - 07:33:39 CST)
VMD never finishes reading vis. state file, stalls and hoggs CPU Bjoern Olausson (Fri Nov 25 2011 - 00:51:07 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU Ajasja LjubetiÄ (Fri Nov 25 2011 - 05:05:32 CST)
  - Re: VMD never finishes reading vis. state file, stalls and hoggs CPU Bjoern Olausson (Fri Nov 25 2011 - 05:36:26 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU Axel Kohlmeyer (Fri Nov 25 2011 - 09:38:01 CST)
  - Re: VMD never finishes reading vis. state file, stalls and hoggs CPU Bjoern Olausson (Mon Nov 28 2011 - 02:54:17 CST)
POPE CHARMM36 generations error. mail gromacs (Thu Nov 24 2011 - 13:13:02 CST)
- Re: POPE CHARMM36 generations error. Axel Kohlmeyer (Thu Nov 24 2011 - 14:46:47 CST)
how to convert Desmond trajectories into PDB in text mode? mail gromacs (Thu Nov 24 2011 - 13:09:40 CST)
- Re: how to convert Desmond trajectories into PDB in text mode? Axel Kohlmeyer (Thu Nov 24 2011 - 14:48:44 CST)
How to save Automatic psf builder script flavio seixas (Thu Nov 24 2011 - 12:03:15 CST)
- Re: How to save Automatic psf builder script Axel Kohlmeyer (Thu Nov 24 2011 - 14:45:59 CST)
VMD STRIDE not functional after operating system upgrade Vlad Cojocaru (Thu Nov 24 2011 - 08:50:40 CST)
- Re: VMD STRIDE not functional after operating system upgrade John Stone (Wed Nov 30 2011 - 10:24:22 CST)
  - Re: VMD STRIDE not functional after operating system upgrade Vlad Cojocaru (Wed Nov 30 2011 - 11:15:15 CST)
Change coordinates Andrés Morales (Thu Nov 24 2011 - 02:14:02 CST)
- Re: Change coordinates sajad falsafi (Thu Nov 24 2011 - 06:51:44 CST)
  - Re: Change coordinates Andrés Morales (Thu Nov 24 2011 - 10:38:15 CST)
    - Re: Change coordinates Axel Kohlmeyer (Thu Nov 24 2011 - 14:42:53 CST)
Translocate molecule within a box rainy908 (Wed Nov 23 2011 - 19:51:03 CST)
- Re: Translocate molecule within a box harish vashisth (Wed Nov 23 2011 - 21:43:13 CST)
clip plane and cpk / VdW Philippe Bopp / temporary (Wed Nov 23 2011 - 04:48:33 CST)
- Re: clip plane and cpk / VdW John Stone (Wed Nov 23 2011 - 09:22:43 CST)
  - Re: clip plane and cpk / VdW BIN ZHANG (Wed Nov 23 2011 - 11:25:22 CST)
    - Re: clip plane and cpk / VdW Philippe Bopp / temporary (Thu Nov 24 2011 - 09:58:54 CST)
- Re: clip plane and cpk / VdW PaweÅ‚ KÄ™dzierski (Thu Nov 24 2011 - 02:52:32 CST)
- Re: clip plane and cpk / VdW Pawel Kedzierski (Thu Nov 24 2011 - 02:52:49 CST)
Rebuilding psf file Siew Wen Leong (Wed Nov 23 2011 - 04:45:38 CST)
Spam from my email hanif mahboobi (Wed Nov 23 2011 - 03:38:19 CST)
(no subject) hanif mahboobi (Tue Nov 22 2011 - 21:55:31 CST)
(no subject) hanif mahboobi (Tue Nov 22 2011 - 18:19:50 CST)
Radial distribution function in VMD Chirag Vora (Tue Nov 22 2011 - 12:01:52 CST)
bash scripts quits after few frames Jorgen Simonsen (Tue Nov 22 2011 - 03:55:02 CST)
- Re: bash scripts quits after few frames Axel Kohlmeyer (Tue Nov 22 2011 - 06:20:24 CST)
- Re: bash scripts quits after few frames Jérôme Hénin (Tue Nov 22 2011 - 06:32:43 CST)
VMD and R Thomas Bishop (Mon Nov 21 2011 - 14:42:44 CST)
compile VMD 1.9 with FLTK 1.3 Vlad Cojocaru (Mon Nov 21 2011 - 06:37:19 CST)
- Re: compile VMD 1.9 with FLTK 1.3 Vlad Cojocaru (Mon Nov 21 2011 - 07:45:24 CST)
- Re: compile VMD 1.9 with FLTK 1.3 Axel Kohlmeyer (Mon Nov 21 2011 - 08:37:31 CST)
movie out of principal component analysis maria goranovic (Mon Nov 21 2011 - 04:35:44 CST)
- Re: movie out of principal component analysis Davide Provasi (Mon Nov 21 2011 - 12:37:44 CST)
  - Re: movie out of principal component analysis maria goranovic (Tue Nov 22 2011 - 06:04:46 CST)
'Hands-On' Workshop on Computational Biophysics using VMD and NAMD, February 11-15, 2012 in Urbana, Illinois David Brandon (Thu Nov 17 2011 - 13:53:59 CST)
Installation problems with VMD 1.9 PaulW (Thu Nov 17 2011 - 07:17:44 CST)
- Re: Installation problems with VMD 1.9 John Stone (Fri Nov 18 2011 - 11:24:03 CST)
  - Re: Installation problems with VMD 1.9 Paul Anderson (Fri Nov 18 2011 - 12:51:34 CST)
Patching Glu/N-terminus peptide bond type bond Joaim Swedberg (Wed Nov 16 2011 - 17:41:38 CST)
- RE: Patching Glu/N-terminus peptide bond type bond Tristan Croll (Thu Nov 17 2011 - 01:02:52 CST)
Maximum length of an extended peptide? Aaron Oakley (Tue Nov 15 2011 - 17:53:14 CST)
- Re: Maximum length of an extended peptide? Axel Kohlmeyer (Tue Nov 15 2011 - 19:55:57 CST)
  - Re: Maximum length of an extended peptide? Boris Steipe (Tue Nov 15 2011 - 22:29:42 CST)
- Re: Maximum length of an extended peptide? Chris Harrison (Tue Nov 15 2011 - 20:07:24 CST)
- Re: Maximum length of an extended peptide? Aaron Oakley (Tue Nov 15 2011 - 20:58:20 CST)
  - Re: Maximum length of an extended peptide? Anurag Sethi (Tue Nov 15 2011 - 21:57:44 CST)
  - Re: Maximum length of an extended peptide? Axel Kohlmeyer (Tue Nov 15 2011 - 22:57:45 CST)
Mac OS X 64 bit Issues Andrew Fenley (Tue Nov 15 2011 - 15:00:56 CST)
- Re: Mac OS X 64 bit Issues Andrew Fenley (Tue Nov 15 2011 - 17:47:41 CST)
VMD slows down at multiple windows lam nguyen (Mon Nov 14 2011 - 16:51:46 CST)
- Re: VMD slows down at multiple windows Ajasja LjubetiÄ (Tue Nov 15 2011 - 03:08:28 CST)
  - Re: VMD slows down at multiple windows lam nguyen (Wed Nov 16 2011 - 22:20:54 CST)
- Re: VMD slows down at multiple windows John Stone (Wed Nov 16 2011 - 12:56:18 CST)
  - Re: VMD slows down at multiple windows Tristan Croll (Wed Nov 16 2011 - 19:26:21 CST)
  - Re: VMD slows down at multiple windows lam nguyen (Wed Nov 16 2011 - 22:30:03 CST)
pbc wrap Hitesh Patel (Mon Nov 14 2011 - 08:48:42 CST)
- Re: pbc wrap Axel Kohlmeyer (Mon Nov 14 2011 - 09:57:06 CST)
  - Re: pbc wrap Hitesh Patel (Mon Nov 14 2011 - 10:17:12 CST)
    - Re: pbc wrap Hitesh Patel (Mon Nov 14 2011 - 11:09:41 CST)
- Re: pbc wrap Olaf Lenz (Mon Nov 14 2011 - 09:57:04 CST)
(no subject) niaz poorgholami (Fri Nov 11 2011 - 22:02:25 CST)
Volume Slice + Coloring by volume problem in MacOsx (REPOST) Passerone, Daniele (Fri Nov 11 2011 - 15:06:27 CST)
- Re: Volume Slice + Coloring by volume problem in MacOsx (REPOST) John Stone (Fri Nov 11 2011 - 15:14:37 CST)
how to place polymers on carbon nanotube surface niaz poorgholami (Fri Nov 11 2011 - 12:31:47 CST)
- Re: how to place polymers on carbon nanotube surface John Stone (Fri Nov 11 2011 - 12:51:11 CST)
  - Re: how to place polymers on carbon nanotube surface niaz poorgholami (Fri Nov 11 2011 - 13:21:24 CST)
- Re: how to place polymers on carbon nanotube surface Axel Kohlmeyer (Fri Nov 11 2011 - 13:27:35 CST)
Save "Visulaization State" from within Tk Console Bjoern Olausson (Fri Nov 11 2011 - 07:41:18 CST)
- Re: Save "Visulaization State" from within Tk Console Bjoern Olausson (Fri Nov 11 2011 - 07:48:03 CST)
  - Re: Re: Save "Visulaization State" from within Tk Console Axel Kohlmeyer (Fri Nov 11 2011 - 08:57:13 CST)
    - Re: Re: Save "Visulaization State" from within Tk Console Bjoern Olausson (Mon Nov 14 2011 - 01:17:02 CST)
- Re: Save "Visulaization State" from within Tk Console Axel Kohlmeyer (Fri Nov 11 2011 - 08:41:38 CST)
- Re: Save "Visulaization State" from within Tk Console John Stone (Fri Nov 11 2011 - 09:20:43 CST)
UPDATE OCCUPANCY Jordi Faraudo (Fri Nov 11 2011 - 06:04:50 CST)
- Re: UPDATE OCCUPANCY Axel Kohlmeyer (Fri Nov 11 2011 - 07:34:53 CST)
- Re: UPDATE OCCUPANCY John Stone (Fri Nov 11 2011 - 09:22:49 CST)
RMSD Tool failes with MOL ID > 999 Bjoern Olausson (Fri Nov 11 2011 - 05:52:11 CST)
- Re: RMSD Tool failes with MOL ID > 999 John Stone (Fri Nov 11 2011 - 09:48:57 CST)
  - Re: RMSD Tool failes with MOL ID > 999 Bjoern Olausson (Tue Nov 15 2011 - 02:38:34 CST)
Couldn't locate ppmtompeg Rabab Toubar (Thu Nov 10 2011 - 14:57:58 CST)
- Re: Couldn't locate ppmtompeg Magnus Andersson (Thu Nov 10 2011 - 16:03:41 CST)
- Re: Couldn't locate ppmtompeg Axel Kohlmeyer (Thu Nov 10 2011 - 15:47:31 CST)
installing and running VMD on Windows 64-bit Rabab Toubar (Thu Nov 10 2011 - 09:17:54 CST)
- Re: installing and running VMD on Windows 64-bit John Stone (Thu Nov 10 2011 - 10:05:29 CST)
  - Re: installing and running VMD on Windows 64-bit Rabab Toubar (Thu Nov 10 2011 - 15:08:05 CST)
    - Re: installing and running VMD on Windows 64-bit John Stone (Fri Nov 11 2011 - 09:32:51 CST)
- Re: installing and running VMD on Windows 64-bit Dennis N Bromley (Thu Nov 10 2011 - 12:12:43 CST)
pbwithin selection arash azari (Thu Nov 10 2011 - 07:58:28 CST)
- Re: pbwithin selection Axel Kohlmeyer (Thu Nov 10 2011 - 09:27:47 CST)
Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) Sam Wallace (Wed Nov 09 2011 - 16:38:39 CST)
- Re: Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) John Stone (Fri Nov 11 2011 - 10:06:58 CST)
  - Re: Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) Sam Wallace (Sun Nov 13 2011 - 04:58:37 CST)
How to parse very large trajectories? Aleksandr Kivenson (Wed Nov 09 2011 - 14:41:55 CST)
- Re: How to parse very large trajectories? Axel Kohlmeyer (Wed Nov 09 2011 - 15:44:30 CST)
- Re: How to parse very large trajectories? Bogdan Costescu (Thu Nov 10 2011 - 08:20:41 CST)
Suppress "Info)" messages Bjoern Olausson (Mon Nov 07 2011 - 11:56:06 CST)
- Re: Suppress "Info)" messages John Stone (Mon Nov 07 2011 - 12:34:07 CST)
  - Re: Suppress "Info)" messages Bjoern Olausson (Mon Nov 07 2011 - 13:15:59 CST)
- Re: Suppress "Info)" messages Axel Kohlmeyer (Mon Nov 07 2011 - 13:15:19 CST)
  - Re: Suppress "Info)" messages Bjoern Olausson (Mon Nov 07 2011 - 18:26:50 CST)
tcl procedure to set data Casey Johnson (Sun Nov 06 2011 - 19:26:25 CST)
- Re: tcl procedure to set data Axel Kohlmeyer (Sun Nov 06 2011 - 20:31:00 CST)
blank output sarah k (Sun Nov 06 2011 - 09:34:39 CST)
- Re: blank output John Stone (Mon Nov 07 2011 - 12:43:57 CST)
lipid bilayer thickness Andrés Morales (Sun Nov 06 2011 - 00:07:36 CDT)
- Re: lipid bilayer thickness Axel Kohlmeyer (Sun Nov 06 2011 - 06:14:50 CST)
tkinter load problem in VMD Gianluca Interlandi (Sun Nov 06 2011 - 00:04:42 CDT)
- Re: tkinter load problem in VMD Gianluca Interlandi (Sun Nov 06 2011 - 00:13:41 CDT)
  - Re: Re: tkinter load problem in VMD John Stone (Sun Nov 06 2011 - 00:24:39 CDT)
Batch image creation Juan Antonio Raygoza Garay (Fri Nov 04 2011 - 16:59:57 CDT)
- Re: Batch image creation Axel Kohlmeyer (Fri Nov 04 2011 - 18:07:41 CDT)
Secondary structure elements in VMD Rabab Toubar (Fri Nov 04 2011 - 16:03:26 CDT)
- Re: Secondary structure elements in VMD harish vashisth (Fri Nov 04 2011 - 19:37:43 CDT)
  - Re: Secondary structure elements in VMD Rabab Toubar (Sat Nov 05 2011 - 00:38:29 CDT)
- Re: Secondary structure elements in VMD Ajasja LjubetiÄ (Sat Nov 05 2011 - 03:00:01 CDT)
find avgstruct hamze rahimi (Fri Nov 04 2011 - 04:30:38 CDT)
- Re: find avgstruct Ajasja LjubetiÄ (Fri Nov 04 2011 - 06:03:16 CDT)
- Re: find avgstruct Axel Kohlmeyer (Fri Nov 04 2011 - 07:29:32 CDT)
Volume Slice + Coloring by volume problem in MacOsx Passerone, Daniele (Fri Nov 04 2011 - 00:31:15 CDT)
- Re: Volume Slice + Coloring by volume problem in MacOsx John Stone (Fri Nov 11 2011 - 10:12:57 CST)
How to understand the occupancy? lina (Thu Nov 03 2011 - 09:06:06 CDT)
- Re: How to understand the occupancy? Dong Luo (Fri Nov 04 2011 - 14:42:09 CDT)
radius of gyration ban arn (Wed Nov 02 2011 - 14:41:09 CDT)
- Re: radius of gyration Axel Kohlmeyer (Wed Nov 02 2011 - 15:49:19 CDT)
  - Re: radius of gyration ban arn (Wed Nov 02 2011 - 16:02:45 CDT)
- Re: radius of gyration Ajasja LjubetiÄ (Wed Nov 02 2011 - 16:14:59 CDT)
Re: namd-l: selection of cholesterol molecules Chris Harrison (Wed Nov 02 2011 - 00:06:35 CDT)
Use of RBCG to convert multiple frames from atomistic trajectory to Coarse grained rohan uttarwar (Tue Nov 01 2011 - 16:17:08 CDT)
- Re: Use of RBCG to convert multiple frames from atomistic trajectory to Coarse grained Axel Kohlmeyer (Tue Nov 01 2011 - 17:09:50 CDT)
Finding resname without using atomselect? Casey Johnson (Tue Nov 01 2011 - 15:46:28 CDT)
- Re: Finding resname without using atomselect? Axel Kohlmeyer (Tue Nov 01 2011 - 16:50:51 CDT)
- RE: Finding resname without using atomselect? Cosseddu, Salvatore (Tue Nov 01 2011 - 18:35:22 CDT)
  - RE: Finding resname without using atomselect? Cosseddu, Salvatore (Tue Nov 01 2011 - 18:48:29 CDT)
graphical representation kirtana S (Tue Nov 01 2011 - 12:21:29 CDT)
- Re: graphical representation John Stone (Mon Nov 07 2011 - 13:29:43 CST)
rlwrap problem on Frank Barry (Tue Nov 01 2011 - 10:50:26 CDT)
- Re: rlwrap problem on Joshua A. Anderson (Tue Nov 01 2011 - 13:46:10 CDT)
- Re: rlwrap problem on Gianluca Interlandi (Tue Nov 01 2011 - 14:14:51 CDT)
  - Re: rlwrap problem on Gianluca Interlandi (Tue Nov 01 2011 - 14:15:49 CDT)
    - Re: rlwrap problem on Frank Barry (Tue Nov 08 2011 - 14:34:21 CST)
    - Re: rlwrap problem on sajad falsafi (Wed Nov 09 2011 - 02:53:43 CST)
- Re: rlwrap problem on John Stone (Fri Nov 11 2011 - 09:26:24 CST)
- Re: rlwrap problem on Pablo De Biase (Tue Nov 22 2011 - 13:38:58 CST)
  - Re: Re: rlwrap problem on Cun Zhang (Thu Nov 24 2011 - 07:07:11 CST)
H-bond distance measurement Aditya Padhi (Tue Nov 01 2011 - 03:53:57 CDT)
VRPN-ICMS conflict with NVidia driver Tristan Croll (Tue Nov 01 2011 - 02:16:14 CDT)
- Re: VRPN-ICMS conflict with NVidia driver Axel Kohlmeyer (Tue Nov 01 2011 - 08:15:36 CDT)
  - RE: VRPN-ICMS conflict with NVidia driver Tristan Croll (Tue Nov 01 2011 - 19:03:55 CDT)
selection matziast_at_med.uth.gr (Mon Oct 31 2011 - 13:39:43 CDT)
- Re: selection John Stone (Mon Oct 31 2011 - 14:39:13 CDT)
  - Re: selection matziast_at_med.uth.gr (Mon Oct 31 2011 - 15:50:58 CDT)
  - haptic devices VMD/NAMD/IMD Thomas Bishop (Mon Oct 31 2011 - 15:52:48 CDT)
Dynamic lines Bogdan Costescu (Mon Oct 31 2011 - 13:21:59 CDT)
- Re: Dynamic lines Axel Kohlmeyer (Mon Oct 31 2011 - 14:32:47 CDT)
  - Re: Dynamic lines John Stone (Mon Oct 31 2011 - 16:18:33 CDT)
    - Re: Dynamic lines Bogdan Costescu (Wed Nov 02 2011 - 13:42:01 CDT)
    - Re: Dynamic lines John Stone (Wed Nov 02 2011 - 14:12:35 CDT)
selection matziast_at_med.uth.gr (Mon Oct 31 2011 - 12:45:50 CDT)
- Re: selection Chris Harrison (Mon Oct 31 2011 - 15:13:57 CDT)
  - Re: selection matziast_at_med.uth.gr (Mon Oct 31 2011 - 15:57:03 CDT)
move ligand around the protin Steven Neumann (Mon Oct 31 2011 - 10:46:07 CDT)
- Re: move ligand around the protin Chris Harrison (Mon Oct 31 2011 - 11:54:43 CDT)
Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets John Stone (Mon Oct 31 2011 - 10:12:15 CDT)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets Andrew Jewett (Thu Nov 03 2011 - 15:56:37 CDT)
  - Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets Andrew Jewett (Thu Nov 03 2011 - 16:07:46 CDT)
  - Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets John Stone (Fri Nov 11 2011 - 10:19:21 CST)
Hi all, Bo HÃ¸jen Justesen (Mon Oct 31 2011 - 05:47:22 CDT)
- Re: Hi all, John Stone (Mon Oct 31 2011 - 16:10:14 CDT)
Run a variable through VMD Tk/Tcl console .vmdrc file Anthony Rey (Sun Oct 30 2011 - 06:55:06 CDT)
- Re: Run a variable through VMD Tk/Tcl console .vmdrc file Axel Kohlmeyer (Sun Oct 30 2011 - 10:04:09 CDT)
  - Re: Run a variable through VMD Tk/Tcl console .vmdrc file Anthony Rey (Mon Oct 31 2011 - 02:09:42 CDT)
- Re: Run a variable through VMD Tk/Tcl console .vmdrc file Chris Harrison (Sun Oct 30 2011 - 10:28:37 CDT)
Run a variable through VMD Tk/Tcl console /// .vmdrc file Anthony Rey (Sun Oct 30 2011 - 06:14:22 CDT)
About the syntax in Autopsf - Add Patch for PRES PLIG Francesco Pietra (Sun Oct 30 2011 - 03:28:27 CDT)
- Re: About the syntax in Autopsf - Add Patch for PRES PLIG Francesco Pietra (Sun Oct 30 2011 - 10:34:43 CDT)
Structure preparation via VMD James Starlight (Sat Oct 29 2011 - 07:29:33 CDT)
- Re: Structure preparation via VMD Gianluca Interlandi (Sat Oct 29 2011 - 10:55:28 CDT)
Problem with Movie Maker Carolyn Phillips (Fri Oct 28 2011 - 17:41:12 CDT)
- Re: Problem with Movie Maker Carolyn Phillips (Sat Oct 29 2011 - 11:38:10 CDT)
- Re: Problem with Movie Maker John Stone (Mon Oct 31 2011 - 09:54:03 CDT)
Installing CATDCD on a Mac Michael LeVine (Fri Oct 28 2011 - 14:55:14 CDT)
- Re: Installing CATDCD on a Mac John Stone (Fri Oct 28 2011 - 16:21:43 CDT)
VMD crashes. Diego Javier Alonso de Armiño (Fri Oct 28 2011 - 10:22:19 CDT)
- Re: VMD crashes. John Stone (Fri Oct 28 2011 - 10:44:02 CDT)
Adding a three letter residue name to VMD's protein recognition J. Nathan Scott (Thu Oct 27 2011 - 13:13:09 CDT)
- Re: Adding a three letter residue name to VMD's protein recognition John Stone (Fri Nov 11 2011 - 12:24:10 CST)
Is it possible to automatically label all bonds? Mike Wykes (Thu Oct 27 2011 - 11:43:18 CDT)
- Re: Is it possible to automatically label all bonds? Axel Kohlmeyer (Thu Oct 27 2011 - 12:42:02 CDT)
  - Re: Is it possible to automatically label all bonds? Mike Wykes (Mon Oct 31 2011 - 07:09:55 CDT)
    - Re: Is it possible to automatically label all bonds? Axel Kohlmeyer (Mon Oct 31 2011 - 08:10:08 CDT)
- Re: Is it possible to automatically label all bonds? John Stone (Thu Oct 27 2011 - 12:42:54 CDT)
Visualizing Timeline (tml) data w/o having to load trajectories Bryan Roessler (Thu Oct 27 2011 - 11:34:40 CDT)
- Re: Visualizing Timeline (tml) data w/o having to load trajectories Barry Isralewitz (Thu Oct 27 2011 - 13:25:08 CDT)
average pdb from dcd file hamze rahimi (Thu Oct 27 2011 - 07:39:53 CDT)
- Re: average pdb from dcd file Bjoern Olausson (Thu Oct 27 2011 - 09:54:06 CDT)
- Re: average pdb from dcd file sajad falsafi (Thu Oct 27 2011 - 11:40:38 CDT)
Xenon binding site free energies Aaron Oakley (Thu Oct 27 2011 - 01:30:23 CDT)
Problem vmd 1.9 plus Cave Christian Wohlschlager (Thu Oct 27 2011 - 01:12:09 CDT)
- Re: Problem vmd 1.9 plus Cave John Stone (Thu Oct 27 2011 - 01:29:42 CDT)
  - Re: Problem vmd 1.9 plus Cave Christian Wohlschlager (Fri Oct 28 2011 - 04:23:30 CDT)
Compiling vmd 1.9 plugins Matt Fioravante (Wed Oct 26 2011 - 12:55:22 CDT)
- Re: Compiling vmd 1.9 plugins Andrew Jewett (Wed Oct 26 2011 - 16:44:48 CDT)
- Re: Compiling vmd 1.9 plugins John Stone (Wed Oct 26 2011 - 17:03:49 CDT)
Selecting Atoms within a Volume, Manipulating Volumetric Data Michael LeVine (Sun Oct 23 2011 - 14:24:20 CDT)
- Re: Selecting Atoms within a Volume, Manipulating Volumetric Data Axel Kohlmeyer (Tue Oct 25 2011 - 08:03:13 CDT)
- Re: Selecting Atoms within a Volume, Manipulating Volumetric Data John Stone (Wed Oct 26 2011 - 21:43:49 CDT)
Calculating parameters in lipid bilayers Andrés Morales (Thu Oct 20 2011 - 22:04:03 CDT)
Thinkpad X120e with Linux and VMD Gianluca Interlandi (Thu Oct 20 2011 - 19:48:32 CDT)
- Re: Thinkpad X120e with Linux and VMD John Stone (Fri Oct 28 2011 - 14:28:21 CDT)
coloring bonds on the same segments differently from those between segments lam nguyen (Thu Oct 20 2011 - 19:07:42 CDT)
- Re: coloring bonds on the same segments differently from those between segments Axel Kohlmeyer (Thu Oct 20 2011 - 20:10:23 CDT)
  - Re: coloring bonds on the same segments differently from those between segments lam nguyen (Fri Oct 21 2011 - 17:06:35 CDT)
- Re: coloring bonds on the same segments differently from those between segments Joseph Bylund (Thu Oct 20 2011 - 20:13:59 CDT)
superimposing groups of three atoms bio lab (Thu Oct 20 2011 - 06:25:46 CDT)
- Re: superimposing groups of three atoms JC Gumbart (Fri Oct 21 2011 - 06:53:28 CDT)
  - Re: superimposing groups of three atoms bio lab (Fri Oct 21 2011 - 12:10:51 CDT)
    - Re: superimposing groups of three atoms Axel Kohlmeyer (Fri Oct 21 2011 - 13:07:16 CDT)
calculation hydrogen bond. subrata paul (Thu Oct 20 2011 - 02:19:04 CDT)
- Fwd: calculation hydrogen bond. subrata paul (Thu Oct 20 2011 - 22:57:17 CDT)
- Re: calculation hydrogen bond. JC Gumbart (Fri Oct 21 2011 - 06:55:18 CDT)
area per lipid Andrés Morales (Thu Oct 20 2011 - 01:12:14 CDT)
Error running IED Manish (Tue Oct 18 2011 - 13:39:09 CDT)
- RE: Error running IED Manish (Tue Oct 18 2011 - 14:33:15 CDT)
angle calculation trajectory Peyman Z.Moghadam (Tue Oct 18 2011 - 12:28:16 CDT)
- Re: angle calculation trajectory Axel Kohlmeyer (Tue Oct 18 2011 - 13:22:15 CDT)
  - Fw: angle calculation trajectory sajad falsafi (Wed Oct 19 2011 - 01:11:39 CDT)
atomselect and macro Molybdos Kirkimpolakis (Sat Oct 15 2011 - 15:34:59 CDT)
- Re: atomselect and macro Axel Kohlmeyer (Sat Oct 15 2011 - 17:33:49 CDT)
  - Re: atomselect and macro Molybdos Kirkimpolakis (Mon Oct 17 2011 - 00:11:05 CDT)
Error running IED with VMD Manish (Fri Oct 14 2011 - 08:47:17 CDT)
- Re: Error running IED with VMD Axel Kohlmeyer (Fri Oct 14 2011 - 10:09:16 CDT)
hbond analysis subrata paul (Fri Oct 14 2011 - 04:11:46 CDT)
- Re: hbond analysis sajad falsafi (Fri Oct 14 2011 - 08:06:08 CDT)
- Re: hbond analysis Jernej Zidar (Fri Oct 14 2011 - 08:19:22 CDT)
Installing VMD on Debian Linux James Starlight (Fri Oct 14 2011 - 01:51:01 CDT)
- Re: Installing VMD on Debian Linux Axel Kohlmeyer (Fri Oct 14 2011 - 07:47:38 CDT)
- Re: Installing VMD on Debian Linux Cun Zhang (Tue Oct 25 2011 - 03:53:49 CDT)
Using two color scales in one scene Robert Johnson (Thu Oct 13 2011 - 14:23:02 CDT)
- Re: Using two color scales in one scene John Stone (Thu Oct 13 2011 - 14:33:52 CDT)
How to select whole residues when at least one atom is within a specific distance Michael LeVine (Thu Oct 13 2011 - 12:48:43 CDT)
- Re: How to select whole residues when at least one atom is within a specific distance John Stone (Thu Oct 13 2011 - 14:32:26 CDT)
- Re: How to select whole residues when at least one atom is within a specific distance Axel Kohlmeyer (Thu Oct 13 2011 - 14:37:24 CDT)
  - Re: How to select whole residues when at least one atom is within a specific distance Michael LeVine (Thu Oct 13 2011 - 16:57:26 CDT)
topotools kirtana S (Wed Oct 12 2011 - 15:45:13 CDT)
- Re: topotools Axel Kohlmeyer (Wed Oct 12 2011 - 16:46:59 CDT)
  - Re: topotools kirtana S (Thu Nov 10 2011 - 23:49:47 CST)
Uniform Distribution of drug molecules in water meisam valizadeh kiamahalleh (Wed Oct 12 2011 - 09:35:03 CDT)
Re: query about "ViewChangeRender" plugin harish vashisth (Tue Oct 11 2011 - 10:42:09 CDT)
query about "ViewChangeRender" plugin harish vashisth (Mon Oct 10 2011 - 17:04:45 CDT)
amber traj to pqr - radii error Jesper Soerensen (Mon Oct 10 2011 - 12:42:30 CDT)
- Re: amber traj to pqr - radii error Axel Kohlmeyer (Mon Oct 10 2011 - 13:40:51 CDT)
  - Re: Re: amber traj to pqr - radii error Jesper Soerensen (Mon Oct 10 2011 - 15:41:54 CDT)
    - Re: Re: amber traj to pqr - radii error John Stone (Thu Oct 13 2011 - 10:25:45 CDT)
    - Re: AMBER prmtop and traj to pqr - radii error Jesper Soerensen (Mon Oct 17 2011 - 18:58:53 CDT)
alignment problem Markus K. Dahlgren (Mon Oct 10 2011 - 10:29:40 CDT)
centering problem in trajectory tool Markus K. Dahlgren (Mon Oct 10 2011 - 08:59:11 CDT)
- RE: centering problem in trajectory tool Zumot, Elia Nabil (Mon Oct 10 2011 - 11:19:48 CDT)
  - RE: centering problem in trajectory tool Markus K. Dahlgren (Mon Oct 10 2011 - 15:09:35 CDT)
Re: VMD fails to start/stalls/crashes on AMD workstation with Quadro FX 3800 Vlad Cojocaru (Fri Oct 07 2011 - 07:50:19 CDT)
(no subject) denilson_at_dqi.ufla.br (Thu Oct 06 2011 - 15:12:44 CDT)
- Re: John Stone (Thu Oct 13 2011 - 10:33:26 CDT)
RMSD vs RMSF Rabab Toubar (Thu Oct 06 2011 - 14:22:09 CDT)
- Re: RMSD vs RMSF Francesco Oteri (Thu Oct 06 2011 - 15:37:05 CDT)
water bridged H-bond calculation Hitesh Patel (Thu Oct 06 2011 - 07:17:26 CDT)
Solvating hexagonal unit cell Leandro Barros da Silva (Wed Oct 05 2011 - 13:00:27 CDT)
- Re: Solvating hexagonal unit cell Jérôme Hénin (Thu Oct 06 2011 - 06:15:48 CDT)
VMD fails to start/stalls/crashes on AMD workstation with Quadro FX 3800 Vlad Cojocaru (Wed Oct 05 2011 - 06:47:08 CDT)
unable to load Amber trajectories to visualize-Coordinate I/O rate 0 frames/sec, 0 MB/sec, 32.4 sec -Please help hongphuc nguyen (Wed Oct 05 2011 - 03:30:58 CDT)
Fw: denilson_at_dqi.ufla.br (Mon Oct 03 2011 - 11:18:01 CDT)
(no subject) denilson_at_dqi.ufla.br (Mon Oct 03 2011 - 08:56:08 CDT)
solvent_box_type lara lara (Sat Oct 01 2011 - 08:13:43 CDT)
GPU choice for large systems Dmitry Osolodkin (Sat Oct 01 2011 - 06:39:16 CDT)
- Re: GPU choice for large systems Axel Kohlmeyer (Sat Oct 01 2011 - 07:58:19 CDT)
  - Re: GPU choice for large systems Dmitry Osolodkin (Sat Oct 01 2011 - 08:37:43 CDT)
  - Re: GPU choice for large systems John Stone (Sat Oct 01 2011 - 21:20:18 CDT)
    - Re: GPU choice for large systems Axel Kohlmeyer (Sun Oct 02 2011 - 14:34:39 CDT)
    - Re: GPU choice for large systems John Stone (Sun Oct 02 2011 - 23:02:20 CDT)
methanol_solvent box lara lara (Sat Oct 01 2011 - 05:45:32 CDT)
- Re: methanol_solvent box Axel Kohlmeyer (Sat Oct 01 2011 - 07:08:44 CDT)
  - Re: methanol_solvent box lara lara (Sat Oct 01 2011 - 07:17:27 CDT)
    - Re: methanol_solvent box Axel Kohlmeyer (Sat Oct 01 2011 - 08:31:05 CDT)
mutator plugin generates extra bond for tip3 Burgess, Don E (Fri Sep 30 2011 - 11:49:26 CDT)
H Bond Plug-in Questions Alex Hahn (Thu Sep 29 2011 - 11:53:13 CDT)
- Re: H Bond Plug-in Questions JC Gumbart (Thu Sep 29 2011 - 12:46:25 CDT)
VMD meets Andy Warhol/Campbell's Soup on display wall Thomas Bishop (Wed Sep 28 2011 - 18:43:14 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall Axel Kohlmeyer (Wed Sep 28 2011 - 19:46:03 CDT)
  - Re: VMD meets Andy Warhol/Campbell's Soup on display wall Christian Wohlschlager (Thu Sep 29 2011 - 01:18:13 CDT)
  - Re: VMD meets Andy Warhol/Campbell's Soup on display wall Thomas Bishop (Thu Sep 29 2011 - 08:15:59 CDT)
    - Re: VMD meets Andy Warhol/Campbell's Soup on display wall Axel Kohlmeyer (Thu Sep 29 2011 - 08:22:26 CDT)
    - Re: VMD meets Andy Warhol/Campbell's Soup on display wall John Stone (Fri Sep 30 2011 - 12:22:48 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall John Stone (Fri Sep 30 2011 - 12:19:23 CDT)
VMD with LAMMPS trjaectory - help? jgrime_at_uchicago.edu (Wed Sep 28 2011 - 18:20:36 CDT)
- Re: VMD with LAMMPS trjaectory - help? Axel Kohlmeyer (Wed Sep 28 2011 - 19:27:16 CDT)
  - Re: VMD with LAMMPS trjaectory - help? jgrime_at_uchicago.edu (Thu Sep 29 2011 - 09:49:32 CDT)
    - Re: VMD with LAMMPS trjaectory - help? Axel Kohlmeyer (Thu Sep 29 2011 - 10:08:37 CDT)
vmd topotools 1.2 error oguz gurbulak (Wed Sep 28 2011 - 09:05:17 CDT)
- Re: vmd topotools 1.2 error Axel Kohlmeyer (Wed Sep 28 2011 - 10:01:43 CDT)
- Re: vmd topotools 1.2 oguz gurbulak (Thu Sep 29 2011 - 06:15:12 CDT)
  - Re: Re: vmd topotools 1.2 Axel Kohlmeyer (Thu Sep 29 2011 - 08:16:39 CDT)
vmd topotools 1.2 error oguz gurbulak (Wed Sep 28 2011 - 06:41:37 CDT)
- vmd topotools 1.2 error oguz gurbulak (Wed Sep 28 2011 - 08:21:55 CDT)
- Re: vmd topotools 1.2 error Axel Kohlmeyer (Wed Sep 28 2011 - 09:06:59 CDT)
Re: question on "Recompile VMD with larger index types" Axel Kohlmeyer (Wed Sep 28 2011 - 05:44:13 CDT)
Re: Selecting a laptop for VMD and NAMD PaweÅ‚ KÄ™dzierski (Wed Sep 28 2011 - 04:07:30 CDT)
question on "Recompile VMD with larger index types" JhonY. I. (Wed Sep 28 2011 - 00:50:33 CDT)
- Re: question on "Recompile VMD with larger index types" PaweÅ‚ KÄ™dzierski (Wed Sep 28 2011 - 08:17:35 CDT)
Associating .crd file extension with COR Plugin Vadim Patsalo (Tue Sep 27 2011 - 21:08:31 CDT)
- Re: Associating .crd file extension with COR Plugin Jernej Zidar (Tue Sep 27 2011 - 22:34:53 CDT)
- Re: Associating .crd file extension with COR Plugin Axel Kohlmeyer (Wed Sep 28 2011 - 08:51:38 CDT)
connectivity in RBCG file(pdb extension) ANURAG JHA (Tue Sep 27 2011 - 18:46:20 CDT)
Associating .crd file extension with COR Plugin. Vadim Patsalo (Tue Sep 27 2011 - 16:58:50 CDT)
problem of exceeding max atom number JhonY. I. (Tue Sep 27 2011 - 12:51:43 CDT)
- Re: problem of exceeding max atom number John Stone (Tue Sep 27 2011 - 13:24:22 CDT)
- Re: problem of exceeding max atom number Axel Kohlmeyer (Tue Sep 27 2011 - 13:41:45 CDT)
Re: Selecting a laptop for VMD and NAMD (was: CUDA cores seen by VMD on GT540M) PaweÅ‚ KÄ™dzierski (Tue Sep 27 2011 - 09:29:31 CDT)
- Re: Re: Selecting a laptop for VMD and NAMD (was: CUDA cores seen by VMD on GT540M) Axel Kohlmeyer (Tue Sep 27 2011 - 10:36:20 CDT)
convert .coor to pdb matziast_at_med.uth.gr (Mon Sep 26 2011 - 06:08:24 CDT)
- Re: convert .coor to pdb Axel Kohlmeyer (Mon Sep 26 2011 - 07:04:11 CDT)
- RE: convert .coor to pdb Zumot, Elia Nabil (Mon Sep 26 2011 - 08:08:59 CDT)
  - Re: convert .coor to pdb Joshua D. Moore (Mon Sep 26 2011 - 09:12:09 CDT)
RDF related problems siladitya mukherjee (Sat Sep 24 2011 - 15:17:37 CDT)
- Re: RDF related problems Axel Kohlmeyer (Sat Sep 24 2011 - 16:19:21 CDT)
Epsilon, Rmin for copper ions Francesco Pietra (Sat Sep 24 2011 - 03:55:34 CDT)
Fwd: Copper ions paratool Francesco Pietra (Fri Sep 23 2011 - 10:12:04 CDT)
Fwd: Saved project and paratool Francesco Pietra (Fri Sep 23 2011 - 06:00:05 CDT)
stream files and paratool Francesco Pietra (Fri Sep 23 2011 - 03:10:52 CDT)
Locked files in Windows 7 Ignacio Fernández Galván (Thu Sep 22 2011 - 06:08:13 CDT)
- Re: Locked files in Windows 7 Ajasja LjubetiÄ (Thu Sep 22 2011 - 07:17:55 CDT)
  - Re: Locked files in Windows 7 Ignacio FernÃ¡ndez GalvÃ¡n (Thu Sep 22 2011 - 11:48:23 CDT)
- Re: Locked files in Windows 7 Axel Kohlmeyer (Thu Sep 22 2011 - 07:49:47 CDT)
Quick TCl scripting question Anthony Rey (Wed Sep 21 2011 - 22:49:02 CDT)
- Re: Quick TCl scripting question Tim Travers (Wed Sep 21 2011 - 23:57:14 CDT)
  - Re: Quick TCl scripting question Anthony Rey (Thu Sep 22 2011 - 00:02:54 CDT)
redirecting to output kirtana S (Wed Sep 21 2011 - 13:31:52 CDT)
- RE: redirecting to output Kei Sit (Thu Sep 22 2011 - 00:32:53 CDT)
- Re: redirecting to output John Stone (Thu Sep 22 2011 - 01:42:26 CDT)
radial pair distribution problems aiswarya pawar (Wed Sep 21 2011 - 01:27:50 CDT)
- Re: radial pair distribution problems John Stone (Wed Sep 21 2011 - 11:22:33 CDT)
NetCDF plugin Alexandr Kornev (Tue Sep 20 2011 - 17:55:59 CDT)
- Re: NetCDF plugin Axel Kohlmeyer (Tue Sep 20 2011 - 18:59:11 CDT)
extra characters kirtana S (Tue Sep 20 2011 - 10:54:07 CDT)
Problem with measuring dihedrals Jernej Zidar (Tue Sep 20 2011 - 03:47:24 CDT)
- Re: Problem with measuring dihedrals Ajasja LjubetiÄ (Tue Sep 20 2011 - 04:54:54 CDT)
  - Re: Problem with measuring dihedrals Jernej Zidar (Tue Sep 20 2011 - 05:28:57 CDT)
- Re: Problem with measuring dihedrals Axel Kohlmeyer (Tue Sep 20 2011 - 04:55:10 CDT)
Problem building POPE membrane with plugin using CHARMM36 Maggie Pruitt (Mon Sep 19 2011 - 12:19:41 CDT)
- Re: Problem building POPE membrane with plugin using CHARMM36 John Stone (Wed Sep 21 2011 - 11:32:57 CDT)
  - RE: Problem building POPE membrane with plugin using CHARMM36 JC Gumbart (Wed Sep 21 2011 - 11:44:00 CDT)
RMSD heatmapper -plugin Anssi Nurminen (Mon Sep 19 2011 - 12:03:51 CDT)
- Re: RMSD heatmapper -plugin Axel Kohlmeyer (Mon Sep 19 2011 - 12:49:40 CDT)
- Re: RMSD heatmapper -plugin John Stone (Mon Sep 19 2011 - 14:03:52 CDT)
select each element of array kirtana S (Mon Sep 19 2011 - 11:11:59 CDT)
- Re: select each element of array Axel Kohlmeyer (Mon Sep 19 2011 - 12:10:44 CDT)
  - Re: select each element of array kirtana S (Mon Sep 19 2011 - 17:31:43 CDT)
Adding water in protein madhumita das (Mon Sep 19 2011 - 06:01:15 CDT)
- Re: Adding water in protein Axel Kohlmeyer (Mon Sep 19 2011 - 07:01:15 CDT)
bug in Hbond Option hamid mosaddeghi (Mon Sep 19 2011 - 00:37:41 CDT)
- Re: bug in Hbond Option Axel Kohlmeyer (Mon Sep 19 2011 - 06:51:38 CDT)
topotools readvarxyz puroorava annapaneni (Sun Sep 18 2011 - 12:22:58 CDT)
- Re: topotools readvarxyz Axel Kohlmeyer (Mon Sep 19 2011 - 07:03:25 CDT)
Creating a fragment of the given protein Trung Nguyen Duc (Sun Sep 18 2011 - 11:43:18 CDT)
- Re: Creating a fragment of the given protein JC Gumbart (Mon Sep 19 2011 - 01:56:14 CDT)
fonts for paratool Francesco Pietra (Sun Sep 18 2011 - 09:11:38 CDT)
- Re: fonts for paratool John Stone (Thu Sep 22 2011 - 01:31:07 CDT)
I can't not see my post in Archive list hongphuc nguyen (Sat Sep 17 2011 - 22:52:58 CDT)
- Re: I can't not see my post in Archive list John Stone (Sat Sep 17 2011 - 23:42:43 CDT)
units on the volmap tool Raul Araya (Sat Sep 17 2011 - 00:26:04 CDT)
color with name Yamei (Fri Sep 16 2011 - 11:56:03 CDT)
- Re: color with name John Stone (Fri Sep 16 2011 - 13:32:39 CDT)
  - Re: color with name Andrew Fenley (Fri Sep 16 2011 - 16:11:17 CDT)
A bug about "trans" command KM Tu (Fri Sep 16 2011 - 10:33:49 CDT)
- Re: A bug about "trans" command John Stone (Wed Sep 21 2011 - 11:06:17 CDT)
Clustering MD trajectories Vijay Vammi (Fri Sep 16 2011 - 08:13:49 CDT)
- Re: Clustering MD trajectories Hurt, Darrell (NIH/NIAID) [E] (Fri Sep 16 2011 - 10:17:54 CDT)
  - Re: Clustering MD trajectories Vijay Vammi (Fri Sep 16 2011 - 10:39:40 CDT)
  - Re: Clustering MD trajectories Vijay Vammi (Fri Sep 16 2011 - 14:52:47 CDT)
calculate the solvent molecule within a cut off from protein aiswarya pawar (Thu Sep 15 2011 - 05:36:25 CDT)
Cionize Christian Wohlschlager (Thu Sep 15 2011 - 01:12:16 CDT)
- Re: Cionize John Stone (Fri Sep 16 2011 - 13:48:43 CDT)
LINK or PACTH command in VMD snoze pa (Wed Sep 14 2011 - 11:48:53 CDT)
- Re: LINK or PACTH command in VMD Axel Kohlmeyer (Wed Sep 14 2011 - 13:38:40 CDT)
  - Re: LINK or PACTH command in VMD snoze pa (Wed Sep 14 2011 - 15:56:13 CDT)
Does Paratool support CgenFF? Alexandre Suman de Araujo (Wed Sep 14 2011 - 07:22:33 CDT)
- Re: Does Paratool support CgenFF? Axel Kohlmeyer (Wed Sep 14 2011 - 09:37:26 CDT)
- Re: Does Paratool support CgenFF? John Stone (Wed Sep 14 2011 - 10:10:31 CDT)
  - Re: Does Paratool support CgenFF? JC Gumbart (Thu Sep 15 2011 - 01:31:32 CDT)
Showing and Calculating the amount of water molecules inside carbon nanotube meisam valizadeh kiamahalleh (Tue Sep 13 2011 - 22:23:13 CDT)
- Re: Showing and Calculating the amount of water molecules inside carbon nanotube Axel Kohlmeyer (Tue Sep 13 2011 - 23:54:39 CDT)
2011 VMD User Survey results are posted... John Stone (Tue Sep 13 2011 - 15:26:21 CDT)
RDF calculation for production steps siladitya mukherjee (Tue Sep 13 2011 - 15:15:53 CDT)
- Re: RDF calculation for production steps Axel Kohlmeyer (Tue Sep 13 2011 - 23:51:17 CDT)
  - RE: RDF calculation for production steps Goldsmith, Jacob (Thu Sep 15 2011 - 08:25:20 CDT)
    - RE: RDF calculation for production steps Axel Kohlmeyer (Thu Sep 15 2011 - 10:38:16 CDT)
    - Re: RDF calculation for production steps Dudo (Thu Sep 15 2011 - 15:23:15 CDT)
Bug in 'source' command or in for loop? dwds gerge (Tue Sep 13 2011 - 12:06:10 CDT)
- Re: Bug in 'source' command or in for loop? John Stone (Tue Sep 13 2011 - 13:52:43 CDT)
- re: Bug in 'source' command or in for loop? dwds gerge (Tue Sep 13 2011 - 19:37:08 CDT)
  - Re: re: Bug in 'source' command or in for loop? John Stone (Fri Sep 16 2011 - 14:03:38 CDT)
Showing and Calculating the amount of water molecules inside carbon nanotube meisam valizadeh kiamahalleh (Mon Sep 12 2011 - 22:18:48 CDT)
- Re: Showing and Calculating the amount of water molecules inside carbon nanotube John Stone (Fri Sep 16 2011 - 13:59:40 CDT)
linux issues Vivek Ranjan (Mon Sep 12 2011 - 11:01:25 CDT)
- Re: linux issues John Stone (Mon Sep 12 2011 - 11:22:06 CDT)
- Re: linux issues Axel Kohlmeyer (Mon Sep 12 2011 - 12:03:04 CDT)
- RE: linux issues Bennion, Brian (Mon Sep 12 2011 - 12:25:34 CDT)
Displaying residues on chain A within X of chain B Irene Newhouse (Fri Sep 09 2011 - 16:19:18 CDT)
- Re: Displaying residues on chain A within X of chain B Axel Kohlmeyer (Fri Sep 09 2011 - 17:51:33 CDT)
  - RE: Displaying residues on chain A within X of chain B Irene Newhouse (Fri Sep 09 2011 - 19:54:51 CDT)
    - Re: Displaying residues on chain A within X of chain B Axel Kohlmeyer (Fri Sep 09 2011 - 20:27:25 CDT)
    - RE: Displaying residues on chain A within X of chain B Irene Newhouse (Sat Sep 10 2011 - 00:49:34 CDT)
- RE: Displaying residues on chain A within X of chain B Mark Cunningham (Fri Sep 09 2011 - 20:40:36 CDT)
  - RE: Displaying residues on chain A within X of chain B Irene Newhouse (Sat Sep 10 2011 - 00:33:25 CDT)
cionize Christian Wohlschlager (Fri Sep 09 2011 - 02:10:28 CDT)
output values in my script kirtana S (Thu Sep 08 2011 - 17:38:04 CDT)
- Re: output values in my script Axel Kohlmeyer (Thu Sep 08 2011 - 19:51:54 CDT)
Visualization of FEP simulation Bruno Luís Pinto de Oliveira (Thu Sep 08 2011 - 12:38:41 CDT)
- Visualization of FEP simulation Bruno Luís Pinto de Oliveira (Thu Sep 08 2011 - 13:24:32 CDT)
  - Visualization of FEP simulation Bruno Luís Pinto de Oliveira (Wed Oct 19 2011 - 09:04:06 CDT)
Fwd: Pdb file generation,bad water removal and coordinates of psf. madhumita das (Wed Sep 07 2011 - 20:24:47 CDT)
Visualizing Trajectory file: .pdb or .xyz winardi, erik (Wed Sep 07 2011 - 13:49:06 CDT)
- Re: Visualizing Trajectory file: .pdb or .xyz Axel Kohlmeyer (Wed Sep 07 2011 - 14:55:10 CDT)
  - Re: Visualizing Trajectory file: .pdb or .xyz winardi, erik (Wed Sep 07 2011 - 18:02:19 CDT)
    - Re: Visualizing Trajectory file: .pdb or .xyz Axel Kohlmeyer (Wed Sep 07 2011 - 18:11:44 CDT)
autoionize Jacopo Sgrignani (Wed Sep 07 2011 - 09:00:02 CDT)
draw intersection volume between two spheres Filip Persson (Wed Sep 07 2011 - 08:30:33 CDT)
- Re: draw intersection volume between two spheres Axel Kohlmeyer (Wed Sep 07 2011 - 10:35:43 CDT)
TK console problem J. Matthew Franklin (Tue Sep 06 2011 - 22:40:26 CDT)
- Re: TK console problem John Stone (Wed Sep 07 2011 - 10:50:41 CDT)
  - Re: TK console problem J. Matthew Franklin (Sat Sep 10 2011 - 17:46:38 CDT)
    - Re: TK console problem John Stone (Sun Sep 11 2011 - 12:06:56 CDT)
    - Re: TK console problem J. Matthew Franklin (Wed Sep 14 2011 - 20:38:38 CDT)
VMD align to principal axis kirtana S (Tue Sep 06 2011 - 22:06:04 CDT)
- Re: VMD align to principal axis Axel Kohlmeyer (Tue Sep 06 2011 - 23:31:11 CDT)
  - Re: VMD align to principal axis kirtana S (Wed Sep 07 2011 - 13:47:51 CDT)
Count waters inside a specified box Manish (Tue Sep 06 2011 - 11:11:40 CDT)
- Re: Count waters inside a specified box Jérôme Hénin (Wed Sep 07 2011 - 06:18:06 CDT)
  - RE: Count waters inside a specified box Manish (Wed Sep 07 2011 - 09:19:55 CDT)
define water cavity using atom selection in graphical representations window Filip Persson (Tue Sep 06 2011 - 03:08:20 CDT)
- Re: define water cavity using atom selection in graphical representations window Hitesh Patel (Tue Sep 06 2011 - 04:20:35 CDT)
  - Re: define water cavity using atom selection in graphical representations window Axel Kohlmeyer (Tue Sep 06 2011 - 05:31:23 CDT)
  - RE: define water cavity using atom selection in graphical representations window Mark Cunningham (Tue Sep 06 2011 - 07:35:23 CDT)
    - Re: define water cavity using atom selection in graphical representations window Axel Kohlmeyer (Tue Sep 06 2011 - 09:28:45 CDT)
- Re: define water cavity using atom selection in graphical representations window Axel Kohlmeyer (Tue Sep 06 2011 - 05:11:00 CDT)
plugin kirtana S (Mon Sep 05 2011 - 13:38:47 CDT)
- Re: plugin Axel Kohlmeyer (Mon Sep 05 2011 - 14:37:19 CDT)
Density Profile in VMD oguz gurbulak (Mon Sep 05 2011 - 02:37:37 CDT)
- Re: Density Profile in VMD Axel Kohlmeyer (Mon Sep 05 2011 - 08:39:31 CDT)
How to read pdbqt file? Chirag Vora (Sat Sep 03 2011 - 14:57:01 CDT)
- Re: How to read pdbqt file? Axel Kohlmeyer (Sat Sep 03 2011 - 15:53:58 CDT)
- Re: How to read pdbqt file? Balazs Jojart (Sun Sep 04 2011 - 01:41:08 CDT)
Re: namd-l: SASA of PBD files sajad falsafi (Sat Sep 03 2011 - 14:38:17 CDT)
Radial distribution function Kartheek (Sat Sep 03 2011 - 10:10:03 CDT)
Radial distribution function Kartheek (Sat Sep 03 2011 - 05:33:50 CDT)
- Radial distribution function Kartheek (Sat Sep 03 2011 - 06:32:58 CDT)
  - Radial distribution function Kartheek (Sat Sep 03 2011 - 07:18:46 CDT)
Re: Movie maker in VMD siladitya mukherjee (Thu Sep 01 2011 - 13:04:58 CDT)
- Re: Movie maker in VMD siladitya mukherjee (Fri Sep 02 2011 - 11:12:21 CDT)
  - Re: Movie maker in VMD Axel Kohlmeyer (Fri Sep 02 2011 - 12:14:32 CDT)
    - Re: Movie maker in VMD siladitya mukherjee (Fri Sep 02 2011 - 12:41:02 CDT)
Movie maker in VMD siladitya mukherjee (Thu Sep 01 2011 - 11:11:15 CDT)
Invitation to connect on LinkedIn Hideya Nakamura via LinkedIn (Wed Aug 31 2011 - 19:22:00 CDT)
Fw: Hbond in VMD hamid mosaddeghi (Wed Aug 31 2011 - 12:29:01 CDT)
- Fw: Hbond in VMD hamid mosaddeghi (Wed Aug 31 2011 - 12:28:09 CDT)
  - Re: Fw: Hbond in VMD Axel Kohlmeyer (Wed Aug 31 2011 - 13:16:11 CDT)
- Re: Fw: Hbond in VMD Axel Kohlmeyer (Wed Aug 31 2011 - 13:27:21 CDT)
- Fw: Fw: Hbond in VMD hamid mosaddeghi (Wed Aug 31 2011 - 14:50:19 CDT)
  - Re: Fw: Fw: Hbond in VMD Axel Kohlmeyer (Wed Aug 31 2011 - 15:56:52 CDT)
Saving ionized.psf from add ions plug in of VMD Andrea Holfelder (Wed Aug 31 2011 - 10:35:45 CDT)
- Re: Saving ionized.psf from add ions plug in of VMD Axel Kohlmeyer (Wed Aug 31 2011 - 11:34:08 CDT)
  - Re: Saving ionized.psf from add ions plug in of VMD Andrea Holfelder (Wed Aug 31 2011 - 14:27:04 CDT)
pdb naming convention to get ribbon representation Casey Johnson (Wed Aug 31 2011 - 09:08:11 CDT)
- Re: pdb naming convention to get ribbon representation John Stone (Thu Sep 01 2011 - 07:59:26 CDT)
CUDA cores seen by VMD on GT540M Pawe³ Kêdzierski (Wed Aug 31 2011 - 09:02:09 CDT)
- Re: CUDA cores seen by VMD on GT540M Axel Kohlmeyer (Wed Aug 31 2011 - 10:17:39 CDT)
- Re: CUDA cores seen by VMD on GT540M John Stone (Wed Aug 31 2011 - 10:19:39 CDT)
  - Re: CUDA cores seen by VMD on GT540M PaweÅ‚ KÄ™dzierski (Thu Sep 01 2011 - 08:07:26 CDT)
Hbond in VMD hamid mosaddeghi (Wed Aug 31 2011 - 03:12:47 CDT)
- Re: Hbond in VMD Axel Kohlmeyer (Wed Aug 31 2011 - 07:45:45 CDT)
  - Re: Hbond in VMD hamid mosaddeghi (Fri Sep 02 2011 - 05:46:16 CDT)
Re: Fw: Lammps Output data format Axel Kohlmeyer (Tue Aug 30 2011 - 12:45:15 CDT)
VMD display residues ban arn (Tue Aug 30 2011 - 12:14:35 CDT)
- Re: VMD display residues Axel Kohlmeyer (Tue Aug 30 2011 - 13:19:46 CDT)
  - Re: VMD display residues ban arn (Wed Aug 31 2011 - 04:28:35 CDT)
    - Re: VMD display residues Axel Kohlmeyer (Wed Aug 31 2011 - 06:22:04 CDT)
Hbonds for a specific frame Hitesh Patel (Tue Aug 30 2011 - 11:47:23 CDT)
- Fw: Hbonds for a specific frame hamid mosaddeghi (Wed Aug 31 2011 - 01:23:37 CDT)
VMD movie ban arn (Tue Aug 30 2011 - 10:31:58 CDT)
- Re: VMD movie Axel Kohlmeyer (Tue Aug 30 2011 - 11:28:37 CDT)
  - Re: VMD movie ban arn (Tue Aug 30 2011 - 12:10:26 CDT)
    - Re: VMD movie Axel Kohlmeyer (Tue Aug 30 2011 - 12:22:29 CDT)
- Re: VMD movie John Stone (Tue Aug 30 2011 - 11:25:30 CDT)
Depletion of few atoms makkuva Ram vivek (Mon Aug 29 2011 - 22:16:16 CDT)
loading a trajectory where particles aren't conservd Chris Knorowski (Mon Aug 29 2011 - 16:35:28 CDT)
- Re: loading a trajectory where particles aren't conservd Axel Kohlmeyer (Mon Aug 29 2011 - 17:26:22 CDT)
  - Re: loading a trajectory where particles aren't conservd Chris Knorowski (Wed Aug 31 2011 - 15:35:04 CDT)
    - Re: loading a trajectory where particles aren't conservd Axel Kohlmeyer (Wed Aug 31 2011 - 15:42:14 CDT)
Lammps Output data format winardi, erik (Mon Aug 29 2011 - 12:20:31 CDT)
- Re: Lammps Output data format Axel Kohlmeyer (Mon Aug 29 2011 - 13:20:02 CDT)
  - Re: Lammps Output data format winardi, erik (Tue Aug 30 2011 - 10:44:49 CDT)
  - Re: Lammps Output data format Axel Kohlmeyer (Tue Aug 30 2011 - 10:54:19 CDT)
3d viz? Dave Schall (Mon Aug 29 2011 - 09:28:34 CDT)
- Re: 3d viz? Axel Kohlmeyer (Mon Aug 29 2011 - 10:37:24 CDT)
  - Re: 3d viz? Dave Schall (Mon Aug 29 2011 - 13:53:05 CDT)
    - Re: 3d viz? Dave Schall (Mon Aug 29 2011 - 14:45:17 CDT)
Water in binding site ban arn (Mon Aug 29 2011 - 04:47:53 CDT)
Represent custom peptide as ribbon? Casey Johnson (Sat Aug 27 2011 - 09:24:07 CDT)
vmd does not run on the VNC client peng liu (Thu Aug 25 2011 - 21:15:15 CDT)
- Re: vmd does not run on the VNC client John Stone (Thu Aug 25 2011 - 21:27:07 CDT)
  - Re: Re: vmd does not run on the VNC client superdirac (Thu Aug 25 2011 - 22:33:55 CDT)
    - Re: Re: vmd does not run on the VNC client John Stone (Thu Aug 25 2011 - 22:40:57 CDT)
    - Re: Re: Re: vmd does not run on the VNC client superdirac (Thu Aug 25 2011 - 22:54:48 CDT)
Fwd: Re: namd-l: How to evaluate the area per lipid and thickness of the lipid bilayer in a membrane-protein system? Vlad Cojocaru (Thu Aug 25 2011 - 02:14:15 CDT)
- Re: Fwd: Re: namd-l: How to evaluate the area per lipid and thickness of the lipid bilayer in a membrane-protein system? Toni Giorgino (Thu Aug 25 2011 - 07:24:55 CDT)
Text in line with line Nuno Sousa Cerqueira (Wed Aug 24 2011 - 21:21:52 CDT)
how to load Orient package in VMD Jiao, Dian NMN (-EXP) (Wed Aug 24 2011 - 15:24:42 CDT)
- Re: how to load Orient package in VMD Axel Kohlmeyer (Wed Aug 24 2011 - 16:47:49 CDT)
  - Re: how to load Orient package in VMD Jiao, Dian NMN (-EXP) (Wed Aug 24 2011 - 16:55:23 CDT)
    - Re: how to load Orient package in VMD Axel Kohlmeyer (Wed Aug 24 2011 - 16:57:50 CDT)
Initial configuration reorientation Anna (Wed Aug 24 2011 - 11:48:38 CDT)
- Fwd: Initial configuration reorientation Anna (Wed Aug 24 2011 - 12:34:11 CDT)
  - Mailing list problems Anna (Wed Aug 24 2011 - 14:53:46 CDT)
- Re: Initial configuration reorientation John Stone (Wed Aug 24 2011 - 12:43:52 CDT)
convert pdb format to normal pdb format hamze rahimi (Wed Aug 24 2011 - 04:48:09 CDT)
- Re: convert pdb format to normal pdb format Bjoern Olausson (Wed Aug 24 2011 - 06:10:45 CDT)
extrabonds Ling Wu (Tue Aug 23 2011 - 16:13:53 CDT)
- Re: extrabonds John Stone (Tue Aug 23 2011 - 17:05:37 CDT)
  - Re: extrabonds Ling Wu (Wed Aug 24 2011 - 10:08:41 CDT)
    - Re: extrabonds John Stone (Wed Aug 24 2011 - 10:21:28 CDT)
RMSD calculator extension George Tzotzos (Tue Aug 23 2011 - 08:59:19 CDT)
- Re: RMSD calculator extension Axel Kohlmeyer (Tue Aug 23 2011 - 09:48:38 CDT)
Problem with psfgen Florian Mrugalla (Tue Aug 23 2011 - 07:41:02 CDT)
- Re: Problem with psfgen Axel Kohlmeyer (Tue Aug 23 2011 - 09:33:39 CDT)
  - Re: Problem with psfgen Florian Mrugalla (Tue Aug 23 2011 - 10:14:24 CDT)
Wrap PBC inside unit cellâ€ Casey Johnson (Mon Aug 22 2011 - 17:54:41 CDT)
- Re: Wrap PBC inside unit cellâ€ Nima Nouri (Mon Aug 22 2011 - 18:56:25 CDT)
  - Re: Re: Wrap PBC inside unit cellâ€ Axel Kohlmeyer (Tue Aug 23 2011 - 09:27:20 CDT)
- Re: Wrap PBC inside unit cellâ€ Axel Kohlmeyer (Tue Aug 23 2011 - 09:26:09 CDT)
Fwd: Dowser plugin: Error message George Tzotzos (Mon Aug 22 2011 - 16:34:31 CDT)
- Re: Fwd: Dowser plugin: Error message John Stone (Tue Aug 23 2011 - 12:39:44 CDT)
how to put two identical proteins in a same water sphere? juan jesus sanchez sanchez (Mon Aug 22 2011 - 13:06:12 CDT)
DNA hairpin Shesh Nath (Sat Aug 20 2011 - 01:19:04 CDT)
- Re: DNA hairpin Jernej Zidar (Sat Aug 20 2011 - 02:39:31 CDT)
- Re: DNA hairpin Anna (Sat Aug 20 2011 - 04:30:52 CDT)
  - Re: DNA hairpin Shesh Nath (Sat Aug 20 2011 - 04:41:20 CDT)
    - Re: DNA hairpin Chirag Vora (Sun Aug 21 2011 - 11:49:44 CDT)
changing origin of rotation (NOT center of mass) Michael Daily (Fri Aug 19 2011 - 13:41:06 CDT)
Turning Label Info output off in vmd console Sebastián Gutiérrez (Thu Aug 18 2011 - 18:14:06 CDT)
- Re: Turning Label Info output off in vmd console Axel Kohlmeyer (Thu Aug 18 2011 - 19:28:04 CDT)
  - Re: Turning Label Info output off in vmd console Sebastián Gutiérrez (Fri Aug 19 2011 - 15:21:02 CDT)
    - Re: Turning Label Info output off in vmd console Axel Kohlmeyer (Fri Aug 19 2011 - 18:14:30 CDT)
How can I draw secondary structures if I only have the carbon alpha coordinates Mert Gür (Thu Aug 18 2011 - 10:01:00 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates John Stone (Thu Aug 18 2011 - 11:48:01 CDT)
  - Re: How can I draw secondary structures if I only have the carbon alpha coordinates Mert Gür (Thu Aug 18 2011 - 12:20:30 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates Tim Travers (Thu Aug 18 2011 - 12:26:14 CDT)
converting coarse grained POPC membranes to atomistic representation (AMBER, GAFF) Vlad Cojocaru (Thu Aug 18 2011 - 07:06:32 CDT)
CatDcd Windows Version NAMITA BHADRA (Wed Aug 17 2011 - 23:52:28 CDT)
how to rename a representation in vmd maria goranovic (Wed Aug 17 2011 - 04:18:42 CDT)
- Re: how to rename a representation in vmd Ajasja LjubetiÄ (Wed Aug 17 2011 - 05:11:31 CDT)
changing label format with some arithmetic maria goranovic (Wed Aug 17 2011 - 04:05:19 CDT)
- Re: changing label format with some arithmetic Axel Kohlmeyer (Wed Aug 17 2011 - 10:13:09 CDT)
Intel HD3000 versus ATI Mobility Radeon 6310 Gianluca Interlandi (Wed Aug 17 2011 - 00:09:01 CDT)
- Re: Intel HD3000 versus ATI Mobility Radeon 6310 John Stone (Wed Aug 17 2011 - 00:50:43 CDT)
MMTools Chathurika Abeyrathne (Tue Aug 16 2011 - 20:03:45 CDT)
- Re: namd-l: MMTools Axel Kohlmeyer (Wed Aug 17 2011 - 10:15:50 CDT)
  - Re: Re: namd-l: MMTools Chathurika Abeyrathne (Wed Aug 17 2011 - 19:02:46 CDT)
    - Re: Re: namd-l: MMTools Axel Kohlmeyer (Wed Aug 17 2011 - 20:28:28 CDT)
    - Re: Re: namd-l: MMTools Chathurika Abeyrathne (Wed Aug 17 2011 - 21:07:21 CDT)
Spaceball navigator - making movies Michael Doig (Tue Aug 16 2011 - 06:16:42 CDT)
- Re: Spaceball navigator - making movies John Stone (Tue Aug 16 2011 - 10:16:56 CDT)
  - Re: Spaceball navigator - making movies Michael Doig (Wed Aug 17 2011 - 03:58:38 CDT)
visualizing unrealistic bonds Moeed (Mon Aug 15 2011 - 11:09:51 CDT)
- Re: visualizing unrealistic bonds John Stone (Mon Aug 15 2011 - 11:21:02 CDT)
  - Re: visualizing unrealistic bonds Moeed (Tue Aug 23 2011 - 05:49:22 CDT)
    - Re: visualizing unrealistic bonds John Stone (Tue Aug 23 2011 - 09:06:23 CDT)
    - Re: visualizing unrealistic bonds Axel Kohlmeyer (Tue Aug 23 2011 - 09:30:52 CDT)
  - Re: visualizing unrealistic bonds Axel Kohlmeyer (Tue Aug 23 2011 - 10:18:00 CDT)
- Re: visualizing unrealistic bonds Axel Kohlmeyer (Mon Aug 15 2011 - 12:07:13 CDT)
- Re: visualizing unrealistic bonds Magnus Andersson (Mon Aug 15 2011 - 14:26:08 CDT)
Re: Solvating a Protein in VMD using NON STANDARD SOLVENT Babban Mia (Sat Aug 13 2011 - 07:10:18 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT Axel Kohlmeyer (Sat Aug 13 2011 - 08:22:08 CDT)
  - Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT Babban Mia (Sat Aug 13 2011 - 08:42:09 CDT)
Maria Tziastoudi matziast_at_med.uth.gr (Sat Aug 13 2011 - 05:29:29 CDT)
.COOR TO PDB FILE Babban Mia (Sat Aug 13 2011 - 01:11:48 CDT)
- Re: namd-l: .COOR TO PDB FILE JC Gumbart (Sat Aug 13 2011 - 01:29:04 CDT)
Implicit Patch for Nucleic Acids? Stefan Franzen (Fri Aug 12 2011 - 13:46:24 CDT)
Orienting a Protein Kapil Amarnath (Fri Aug 12 2011 - 11:19:31 CDT)
- Re: Orienting a Protein Balazs Jojart (Fri Aug 12 2011 - 18:57:22 CDT)
  - Re: Orienting a Protein Kapil Amarnath (Sun Aug 14 2011 - 13:30:09 CDT)
how to wrap a protein with periodic waters Thomas Evangelidis (Fri Aug 12 2011 - 10:19:47 CDT)
- Re: how to wrap a protein with periodic waters Olaf Lenz (Mon Aug 15 2011 - 02:43:51 CDT)
Maria Tziastoudi matziast_at_med.uth.gr (Fri Aug 12 2011 - 04:29:38 CDT)
- Re: Maria Tziastoudi John Stone (Fri Aug 12 2011 - 09:39:51 CDT)
rmsf hamze rahimi (Fri Aug 12 2011 - 01:32:44 CDT)
- Re: rmsf Nima Nouri (Fri Aug 12 2011 - 02:20:23 CDT)
- Re: rmsf Axel Kohlmeyer (Fri Aug 12 2011 - 03:52:10 CDT)
package require help hamze rahimi (Fri Aug 12 2011 - 01:31:22 CDT)
- Re: package require help Axel Kohlmeyer (Fri Aug 12 2011 - 03:51:27 CDT)
- Re: package require help sajad falsafi (Fri Aug 12 2011 - 04:05:33 CDT)
Vmd Problem Sara baretller (Thu Aug 11 2011 - 15:49:08 CDT)
- Re: Vmd Problem Axel Kohlmeyer (Thu Aug 11 2011 - 16:35:56 CDT)
- Re: Vmd Problem John Stone (Thu Aug 11 2011 - 16:36:50 CDT)
  - Re: Vmd Problem Sara baretller (Thu Aug 11 2011 - 16:42:32 CDT)
    - Re: Vmd Problem John Stone (Thu Aug 11 2011 - 16:51:38 CDT)
- Timeline plugin Ada Zhan (Thu Aug 11 2011 - 19:12:01 CDT)
Update selection every frame command Guenegou, Guillaume [ORDFR] (Thu Aug 11 2011 - 04:56:11 CDT)
- Re: Update selection every frame command Axel Kohlmeyer (Thu Aug 11 2011 - 07:23:04 CDT)
Change Path to Povray Moritz Münsterberg (Thu Aug 11 2011 - 03:34:59 CDT)
- Re: Change Path to Povray John Stone (Thu Aug 11 2011 - 10:30:15 CDT)
Molefacture - VMD agreement Marc Charendoff (Wed Aug 10 2011 - 23:10:27 CDT)
- Re: Molefacture - VMD agreement Axel Kohlmeyer (Thu Aug 11 2011 - 00:14:01 CDT)
  - Re: Molefacture - VMD agreement Jernej Zidar (Thu Aug 11 2011 - 01:41:08 CDT)
Solvation in VMD using Non Standard Solvent System Babban Mia (Wed Aug 10 2011 - 07:35:32 CDT)
- Re: namd-l: Solvation in VMD using Non Standard Solvent System Axel Kohlmeyer (Wed Aug 10 2011 - 07:47:35 CDT)
Long atom types from CGenFF causing charge problems Anna Whitney (Tue Aug 09 2011 - 16:01:09 CDT)
- Re: Long atom types from CGenFF causing charge problems JC Gumbart (Tue Aug 09 2011 - 17:42:32 CDT)
  - Re: Long atom types from CGenFF causing charge problems John Stone (Tue Aug 09 2011 - 22:19:02 CDT)
    - RE: Long atom types from CGenFF causing charge problems JC Gumbart (Tue Aug 09 2011 - 23:52:22 CDT)
TCL and Plugins Mark Suhovecky (Tue Aug 09 2011 - 12:23:41 CDT)
- TCL and Plugins Mark Suhovecky (Tue Aug 09 2011 - 12:43:22 CDT)
  - Re: TCL and Plugins John Stone (Tue Aug 09 2011 - 13:45:32 CDT)
- Re: TCL and Plugins Axel Kohlmeyer (Tue Aug 09 2011 - 13:48:48 CDT)
measure dihedral and improper angles matziast_at_med.uth.gr (Tue Aug 09 2011 - 11:02:57 CDT)
Command line for thickness parameter Guenegou, Guillaume [ORDFR] (Tue Aug 09 2011 - 06:00:29 CDT)
Solvate a Protein for Explicit Solvent MD Babban Mia (Tue Aug 09 2011 - 04:16:03 CDT)
Command line for thickness parameter Guenegou, Guillaume [ORDFR] (Tue Aug 09 2011 - 03:46:46 CDT)
- Re: Command line for thickness parameter Cun Zhang (Tue Aug 09 2011 - 07:56:27 CDT)
How to cionize DNA? example needed! Bikan Tan (Mon Aug 08 2011 - 18:59:19 CDT)
Vmd molecule rotation and translation Anna (Mon Aug 08 2011 - 18:41:49 CDT)
- Fwd: Vmd molecule rotation and translation Anna (Mon Aug 08 2011 - 19:45:53 CDT)
- Re: Vmd molecule rotation and translation Cun Zhang (Mon Aug 08 2011 - 21:34:01 CDT)
  - Re: Vmd molecule rotation and translation Anna (Tue Aug 09 2011 - 01:27:37 CDT)
script KIRTANA S (Mon Aug 08 2011 - 16:09:45 CDT)
- Re: script Axel Kohlmeyer (Mon Aug 08 2011 - 22:37:15 CDT)
vmd Shesh Nath (Sat Aug 06 2011 - 02:04:59 CDT)
- Re: vmd sajad falsafi (Sat Aug 06 2011 - 05:55:14 CDT)
xtc plugin writing ability Francesco Oteri (Fri Aug 05 2011 - 07:39:59 CDT)
- Re: xtc plugin writing ability Axel Kohlmeyer (Fri Aug 05 2011 - 09:09:00 CDT)
specden - IR spectral density calculator plugin Kukol, Andreas (Thu Aug 04 2011 - 03:25:17 CDT)
- Re: specden - IR spectral density calculator plugin Axel Kohlmeyer (Thu Aug 04 2011 - 13:49:06 CDT)
problem to render .cms file AB (Thu Aug 04 2011 - 02:11:34 CDT)
- Re: problem to render .cms file John Stone (Fri Aug 05 2011 - 16:12:31 CDT)
making movie Moeed (Wed Aug 03 2011 - 20:56:47 CDT)
- Re: making movie John Stone (Fri Aug 05 2011 - 16:13:28 CDT)
  - Re: making movie Moeed (Tue Aug 23 2011 - 05:55:37 CDT)
.car or .xyz output winardi, erik (Wed Aug 03 2011 - 19:39:47 CDT)
- Re: .car or .xyz output John Stone (Fri Aug 05 2011 - 16:15:47 CDT)
Fwd: hbond analysis subrata paul (Wed Aug 03 2011 - 07:41:05 CDT)
- Re: Fwd: hbond analysis John Stone (Fri Aug 05 2011 - 16:28:17 CDT)
viewing dcd files Vivek Ranjan (Tue Aug 02 2011 - 19:51:37 CDT)
- RE: viewing dcd files Ismail, Mohd F. (Tue Aug 02 2011 - 23:49:04 CDT)
- Re: viewing dcd files Axel Kohlmeyer (Thu Aug 04 2011 - 13:44:33 CDT)
Problems running VMD-CUDA with GNU-Linux Francesco Pietra (Tue Aug 02 2011 - 16:52:01 CDT)
selection of sugars with VMD Molybdos Kirkimpolakis (Tue Aug 02 2011 - 14:11:49 CDT)
- Re: selection of sugars with VMD John Stone (Tue Aug 02 2011 - 17:09:34 CDT)
vmd 1.9 sur doesn't work AB (Tue Aug 02 2011 - 13:58:43 CDT)
VMD User Survey coming to your email inbox soon.... John Stone (Tue Aug 02 2011 - 10:19:24 CDT)
about psf file generation safron saif (Mon Aug 01 2011 - 07:22:08 CDT)
- Re: about psf file generation sajad falsafi (Tue Aug 02 2011 - 02:12:54 CDT)
  - Re: about psf file generation Axel Kohlmeyer (Tue Aug 02 2011 - 07:43:29 CDT)
moveby command hanif mahboobi (Sun Jul 31 2011 - 06:13:57 CDT)
- Re: moveby command Axel Kohlmeyer (Sun Jul 31 2011 - 09:50:29 CDT)
a file for commands of console JhonY. I. (Sat Jul 30 2011 - 08:55:14 CDT)
- Re: a file for commands of console Ajasja LjubetiÄ (Sat Jul 30 2011 - 09:40:23 CDT)
  - Re: a file for commands of console Nima Nouri (Sat Jul 30 2011 - 11:56:58 CDT)
different number of atoms in each frame of the trajectory file Debasis Sengupta (Fri Jul 29 2011 - 16:58:34 CDT)
- Re: different number of atoms in each frame of the trajectory file Axel Kohlmeyer (Fri Jul 29 2011 - 18:05:32 CDT)
'Hands-On' Workshop on Computational Biophysics using VMD and NAMD, October 17-21, 2011, Bremen, Germany David Brandon (Fri Jul 29 2011 - 14:15:06 CDT)
PDB manipulation nahren manuel (Fri Jul 29 2011 - 09:44:38 CDT)
- Re: PDB manipulation John Stone (Fri Aug 05 2011 - 16:35:52 CDT)
  - Re: PDB manipulation nahren manuel (Wed Aug 31 2011 - 05:07:03 CDT)
Nvidia quadro Fx1300 problem Federico Filomia (Fri Jul 29 2011 - 03:55:25 CDT)
- Re: Nvidia quadro Fx1300 problem John Stone (Fri Jul 29 2011 - 09:57:18 CDT)
  - Re: Nvidia quadro Fx1300 problem Federico Filomia (Mon Aug 01 2011 - 02:25:42 CDT)
- Re: Nvidia quadro Fx1300 problem Axel Kohlmeyer (Fri Jul 29 2011 - 10:39:19 CDT)
converting .dx volumetric data to 2D isocontour Raul Araya (Thu Jul 28 2011 - 12:31:37 CDT)
- Re: converting .dx volumetric data to 2D isocontour John Stone (Tue Aug 02 2011 - 16:53:16 CDT)
creating chiral molecules Peyman Z.Moghadam (Thu Jul 28 2011 - 04:21:16 CDT)
- Re: creating chiral molecules Ajasja LjubetiÄ (Thu Jul 28 2011 - 05:09:29 CDT)
How to save image in SVG format? ºÎØ¹»Ô (Tue Jul 26 2011 - 00:48:28 CDT)
- Re: How to save image in SVG format? Axel Kohlmeyer (Tue Jul 26 2011 - 01:36:14 CDT)
loading saved state from command line Erik Nordgren (Mon Jul 25 2011 - 19:12:03 CDT)
- Re: loading saved state from command line Erik Nordgren (Mon Jul 25 2011 - 19:28:30 CDT)
- Re: loading saved state from command line Ajasja LjubetiÄ (Tue Jul 26 2011 - 01:47:56 CDT)
Question about eval Pavan Ghatty (Mon Jul 25 2011 - 13:51:53 CDT)
- Re: Question about eval Axel Kohlmeyer (Mon Jul 25 2011 - 14:33:37 CDT)
  - Re: Question about eval Pavan Ghatty (Tue Jul 26 2011 - 08:45:56 CDT)
  - Re: Question about eval Pavan Ghatty (Tue Jul 26 2011 - 11:14:15 CDT)
    - Re: Question about eval John Stone (Tue Jul 26 2011 - 11:40:45 CDT)
Understand a script Sara baretller (Mon Jul 25 2011 - 08:35:51 CDT)
- Re: Understand a script Bjoern Olausson (Mon Jul 25 2011 - 10:05:59 CDT)
  - Re: Understand a script Axel Kohlmeyer (Mon Jul 25 2011 - 10:50:47 CDT)
- Re: Understand a script Axel Kohlmeyer (Mon Jul 25 2011 - 10:23:31 CDT)
  - Re: Understand a script Ajasja LjubetiÄ (Tue Jul 26 2011 - 03:54:58 CDT)
- Re: Understand a script Paul VanAllsburg (Mon Jul 25 2011 - 10:58:51 CDT)
Re: namd-l: how to generate transparent figures? BIN ZHANG (Sun Jul 24 2011 - 11:31:04 CDT)
- Re: namd-l: how to generate transparent figures? Axel Kohlmeyer (Mon Jul 25 2011 - 03:48:10 CDT)
- Re: Re: namd-l: how to generate transparent figures? Dudo (Mon Jul 25 2011 - 05:13:50 CDT)
  - Re: Re: namd-l: how to generate transparent figures? Jérôme Hénin (Mon Jul 25 2011 - 07:19:40 CDT)
cyclic peptides Alisha \ (Fri Jul 22 2011 - 13:09:55 CDT)
SOLVED: Failure to run namd-cuda with gtx-470 Francesco Pietra (Fri Jul 22 2011 - 09:56:34 CDT)
ViewChangerRender (VCR) plug-in Nuno Sousa Cerqueira (Thu Jul 21 2011 - 11:53:32 CDT)
Novint Falcon in VMD - help with setup Filip Persson (Wed Jul 20 2011 - 05:12:44 CDT)
MDFF problem hamze rahimi (Tue Jul 19 2011 - 23:13:05 CDT)
about docking with VMD Hui WEI (Tue Jul 19 2011 - 16:37:36 CDT)
- Re: about docking with VMD Cristina Rodríguez (Tue Jul 19 2011 - 17:34:25 CDT)
- Re: about docking with VMD Nuno Sousa Cerqueira (Wed Jul 20 2011 - 10:32:41 CDT)
Mutating a residue to a nonstandard amino acid Alisha \ (Tue Jul 19 2011 - 16:14:56 CDT)
- Re: Mutating a residue to a nonstandard amino acid Ajasja LjubetiÄ (Wed Jul 20 2011 - 16:57:49 CDT)
AMBER coordinates with periodic box Guenegou, Guillaume [ORDFR] (Tue Jul 19 2011 - 08:18:44 CDT)
- Re: AMBER coordinates with periodic box John Stone (Wed Jul 20 2011 - 13:41:23 CDT)
shades of licorice representation maria goranovic (Tue Jul 19 2011 - 07:53:52 CDT)
- Re: shades of licorice representation Axel Kohlmeyer (Tue Jul 19 2011 - 08:44:13 CDT)
  - Re: shades of licorice representation maria goranovic (Tue Jul 19 2011 - 08:52:19 CDT)
    - Re: shades of licorice representation Axel Kohlmeyer (Tue Jul 19 2011 - 10:02:52 CDT)
- Re: shades of licorice representation Boris Steipe (Tue Jul 19 2011 - 10:10:01 CDT)
- RE: shades of licorice representation Mark Cunningham (Tue Jul 19 2011 - 11:53:54 CDT)
  - Re: shades of licorice representation Hurt, Darrell (NIH/NIAID) [E] (Tue Jul 19 2011 - 14:24:42 CDT)
RE.: Re: VMD and MDFF: ssrestraints package error message under Windows Nicolas Coudray (Mon Jul 18 2011 - 14:46:13 CDT)
how to change working directory of VMD? Esam Tolba (Mon Jul 18 2011 - 14:02:17 CDT)
- Re: how to change working directory of VMD? sajad falsafi (Tue Jul 19 2011 - 14:02:57 CDT)
  - Re: how to change working directory of VMD? Esam Tolba (Tue Jul 19 2011 - 18:16:29 CDT)
    - Re: how to change working directory of VMD? Nima Nouri (Wed Jul 20 2011 - 05:42:55 CDT)
script KIRTANA S (Mon Jul 18 2011 - 13:20:52 CDT)
Hydration dynamics:Phrase selection problem in vmd Kartheek (Mon Jul 18 2011 - 07:09:02 CDT)
- Re: Hydration dynamics:Phrase selection problem in vmd Axel Kohlmeyer (Mon Jul 18 2011 - 09:40:28 CDT)
zinc-finger protein simulation hamze rahimi (Mon Jul 18 2011 - 06:55:08 CDT)
calculate atom distance between two chain hamze rahimi (Mon Jul 18 2011 - 06:31:04 CDT)
- Re: calculate atom distance between two chain John Stone (Mon Jul 18 2011 - 09:57:59 CDT)
Problem of installing VMD 1.8.3 on Fedora14 Tatyana Sysoeva (Sun Jul 17 2011 - 15:42:28 CDT)
- Re: Problem of installing VMD 1.8.3 on Fedora14 Axel Kohlmeyer (Sun Jul 17 2011 - 16:52:34 CDT)
autoionize adds too many ions Edward Lyman (Fri Jul 15 2011 - 14:34:48 CDT)
- Re: autoionize adds too many ions Leonardo Trabuco (Wed Jul 20 2011 - 09:41:03 CDT)
  - RE: autoionize adds too many ions JC Gumbart (Wed Jul 20 2011 - 10:20:35 CDT)
    - Re: autoionize adds too many ions Leonardo Trabuco (Wed Jul 20 2011 - 10:30:02 CDT)
  - RE: autoionize adds too many ions Goldsmith, Jacob (Wed Jul 20 2011 - 12:10:28 CDT)
angle between two domains connected at a hinge maria goranovic (Fri Jul 15 2011 - 08:35:52 CDT)
- Re: angle between two domains connected at a hinge sajad falsafi (Fri Jul 15 2011 - 11:51:28 CDT)
hi kanchi subbarao rao (Fri Jul 15 2011 - 04:43:19 CDT)
Initial configurations / topology for LAMMPS molecular dynamics (Thu Jul 14 2011 - 15:22:41 CDT)
- Re: [lammps-users] Initial configurations / topology for LAMMPS Axel Kohlmeyer (Thu Jul 14 2011 - 15:29:08 CDT)
  - Re: [lammps-users] Initial configurations / topology for LAMMPS Anna (Thu Jul 14 2011 - 17:17:56 CDT)
Implicit Ligand Sampling Jacopo Sgrignani (Thu Jul 14 2011 - 14:50:21 CDT)
Implicit Ligand Sampling Jacopo Sgrignani (Thu Jul 14 2011 - 11:05:37 CDT)
How to change the VMD working Directory Esam Tolba (Thu Jul 14 2011 - 09:10:17 CDT)
- Re: How to change the VMD working Directory Axel Kohlmeyer (Thu Jul 14 2011 - 09:58:26 CDT)
Add user output to DCD trajectories Nima Nouri (Thu Jul 14 2011 - 05:18:29 CDT)
- Re: Add user output to DCD trajectories Axel Kohlmeyer (Thu Jul 14 2011 - 09:23:45 CDT)
  - Re: Add user output to DCD trajectories Nima Nouri (Thu Jul 21 2011 - 18:41:05 CDT)
script KIRTANA S (Tue Jul 12 2011 - 11:12:41 CDT)
- Re: script Ajasja LjubetiÄ (Tue Jul 12 2011 - 12:08:12 CDT)
- Re: script Axel Kohlmeyer (Tue Jul 12 2011 - 11:58:55 CDT)
  - Re: script Ajasja LjubetiÄ (Tue Jul 12 2011 - 13:01:26 CDT)
Retrieving Cremer-Pople parameters Mr Bernard Ramos (Tue Jul 12 2011 - 07:40:05 CDT)
- Re: Retrieving Cremer-Pople parameters Axel Kohlmeyer (Tue Jul 12 2011 - 09:03:56 CDT)
  - Re: Retrieving Cremer-Pople parameters John Stone (Tue Jul 12 2011 - 09:13:36 CDT)
    - Re: Retrieving Cremer-Pople parameters Payne, Christy (Tue Jul 12 2011 - 10:32:24 CDT)
  - Re: Retrieving Cremer-Pople parameters Payne, Christy (Tue Jul 12 2011 - 10:31:26 CDT)
stereo anaglyph rendering thiru pathi (Sun Jul 10 2011 - 01:47:59 CDT)
- Re: stereo anaglyph rendering Axel Kohlmeyer (Sun Jul 10 2011 - 05:36:00 CDT)
  - Re: stereo anaglyph rendering thiru pathi (Sun Jul 10 2011 - 07:18:29 CDT)
    - Re: stereo anaglyph rendering John Stone (Sun Jul 10 2011 - 22:17:20 CDT)
PBCwrap tools Simulation Biology (Sat Jul 09 2011 - 17:48:29 CDT)
- Re: PBCwrap tools Axel Kohlmeyer (Sat Jul 09 2011 - 18:33:24 CDT)
  - Re: PBCwrap tools Molybdos Kirkimpolakis (Sun Jul 10 2011 - 00:17:29 CDT)
Does this work with VMD: Nvidia 3DVision Glasses + SyncMaster 2233RZ + GTX 580 + Win7? Ajasja LjubetiÄ (Sat Jul 09 2011 - 17:06:19 CDT)
- Re: Does this work with VMD: Nvidia 3DVision Glasses + SyncMaster 2233RZ + GTX 580 + Win7? John Stone (Sat Jul 09 2011 - 22:20:20 CDT)
import selection in array for script KIRTANA S (Fri Jul 08 2011 - 14:37:11 CDT)
- Re: import selection in array for script Axel Kohlmeyer (Fri Jul 08 2011 - 15:04:46 CDT)
  - Re: import selection in array for script KIRTANA S (Fri Jul 08 2011 - 15:36:50 CDT)
    - Re: import selection in array for script John Stone (Tue Jul 12 2011 - 13:04:43 CDT)
Quadro FX1800 , Stereo and VMD Vlad Cojocaru (Fri Jul 08 2011 - 09:25:33 CDT)
- Re: Quadro FX1800 , Stereo and VMD John Stone (Fri Jul 08 2011 - 10:41:12 CDT)
  - Re: Quadro FX1800 , Stereo and VMD Vlad Cojocaru (Fri Jul 08 2011 - 11:26:17 CDT)
    - RE: Quadro FX1800 , Stereo and VMD Jacob Story (Fri Jul 08 2011 - 13:35:44 CDT)
- RE: Quadro FX1800 , Stereo and VMD Jacob Story (Fri Jul 08 2011 - 11:23:30 CDT)
how to draw different set of points for different frames in a trajectory my script does not work maria goranovic (Fri Jul 08 2011 - 07:59:10 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work Axel Kohlmeyer (Fri Jul 08 2011 - 08:31:17 CDT)
  - Re: how to draw different set of points for different frames in a trajectory my script does not work maria goranovic (Fri Jul 08 2011 - 09:56:14 CDT)
Pucker parameters Payne, Christy (Thu Jul 07 2011 - 14:35:18 CDT)
- Re: Pucker parameters John Stone (Tue Jul 12 2011 - 12:53:39 CDT)
Salt brigde Christian Wohlschlager (Thu Jul 07 2011 - 01:06:51 CDT)
- Re: Salt brigde John Stone (Thu Jul 07 2011 - 13:01:56 CDT)
  - Re: Salt brigde Jérôme Hénin (Thu Jul 07 2011 - 15:32:27 CDT)
script KIRTANA S (Wed Jul 06 2011 - 17:04:29 CDT)
- Re: script Axel Kohlmeyer (Wed Jul 06 2011 - 19:01:31 CDT)
On Cremer-Pople ring puckering Mr Bernard Ramos (Wed Jul 06 2011 - 14:13:05 CDT)
VMD and MDFF: ssrestraints package error message under Windows Nicolas Coudray (Wed Jul 06 2011 - 13:55:21 CDT)
- Re: VMD and MDFF: ssrestraints package error message under Windows Leonardo Trabuco (Fri Jul 08 2011 - 03:07:06 CDT)
Problem with for loop. Sara baretller (Wed Jul 06 2011 - 09:38:20 CDT)
- Re: Problem with for loop. Sara baretller (Wed Jul 06 2011 - 10:04:01 CDT)
  - Re: Re: Problem with for loop. Axel Kohlmeyer (Wed Jul 06 2011 - 10:57:44 CDT)
  - RE: Re: Problem with for loop. Mark Cunningham (Wed Jul 06 2011 - 12:34:36 CDT)
- Re: Problem with for loop. Axel Kohlmeyer (Wed Jul 06 2011 - 10:26:10 CDT)
  - Re: Problem with for loop. Sara baretller (Fri Jul 08 2011 - 09:52:16 CDT)
average radius of cavity over many frames from hole maria goranovic (Wed Jul 06 2011 - 02:28:49 CDT)
Distance between atoms in frame snoze pa (Tue Jul 05 2011 - 18:12:31 CDT)
- Re: Distance between atoms in frame snoze pa (Tue Jul 05 2011 - 19:12:47 CDT)
  - Re: Distance between atoms in frame Axel Kohlmeyer (Tue Jul 05 2011 - 20:10:04 CDT)
    - Re: Distance between atoms in frame sajad falsafi (Wed Jul 06 2011 - 05:56:58 CDT)
    - Re: Distance between atoms in frame snoze pa (Wed Jul 06 2011 - 09:53:32 CDT)
- RE: Distance between atoms in frame Mark Cunningham (Tue Jul 05 2011 - 21:09:24 CDT)
qpt_conv command of Hole is interactive, how to automate it for multiple frames? maria goranovic (Tue Jul 05 2011 - 10:05:55 CDT)
- Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? maria goranovic (Thu Jul 07 2011 - 05:21:00 CDT)
  - Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? John Stone (Tue Jul 12 2011 - 13:08:13 CDT)
    - Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? maria goranovic (Tue Jul 12 2011 - 14:22:35 CDT)
File as video safron saif (Tue Jul 05 2011 - 00:02:36 CDT)
- Re: File as video sajad falsafi (Tue Jul 05 2011 - 03:25:15 CDT)
- Re: File as video Bjoern Olausson (Tue Jul 05 2011 - 03:33:13 CDT)
New Multi-platform Surface and volume Calculator João Ribeiro (Mon Jul 04 2011 - 16:06:53 CDT)
Computer hangs on trying to launch VMD CUDA Francesco Pietra (Mon Jul 04 2011 - 02:19:02 CDT)
- Re: Computer hangs on trying to launch VMD CUDA John Stone (Tue Jul 05 2011 - 14:01:24 CDT)
  - Re: Computer hangs on trying to launch VMD CUDA Axel Kohlmeyer (Tue Jul 05 2011 - 15:08:03 CDT)
contacts and pbc Jesper Sørensen (Sun Jul 03 2011 - 08:39:02 CDT)
- Re: contacts and pbc Axel Kohlmeyer (Sun Jul 03 2011 - 11:21:39 CDT)
  - RE: contacts and pbc Jesper Sørensen (Sun Jul 03 2011 - 11:30:43 CDT)
    - Re: contacts and pbc John Stone (Tue Jul 05 2011 - 13:59:28 CDT)
    - RE: contacts and pbc Jesper Sørensen (Wed Jul 06 2011 - 03:30:37 CDT)
Patchlet for MacOS 32/64-bit compilation FX (Sat Jul 02 2011 - 05:13:21 CDT)
A patch for OFF import and a question about representation of surfaces FX (Sat Jul 02 2011 - 05:08:08 CDT)
- Re: A patch for OFF import and a question about representation of surfaces John Stone (Tue Jul 12 2011 - 13:22:54 CDT)
Problem with loop. it s not going to the next peptide Sara baretller (Fri Jul 01 2011 - 13:13:14 CDT)
- Re: Problem with loop. it s not going to the next peptide Sara baretller (Fri Jul 01 2011 - 16:35:28 CDT)
  - Re: Problem with loop. it s not going to the next peptide Axel Kohlmeyer (Fri Jul 01 2011 - 17:06:25 CDT)
catdcd and velocity dcd file arash azari (Fri Jul 01 2011 - 10:06:11 CDT)
- Re: catdcd and velocity dcd file Axel Kohlmeyer (Fri Jul 01 2011 - 10:45:16 CDT)
VMD scripting: Perform PBCwrap+fitframes on several dcd files Filip Persson (Fri Jul 01 2011 - 08:03:26 CDT)
VMD atom NUMER problem snoze pa (Wed Jun 29 2011 - 15:07:27 CDT)
- Re: VMD atom NUMER problem John Stone (Wed Jun 29 2011 - 15:21:41 CDT)
  - Re: VMD atom NUMER problem snoze pa (Wed Jun 29 2011 - 15:24:44 CDT)
    - Re: VMD atom NUMER problem John Stone (Wed Jun 29 2011 - 17:25:42 CDT)
H-bond analysis Rupashree Shyama Ray (Wed Jun 29 2011 - 09:15:50 CDT)
About psf file safron saif (Wed Jun 29 2011 - 04:02:57 CDT)
- Re: About psf file Axel Kohlmeyer (Wed Jun 29 2011 - 08:31:02 CDT)
Installation problem -Solvate mohan maruthi sena (Tue Jun 28 2011 - 23:06:58 CDT)
- Re: Installation problem -Solvate Axel Kohlmeyer (Wed Jun 29 2011 - 05:25:15 CDT)
Normalization of RDFs in gofr plugin gaborekt_at_duq.edu (Tue Jun 28 2011 - 12:34:37 CDT)
- Re: Normalization of RDFs in gofr plugin Axel Kohlmeyer (Tue Jun 28 2011 - 13:06:49 CDT)
  - Re: Normalization of RDFs in gofr plugin gaborekt_at_duq.edu (Tue Jun 28 2011 - 16:05:59 CDT)
Bond between two hydrogen atoms Debasis Sengupta (Tue Jun 28 2011 - 12:23:05 CDT)
- Re: Bond between two hydrogen atoms Axel Kohlmeyer (Tue Jun 28 2011 - 12:56:11 CDT)
Changing representations on a per-atom per-timestep basis J. Nathan Scott (Tue Jun 28 2011 - 11:34:19 CDT)
- Re: Changing representations on a per-atom per-timestep basis Axel Kohlmeyer (Tue Jun 28 2011 - 12:14:19 CDT)
- Re: Changing representations on a per-atom per-timestep basis Ajasja LjubetiÄ (Tue Jun 28 2011 - 12:48:11 CDT)
Total Dipole Moment Chathurika Abeyrathne (Tue Jun 28 2011 - 04:48:54 CDT)
- Re: Total Dipole Moment Axel Kohlmeyer (Tue Jun 28 2011 - 09:48:33 CDT)
  - Re: Total Dipole Moment Chathurika Abeyrathne (Tue Jun 28 2011 - 19:56:41 CDT)
VMD-I: rsmd calculation nataliaperez_at_infomed.sld.cu (Mon Jun 27 2011 - 14:57:41 CDT)
- Re: VMD-I: rsmd calculation Axel Kohlmeyer (Tue Jun 28 2011 - 09:53:26 CDT)
VMD-I: nataliaperez_at_infomed.sld.cu (Mon Jun 27 2011 - 11:21:02 CDT)
best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule Sara Biocomputation (Mon Jun 27 2011 - 10:39:30 CDT)
- Re: best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule Sara Biocomputation (Mon Jun 27 2011 - 10:44:48 CDT)
  - Re: Re: best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule Axel Kohlmeyer (Tue Jun 28 2011 - 09:55:40 CDT)
color trajectory using specific values rather than color scale Brian Puchala (Mon Jun 27 2011 - 09:55:05 CDT)
- Re: color trajectory using specific values rather than color scale Axel Kohlmeyer (Mon Jun 27 2011 - 10:32:51 CDT)
  - Re: color trajectory using specific values rather than color scale John Stone (Mon Jun 27 2011 - 10:42:31 CDT)
- Re: color trajectory using specific values rather than color scale Jérôme Hénin (Mon Jun 27 2011 - 11:20:41 CDT)
- Re: color trajectory using specific values rather than color scale Joshua A. Anderson (Mon Jun 27 2011 - 11:50:44 CDT)
Molefacture: creating model helices Neelanjana Sengupta (Mon Jun 27 2011 - 06:31:03 CDT)
- Re: Molefacture: creating model helices Ajasja LjubetiÄ (Mon Jun 27 2011 - 07:10:23 CDT)
protein-water RDF divya nayar (Mon Jun 27 2011 - 01:15:21 CDT)
- Re: protein-water RDF Ajasja LjubetiÄ (Mon Jun 27 2011 - 03:05:03 CDT)
- Re: protein-water RDF Axel Kohlmeyer (Mon Jun 27 2011 - 09:08:35 CDT)
not to display atoms in certain region pouyan farzinpor (Fri Jun 24 2011 - 14:53:03 CDT)
- Re: not to display atoms in certain region John Stone (Fri Jun 24 2011 - 15:01:06 CDT)
  - Re: not to display atoms in certain region pouyan farzinpor (Fri Jun 24 2011 - 15:29:11 CDT)
    - Re: not to display atoms in certain region John Stone (Fri Jun 24 2011 - 15:45:31 CDT)
    - Re: not to display atoms in certain region Axel Kohlmeyer (Fri Jun 24 2011 - 16:09:33 CDT)
align axes Adrian Roitberg (Wed Jun 22 2011 - 14:17:50 CDT)
- Re: align axes Axel Kohlmeyer (Thu Jun 23 2011 - 13:42:44 CDT)
  - Re: align axes Toni Giorgino (Thu Jun 23 2011 - 14:50:14 CDT)
VMD not working on MacOS X 10.6.7 Daniel Aiello (Thu Jun 23 2011 - 12:26:20 CDT)
- Re: VMD not working on MacOS X 10.6.7 John Stone (Thu Jun 23 2011 - 12:37:18 CDT)
volume of hydration shells divya nayar (Thu Jun 23 2011 - 06:12:35 CDT)
- Re: volume of hydration shells Boris Steipe (Thu Jun 23 2011 - 09:00:10 CDT)
hydration shell volume divya nayar (Thu Jun 23 2011 - 01:43:55 CDT)
finding water around protein divya nayar (Wed Jun 22 2011 - 23:55:35 CDT)
can not compile VMD plugin hongphuc nguyen (Wed Jun 22 2011 - 22:15:55 CDT)
- Re: can not compile VMD plugin hongphuc nguyen (Wed Jun 22 2011 - 22:48:34 CDT)
Dividing the water in groups like WAT1; WAT2; WAT3 PAUL NEWMAN (Wed Jun 22 2011 - 20:41:32 CDT)
APBS installation problem Sangita Kachhap (Wed Jun 22 2011 - 12:44:34 CDT)
APBS installation problem Sangita Kachhap (Wed Jun 22 2011 - 11:23:19 CDT)
- Re: APBS installation problem Axel Kohlmeyer (Wed Jun 22 2011 - 13:17:30 CDT)
Rotating a non-coordinate file Reza Salari (Wed Jun 22 2011 - 04:45:53 CDT)
- Re: Rotating a non-coordinate file Axel Kohlmeyer (Wed Jun 22 2011 - 05:56:04 CDT)
  - Re: Rotating a non-coordinate file Reza Salari (Wed Jun 22 2011 - 12:50:10 CDT)
Reading PSF with extended atom types Gianluca Interlandi (Wed Jun 22 2011 - 00:05:18 CDT)
problem in launching vmd kaustubh joshi (Tue Jun 21 2011 - 07:21:17 CDT)
- Re: problem in launching vmd John Stone (Tue Jun 21 2011 - 08:57:50 CDT)
can not import Hessian/charge from single point calculation hongphuc nguyen (Tue Jun 21 2011 - 03:14:15 CDT)
- RE: can not import Hessian/charge from single point calculation Bennion, Brian (Tue Jun 21 2011 - 12:04:46 CDT)
  - RE: can not import Hessian/charge from single point calculation Bennion, Brian (Wed Jun 22 2011 - 12:55:36 CDT)
mutate amino acid hamze rahimi (Sun Jun 19 2011 - 02:25:05 CDT)
how to get pqr format file with catdcd jnsong (Sat Jun 18 2011 - 01:25:15 CDT)
- Re: how to get pqr format file with catdcd John Stone (Mon Jun 20 2011 - 15:34:01 CDT)
  - Re: how to get pqr format file with catdcd jnsong (Mon Jun 20 2011 - 22:00:33 CDT)
    - Re: how to get pqr format file with catdcd John Stone (Tue Jun 21 2011 - 09:10:16 CDT)
    - Re: how to get pqr format file with catdcd jnsong (Wed Jun 22 2011 - 02:22:59 CDT)
Re: Fwd: "cuda error cudastreamcreate", Francesco Pietra (Fri Jun 17 2011 - 00:50:05 CDT)
- Re: Re: Fwd: "cuda error cudastreamcreate", John Stone (Fri Jun 17 2011 - 01:22:50 CDT)
  - Re: Re: Fwd: "cuda error cudastreamcreate", Francesco Pietra (Fri Jun 17 2011 - 02:36:49 CDT)
invisible files in windows Michael Zimmermann (Wed Jun 15 2011 - 16:57:39 CDT)
- Re: invisible files in windows Axel Kohlmeyer (Wed Jun 15 2011 - 17:37:36 CDT)
- Re: invisible files in windows Denny Bromley (Wed Jun 15 2011 - 20:41:57 CDT)
  - Re: invisible files in windows Ajasja LjubetiÄ (Thu Jun 16 2011 - 02:27:34 CDT)
    - Question about "orient" script Masaki UNNO (Thu Jun 16 2011 - 04:33:51 CDT)
    - Re: Question about "orient" script John Stone (Tue Jun 21 2011 - 13:15:44 CDT)
rdf for specific group of atoms Rupashree Shyama Ray (Wed Jun 15 2011 - 08:29:29 CDT)
- Re: rdf for specific group of atoms Axel Kohlmeyer (Wed Jun 15 2011 - 09:14:46 CDT)
water is forming bonds between hydrogens PAUL NEWMAN (Wed Jun 15 2011 - 00:25:46 CDT)
- Re: water is forming bonds between hydrogens Magnus Andersson (Wed Jun 15 2011 - 10:01:55 CDT)
- Re: water is forming bonds between hydrogens Axel Kohlmeyer (Wed Jun 15 2011 - 10:38:26 CDT)
water is forming bonds between oxigens PAUL NEWMAN (Wed Jun 15 2011 - 00:01:37 CDT)
color sidechains differently Magnus Andersson (Tue Jun 14 2011 - 21:30:10 CDT)
- Re: color sidechains differently Axel Kohlmeyer (Tue Jun 14 2011 - 22:21:07 CDT)
Invitation to connect on LinkedIn Iman Salehinia via LinkedIn (Tue Jun 14 2011 - 18:31:13 CDT)
Vmd vs QUANTA Sajad Ahrari (Tue Jun 14 2011 - 01:46:38 CDT)
Vmd vs QUANTA Sajad Ahrari (Mon Jun 13 2011 - 23:59:04 CDT)
- Re: Vmd vs QUANTA Axel Kohlmeyer (Tue Jun 14 2011 - 04:55:11 CDT)
VolMap Tool Question Joe Janicki (Mon Jun 13 2011 - 13:36:18 CDT)
- Re: VolMap Tool Question Axel Kohlmeyer (Mon Jun 13 2011 - 14:31:47 CDT)
showperiodic - not self? Jesper Sørensen (Mon Jun 13 2011 - 12:14:44 CDT)
- Re: showperiodic - not self? Axel Kohlmeyer (Mon Jun 13 2011 - 12:51:04 CDT)
cropping the missing residues from other PDB file Joyce Tan (Mon Jun 13 2011 - 09:37:14 CDT)
- Re: cropping the missing residues from other PDB file sarah k (Mon Jun 13 2011 - 10:19:05 CDT)
Using VMD/NAMD to construct Cyclodextrins using Chamm topologies Sam Wallace (Sun Jun 12 2011 - 21:34:17 CDT)
simulation in Nitrogen box sarah k (Sat Jun 11 2011 - 09:12:39 CDT)
- Re: simulation in Nitrogen box Axel Kohlmeyer (Sat Jun 11 2011 - 10:21:45 CDT)
  - Re: simulation in Nitrogen box sarah k (Sun Jun 12 2011 - 05:57:46 CDT)
    - Re: simulation in Nitrogen box PaweÅ‚ KÄ™dzierski (Sun Jun 12 2011 - 08:59:40 CDT)
create surface of overlapping VdW volume Dow Hurst (Fri Jun 10 2011 - 18:17:50 CDT)
- Re: create surface of overlapping VdW volume Dow Hurst (Sat Jun 11 2011 - 11:08:43 CDT)
Selecting multiple ranges Seibold, Stephen (Fri Jun 10 2011 - 09:28:48 CDT)
- Re: Selecting multiple ranges John Stone (Fri Jun 10 2011 - 09:43:48 CDT)
  - RE: Selecting multiple ranges Seibold, Stephen (Fri Jun 10 2011 - 10:05:21 CDT)
- Re: Selecting multiple ranges Salvatore Mario Cosseddu (Fri Jun 10 2011 - 11:20:21 CDT)
Problem using rotate command in a script ...(2) Alberto Sergio Garay (Fri Jun 10 2011 - 07:10:05 CDT)
Problem using rotate command in a script ...(2) Alberto Sergio Garay (Thu Jun 09 2011 - 13:11:01 CDT)
- Re: Problem using rotate command in a script ...(2) John Stone (Fri Jun 10 2011 - 09:40:45 CDT)
Problem using rotate command in a script .... Alberto Sergio Garay (Thu Jun 09 2011 - 09:36:33 CDT)
- Re: Problem using rotate command in a script .... John Stone (Thu Jun 09 2011 - 10:53:17 CDT)
Adding missing residues Joyce Tan (Thu Jun 09 2011 - 01:50:05 CDT)
Tracing distances among atoms in a MD simulation DCM CA (Wed Jun 08 2011 - 20:57:17 CDT)
- Re: Tracing distances among atoms in a MD simulation Jérôme Hénin (Thu Jun 09 2011 - 02:25:23 CDT)
parameterization tool Bennion, Brian (Wed Jun 08 2011 - 16:14:31 CDT)
- Add solvation box tool Dong Luo (Thu Jun 09 2011 - 09:46:33 CDT)
- Re: parameterization tool sajad falsafi (Thu Jun 09 2011 - 11:40:57 CDT)
  - RE: parameterization tool Bennion, Brian (Thu Jun 09 2011 - 11:52:29 CDT)
xy diagonal Magnus Andersson (Wed Jun 08 2011 - 12:29:30 CDT)
- Re: xy diagonal Davide Provasi (Wed Jun 08 2011 - 13:23:40 CDT)
Problem using rotate in a script .... Alberto Sergio Garay (Wed Jun 08 2011 - 10:33:49 CDT)
VMD on Intel core i3 + Ubuntu masci002_at_umn.edu (Tue Jun 07 2011 - 19:03:26 CDT)
- Re: VMD on Intel core i3 + Ubuntu John Stone (Tue Jun 07 2011 - 19:31:07 CDT)
  - Re: VMD on Intel core i3 + Ubuntu John Stone (Tue Jun 07 2011 - 22:48:47 CDT)
    - Re: VMD on Intel core i3 + Ubuntu masci002_at_umn.edu (Wed Jun 08 2011 - 18:34:55 CDT)
Problem with Starting vmd after Debian System Upgrade Angelo Rossi (Tue Jun 07 2011 - 11:26:06 CDT)
- Re: Problem with Starting vmd after Debian System Upgrade Axel Kohlmeyer (Tue Jun 07 2011 - 12:19:42 CDT)
  - Re: Problem with Starting vmd after Debian System Upgrade Angelo R. Rossi (Wed Jun 08 2011 - 07:27:05 CDT)
VMD moviemaker KK Sahu (Tue Jun 07 2011 - 05:22:34 CDT)
saving dcd with less frames Joyce Tan (Tue Jun 07 2011 - 04:39:35 CDT)
- Re: saving dcd with less frames Axel Kohlmeyer (Tue Jun 07 2011 - 05:08:17 CDT)
- Re: saving dcd with less frames Bjoern Olausson (Tue Jun 07 2011 - 05:27:58 CDT)
VMD does not exit after running closest.tcl script in combination with bigdcd maria goranovic (Tue Jun 07 2011 - 04:01:34 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd Ajasja LjubetiÄ (Tue Jun 07 2011 - 09:02:10 CDT)
  - Re: VMD does not exit after running closest.tcl script in combination with bigdcd Ajasja LjubetiÄ (Tue Jun 07 2011 - 09:07:08 CDT)
Dipole Moment Monitoring Sally Fisher (Mon Jun 06 2011 - 21:10:57 CDT)
- Re: Dipole Moment Monitoring Axel Kohlmeyer (Mon Jun 06 2011 - 21:45:08 CDT)
topotools {.top} for Gromacs {.tpr} generation Lalit (Mon Jun 06 2011 - 18:19:21 CDT)
- Re: topotools {.top} for Gromacs {.tpr} generation Axel Kohlmeyer (Mon Jun 06 2011 - 18:26:46 CDT)
- Re: topotools {.top} for Gromacs {.tpr} generation Axel Kohlmeyer (Mon Jun 06 2011 - 19:14:57 CDT)
  - Re: topotools {.top} for Gromacs {.tpr} generation Lalit (Tue Jun 07 2011 - 15:12:29 CDT)
    - Re: topotools {.top} for Gromacs {.tpr} generation Axel Kohlmeyer (Tue Jun 07 2011 - 15:24:30 CDT)
Superimposition problem Qmer_AN?= (Mon Jun 06 2011 - 12:30:04 CDT)
Tachyon post-render commands under Win-XP Daniel Holloway (Mon Jun 06 2011 - 08:50:17 CDT)
- Re: Tachyon post-render commands under Win-XP Axel Kohlmeyer (Mon Jun 06 2011 - 09:25:14 CDT)
- Re: Tachyon post-render commands under Win-XP Ajasja LjubetiÄ (Mon Jun 06 2011 - 09:32:09 CDT)
  - Re: Tachyon post-render commands under Win-XP Daniel Holloway (Tue Jun 07 2011 - 05:07:42 CDT)
Fw: how do I show contacts with XXX angstroms between a protein and a ligand? sajad falsafi (Sun Jun 05 2011 - 08:06:56 CDT)
how do I show contacts with XXX angstroms between a protein and a ligand? Dennis N Bromley (Fri Jun 03 2011 - 22:27:58 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? sajad falsafi (Sat Jun 04 2011 - 08:26:14 CDT)
  - Re: how do I show contacts with XXX angstroms between a protein and a ligand? Dennis N Bromley (Sat Jun 04 2011 - 12:14:40 CDT)
  - Re: how do I show contacts with XXX angstroms between a protein and a ligand? sajad falsafi (Tue Jun 07 2011 - 04:55:18 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? Craig Knox (Mon Jun 06 2011 - 11:33:42 CDT)
questions about RBCG ½¹±ª (Fri Jun 03 2011 - 21:27:17 CDT)
submit VMD_SS script sajad falsafi (Fri Jun 03 2011 - 11:35:20 CDT)
Invitation to connect on LinkedIn Lucas FernÃ¡ndez Seivane via LinkedIn (Fri Jun 03 2011 - 02:30:33 CDT)
submit VMD_SS script sajad falsafi (Fri Jun 03 2011 - 00:59:22 CDT)
installation trouble Michael Zimmermann (Thu Jun 02 2011 - 23:00:40 CDT)
- Re: installation trouble John Stone (Thu Jun 02 2011 - 23:11:53 CDT)
  - Re: installation trouble Michael Zimmermann (Fri Jun 03 2011 - 09:38:46 CDT)
For loops decelerate Benjamin Hall (Thu Jun 02 2011 - 03:39:02 CDT)
- Re: For loops decelerate Axel Kohlmeyer (Thu Jun 02 2011 - 06:27:04 CDT)
  - Re: For loops decelerate Benjamin Hall (Fri Jun 03 2011 - 11:23:25 CDT)
  - Re: For loops decelerate John Stone (Mon Jun 06 2011 - 13:47:41 CDT)
    - Re: For loops decelerate Benjamin Hall (Mon Jun 06 2011 - 16:28:31 CDT)
    - Re: For loops decelerate Axel Kohlmeyer (Mon Jun 06 2011 - 16:36:31 CDT)
charge information for the PMEpot plugin Raul Araya (Wed Jun 01 2011 - 11:48:07 CDT)
- Re: charge information for the PMEpot plugin Axel Kohlmeyer (Wed Jun 01 2011 - 12:25:04 CDT)
.gro format to .pqr format Mona Habibi (Wed Jun 01 2011 - 10:17:20 CDT)
- Re: .gro format to .pqr format Axel Kohlmeyer (Wed Jun 01 2011 - 10:52:24 CDT)
Compiling plugins without netcdf Guido Polles (Wed Jun 01 2011 - 10:09:24 CDT)
- Re: Compiling plugins without netcdf John Stone (Wed Jun 01 2011 - 10:15:46 CDT)
  - Re: Compiling plugins without netcdf Guido Polles (Wed Jun 01 2011 - 12:59:50 CDT)
Re: [lammps-users] using topotools to view lammps output Axel Kohlmeyer (Wed Jun 01 2011 - 08:48:04 CDT)
Invitation to connect on LinkedIn masoud Kazemi via LinkedIn (Wed Jun 01 2011 - 07:55:20 CDT)
problem with bigdcd rmsd calculaton output Bian Li (Mon May 30 2011 - 22:22:48 CDT)
- Re: problem with bigdcd rmsd calculaton output Axel Kohlmeyer (Mon May 30 2011 - 23:16:30 CDT)
Issue with NAMD/VMD tutorial Matthew Bick (Mon May 30 2011 - 12:32:29 CDT)
- Re: Issue with NAMD/VMD tutorial Axel Kohlmeyer (Mon May 30 2011 - 13:15:58 CDT)
  - Re: Issue with NAMD/VMD tutorial Matthew Bick (Mon May 30 2011 - 14:03:30 CDT)
    - Re: Issue with NAMD/VMD tutorial Axel Kohlmeyer (Mon May 30 2011 - 14:49:19 CDT)
Save Coordinates for Multiple Loads Qmer_AN?= (Sun May 29 2011 - 09:14:25 CDT)
- Re: Save Coordinates for Multiple Loads Axel Kohlmeyer (Sun May 29 2011 - 10:17:22 CDT)
- Re: Save Coordinates for Multiple Loads Vlad Cojocaru (Sun May 29 2011 - 14:53:11 CDT)
  - Re: Save Coordinates for Multiple Loads Vlad Cojocaru (Mon May 30 2011 - 00:33:50 CDT)
Protein cavities BRAULIO VALDEBENITO MATURANA (Sat May 28 2011 - 23:26:02 CDT)
- Re: Protein cavities Axel Kohlmeyer (Sun May 29 2011 - 03:17:08 CDT)
  - Re: Protein cavities Francesco Oteri (Sun May 29 2011 - 07:09:59 CDT)
  - Re: Protein cavities BRAULIO VALDEBENITO MATURANA (Sun May 29 2011 - 16:42:33 CDT)
    - Re: Protein cavities Axel Kohlmeyer (Sun May 29 2011 - 17:31:44 CDT)
use variable in atomselect dhacademic (Fri May 27 2011 - 14:55:26 CDT)
- Re: use variable in atomselect Ajasja LjubetiÄ (Fri May 27 2011 - 16:28:34 CDT)
  - Re: use variable in atomselect Axel Kohlmeyer (Fri May 27 2011 - 17:05:16 CDT)
    - Re: use variable in atomselect Ajasja LjubetiÄ (Sat May 28 2011 - 02:24:03 CDT)
creating psf file seda demirci (Fri May 27 2011 - 10:13:05 CDT)
- Re: creating psf file John Stone (Fri May 27 2011 - 14:37:59 CDT)
Protein cavities BRAULIO FAVIÁN VALDEBENITO MATURANA (Thu May 26 2011 - 12:41:48 CDT)
- Re: Protein cavities John Stone (Fri May 27 2011 - 14:47:03 CDT)
  - RE: Protein cavities Irene Newhouse (Fri May 27 2011 - 16:52:50 CDT)
tips for an annoying aliasing task? Edward Lyman (Thu May 26 2011 - 10:33:27 CDT)
- RE: tips for an annoying aliasing task? Cosseddu, Salvatore (Thu May 26 2011 - 15:51:49 CDT)
  - Re: tips for an annoying aliasing task? Salvatore Mario Cosseddu (Fri May 27 2011 - 04:20:55 CDT)
measure fit - wrong alignment Eduardo Oliveira (Thu May 26 2011 - 05:56:40 CDT)
- Re: measure fit - wrong alignment Jérôme Hénin (Thu May 26 2011 - 07:43:12 CDT)
  - Re: measure fit - wrong alignment Axel Kohlmeyer (Thu May 26 2011 - 13:17:43 CDT)
surface of an atomic property Anna Amat (Wed May 25 2011 - 11:44:38 CDT)
- Re: surface of an atomic property Axel Kohlmeyer (Wed May 25 2011 - 14:01:44 CDT)
3Dconnexion SpaceNavigator (OS X) Hans Martin Senn (Wed May 25 2011 - 11:37:51 CDT)
- Re: 3Dconnexion SpaceNavigator (OS X) John Stone (Fri May 27 2011 - 14:54:34 CDT)
surface from a generic atomic property Anna Amat (Wed May 25 2011 - 11:15:11 CDT)
pbctools plugin & protein-bound ligand Irene Newhouse (Tue May 24 2011 - 14:36:12 CDT)
- Re: pbctools plugin & protein-bound ligand Olaf Lenz (Wed May 25 2011 - 02:01:11 CDT)
  - RE: pbctools plugin & protein-bound ligand Irene Newhouse (Wed May 25 2011 - 14:59:59 CDT)
trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 maria goranovic (Tue May 24 2011 - 08:39:08 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 Ajasja LjubetiÄ (Tue May 24 2011 - 09:48:15 CDT)
  - Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 maria goranovic (Tue May 24 2011 - 11:19:26 CDT)
size for render Kevin Knoops (Tue May 24 2011 - 06:01:15 CDT)
- Re: size for render Bjoern Olausson (Tue May 24 2011 - 06:34:49 CDT)
  - RE: size for render Jesper Sørensen (Tue May 24 2011 - 07:24:03 CDT)
- Re: size for render Axel Kohlmeyer (Tue May 24 2011 - 06:47:25 CDT)
vmd calculating wrong number of frames in xtc file using molinfo numframes ? maria goranovic (Mon May 23 2011 - 10:13:08 CDT)
- Re: vmd calculating wrong number of frames in xtc file using molinfo numframes ? Axel Kohlmeyer (Mon May 23 2011 - 11:11:52 CDT)
  - Re: vmd calculating wrong number of frames in xtc file using molinfo numframes ? maria goranovic (Tue May 24 2011 - 04:45:55 CDT)
- APBS plugin, created file pot-PE0.dx Ricardo Oliveira dos Santos Soares (Mon May 23 2011 - 14:55:00 CDT)
  - Re: APBS plugin, created file pot-PE0.dx John Stone (Mon May 23 2011 - 15:12:51 CDT)
    - Re: APBS plugin, created file pot-PE0.dx Ricardo Oliveira dos Santos Soares (Tue May 24 2011 - 13:39:56 CDT)
    - Re: APBS plugin, created file pot-PE0.dx John Stone (Fri May 27 2011 - 14:43:04 CDT)
problem in overlapping atoms Parul tew (Sun May 22 2011 - 05:01:31 CDT)
- problem in overlapping atoms Parul tew (Sun May 22 2011 - 05:02:18 CDT)
  - Re: problem in overlapping atoms Ajasja LjubetiÄ (Sun May 22 2011 - 05:52:14 CDT)
Non-cuda version of VMD on Linux? Ismail, Mohd F. (Sat May 21 2011 - 22:02:01 CDT)
- Re: Non-cuda version of VMD on Linux? John Stone (Sat May 21 2011 - 22:22:42 CDT)
  - RE: Non-cuda version of VMD on Linux? Ismail, Mohd F. (Sun May 22 2011 - 02:22:23 CDT)
    - Re: Non-cuda version of VMD on Linux? Axel Kohlmeyer (Sun May 22 2011 - 05:17:34 CDT)
color atom by stress Shaorui Yang (Sat May 21 2011 - 15:23:48 CDT)
- Re: color atom by stress Axel Kohlmeyer (Sat May 21 2011 - 16:25:18 CDT)
  - Re: color atom by stress Shaorui Yang (Sat May 21 2011 - 21:10:17 CDT)
    - Re: color atom by stress John Stone (Sat May 21 2011 - 22:55:46 CDT)
move volume file Lane Votapka (Fri May 20 2011 - 17:11:49 CDT)
- Re: move volume file Lane Votapka (Wed May 25 2011 - 13:17:26 CDT)
  - Mean value of el. potential ? Marek Maly (Wed May 25 2011 - 17:59:42 CDT)
antechamber for Windows Keith Battle (Fri May 20 2011 - 12:48:21 CDT)
- Re: antechamber for Windows John Stone (Fri May 27 2011 - 15:16:20 CDT)
Displaying protein AND ligand from an amber trajectory George Tzotzos (Fri May 20 2011 - 08:31:17 CDT)
- Re: Displaying protein AND ligand from an amber trajectory Axel Kohlmeyer (Fri May 20 2011 - 09:07:14 CDT)
- Re: Displaying protein AND ligand from an amber trajectory Ajasja LjubetiÄ (Fri May 20 2011 - 09:11:24 CDT)
  - Re: Displaying protein AND ligand from an amber trajectory George Tzotzos (Fri May 20 2011 - 09:16:14 CDT)
pbc unwrap not complete Nicola Giacche' (Fri May 20 2011 - 08:05:40 CDT)
- Re: pbc unwrap not complete Olaf Lenz (Mon May 23 2011 - 04:57:38 CDT)
  - Re: pbc unwrap not complete Nicola Giacche' (Tue May 24 2011 - 09:42:19 CDT)
Problems with APBS calculations Ramon Garduno-Juarez (Thu May 19 2011 - 20:51:53 CDT)
- Re: Problems with APBS calculations Chris Harrison (Thu May 19 2011 - 21:37:36 CDT)
  - Re: Problems with APBS calculations Ramon Garduno-Juarez (Fri May 20 2011 - 12:18:48 CDT)
Aligning two proteins of varying atom numbers ban arn (Thu May 19 2011 - 10:43:10 CDT)
- Re: Aligning two proteins of varying atom numbers Axel Kohlmeyer (Thu May 19 2011 - 11:17:37 CDT)
- Re: Aligning two proteins of varying atom numbers Joseph Bylund (Thu May 19 2011 - 11:31:52 CDT)
  - Re: Aligning two proteins of varying atom numbers ban arn (Thu May 19 2011 - 11:37:40 CDT)
indentified particular water molecule Sangita Kachhap (Thu May 19 2011 - 07:24:03 CDT)
aligning multiple trajectories to a single .pdb file andrew ritchie (Wed May 18 2011 - 13:30:54 CDT)
problem merging two identical proteins juan jesus sanchez sanchez (Wed May 18 2011 - 12:32:09 CDT)
reading .vel files and .veldcd files Mao Mao (Wed May 18 2011 - 10:50:46 CDT)
run and close vmd with bash script? Jorgen Simonsen (Wed May 18 2011 - 07:04:26 CDT)
- Re: run and close vmd with bash script? Axel Kohlmeyer (Wed May 18 2011 - 08:23:49 CDT)
  - Re: run and close vmd with bash script? Salvatore Mario Cosseddu (Wed May 18 2011 - 10:10:22 CDT)
    - Re: run and close vmd with bash script? Axel Kohlmeyer (Wed May 18 2011 - 10:42:53 CDT)
    - Re: run and close vmd with bash script? Salvatore Mario Cosseddu (Wed May 18 2011 - 11:21:35 CDT)
hi to all kanchi subbarao rao (Tue May 17 2011 - 11:34:04 CDT)
- Re: hi to all Ajasja LjubetiÄ (Tue May 17 2011 - 12:27:50 CDT)
- Re: hi to all Salvatore Mario Cosseddu (Tue May 17 2011 - 15:06:51 CDT)
- Re: hi to all Bjoern Olausson (Thu May 19 2011 - 04:15:26 CDT)
Tkcon on at startup Qmer_AN?= (Tue May 17 2011 - 11:00:19 CDT)
- Re: Tkcon on at startup John Stone (Tue May 17 2011 - 11:07:55 CDT)
Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? jnsong (Tue May 17 2011 - 08:54:54 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? Axel Kohlmeyer (Tue May 17 2011 - 09:44:26 CDT)
  - Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? jnsong (Tue May 17 2011 - 21:42:42 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? John Stone (Tue May 17 2011 - 10:09:55 CDT)
  - Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? jnsong (Tue May 17 2011 - 21:32:52 CDT)
convert prmtop to psf Jorgen Simonsen (Tue May 17 2011 - 04:17:33 CDT)
- Re: convert prmtop to psf Axel Kohlmeyer (Tue May 17 2011 - 05:56:15 CDT)
Re: error in movie generator Esam Tolba (Tue May 17 2011 - 03:57:06 CDT)
- Re: error in movie generator John Stone (Tue May 17 2011 - 10:11:16 CDT)
  - RE: error in movie generator Phelan Jr, Frederick R. Dr. (Thu Jun 02 2011 - 08:44:38 CDT)
velocity profile Mao Mao (Mon May 16 2011 - 10:45:55 CDT)
error in movie generator Esam Tolba (Mon May 16 2011 - 10:01:27 CDT)
sharing atoms beyza bilgic (Mon May 16 2011 - 08:52:33 CDT)
- Re: sharing atoms Axel Kohlmeyer (Mon May 16 2011 - 09:43:13 CDT)
Secondary Structure Disappears after Molecule Move Qmer_AN?= (Mon May 16 2011 - 05:45:21 CDT)
- Re: Secondary Structure Disappears after Molecule Move John Stone (Mon May 16 2011 - 10:30:25 CDT)
pbc wrap cnu gromacs (Fri May 13 2011 - 13:50:30 CDT)
- Re: pbc wrap Olaf Lenz (Mon May 16 2011 - 03:14:25 CDT)
PhD position in Computational Structural Biology at MPI Muenster Vlad Cojocaru (Fri May 13 2011 - 04:49:14 CDT)
- AW: PhD position in Computational Structural Biology at MPI Muenster Prskalo, Alen-Pilip (Fri May 13 2011 - 06:26:56 CDT)
  - Re: PhD position in Computational Structural Biology at MPI Muenster Ajasja LjubetiÄ (Fri May 13 2011 - 07:04:26 CDT)
  - Re: PhD position in Computational Structural Biology at MPI Muenster Wendy González (Fri May 13 2011 - 07:54:29 CDT)
Compiling plugins without netcdf support returns an error. Cosseddu, Salvatore (Thu May 12 2011 - 13:28:48 CDT)
- Compiling plugins without netcdf support returns an error. Cosseddu, Salvatore (Thu May 12 2011 - 15:12:32 CDT)
  - Re: Compiling plugins without netcdf support returns an error. Axel Kohlmeyer (Thu May 12 2011 - 15:56:52 CDT)
  - Re: Compiling plugins without netcdf support returns an error. John Stone (Thu May 12 2011 - 15:58:12 CDT)
Large positive non-integer charge Grant Schauer (Thu May 12 2011 - 13:16:46 CDT)
- Re: Large positive non-integer charge Axel Kohlmeyer (Thu May 12 2011 - 13:56:44 CDT)
  - Re: Large positive non-integer charge John Stone (Thu May 12 2011 - 14:00:30 CDT)
Atom ID/Color change with timesteps Adkins, Laura R (Wed May 11 2011 - 19:17:05 CDT)
- Re: Atom ID/Color change with timesteps Axel Kohlmeyer (Wed May 11 2011 - 19:58:38 CDT)
  - Re: Atom ID/Color change with timesteps Axel Kohlmeyer (Thu May 12 2011 - 13:54:23 CDT)
    - RE: Atom ID/Color change with timesteps Adkins, Laura R (Thu May 12 2011 - 16:04:26 CDT)
    - RE: Atom ID/Color change with timesteps Axel Kohlmeyer (Thu May 12 2011 - 16:21:21 CDT)
May 18th, Late abstract submission deadline for 3Dsig Structural Bioinformatics & Computational Biophysics 3D SIG (Wed May 11 2011 - 16:57:22 CDT)
command for volume slice? Jennifer Williams (Wed May 11 2011 - 08:16:25 CDT)
- Re: command for volume slice? Olaf Lenz (Wed May 11 2011 - 09:11:32 CDT)
- Re: command for volume slice? John Stone (Wed May 11 2011 - 11:02:12 CDT)
changing the color of Sn atom beyza bilgic (Wed May 11 2011 - 06:12:50 CDT)
- RE: changing the color of Sn atom Goldsmith, Jacob (Wed May 11 2011 - 08:45:50 CDT)
- Re: changing the color of Sn atom Axel Kohlmeyer (Wed May 11 2011 - 08:37:46 CDT)
- RE: changing the color of Sn atom Mark Cunningham (Wed May 11 2011 - 09:34:41 CDT)
changing the color of Sn atom Beyza Bilgiç (Wed May 11 2011 - 05:24:31 CDT)
to change color of Sn atom Beyza Bilgiç (Wed May 11 2011 - 04:33:51 CDT)
to change color of Sn atom Beyza Bilgiç (Wed May 11 2011 - 04:28:07 CDT)
save coordinate POSCAR Haijun (Tue May 10 2011 - 12:56:09 CDT)
- Re: save coordinate POSCAR Axel Kohlmeyer (Tue May 10 2011 - 13:30:03 CDT)
  - Re: save coordinate POSCAR Axel Kohlmeyer (Tue May 10 2011 - 13:50:39 CDT)
    - Re: save coordinate POSCAR Haijun (Tue May 10 2011 - 13:58:07 CDT)
apbs with vmd, no output Asmaa Elsheshiny (Tue May 10 2011 - 12:14:08 CDT)
- Re: apbs with vmd, no output John Stone (Tue May 10 2011 - 15:09:39 CDT)
  - Re: apbs with vmd, no output John Stone (Thu Jun 02 2011 - 09:44:03 CDT)
bad window parameter -- SOLVED Robert Wohlhueter (Tue May 10 2011 - 10:16:48 CDT)
Calculating RMSD on two sets of points Carolyn Phillips (Tue May 10 2011 - 09:57:25 CDT)
- Re: Calculating RMSD on two sets of points Carolyn Phillips (Tue May 10 2011 - 10:13:56 CDT)
  - Re: Re: Calculating RMSD on two sets of points Axel Kohlmeyer (Tue May 10 2011 - 10:43:51 CDT)
bad window parameter Robert Wohlhueter (Tue May 10 2011 - 09:27:34 CDT)
- Re: bad window parameter Axel Kohlmeyer (Tue May 10 2011 - 10:39:44 CDT)
trajectory of water within 5 A of protein maria goranovic (Tue May 10 2011 - 02:27:58 CDT)
- Re: trajectory of water within 5 A of protein Jernej Zidar (Tue May 10 2011 - 03:09:38 CDT)
  - RE: trajectory of water within 5 A of protein Aaron Oakley (Tue May 10 2011 - 05:47:47 CDT)
    - Re: trajectory of water within 5 A of protein Neelanjana Sengupta (Tue May 10 2011 - 07:03:55 CDT)
- Re: trajectory of water within 5 A of protein Eduard Schreiner (Tue May 10 2011 - 09:51:13 CDT)
  - Re: trajectory of water within 5 A of protein Emmanuel Baribefe Naziga (Tue May 10 2011 - 10:26:52 CDT)
    - Re: trajectory of water within 5 A of protein maria goranovic (Thu May 12 2011 - 02:31:16 CDT)
SASA calculation Aditya Padhi (Mon May 09 2011 - 05:26:36 CDT)
plotting spin density Olesya Haze (Thu May 05 2011 - 18:17:50 CDT)
- Re: plotting spin density Axel Kohlmeyer (Thu May 05 2011 - 22:45:20 CDT)
CAVE and Flystick control David Joiner (Wed May 04 2011 - 14:52:34 CDT)
- Re: CAVE and Flystick control John Stone (Wed May 04 2011 - 15:15:20 CDT)
  - Re: CAVE and Flystick control John Stone (Fri May 27 2011 - 14:41:03 CDT)
Fwd: molefacture "force tetrahedral" failure: SOLVED with chimera-vmd Francesco Pietra (Wed May 04 2011 - 02:45:21 CDT)
molefacture "force tetrahedral" failure Francesco Pietra (Wed May 04 2011 - 01:33:01 CDT)
- Re: molefacture "force tetrahedral" failure Peter Freddolino (Wed May 04 2011 - 19:31:24 CDT)
Visualization of coarse grained molecule with coarse_grain.tcl Paolo Conflitti (Tue May 03 2011 - 10:10:41 CDT)
RE: SASA calculation using periodic images? Jesper Sørensen (Tue May 03 2011 - 08:38:29 CDT)
- Re: SASA calculation using periodic images? Edward Lyman (Tue May 03 2011 - 09:34:57 CDT)
  - RE: SASA calculation using periodic images? Jesper Sørensen (Thu May 05 2011 - 07:27:34 CDT)
SASA calculation using periodic images? Jesper SÃ¸rensen (Tue May 03 2011 - 06:14:31 CDT)
- RE: SASA calculation using periodic images? Jesper SÃ¸rensen (Tue May 03 2011 - 06:50:35 CDT)
- Re: SASA calculation using periodic images? Axel Kohlmeyer (Tue May 03 2011 - 07:10:56 CDT)
Cartoons and secondary structure prediction Francisco José Taberner Sanchis (Tue May 03 2011 - 05:51:24 CDT)
- Re: Cartoons and secondary structure prediction Axel Kohlmeyer (Tue May 03 2011 - 07:05:39 CDT)
Problem with cartoon and secondary structure Francisco José Taberner Sanchis (Tue May 03 2011 - 05:13:18 CDT)
Fwd: Problem with cartoon and secondary structure Francisco José Taberner Sanchis (Tue May 03 2011 - 03:26:18 CDT)
Generate psf file for cyclic peptide Tu.Le_at_csiro.au (Mon May 02 2011 - 22:33:01 CDT)
desmond trajectory plugin Davide Provasi (Mon May 02 2011 - 10:40:30 CDT)
- Re: desmond trajectory plugin John Stone (Wed May 04 2011 - 22:36:41 CDT)
VMD Movie Generator problem with "Image smoothing" set Bjoern Olausson (Mon May 02 2011 - 06:26:54 CDT)
VMD- Ra Measurement Saurav Goel (Sun May 01 2011 - 19:43:28 CDT)
Reconstruction of XST data from DCD data B.M.B. Vanschouwen (Sun May 01 2011 - 19:29:03 CDT)
- Re: Reconstruction of XST data from DCD data Axel Kohlmeyer (Sun May 01 2011 - 20:15:06 CDT)
X & Y co-ordinate data ban arn (Sun May 01 2011 - 11:27:39 CDT)
- Re: X & Y co-ordinate data Axel Kohlmeyer (Sun May 01 2011 - 12:12:09 CDT)
question regarding H-bond calculation juzer stationwala (Sun May 01 2011 - 10:31:55 CDT)
- RE: question regarding H-bond calculation JC Gumbart (Sun May 01 2011 - 11:29:18 CDT)
- Re: question regarding H-bond calculation Axel Kohlmeyer (Sun May 01 2011 - 11:32:09 CDT)
Save molecule in pdb format Moutusi Manna (Sat Apr 30 2011 - 01:43:55 CDT)
- Re: Save molecule in pdb format Ajasja LjubetiÄ (Sat Apr 30 2011 - 02:29:35 CDT)
- Re: Save molecule in pdb format Peter C. Lai (Sat Apr 30 2011 - 04:34:27 CDT)
- Re: Save molecule in pdb format Axel Kohlmeyer (Sat Apr 30 2011 - 04:42:15 CDT)
  - Re: Save molecule in pdb format Peter C. Lai (Sat Apr 30 2011 - 13:50:01 CDT)
Questions about trajectory files obtained from LAMMPS Molecular dynamics with Reax Force field DreamCatcher (Fri Apr 29 2011 - 07:48:18 CDT)
- Re: Questions about trajectory files obtained from LAMMPS Molecular dynamics with Reax Force field Axel Kohlmeyer (Fri Apr 29 2011 - 08:36:01 CDT)
hello kanchi subbarao rao (Fri Apr 29 2011 - 05:58:05 CDT)
- Re: hello Eduard Schreiner (Fri Apr 29 2011 - 06:40:50 CDT)
request to know about bonds in between carbon atoms in carbon nanotubes safron saif (Fri Apr 29 2011 - 03:54:53 CDT)
coloring by gradient Rodolfo Pereyra (Thu Apr 28 2011 - 15:36:51 CDT)
HOW TO PARAMETRIZE A LIGAND shome sankar bhunia (Thu Apr 28 2011 - 04:53:12 CDT)
- Re: HOW TO PARAMETRIZE A LIGAND Markus K. Dahlgren (Thu Apr 28 2011 - 08:24:52 CDT)
  - Re: HOW TO PARAMETRIZE A LIGAND Diego Enry (Thu Apr 28 2011 - 10:20:02 CDT)
hello kanchi subbarao rao (Thu Apr 28 2011 - 01:38:36 CDT)
- Re: hello Axel Kohlmeyer (Thu Apr 28 2011 - 10:01:18 CDT)
running plugin from the command line Sara Nichols (Wed Apr 27 2011 - 14:49:33 CDT)
- Re: running plugin from the command line Axel Kohlmeyer (Wed Apr 27 2011 - 15:34:10 CDT)
  - Re: running plugin from the command line Leonardo Trabuco (Thu Apr 28 2011 - 11:12:06 CDT)
    - Re: running plugin from the command line Sara Nichols (Thu Apr 28 2011 - 11:28:43 CDT)
making a movie Moeed (Tue Apr 26 2011 - 17:58:06 CDT)
- Re: making a movie Axel Kohlmeyer (Tue Apr 26 2011 - 18:36:48 CDT)
RE: RE: New NAMD version 2011-03-03 uses Ada Zhan (Fri Apr 22 2011 - 16:04:52 CDT)
RE: New NAMD version 2011-03-03 uses Ada Zhan (Fri Apr 22 2011 - 13:35:30 CDT)
- ParseFEP_domain error Ada Zhan (Fri Apr 22 2011 - 14:50:57 CDT)
  - Re: ParseFEP_domain error John Stone (Tue Apr 26 2011 - 10:50:18 CDT)
    - RE: ParseFEP_domain error Ada Zhan (Tue Apr 26 2011 - 15:02:24 CDT)
psfgen: error processing bonds Edward Lyman (Fri Apr 22 2011 - 10:03:30 CDT)
- Re: psfgen: error processing bonds John Stone (Tue Apr 26 2011 - 10:53:05 CDT)
  - Re: psfgen: error processing bonds Jim Phillips (Tue Apr 26 2011 - 11:43:56 CDT)
  - Re: psfgen: error processing bonds Jim Phillips (Tue Apr 26 2011 - 14:21:01 CDT)
fit dcd is not converging mohan maruthi sena (Thu Apr 21 2011 - 04:10:07 CDT)
- Re: fit dcd is not converging John Stone (Thu Apr 21 2011 - 10:22:10 CDT)
  - Re: fit dcd is not converging mohan maruthi sena (Thu Apr 21 2011 - 10:48:33 CDT)
  - Re: fit dcd is not converging mohan maruthi sena (Thu Apr 21 2011 - 10:37:31 CDT)
Installation/Upgrade Error Phelan Jr., Frederick R. Dr. (Wed Apr 20 2011 - 15:57:49 CDT)
- Re: Installation/Upgrade Error John Stone (Wed Apr 20 2011 - 16:05:38 CDT)
  - RE: Installation/Upgrade Error Phelan Jr., Frederick R. Dr. (Wed Apr 20 2011 - 16:48:08 CDT)
RE: Generating Topo Bond Data from LAMMPS Data File Phelan Jr., Frederick R. Dr. (Wed Apr 20 2011 - 15:30:52 CDT)
Generating Topo Bond Data from LAMMPS Data File Phelan Jr., Frederick R. Dr. (Wed Apr 20 2011 - 10:23:29 CDT)
- Re: Generating Topo Bond Data from LAMMPS Data File Axel Kohlmeyer (Wed Apr 20 2011 - 11:17:34 CDT)
generating .xsc files using periodic information Neelanjana Sengupta (Wed Apr 20 2011 - 07:06:04 CDT)
- Re: generating .xsc files using periodic information John Stone (Tue Apr 26 2011 - 11:02:48 CDT)
  - Re: generating .xsc files using periodic information Axel Kohlmeyer (Tue Apr 26 2011 - 11:31:28 CDT)
Simple Question regarding psf generation Christian Wohlschlager (Tue Apr 19 2011 - 08:09:15 CDT)
- Re: Simple Question regarding psf generation Axel Kohlmeyer (Tue Apr 19 2011 - 09:24:57 CDT)
- Re: Simple Question regarding psf generation Gianluca Interlandi (Tue Apr 19 2011 - 11:05:21 CDT)
waters selection agustina_at_cabm.rutgers.edu (Mon Apr 18 2011 - 15:49:09 CDT)
- Re: waters selection John Stone (Mon Apr 18 2011 - 15:58:07 CDT)
- Re: waters selection Axel Kohlmeyer (Mon Apr 18 2011 - 16:20:51 CDT)
mdf molfile plugin reader atom_type bug Craig Knox (Mon Apr 18 2011 - 13:03:51 CDT)
- Re: mdf molfile plugin reader atom_type bug John Stone (Mon Apr 18 2011 - 16:14:00 CDT)
  - Re: mdf molfile plugin reader atom_type bug Craig Knox (Tue Apr 19 2011 - 13:44:42 CDT)
compiling on LINUXAMD64 problem ZHAO Lina (Sun Apr 17 2011 - 00:14:59 CDT)
- Re: compiling on LINUXAMD64 problem Axel Kohlmeyer (Sun Apr 17 2011 - 03:26:32 CDT)
  - Re: compiling on LINUXAMD64 problem ZHAO Lina (Sun Apr 17 2011 - 06:50:47 CDT)
Re: Res: webpdb load problem John Stone (Fri Apr 15 2011 - 15:51:38 CDT)
- Res: Res: webpdb load problem tiago sobreira (Mon Apr 18 2011 - 10:00:13 CDT)
3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st) 3D SIG (Fri Apr 15 2011 - 14:38:03 CDT)
Replica Exchange alamng_at_uci.edu (Fri Apr 15 2011 - 02:35:05 CDT)
- Re: Replica Exchange Olaf Lenz (Fri Apr 15 2011 - 04:18:17 CDT)
Question about SASA Sebastian Maximilian Wilhelm (Thu Apr 14 2011 - 10:31:34 CDT)
- Re: Question about SASA John Stone (Fri Apr 15 2011 - 16:03:05 CDT)
Re: using vmd to view gromacs trajectory bharat gupta (Thu Apr 14 2011 - 10:20:29 CDT)
- Re: Re: using vmd to view gromacs trajectory Axel Kohlmeyer (Thu Apr 14 2011 - 11:43:36 CDT)
Recent Geforce Cuda GPU cards(GT 440, GTX 560ti) Burgess, Don E (Wed Apr 13 2011 - 11:26:02 CDT)
- Re: Recent Geforce Cuda GPU cards(GT 440, GTX 560ti) John Stone (Wed Apr 13 2011 - 12:57:44 CDT)
X3DOM sphere resolution Joshua A. Anderson (Wed Apr 13 2011 - 07:09:37 CDT)
- Re: X3DOM sphere resolution John Stone (Wed Apr 13 2011 - 09:49:34 CDT)
  - Re: X3DOM sphere resolution John Stone (Wed Apr 13 2011 - 10:02:38 CDT)
webpdb load problem tiago sobreira (Tue Apr 12 2011 - 13:48:29 CDT)
- Re: webpdb load problem John Stone (Tue Apr 12 2011 - 14:09:33 CDT)
moving rotational center to display center Joseph Bylund (Tue Apr 12 2011 - 12:01:27 CDT)
NMWiz - a new VMD plugin Ahmet Bakan (Tue Apr 12 2011 - 11:51:36 CDT)
Tcl plugin development and debugging Anssi Nurminen (Tue Apr 12 2011 - 06:14:36 CDT)
- Re: Tcl plugin development and debugging John Stone (Tue Apr 12 2011 - 09:04:37 CDT)
  - Re: Tcl plugin development and debugging Anssi Nurminen (Tue Apr 12 2011 - 09:33:01 CDT)
trajectory generation using gaussian cube files Vamsee Voora (Mon Apr 11 2011 - 15:53:33 CDT)
- Re: trajectory generation using gaussian cube files Axel Kohlmeyer (Mon Apr 11 2011 - 16:47:48 CDT)
box vectores in .trr leila karami (Sat Apr 09 2011 - 08:44:04 CDT)
- Re: box vectores in .trr Axel Kohlmeyer (Sat Apr 09 2011 - 15:17:23 CDT)
- Re: box vectores in .trr Matt Watkins (Sat Apr 09 2011 - 17:47:06 CDT)
measuring the orientation of a small a-helix Raul Araya (Wed Apr 06 2011 - 16:23:29 CDT)
electrostatic potential maps. Raul Araya (Wed Apr 06 2011 - 13:13:58 CDT)
- Re: electrostatic potential maps. John Stone (Wed Apr 06 2011 - 16:23:13 CDT)
  - Re: electrostatic potential maps. John Stone (Wed Apr 06 2011 - 16:39:41 CDT)
  - Re: electrostatic potential maps. Guanglei Cui (Wed Jun 08 2011 - 10:56:40 CDT)
2D Contour plot ban arn (Wed Apr 06 2011 - 05:06:09 CDT)
vectors box in .trr file leila karami (Wed Apr 06 2011 - 02:49:24 CDT)
Transparent image render problem after vmd 1.9 version Bongkeun Kim (Wed Apr 06 2011 - 01:22:21 CDT)
- Re: Transparent image render problem after vmd 1.9 version John Stone (Wed Apr 06 2011 - 09:55:32 CDT)
  - Re: Transparent image render problem after vmd 1.9 version Bongkeun Kim (Wed Apr 06 2011 - 11:51:43 CDT)
recenter Mark M Huntress (Sun Apr 03 2011 - 16:34:17 CDT)
- Re: recenter Olaf Lenz (Mon Apr 04 2011 - 02:11:25 CDT)
  - RE: recenter Mark M Huntress (Mon Apr 04 2011 - 15:04:17 CDT)
    - Re: recenter Olaf Lenz (Tue Apr 05 2011 - 02:29:57 CDT)
Fwd: (my) problems using molefacture dihedral Francesco Pietra (Sun Apr 03 2011 - 09:14:44 CDT)
problem on rmsdtt masoud kazemi (Sun Apr 03 2011 - 08:52:22 CDT)
Fwd: (my) problems using molefacture dihedral Francesco Pietra (Sun Apr 03 2011 - 08:49:53 CDT)
(my) problems using molefacture dihedral Francesco Pietra (Sat Apr 02 2011 - 15:36:21 CDT)
- Re: (my) problems using molefacture dihedral Peter Freddolino (Sat Apr 02 2011 - 19:05:13 CDT)
Water Models Chathurika Abeyrathne (Sat Apr 02 2011 - 02:43:29 CDT)
- Re: Water Models Axel Kohlmeyer (Sat Apr 02 2011 - 05:34:38 CDT)
How to create bonds in VMD? Saketh Bharadwaja (Fri Apr 01 2011 - 11:07:21 CDT)
- Re: How to create bonds in VMD? Axel Kohlmeyer (Fri Apr 01 2011 - 11:59:54 CDT)
script problem Mark M Huntress (Thu Mar 31 2011 - 15:32:33 CDT)
- Re: script problem John Stone (Thu Mar 31 2011 - 15:39:01 CDT)
Rotating and saving coordinates of a copy of molecule alongwith original molecule Sujata Sovani (Thu Mar 31 2011 - 13:18:54 CDT)
- RE: Rotating and saving coordinates of a copy of molecule alongwith original molecule Cosseddu, Salvatore (Thu Mar 31 2011 - 16:59:32 CDT)
Reverse Mapping of RBCG Model Sibel Cakan (Wed Mar 30 2011 - 07:39:51 CDT)
- Re: Reverse Mapping of RBCG Model Peter Freddolino (Thu Mar 31 2011 - 11:10:35 CDT)
  - Re: Reverse Mapping of RBCG Model Vlad Cojocaru (Thu Mar 31 2011 - 12:39:17 CDT)
    - Re: Reverse Mapping of RBCG Model Peter Freddolino (Thu Mar 31 2011 - 21:46:14 CDT)
  - Re: Reverse Mapping of RBCG Model Peter Freddolino (Thu Mar 31 2011 - 21:44:25 CDT)
viewing trajectory Moeed (Tue Mar 29 2011 - 18:44:43 CDT)
- Re: viewing trajectory Axel Kohlmeyer (Tue Mar 29 2011 - 19:32:41 CDT)
how to mark regions in Multiseq Irene Newhouse (Mon Mar 28 2011 - 19:35:31 CDT)
- Re: how to mark regions in Multiseq Kirby Vandivort (Tue Mar 29 2011 - 10:13:48 CDT)
Generate a PSF file for small, simple molecules THANH NGUYEN (Mon Mar 28 2011 - 19:11:42 CDT)
- Re: Generate a PSF file for small, simple molecules John Stone (Thu Mar 31 2011 - 14:59:37 CDT)
  - Re: Generate a PSF file for small, simple molecules THANH NGUYEN (Thu Mar 31 2011 - 17:46:44 CDT)
    - Re: Generate a PSF file for small, simple molecules Ajasja LjubetiÄ (Fri Apr 01 2011 - 02:15:51 CDT)
phi-psi plot Ramya Narasimhan (Mon Mar 28 2011 - 05:29:01 CDT)
- Re: phi-psi plot Ajasja LjubetiÄ (Mon Mar 28 2011 - 08:08:32 CDT)
Selecting atoms based on 'type' with LAMMPS + PSF Taco de Wolff (Mon Mar 28 2011 - 05:02:10 CDT)
size of box Moeed (Mon Mar 28 2011 - 01:10:54 CDT)
- Re: size of box Ajasja LjubetiÄ (Mon Mar 28 2011 - 02:50:18 CDT)
Invitation to connect on LinkedIn Ma Ming via LinkedIn (Sun Mar 27 2011 - 23:26:07 CDT)
Ma Ming wants to stay in touch on LinkedIn Ma Ming via LinkedIn (Sun Mar 27 2011 - 23:21:55 CDT)
Invitation to connect on LinkedIn ram prasad via LinkedIn (Sun Mar 27 2011 - 12:38:16 CDT)
How to add iond for RBCG model maming10002000 (Sun Mar 27 2011 - 10:23:27 CDT)
How to add ions for RBCG maming10002000 (Sun Mar 27 2011 - 09:56:02 CDT)
- Re: How to add ions for RBCG John Stone (Sun Mar 27 2011 - 23:42:36 CDT)
Software to create 3D PDF documents Petridis, Loukas (Fri Mar 25 2011 - 14:03:03 CDT)
- Re: Software to create 3D PDF documents John Stone (Fri Mar 25 2011 - 22:01:53 CDT)
Save Coordinates Question ... Phelan Jr., Frederick R. Dr. (Fri Mar 25 2011 - 12:34:01 CDT)
Save Coordinates Question ... Phelan Jr., Frederick R. Dr. (Fri Mar 25 2011 - 12:22:50 CDT)
- Re: Save Coordinates Question ... Axel Kohlmeyer (Fri Mar 25 2011 - 13:04:44 CDT)
how to convert X_PLOR to CHARMM? Lisa Brown (Fri Mar 25 2011 - 11:01:26 CDT)
CHARMM parameters for Mn 2+ ion Lisa Brown (Fri Mar 25 2011 - 10:43:45 CDT)
- Re: CHARMM parameters for Mn 2+ ion Jernej Zidar (Fri Mar 25 2011 - 12:57:00 CDT)
  - Re: namd-l: Re: CHARMM parameters for Mn 2+ ion Daniel Aguayo (Fri Mar 25 2011 - 14:45:15 CDT)
NAMDenergy calculation shome sankar bhunia (Fri Mar 25 2011 - 08:28:50 CDT)
measure dipole Donovan B.T. (Thu Mar 24 2011 - 13:07:28 CDT)
- Re: measure dipole Axel Kohlmeyer (Thu Mar 24 2011 - 13:53:10 CDT)
- Re: measure dipole PaweÅ‚ KÄ™dzierski (Fri Mar 25 2011 - 02:55:54 CDT)
  - RE: measure dipole Donovan B.T. (Fri Mar 25 2011 - 08:18:38 CDT)
How can I operate on multiple .pdb structures in a list Anna Kuznetsova (Wed Mar 23 2011 - 18:49:02 CDT)
- Re: How can I operate on multiple .pdb structures in a list Axel Kohlmeyer (Wed Mar 23 2011 - 19:43:49 CDT)
Error starting second VMD Jérôme Hénin (Wed Mar 23 2011 - 09:40:20 CDT)
- Re: Error starting second VMD John Stone (Thu Mar 24 2011 - 21:02:06 CDT)
  - Re: Error starting second VMD Jérôme Hénin (Fri Mar 25 2011 - 04:40:04 CDT)
3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st). 3D SIG (Wed Mar 23 2011 - 06:15:19 CDT)
Color wheel gradient Jonathan KHAO (Tue Mar 22 2011 - 12:57:08 CDT)
- Re: Color wheel gradient John Stone (Thu Mar 24 2011 - 22:14:38 CDT)
  - Re: Color wheel gradient jonathan (Fri Mar 25 2011 - 09:03:34 CDT)
Fwd: charmmgen to autopsf Francesco Pietra (Tue Mar 22 2011 - 11:03:05 CDT)
- Re: Fwd: charmmgen to autopsf Peter Freddolino (Tue Mar 22 2011 - 11:21:42 CDT)
  - Re: Fwd: charmmgen to autopsf Francesco Pietra (Tue Mar 22 2011 - 13:38:37 CDT)
VMD 1.9 builds on MACOSXX86_64 Joshua A. Anderson (Tue Mar 22 2011 - 08:55:00 CDT)
- Re: VMD 1.9 builds on MACOSXX86_64 John Stone (Thu Mar 24 2011 - 21:56:32 CDT)
  - Re: VMD 1.9 builds on MACOSXX86_64 Joshua A. Anderson (Fri Mar 25 2011 - 12:54:56 CDT)
Fwd: Re: script for projection of c-alpha atom cordinates on xy plane PaweÅ‚ KÄ™dzierski (Tue Mar 22 2011 - 08:19:14 CDT)
How to maximize the VMD display window Yingzhe Liu (Tue Mar 22 2011 - 02:10:48 CDT)
- Re: How to maximize the VMD display window John Stone (Thu Mar 24 2011 - 21:58:27 CDT)
  - Re: How to maximize the VMD display window Yingzhe Liu (Fri Mar 25 2011 - 07:08:06 CDT)
Fwd: charmmgen to autopsf Francesco Pietra (Mon Mar 21 2011 - 07:20:00 CDT)
- Re: Fwd: charmmgen to autopsf Peter Freddolino (Mon Mar 21 2011 - 19:11:35 CDT)
charmmgen to autopsf Francesco Pietra (Mon Mar 21 2011 - 05:12:05 CDT)
- Re: charmmgen to autopsf Peter Freddolino (Mon Mar 21 2011 - 05:48:06 CDT)
  - Re: charmmgen to autopsf Francesco Pietra (Mon Mar 21 2011 - 11:50:13 CDT)
Problem with using bigdcd.tcl jnsong (Sun Mar 20 2011 - 22:38:01 CDT)
- Re: Problem with using bigdcd.tcl Ajasja LjubetiÄ (Mon Mar 21 2011 - 03:36:15 CDT)
  - Re: Problem with using bigdcd.tcl jnsong (Wed Mar 23 2011 - 00:06:00 CDT)
ANALYZING DESMOND OUTPUT IN VMD shome sankar bhunia (Sun Mar 20 2011 - 03:55:58 CDT)
- Re: ANALYZING DESMOND OUTPUT IN VMD Axel Kohlmeyer (Sun Mar 20 2011 - 15:49:12 CDT)
"non-grid" volumetric data Xiaogang Wang (Sat Mar 19 2011 - 01:23:32 CDT)
- Re: "non-grid" volumetric data Axel Kohlmeyer (Sat Mar 19 2011 - 04:32:27 CDT)
  - Re: "non-grid" volumetric data Xiaogang Wang (Sat Mar 19 2011 - 17:15:48 CDT)
    - Re: "non-grid" volumetric data Axel Kohlmeyer (Sat Mar 19 2011 - 17:53:16 CDT)
script for projection of c-alpha atom cordinates on xy plane ban arn (Fri Mar 18 2011 - 12:58:19 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane Joseph Bylund (Fri Mar 18 2011 - 13:39:37 CDT)
  - Re: script for projection of c-alpha atom cordinates on xy plane Ajasja LjubetiÄ (Fri Mar 18 2011 - 15:23:12 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane PaweÅ‚ KÄ™dzierski (Fri Mar 18 2011 - 15:17:31 CDT)
  - Re: script for projection of c-alpha atom cordinates on xy plane ban arn (Mon Mar 21 2011 - 10:37:03 CDT)
SV: Authentication error VMD-xplor Robert Dagil (Fri Mar 18 2011 - 10:13:23 CDT)
Authentication error VMD-xplor Robert Dagil (Fri Mar 18 2011 - 07:46:07 CDT)
Hbond rendering issue with VMD 1.9 Nicolas Sapay (Fri Mar 18 2011 - 04:58:27 CDT)
- Re: Hbond rendering issue with VMD 1.9 John Stone (Fri Mar 18 2011 - 13:09:41 CDT)
Molden format plugin Ignacio Fernández Galván (Thu Mar 17 2011 - 11:12:33 CDT)
- Re: Molden format plugin John Stone (Thu Mar 17 2011 - 11:28:24 CDT)
  - Re: Molden format plugin Ignacio Fernández Galván (Thu Mar 17 2011 - 13:33:50 CDT)
- Re: Molden format plugin John Stone (Tue Mar 29 2011 - 10:23:49 CDT)
to block the information appearing during the run Ramya Narasimhan (Thu Mar 17 2011 - 06:14:24 CDT)
- Re: to block the information appearing during the run Ajasja LjubetiÄ (Thu Mar 17 2011 - 08:16:14 CDT)
Re: .pdbqt file type Francesco Pietra (Thu Mar 17 2011 - 02:38:19 CDT)
- Fwd: .pdbqt file type Francesco Pietra (Thu Mar 17 2011 - 05:16:04 CDT)
segid & chain id Francesco Pietra (Thu Mar 17 2011 - 02:27:23 CDT)
- Re: segid & chain id John Stone (Thu Mar 17 2011 - 10:10:25 CDT)
  - Re: segid & chain id Francesco Pietra (Thu Mar 17 2011 - 11:05:17 CDT)
calculation of binding energy vani panguluri (Wed Mar 16 2011 - 23:06:45 CDT)
TCL Callbacks Julia Doh (Wed Mar 16 2011 - 13:45:31 CDT)
- Re: TCL Callbacks John Stone (Thu Mar 17 2011 - 14:11:30 CDT)
  - Re: TCL Callbacks Julia Doh (Wed Mar 30 2011 - 15:33:28 CDT)
    - Re: TCL Callbacks John Stone (Thu Mar 31 2011 - 15:04:15 CDT)
Question about vdW-area Sebastian Maximilian Wilhelm (Wed Mar 16 2011 - 12:40:43 CDT)
pdb file with different number of molecules Peyman Z.Moghadam (Wed Mar 16 2011 - 12:30:53 CDT)
- Re: pdb file with different number of molecules Axel Kohlmeyer (Wed Mar 16 2011 - 13:20:42 CDT)
.pdbqt file type Francesco Pietra (Wed Mar 16 2011 - 12:15:51 CDT)
- Re: .pdbqt file type John Stone (Thu Mar 17 2011 - 09:56:08 CDT)
MSD calculation from VMD RMSD plugin. Ranyere Deyler (Wed Mar 16 2011 - 09:24:54 CDT)
- Re: MSD calculation from VMD RMSD plugin. Axel Kohlmeyer (Wed Mar 16 2011 - 10:54:41 CDT)
  - Re: MSD calculation from VMD RMSD plugin. Ranyere Deyler (Wed Mar 16 2011 - 14:12:45 CDT)
    - Re: MSD calculation from VMD RMSD plugin. Axel Kohlmeyer (Wed Mar 16 2011 - 14:23:30 CDT)
    - Re: MSD calculation from VMD RMSD plugin. Ranyere Deyler (Wed Mar 16 2011 - 14:33:58 CDT)
Problem with using bigdcd.tcl jnsong (Tue Mar 15 2011 - 21:42:10 CDT)
vmd for mac: range in isosurface representation Passerone, Daniele (Tue Mar 15 2011 - 04:34:48 CDT)
- Re: vmd for mac: range in isosurface representation John Stone (Tue Mar 15 2011 - 10:35:28 CDT)
Announce VMD 1.9 released John Stone (Mon Mar 14 2011 - 16:49:37 CDT)
Linkage problem when compiling fortran bindings for VMD molfile plugins Susana Tomasio (Mon Mar 14 2011 - 11:52:49 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins Axel Kohlmeyer (Mon Mar 14 2011 - 13:43:28 CDT)
  - Re: Linkage problem when compiling fortran bindings for VMD molfile plugins Susana Tomasio (Mon Mar 14 2011 - 16:04:51 CDT)
zero box vector leila karami (Sun Mar 13 2011 - 10:14:49 CDT)
- Re: zero box vector Axel Kohlmeyer (Sun Mar 13 2011 - 11:49:26 CDT)
time line leila karami (Sat Mar 12 2011 - 03:19:52 CST)
- Re: time line Barry Isralewitz (Wed Mar 16 2011 - 15:03:45 CDT)
zero box vector leila karami (Sat Mar 12 2011 - 00:50:40 CST)
- Re: zero box vector Axel Kohlmeyer (Sat Mar 12 2011 - 05:20:48 CST)
count CLA number from different frames emiliawu_at_dicp.ac.cn (Sat Mar 12 2011 - 07:16:32 CST)
- Re: count CLA number from different frames JC Gumbart (Fri Mar 11 2011 - 20:47:02 CST)
snow leopard CUDA and VMD 1.9 Passerone, Daniele (Fri Mar 11 2011 - 09:29:30 CST)
- Re: snow leopard CUDA and VMD 1.9 John Stone (Fri Mar 11 2011 - 10:50:41 CST)
  - Re: snow leopard CUDA and VMD 1.9 Passerone, Daniele (Fri Mar 11 2011 - 12:14:55 CST)
tcl script ban arn (Fri Mar 11 2011 - 09:06:00 CST)
- Re: tcl script Ajasja LjubetiÄ (Fri Mar 11 2011 - 10:17:15 CST)
  - Re: tcl script ban arn (Fri Mar 11 2011 - 11:15:51 CST)
    - RE: tcl script Goldsmith, Jacob (Fri Mar 11 2011 - 13:59:36 CST)
    - Re: tcl script Ajasja Ljubetiè (Fri Mar 11 2011 - 14:12:52 CST)
  - Re: tcl script Axel Kohlmeyer (Fri Mar 11 2011 - 11:49:39 CST)
2 Issues in VMD 1.9 beta3 hanif mahboobi (Fri Mar 11 2011 - 06:10:30 CST)
- Re: 2 Issues in VMD 1.9 beta3 Axel Kohlmeyer (Fri Mar 11 2011 - 08:14:02 CST)
problem on making a movie Jun Cheng (Fri Mar 11 2011 - 04:42:34 CST)
- Re: problem on making a movie Axel Kohlmeyer (Fri Mar 11 2011 - 05:58:33 CST)
  - RE: problem on making a movie Goldsmith, Jacob (Fri Mar 11 2011 - 09:20:58 CST)
Not calculate bonds by default. Eric Germaneau (Fri Mar 11 2011 - 07:12:04 CST)
- Re: Not calculate bonds by default. Axel Kohlmeyer (Thu Mar 10 2011 - 19:08:44 CST)
zero box vector leila karami (Thu Mar 10 2011 - 11:27:59 CST)
- Re: zero box vector Axel Kohlmeyer (Thu Mar 10 2011 - 12:37:31 CST)
psf and top Francesco Oteri (Thu Mar 10 2011 - 09:10:05 CST)
- Re: psf and top John Stone (Thu Mar 10 2011 - 09:51:58 CST)
zero box vector leila karami (Thu Mar 10 2011 - 08:04:14 CST)
Triclinic boxes in VMD using the LAMMPS file format Taco de Wolff (Thu Mar 10 2011 - 06:36:22 CST)
- Re: Triclinic boxes in VMD using the LAMMPS file format Olaf Lenz (Thu Mar 10 2011 - 07:44:14 CST)
  - Re: Triclinic boxes in VMD using the LAMMPS file format Axel Kohlmeyer (Thu Mar 10 2011 - 09:44:13 CST)
    - Re: Triclinic boxes in VMD using the LAMMPS file format Taco de Wolff (Thu Mar 10 2011 - 10:46:09 CST)
- Re: Triclinic boxes in VMD using the LAMMPS file format Axel Kohlmeyer (Thu Mar 10 2011 - 08:18:03 CST)
Zero box vector leila karami (Thu Mar 10 2011 - 06:11:56 CST)
- Re: Zero box vector Olaf Lenz (Thu Mar 10 2011 - 07:07:35 CST)
tcl script menica dibenedetto (Wed Mar 09 2011 - 08:32:25 CST)
- Re: tcl script Axel Kohlmeyer (Wed Mar 09 2011 - 09:41:31 CST)
- Re: tcl script JC Gumbart (Wed Mar 09 2011 - 11:55:58 CST)
VMD beta3 windows installer Ajasja LjubetiÄ (Wed Mar 09 2011 - 08:21:46 CST)
- Re: VMD beta3 windows installer John Stone (Wed Mar 09 2011 - 10:43:23 CST)
VMD and Kinect Olaf Lenz (Wed Mar 09 2011 - 05:30:16 CST)
- Re: VMD and Kinect John Stone (Wed Mar 09 2011 - 10:58:04 CST)
  - Re: VMD and Kinect Dudo (Wed Mar 09 2011 - 12:27:40 CST)
Extra bond in TIP3 water Julie Grouleff (Wed Mar 09 2011 - 04:56:53 CST)
- Re: Extra bond in TIP3 water Axel Kohlmeyer (Wed Mar 09 2011 - 06:04:00 CST)
ERROR vani panguluri (Wed Mar 09 2011 - 00:11:59 CST)
- Re: ERROR John Stone (Wed Mar 09 2011 - 00:19:45 CST)
- Re: ERROR Axel Kohlmeyer (Wed Mar 09 2011 - 04:17:56 CST)
how to make default background color to white Sushil Mishra (Tue Mar 08 2011 - 09:11:33 CST)
- Re: how to make default background color to white Manoj Yadav (Tue Mar 08 2011 - 10:13:31 CST)
  - Re: how to make default background color to white Gianluca Interlandi (Tue Mar 08 2011 - 12:13:10 CST)
    - Re: how to make default background color to white Sushil Mishra (Wed Mar 09 2011 - 01:03:47 CST)
    - Re: how to make default background color to white Axel Kohlmeyer (Wed Mar 09 2011 - 04:31:00 CST)
- Re: how to make default background color to white Ajasja LjubetiÄ (Tue Mar 08 2011 - 10:29:54 CST)
- Re: how to make default background color to white Axel Kohlmeyer (Tue Mar 08 2011 - 10:45:40 CST)
measure energy elect vs. NAMDenergy Sebastian Maximilian Wilhelm (Tue Mar 08 2011 - 05:21:10 CST)
- Re: measure energy elect vs. NAMDenergy Axel Kohlmeyer (Tue Mar 08 2011 - 06:23:07 CST)
Fwd: Re: namd-l: hBond colvars and patching Francesco Pietra (Tue Mar 08 2011 - 00:34:36 CST)
VMD 1.9 beta 3 posted for download... John Stone (Mon Mar 07 2011 - 14:53:43 CST)
- Re: VMD 1.9 beta 3 posted for download... Cesar Millan (Mon Mar 07 2011 - 15:47:47 CST)
  - Re: VMD 1.9 beta 3 posted for download... John Stone (Mon Mar 07 2011 - 15:53:04 CST)
  - Re: VMD 1.9 beta 3 posted for download... John Stone (Wed Mar 09 2011 - 11:06:56 CST)
- Re: (Minnesota Supercomputing Institute Install) VMD 1.9 beta 3 posted for download... nlabello (Tue Mar 08 2011 - 16:00:25 CST)
request help about hbond hamid mosaddeghi (Mon Mar 07 2011 - 13:20:13 CST)
Fwd: ACS awards information John Stone (Mon Mar 07 2011 - 10:45:17 CST)
request help about hbond hamid mosaddeghi (Mon Mar 07 2011 - 09:06:20 CST)
Re: namd-l: hBond colvars and patching Francesco Pietra (Mon Mar 07 2011 - 00:12:54 CST)
- Re: Re: namd-l: hBond colvars and patching Peter Freddolino (Mon Mar 07 2011 - 09:19:20 CST)
  - Re: Re: namd-l: hBond colvars and patching Peter Freddolino (Mon Mar 07 2011 - 17:08:23 CST)
hBond colvars and patching Francesco Pietra (Sun Mar 06 2011 - 14:05:47 CST)
Android support Dow Hurst (Sun Mar 06 2011 - 11:24:15 CST)
- Re: Android support Axel Kohlmeyer (Sun Mar 06 2011 - 12:38:38 CST)
- Re: Android support John Stone (Sun Mar 06 2011 - 13:39:44 CST)
  - Re: Android support Dow Hurst (Sun Mar 06 2011 - 13:55:02 CST)
    - Re: Android support John Stone (Sun Mar 06 2011 - 15:28:46 CST)
    - Re: Android support John Stone (Sun Mar 06 2011 - 15:44:09 CST)
hBond component in colvars and patching Francesco Pietra (Sat Mar 05 2011 - 14:38:45 CST)
- Fwd: namd-l: hBond component in colvars and patching Francesco Pietra (Sun Mar 06 2011 - 02:36:10 CST)
view temperature, forces and velocities alberto baldelli (Fri Mar 04 2011 - 09:35:18 CST)
- Re: view temperature, forces and velocities Axel Kohlmeyer (Sat Mar 05 2011 - 12:27:23 CST)
Re: public VMD cvs server John Stone (Fri Mar 04 2011 - 09:13:10 CST)
Bug in VMD? Sujata Sovani (Thu Mar 03 2011 - 12:15:16 CST)
- Re: Bug in VMD? John Stone (Thu Mar 03 2011 - 13:38:58 CST)
capping or patching protein ends Ashlynne Monroe (Thu Mar 03 2011 - 10:40:37 CST)
- Re: capping or patching protein ends Tim Travers (Thu Mar 03 2011 - 11:39:11 CST)
- RE: capping or patching protein ends Mark Cunningham (Thu Mar 03 2011 - 14:32:08 CST)
  - Re: capping or patching protein ends Tim Travers (Thu Mar 03 2011 - 15:13:33 CST)
    - Re: capping or patching protein ends Peter Freddolino (Thu Mar 03 2011 - 17:51:20 CST)
Mutator Plugin Patching Thomas Freeman (Wed Mar 02 2011 - 15:27:21 CST)
- Re: Mutator Plugin Patching JC Gumbart (Wed Mar 02 2011 - 23:48:24 CST)
  - Re: Mutator Plugin Patching Thomas Freeman (Thu Mar 03 2011 - 12:21:01 CST)
Installing VMD 1.8.7 on i686/SL5 David Huggins (Wed Mar 02 2011 - 07:38:14 CST)
- Re: Installing VMD 1.8.7 on i686/SL5 Olaf Lenz (Wed Mar 02 2011 - 08:31:01 CST)
  - Re: Installing VMD 1.8.7 on i686/SL5 David Huggins (Wed Mar 02 2011 - 09:41:34 CST)
    - Re: Installing VMD 1.8.7 on i686/SL5 John Stone (Wed Mar 02 2011 - 10:02:46 CST)
Error in coordinate information of PDB file after merging nabaneeta mukhopadhyay (Wed Mar 02 2011 - 00:50:42 CST)
- Re: Error in coordinate information of PDB file after merging Axel Kohlmeyer (Wed Mar 02 2011 - 10:39:01 CST)
VMD.RC Question Phelan Jr., Frederick R. Dr. (Tue Mar 01 2011 - 14:33:45 CST)
- Re: VMD.RC Question Axel Kohlmeyer (Tue Mar 01 2011 - 16:51:49 CST)
  - Re: VMD.RC Question John Stone (Wed Mar 02 2011 - 12:45:53 CST)
question about the inorganic builder Mao Mao (Tue Mar 01 2011 - 11:30:53 CST)
- Re: question about the inorganic builder Robert Brunner (Tue Mar 01 2011 - 14:15:25 CST)
Compiling Fortran bindings for the VMD molfile plugins Susana Tomasio (Tue Mar 01 2011 - 10:16:18 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins John Stone (Tue Mar 01 2011 - 10:24:32 CST)
  - Re: Compiling Fortran bindings for the VMD molfile plugins Susana Tomasio (Tue Mar 01 2011 - 10:34:35 CST)
  - Re: Compiling Fortran bindings for the VMD molfile plugins John Stone (Thu Mar 03 2011 - 13:28:03 CST)
VMD 1.9 beta 2 posted for download... John Stone (Mon Feb 28 2011 - 21:44:36 CST)
TCL Related Question Phelan Jr., Frederick R. Dr. (Mon Feb 28 2011 - 21:34:31 CST)
Can paratools really parametrize a structure? Is it really finished? Ranyere Deyler (Mon Feb 28 2011 - 10:55:21 CST)
surf fails with TIP4P water in VMD 1.9b1 chris.neale_at_utoronto.ca (Mon Feb 28 2011 - 10:52:08 CST)
- Re: surf fails with TIP4P water in VMD 1.9b1 John Stone (Mon Feb 28 2011 - 10:57:03 CST)
Drawing Bonds in Periodic structure soumyajyoti haldar (Mon Feb 28 2011 - 10:07:32 CST)
- Re: Drawing Bonds in Periodic structure Olaf Lenz (Tue Mar 01 2011 - 03:06:06 CST)
  - Re: Drawing Bonds in Periodic structure soumyajyoti haldar (Tue Mar 01 2011 - 03:50:36 CST)
ERROR: graphics: color index value '1057' out of range Jervis Chu (Sun Feb 27 2011 - 08:41:00 CST)
- Re2: ERROR: graphics: color index value '1057' out of range Jervis Chu (Sun Feb 27 2011 - 20:43:03 CST)
  - Re: Re2: ERROR: graphics: color index value '1057' out of range John Stone (Sun Feb 27 2011 - 22:03:44 CST)
pot.dx question Robin Varghese (Sat Feb 26 2011 - 15:43:35 CST)
pot.dx file question Robin Varghese (Sat Feb 26 2011 - 15:42:04 CST)
Pot.dx files Robin Varghese (Sat Feb 26 2011 - 15:02:14 CST)
- Re: Pot.dx files Axel Kohlmeyer (Sat Feb 26 2011 - 15:50:57 CST)
  - Re: Pot.dx files Robin Varghese (Sat Feb 26 2011 - 17:18:56 CST)
Server for structural models of the unfolded state of proteins Samy Hamdouche (Fri Feb 25 2011 - 19:03:15 CST)
- Re: Server for structural models of the unfolded state of proteins Axel Kohlmeyer (Fri Feb 25 2011 - 19:48:08 CST)
- Re: Server for structural models of the unfolded state of proteins Joshua Adelman (Fri Feb 25 2011 - 20:53:53 CST)
lindex related question Pavan Ghatty (Fri Feb 25 2011 - 15:09:45 CST)
- Re: lindex related question Axel Kohlmeyer (Fri Feb 25 2011 - 15:49:48 CST)
- Re: lindex related question Axel Kohlmeyer (Fri Feb 25 2011 - 16:11:42 CST)
showing fixed number of frames as the animation Lin, Kan-Ju (Fri Feb 25 2011 - 13:27:26 CST)
- Re: showing fixed number of frames as the animation Jérôme Hénin (Sat Feb 26 2011 - 07:43:45 CST)
  - Re: showing fixed number of frames as the animation Jérôme Hénin (Sat Feb 26 2011 - 08:01:58 CST)
Paratool`s error reading single point calculation. Ranyere Deyler (Fri Feb 25 2011 - 13:24:42 CST)
Adding bonds between many metal atoms Qiang Fu (Fri Feb 25 2011 - 09:48:45 CST)
- Re: Adding bonds between many metal atoms Axel Kohlmeyer (Fri Feb 25 2011 - 10:33:27 CST)
  - Re: Adding bonds between many metal atoms Qiang Fu (Mon Feb 28 2011 - 03:41:34 CST)
Fwd: autopsf-patches C++ error 'expected integer but got "" ""' SOLVED, MY FAULT Francesco Pietra (Fri Feb 25 2011 - 07:59:56 CST)
package psfgen: Failed to set coordinates for C3 Sebastian Maximilian Wilhelm (Fri Feb 25 2011 - 05:30:45 CST)
- Re: package psfgen: Failed to set coordinates for C3 Jérôme Hénin (Fri Feb 25 2011 - 08:55:47 CST)
Intel HD Graphics and VMD Peixi Zhu (Thu Feb 24 2011 - 22:28:40 CST)
- Re: Intel HD Graphics and VMD John Stone (Sun Feb 27 2011 - 23:22:29 CST)
Using the MovieMaker Phelan Jr., Frederick R. Dr. (Thu Feb 24 2011 - 15:52:28 CST)
- Re: Using the MovieMaker Axel Kohlmeyer (Thu Feb 24 2011 - 16:57:19 CST)
- Re: Using the MovieMaker John Stone (Thu Feb 24 2011 - 20:42:33 CST)
Area per lipid snoze pa (Thu Feb 24 2011 - 12:35:30 CST)
vmd1.9beta1 Bennion, Brian (Wed Feb 23 2011 - 14:21:51 CST)
- feature request Francesco Oteri (Wed Feb 23 2011 - 15:37:34 CST)
  - Re: feature request John Stone (Wed Feb 23 2011 - 15:45:48 CST)
- Re: vmd1.9beta1 Peter Freddolino (Wed Feb 23 2011 - 19:30:06 CST)
  - RE: vmd1.9beta1 namdEnergyPlugin Bennion, Brian (Thu Feb 24 2011 - 12:42:02 CST)
RMSF measurement Alex Liu (Wed Feb 23 2011 - 12:51:16 CST)
- Re: RMSF measurement Jérôme Hénin (Thu Feb 24 2011 - 05:47:36 CST)
abuot avpos emiliawu_at_dicp.ac.cn (Thu Feb 24 2011 - 00:57:00 CST)
- Re: abuot avpos John Stone (Wed Feb 23 2011 - 13:02:12 CST)
autopsf-patches C++ error 'expected integer but got "" ""' Francesco Pietra (Wed Feb 23 2011 - 10:21:11 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' John Stone (Wed Feb 23 2011 - 10:34:09 CST)
  - Re: autopsf-patches C++ error 'expected integer but got "" ""' Francesco Pietra (Wed Feb 23 2011 - 10:42:55 CST)
Incorrect results from 'measure dipole -masscenter' Stéphane Pezennec (Wed Feb 23 2011 - 07:24:02 CST)
- Re: Incorrect results from 'measure dipole -masscenter' Axel Kohlmeyer (Wed Feb 23 2011 - 09:12:37 CST)
  - Re: Incorrect results from 'measure dipole -masscenter' Stéphane Pezennec (Wed Feb 23 2011 - 10:30:36 CST)
    - Re: Incorrect results from 'measure dipole -masscenter' John Stone (Wed Feb 23 2011 - 13:55:38 CST)
    - Re: Incorrect results from 'measure dipole -masscenter' Stéphane Pezennec (Thu Feb 24 2011 - 03:05:22 CST)
how to write out the dcd file by vmd python command? mjyang (Mon Feb 21 2011 - 22:40:48 CST)
how to write out the dcd file by vmd python command? mjyang (Mon Feb 21 2011 - 22:09:17 CST)
- Re: how to write out the dcd file by vmd python command? Axel Kohlmeyer (Tue Feb 22 2011 - 07:19:28 CST)
Drawing using variables Phelan Jr., Frederick R. Dr. (Mon Feb 21 2011 - 16:01:52 CST)
- Re: Drawing using variables Axel Kohlmeyer (Mon Feb 21 2011 - 17:14:58 CST)
memory leak 1.8.7 and 1.9b1 Tim Meyer (Mon Feb 21 2011 - 09:13:18 CST)
- Re: memory leak 1.8.7 and 1.9b1 John Stone (Mon Feb 21 2011 - 09:48:08 CST)
- Re: memory leak 1.8.7 and 1.9b1 Axel Kohlmeyer (Mon Feb 21 2011 - 10:10:41 CST)
Application Error while use of Auto PSF Builder Sebastian Wilhelm (Sun Feb 20 2011 - 07:54:35 CST)
- Re: Application Error while use of Auto PSF Builder Axel Kohlmeyer (Sun Feb 20 2011 - 09:42:19 CST)
atoms selection Iman Salehinia (Sat Feb 19 2011 - 16:33:27 CST)
- Re: atoms selection Axel Kohlmeyer (Sun Feb 20 2011 - 12:18:56 CST)
  - Re: atoms selection Jérôme Hénin (Mon Feb 21 2011 - 08:18:04 CST)
ParaTool alamng_at_uci.edu (Sat Feb 19 2011 - 15:43:36 CST)
- Re: ParaTool Axel Kohlmeyer (Sun Feb 20 2011 - 12:25:46 CST)
scripts CGTools menica dibenedetto (Fri Feb 18 2011 - 05:11:05 CST)
- Fwd: scripts CGTools menica dibenedetto (Fri Feb 18 2011 - 06:39:29 CST)
  - Re: scripts CGTools Axel Kohlmeyer (Fri Feb 18 2011 - 07:25:44 CST)
Compiling on Windows David Joiner (Thu Feb 17 2011 - 14:12:44 CST)
- Re: Compiling on Windows John Stone (Thu Feb 17 2011 - 14:40:24 CST)
  - Re: Compiling on Windows David Joiner (Thu Feb 17 2011 - 19:57:13 CST)
VMD Volmap ILS Error & Orient Function larac_at_berkeley.edu (Thu Feb 17 2011 - 12:13:40 CST)
- Re: VMD Volmap ILS Error & Orient Function Axel Kohlmeyer (Thu Feb 17 2011 - 13:54:49 CST)
  - Re: VMD Volmap ILS Error & Orient Function larac_at_berkeley.edu (Fri Feb 18 2011 - 12:10:06 CST)
RE: VMD 1.9 beta 1 posted for download... Julie Grouleff (Thu Feb 17 2011 - 09:21:49 CST)
- Re: VMD 1.9 beta 1 posted for download... John Stone (Thu Feb 17 2011 - 09:36:22 CST)
- Re: VMD 1.9 beta 1 posted for download... Axel Kohlmeyer (Thu Feb 17 2011 - 10:15:08 CST)
Dynamically updating water colors for each frame of a trajectory J. Nathan Scott (Wed Feb 16 2011 - 17:17:28 CST)
- Re: Dynamically updating water colors for each frame of a trajectory Axel Kohlmeyer (Wed Feb 16 2011 - 18:01:35 CST)
- Re: Dynamically updating water colors for each frame of a trajectory Jérôme Hénin (Thu Feb 17 2011 - 04:10:04 CST)
  - Re: Dynamically updating water colors for each frame of a trajectory J. Nathan Scott (Wed Feb 23 2011 - 12:10:38 CST)
PBC & Solvate Tool in VMD Sharlene Denos (Wed Feb 16 2011 - 00:03:36 CST)
- Re: PBC & Solvate Tool in VMD Ajasja LjubetiÄ (Wed Feb 16 2011 - 03:20:25 CST)
- RE: PBC & Solvate Tool in VMD JC Gumbart (Wed Feb 16 2011 - 07:49:41 CST)
  - Re: PBC & Solvate Tool in VMD Sharlene Denos (Wed Feb 16 2011 - 08:37:30 CST)
PBC Option With Solvate Tool Sharlene Denos (Tue Feb 15 2011 - 23:31:00 CST)
VMD 1.9 beta 1 posted for download... John Stone (Tue Feb 15 2011 - 19:26:31 CST)
- Re: VMD 1.9 beta 1 posted for download... John Stone (Wed Feb 16 2011 - 11:21:31 CST)
DOPC membrane snoze pa (Tue Feb 15 2011 - 17:35:24 CST)
- Re: DOPC membrane JC Gumbart (Tue Feb 15 2011 - 19:52:11 CST)
bring z-axis along a new vector dhacademic (Tue Feb 15 2011 - 14:39:04 CST)
- Re: bring z-axis along a new vector Ajasja LjubetiÄ (Wed Feb 16 2011 - 03:00:01 CST)
conflict between VMD and Cygwin Li, Liwei (Mon Feb 14 2011 - 18:02:00 CST)
- Re: conflict between VMD and Cygwin John Stone (Mon Feb 14 2011 - 18:19:52 CST)
setting different bond length for different atom pair Debasis Sengupta (Fri Feb 11 2011 - 12:01:44 CST)
- Re: setting different bond length for different atom pair Axel Kohlmeyer (Fri Feb 11 2011 - 13:00:56 CST)
  - Volmap ILS: Orient function & Invalid VDW parameters Error larac_at_berkeley.edu (Tue Feb 15 2011 - 18:23:57 CST)
  - Re: setting different bond length for different atom pair Debasis Sengupta (Thu Apr 14 2011 - 12:07:56 CDT)
    - Re: setting different bond length for different atom pair John Stone (Fri Apr 15 2011 - 16:24:55 CDT)
Re: only one model is displayed Joyce Tan (Fri Feb 11 2011 - 10:50:31 CST)
- Re: only one model is displayed John Stone (Fri Feb 11 2011 - 12:49:23 CST)
only one model is displayed Joyce Tan (Fri Feb 11 2011 - 09:56:39 CST)
dipole / move (align) Stéphane Pezennec (Fri Feb 11 2011 - 08:25:43 CST)
One more psfgen question Marc Charendoff (Thu Feb 10 2011 - 15:40:14 CST)
how to update the selection in NAMDEnergy juan roman (Tue Feb 08 2011 - 20:02:15 CST)
- Re: how to update the selection in NAMDEnergy Peter Freddolino (Tue Feb 08 2011 - 23:35:00 CST)
Re: Fwd: [multiple topology files and resetpsf] Jim Phillips (Tue Feb 08 2011 - 14:49:48 CST)
psfgen script for VMD 1.8.7 Marc Charendoff (Tue Feb 08 2011 - 12:26:25 CST)
- RE: psfgen script for VMD 1.8.7 Mark Cunningham (Tue Feb 08 2011 - 20:48:50 CST)
multiple topology files and resetpsf Goldsmith, Jacob (Tue Feb 08 2011 - 10:11:54 CST)
- Re: multiple topology files and resetpsf Axel Kohlmeyer (Tue Feb 08 2011 - 16:38:35 CST)
  - RE: multiple topology files and resetpsf Goldsmith, Jacob (Wed Feb 09 2011 - 07:38:42 CST)
Displaying an overlay of multiple structures with VMD B.M.B. Vanschouwen (Tue Feb 08 2011 - 09:19:45 CST)
- Re: Displaying an overlay of multiple structures with VMD John Stone (Tue Feb 08 2011 - 14:22:21 CST)
  - Re: Displaying an overlay of multiple structures with VMD John Stone (Thu Feb 10 2011 - 12:56:22 CST)
- Re: Displaying an overlay of multiple structures with VMD Axel Kohlmeyer (Tue Feb 08 2011 - 16:28:23 CST)
VMD Volmap ILS Error larac_at_berkeley.edu (Mon Feb 07 2011 - 18:23:21 CST)
- Re: VMD Volmap ILS Error Axel Kohlmeyer (Mon Feb 07 2011 - 19:25:54 CST)
  - Re: VMD Volmap ILS Error larac_at_berkeley.edu (Tue Feb 08 2011 - 15:15:48 CST)
    - Re: VMD Volmap ILS Error Axel Kohlmeyer (Tue Feb 08 2011 - 16:25:00 CST)
Multiseq in text mode Ekta Khurana (Mon Feb 07 2011 - 13:11:57 CST)
- Re: Multiseq in text mode Axel Kohlmeyer (Mon Feb 07 2011 - 19:33:48 CST)
- Re: Multiseq in text mode John Stone (Mon Feb 07 2011 - 20:30:11 CST)
  - Re: Multiseq in text mode Ekta Khurana (Mon Feb 07 2011 - 23:33:00 CST)
ERROR while using PSF builder vani panguluri (Mon Feb 07 2011 - 11:29:09 CST)
- Re: ERROR while using PSF builder John Stone (Mon Feb 07 2011 - 20:25:33 CST)
- latest vmd Francesco Oteri (Sat Feb 12 2011 - 18:23:52 CST)
  - Re: latest vmd Axel Kohlmeyer (Sat Feb 12 2011 - 19:06:57 CST)
Helix motions ban arn (Mon Feb 07 2011 - 05:29:31 CST)
- Re: Helix motions Hurt, Darrell (NIH/NIAID) [E] (Mon Feb 07 2011 - 06:54:08 CST)
  - Re: Helix motions ban arn (Wed Feb 09 2011 - 10:50:45 CST)
graphical representations over a number of molecule files Stephen Cox (Sun Feb 06 2011 - 14:38:30 CST)
- Re: graphical representations over a number of molecule files Axel Kohlmeyer (Sun Feb 06 2011 - 15:43:12 CST)
  - Re: graphical representations over a number of molecule files Stephen Cox (Mon Feb 07 2011 - 04:00:48 CST)
  - Re: graphical representations over a number of molecule files Stephen Cox (Mon Mar 07 2011 - 13:28:41 CST)
CA distance command ban arn (Thu Feb 03 2011 - 08:16:14 CST)
Adding missing residues to a protein sriteja mantha (Wed Feb 02 2011 - 23:40:47 CST)
CG_MD temperature Sibel Cakan (Wed Feb 02 2011 - 17:56:12 CST)
- Re: CG_MD temperature BIN ZHANG (Thu Feb 03 2011 - 01:30:15 CST)
a detail about PSFGENv1.4 Seth Tanner (Wed Feb 02 2011 - 12:49:37 CST)
- Re: a detail about PSFGENv1.4 Jim Phillips (Wed Feb 02 2011 - 22:45:23 CST)
Re: USING IED for essential dynamics in VMD bharat gupta (Tue Feb 01 2011 - 18:38:39 CST)
- Re: Re: USING IED for essential dynamics in VMD Axel Kohlmeyer (Tue Feb 01 2011 - 19:34:30 CST)
Installation problem with VMD, Multiseq, and BLAST David Guertin (Tue Feb 01 2011 - 10:49:24 CST)
- Re: Installation problem with VMD, Multiseq, and BLAST Kirby Vandivort (Tue Feb 01 2011 - 11:08:55 CST)
  - Re: Installation problem with VMD, Multiseq, and BLAST David Guertin (Tue Feb 01 2011 - 12:50:04 CST)
Installation problem with VMD, Multiseq, and BLAST David Guertin (Tue Feb 01 2011 - 10:15:48 CST)
water molecule count ban arn (Tue Feb 01 2011 - 08:56:55 CST)
- Re: water molecule count Jérôme Hénin (Tue Feb 01 2011 - 10:12:47 CST)
  - Re: water molecule count ban arn (Tue Feb 01 2011 - 10:25:52 CST)
    - Re: water molecule count Jérôme Hénin (Tue Feb 01 2011 - 11:19:15 CST)
    - Re: water molecule count Axel Kohlmeyer (Tue Feb 01 2011 - 11:33:34 CST)
Side-chain Dihedrals ban arn (Tue Feb 01 2011 - 05:07:19 CST)
- Re: Side-chain Dihedrals Ajasja LjubetiÄ (Tue Feb 01 2011 - 14:46:23 CST)
  - Re: Side-chain Dihedrals Ajasja LjubetiÄ (Tue Feb 01 2011 - 16:13:36 CST)
Re: using IED interface in VMD 1.8.7 windows bharat gupta (Tue Feb 01 2011 - 02:51:45 CST)
How to use VMD script "PorcupinePlot.tcl" B.M.B. Vanschouwen (Mon Jan 31 2011 - 10:46:55 CST)
- Re: How to use VMD script "PorcupinePlot.tcl" Axel Kohlmeyer (Mon Jan 31 2011 - 11:59:50 CST)
vmd draw command for text kaushik lakkaraju (Sun Jan 30 2011 - 12:32:01 CST)
- Re: vmd draw command for text John Stone (Tue Feb 01 2011 - 09:47:07 CST)
CG Builder mohamad rahimi (Sun Jan 30 2011 - 03:31:23 CST)
- Re: CG Builder Axel Kohlmeyer (Sun Jan 30 2011 - 05:53:54 CST)
  - Re: CG Builder mohamad rahimi (Sun Jan 30 2011 - 06:14:03 CST)
    - Re: CG Builder Axel Kohlmeyer (Sun Jan 30 2011 - 08:54:59 CST)
License question Gianluca Interlandi (Sat Jan 29 2011 - 16:19:27 CST)
- Re: License question John Stone (Sat Jan 29 2011 - 19:18:20 CST)
- VMD and Monte Carlo Gianluca Interlandi (Mon Jan 31 2011 - 14:13:24 CST)
Re: Trouble rendering tranparent atoms with Tachyon Ajasja Ljubetiè (Fri Jan 28 2011 - 09:06:11 CST)
- Re: Re: Trouble rendering tranparent atoms with Tachyon Axel Kohlmeyer (Fri Jan 28 2011 - 09:56:06 CST)
  - Re: Re: Trouble rendering tranparent atoms with Tachyon John Stone (Fri Jan 28 2011 - 10:14:26 CST)
    - Re: Re: Trouble rendering tranparent atoms with Tachyon Ajasja LjubetiÄ (Sat Jan 29 2011 - 06:42:06 CST)
illegal stereo mode Nicolas Belloy (Fri Jan 28 2011 - 08:34:28 CST)
- Re: illegal stereo mode John Stone (Fri Jan 28 2011 - 08:55:05 CST)
  - Re: illegal stereo mode Nicolas Belloy (Fri Jan 28 2011 - 08:58:11 CST)
- Re: illegal stereo mode Axel Kohlmeyer (Fri Jan 28 2011 - 09:23:45 CST)
vrml2 output crashes VTK/Paraview Peter C. Lai (Thu Jan 27 2011 - 19:14:25 CST)
- Re: vrml2 output crashes VTK/Paraview Axel Kohlmeyer (Thu Jan 27 2011 - 20:05:25 CST)
- Re: vrml2 output crashes VTK/Paraview John Stone (Thu Jan 27 2011 - 20:09:15 CST)
  - Re: vrml2 output crashes VTK/Paraview Peter C. Lai (Thu Feb 03 2011 - 02:42:17 CST)
    - Re: vrml2 output crashes VTK/Paraview John Stone (Thu Feb 03 2011 - 09:25:00 CST)
RE: How can I add bonds ? Germain Salvato Vallverdu (Thu Jan 27 2011 - 14:31:08 CST)
- RE: How can I add bonds ? Axel Kohlmeyer (Thu Jan 27 2011 - 14:49:19 CST)
  - RE: How can I add bonds ? Germain Salvato Vallverdu (Thu Jan 27 2011 - 15:10:57 CST)
  - RE: How can I add bonds ? Germain Salvato Vallverdu (Thu Jan 27 2011 - 16:38:08 CST)
Warning in the log file candy deck (Thu Jan 27 2011 - 09:28:12 CST)
Slower FPS in dual monitor systems? Ramon Crehuet (Thu Jan 27 2011 - 07:24:03 CST)
- Re: Slower FPS in dual monitor systems? Axel Kohlmeyer (Thu Jan 27 2011 - 08:17:19 CST)
removing all water molecules ahmet yýldýrým (Thu Jan 27 2011 - 06:51:34 CST)
- Re: removing all water molecules Dudo (Thu Jan 27 2011 - 07:40:16 CST)
  - Re: removing all water molecules Dudo (Thu Jan 27 2011 - 08:05:54 CST)
    - Re: removing all water molecules Salvatore Mario Cosseddu (Thu Jan 27 2011 - 10:27:32 CST)
- Re: removing all water molecules Axel Kohlmeyer (Thu Jan 27 2011 - 08:08:27 CST)
- Re: removing all water molecules Ajasja LjubetiÄ (Thu Jan 27 2011 - 07:37:57 CST)
  - Re: removing all water molecules Axel Kohlmeyer (Thu Jan 27 2011 - 08:28:46 CST)
    - Re: removing all water molecules Dudo (Thu Jan 27 2011 - 09:41:49 CST)
- Re: removing all water molecules Joshua Adelman (Thu Jan 27 2011 - 08:24:09 CST)
- Re: removing all water molecules Salvatore Mario Cosseddu (Thu Jan 27 2011 - 09:14:40 CST)
a problem about multiplot superdirac (Wed Jan 26 2011 - 20:01:18 CST)
- Re: a problem about multiplot John Stone (Wed Jan 26 2011 - 20:19:47 CST)
  - Re: a problem about multiplot superdirac (Wed Jan 26 2011 - 21:09:38 CST)
    - Fw: Re: a problem about multiplot superdirac (Wed Jan 26 2011 - 21:43:38 CST)
    - Re: a problem about multiplot Jérôme Hénin (Thu Jan 27 2011 - 04:04:55 CST)
Question regarding g(r) utility Narayanan Veeraraghavan (Wed Jan 26 2011 - 17:30:33 CST)
- Re: Question regarding g(r) utility Axel Kohlmeyer (Wed Jan 26 2011 - 18:35:47 CST)
GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build Joshua A. Anderson (Wed Jan 26 2011 - 14:17:05 CST)
- Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build John Stone (Wed Jan 26 2011 - 14:31:53 CST)
  - Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build Joshua A. Anderson (Thu Jan 27 2011 - 06:35:56 CST)
    - Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build John Stone (Thu Jan 27 2011 - 13:44:16 CST)
  - Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build John Stone (Thu Mar 10 2011 - 16:38:33 CST)
a script for angular distribution David Wedner (Wed Jan 26 2011 - 11:41:51 CST)
a script for angular distribution David Wedner (Wed Jan 26 2011 - 10:44:34 CST)
duplicate frames / slow down movie Nicolas Belloy (Tue Jan 25 2011 - 07:50:10 CST)
- Re: duplicate frames / slow down movie Axel Kohlmeyer (Tue Jan 25 2011 - 08:55:42 CST)
Secondary Structure of alkane polymers Manish Agarwal (Mon Jan 24 2011 - 15:43:47 CST)
- Re: Secondary Structure of alkane polymers Axel Kohlmeyer (Mon Jan 24 2011 - 16:42:43 CST)
  - Re: Secondary Structure of alkane polymers Manish Agarwal (Mon Jan 24 2011 - 17:48:07 CST)
    - Re: Secondary Structure of alkane polymers Axel Kohlmeyer (Mon Jan 24 2011 - 21:27:07 CST)
How can I add bonds ? Germain Salvato Vallverdu (Mon Jan 24 2011 - 09:01:39 CST)
- Re: How can I add bonds ? Axel Kohlmeyer (Mon Jan 24 2011 - 09:58:19 CST)
  - Re: How can I add bonds ? Germain Vallverdu (Wed Jan 26 2011 - 08:57:30 CST)
    - Re: How can I add bonds ? Axel Kohlmeyer (Wed Jan 26 2011 - 10:02:42 CST)
draw bond across cell boudary pascal boulet (Thu Jan 20 2011 - 15:47:44 CST)
- Re: draw bond across cell boudary Nima Nouri (Fri Jan 21 2011 - 01:01:23 CST)
question from a tutorial Lisa Brown (Thu Jan 20 2011 - 14:17:29 CST)
- Re: namd-l: question from a tutorial JC Gumbart (Thu Jan 20 2011 - 14:29:23 CST)
Formats supported by animate write file_type Salvatore Mario Cosseddu (Thu Jan 20 2011 - 10:19:42 CST)
Displaying Bead and Bonds Phelan Jr., Frederick R. Dr. (Wed Jan 19 2011 - 13:32:48 CST)
- Re: Displaying Bead and Bonds Axel Kohlmeyer (Wed Jan 19 2011 - 14:30:29 CST)
Problem installing vmd in UBUNTU 10.10 Nima Nouri (Sat Jan 15 2011 - 12:55:17 CST)
- Re: Problem installing vmd in UBUNTU 10.10 John Stone (Sat Jan 15 2011 - 13:15:09 CST)
  - Re: Problem installing vmd in UBUNTU 10.10 Nima Nouri (Sat Jan 15 2011 - 13:18:21 CST)
Where can I download VMD alpha version Nima Nouri (Sat Jan 15 2011 - 09:30:16 CST)
- Re: Where can I download VMD alpha version Axel Kohlmeyer (Sat Jan 15 2011 - 10:45:14 CST)
- Re: Where can I download VMD alpha version Ajasja LjubetiÄ (Sat Jan 15 2011 - 11:05:34 CST)
problem in extracting frame number dhacademic (Thu Jan 13 2011 - 09:45:16 CST)
- Re: problem in extracting frame number John Stone (Thu Jan 13 2011 - 09:53:20 CST)
  - Re: problem in extracting frame number dhacademic (Thu Jan 13 2011 - 13:08:17 CST)
    - Re: problem in extracting frame number Ajasja LjubetiÄ (Thu Jan 13 2011 - 15:46:48 CST)
- Re: problem in extracting frame number Eduard Schreiner (Thu Jan 13 2011 - 10:33:34 CST)
FW: Issues with Paratools and Gaussian Ali, Rejwan (Wed Jan 12 2011 - 11:57:16 CST)
VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. Dudo (Wed Jan 12 2011 - 06:41:27 CST)
- Re: VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. Axel Kohlmeyer (Wed Jan 12 2011 - 11:40:12 CST)
  - Re: VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. Dudo (Wed Jan 12 2011 - 12:16:39 CST)
Truncated octahedron Box francesco oteri (Wed Jan 12 2011 - 04:43:17 CST)
- Re: Truncated octahedron Box Jérôme Hénin (Wed Jan 12 2011 - 10:59:34 CST)
Issues with Paratools and Gaussian Ali, Rejwan (Tue Jan 11 2011 - 14:51:18 CST)
- Re: Issues with Paratools and Gaussian Jacqueline Cawthray (Tue Jan 11 2011 - 17:09:37 CST)
  - Re: Issues with Paratools and Gaussian Aaron Oakley (Tue Jan 11 2011 - 19:57:49 CST)
  - RE: Issues with Paratools and Gaussian Ali, Rejwan (Wed Jan 12 2011 - 11:54:33 CST)
    - RE: Issues with Paratools and Gaussian Ali, Rejwan (Wed Jan 12 2011 - 12:13:54 CST)
    - Re: Issues with Paratools and Gaussian JC Gumbart (Sun Jan 16 2011 - 17:12:10 CST)
namd energy plugin error: toplevel Michela Candotti (Tue Jan 11 2011 - 04:09:14 CST)
- Re: namd energy plugin error: toplevel Axel Kohlmeyer (Tue Jan 11 2011 - 09:22:22 CST)
a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) Andrew Jewett (Mon Jan 10 2011 - 19:56:23 CST)
- Re: a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) Andrew Jewett (Mon Jan 10 2011 - 22:27:39 CST)
pbctools & Desmond trajectory with protein units 'jumping' into other cells Irene Newhouse (Mon Jan 10 2011 - 13:22:26 CST)
volumetric trajectory Fahimeh Baftizadeh (Mon Jan 10 2011 - 04:50:46 CST)
- Re: volumetric trajectory John Stone (Mon Jan 10 2011 - 14:28:55 CST)
  - Re: volumetric trajectory Fahimeh Baftizadeh (Mon Jan 10 2011 - 15:29:46 CST)
vmd with 3d vision Yubo Fan (Fri Jan 07 2011 - 15:35:49 CST)
- Re: vmd with 3d vision Axel Kohlmeyer (Fri Jan 07 2011 - 16:20:40 CST)
  - Re: vmd with 3d vision Yubo Fan (Fri Jan 07 2011 - 16:27:31 CST)
Re: Binary request Axel Kohlmeyer (Fri Jan 07 2011 - 09:01:48 CST)
Binary request Nima Nouri (Fri Jan 07 2011 - 04:19:13 CST)
- Re: Binary request Axel Kohlmeyer (Fri Jan 07 2011 - 08:15:18 CST)
orientation of protein molecule prabhakar g (Wed Jan 05 2011 - 18:12:19 CST)
- Re: orientation of protein molecule Joshua Adelman (Wed Jan 05 2011 - 19:59:46 CST)
- Re: orientation of protein molecule Axel Kohlmeyer (Wed Jan 05 2011 - 19:17:55 CST)
VMD 1.8.7 and lammpsplugin.so error Stephanie Teich-McGoldrick (Wed Jan 05 2011 - 15:14:59 CST)
- Re: VMD 1.8.7 and lammpsplugin.so error Axel Kohlmeyer (Wed Jan 05 2011 - 16:48:16 CST)
  - Re: VMD 1.8.7 and lammpsplugin.so error Stephanie Teich-McGoldrick (Fri Jan 07 2011 - 11:02:33 CST)
Regarding fitframes.tcl pragya.saxena_at_research.iiit.ac.in (Tue Jan 04 2011 - 04:51:39 CST)
- Re: Regarding fitframes.tcl Eduard Schreiner (Tue Jan 04 2011 - 05:31:58 CST)
  - Re: Regarding fitframes.tcl pragya.saxena_at_research.iiit.ac.in (Tue Jan 04 2011 - 06:41:21 CST)
  - Re: Regarding fitframes.tcl pragya.saxena_at_research.iiit.ac.in (Tue Jan 04 2011 - 07:37:45 CST)
    - Re: Regarding fitframes.tcl Eduard Schreiner (Tue Jan 04 2011 - 07:48:33 CST)
How to show dynamic bonds? Jervis Chu (Tue Jan 04 2011 - 01:58:39 CST)
- Re: How to show dynamic bonds? Axel Kohlmeyer (Tue Jan 04 2011 - 09:28:39 CST)
- Re: Re: How to show dynamic bonds? Jervis Chu (Thu Jan 06 2011 - 01:06:18 CST)
  - Re: Re: How to show dynamic bonds? Axel Kohlmeyer (Thu Jan 06 2011 - 08:27:52 CST)
(no subject) Sibel Cakan (Mon Jan 03 2011 - 04:15:23 CST)
- Re: Axel Kohlmeyer (Mon Jan 03 2011 - 05:04:23 CST)
the IR spetra calculation module - from MD trajectory Jun Zhao (Sat Jan 01 2011 - 15:12:48 CST)
- Re: the IR spetra calculation module - from MD trajectory Axel Kohlmeyer (Sat Jan 01 2011 - 16:09:04 CST)
Re: how to make the picture size suitable for the image size in pov file ? Cun Zhang (Fri Dec 31 2010 - 20:08:42 CST)
Running Namd in Window zizi moradi (Fri Dec 31 2010 - 18:34:43 CST)
- Re: Running Namd in Window John Stone (Mon Jan 03 2011 - 13:46:34 CST)
error in the conversion of dcd to pdb files Ramya Narasimhan (Fri Dec 31 2010 - 04:11:06 CST)
- Re: error in the conversion of dcd to pdb files Axel Kohlmeyer (Fri Dec 31 2010 - 04:54:08 CST)
  - Re: error in the conversion of dcd to pdb files Ramya Narasimhan (Sun Jan 02 2011 - 23:50:43 CST)
    - Re: error in the conversion of dcd to pdb files Axel Kohlmeyer (Mon Jan 03 2011 - 04:58:45 CST)
how to make the picture size suitable for the image size in pov file ? Cun Zhang (Thu Dec 30 2010 - 20:52:14 CST)
Volmap Tool: Angular or spatial correlation function around a center molecule Xijun Wang (Wed Dec 29 2010 - 17:57:56 CST)
- Re: Volmap Tool: Angular or spatial correlation function around a center molecule Axel Kohlmeyer (Thu Dec 30 2010 - 14:53:56 CST)
MOE and NAMD Bharat Kumar (Wed Dec 29 2010 - 09:55:21 CST)
- Re: MOE and NAMD Axel Kohlmeyer (Thu Dec 30 2010 - 14:43:20 CST)
  - Re: MOE and NAMD Bharat Kumar (Thu Dec 30 2010 - 18:31:21 CST)
psfgen or autopsf leila karami (Sun Dec 26 2010 - 08:11:34 CST)
- Re: psfgen or autopsf Axel Kohlmeyer (Sun Dec 26 2010 - 09:25:08 CST)
conversion of gromacs trajectory file (xtc) to amber trajectory file (mdcrd) leila karami (Sat Dec 25 2010 - 09:14:57 CST)
- Re: conversion of gromacs trajectory file (xtc) to amber trajectory file (mdcrd) Axel Kohlmeyer (Sat Dec 25 2010 - 11:20:06 CST)
Bad Length and GLXBadLargeRequest errors Corenflos, Steven (Wed Dec 22 2010 - 15:57:58 CST)
- Re: Bad Length and GLXBadLargeRequest errors Axel Kohlmeyer (Thu Dec 23 2010 - 04:01:03 CST)
Re: regarding counting water molecules Joshua Adelman (Wed Dec 22 2010 - 07:26:33 CST)
consultation about metal_enviroment.tcl ÅÓ´ºÀö (Wed Dec 22 2010 - 03:30:20 CST)
- Re: consultation about metal_enviroment.tcl Dong Luo (Wed Dec 22 2010 - 09:45:19 CST)
"Hands-On" Workshop on Computational Biophysics, March 21-25, 2011, Atlanta, GA, USA David Brandon (Tue Dec 21 2010 - 14:38:16 CST)
rmsd with 2 different structures using serial numbers Lisa Perez (Tue Dec 21 2010 - 13:30:33 CST)
- Re: rmsd with 2 different structures using serial numbers Lisa Perez (Tue Dec 21 2010 - 14:38:48 CST)
  - Re: rmsd with 2 different structures using serial numbers JC Gumbart (Tue Dec 21 2010 - 21:40:43 CST)
    - Re: rmsd with 2 different structures using serial numbers Lisa Perez (Wed Dec 22 2010 - 11:43:28 CST)
    - Re: rmsd with 2 different structures using serial numbers JC Gumbart (Wed Dec 22 2010 - 18:07:46 CST)
autopsf error: failed on end of segment Francesco Pietra (Tue Dec 21 2010 - 11:49:14 CST)
- Fwd: autopsf error: failed on end of segment Francesco Pietra (Wed Dec 22 2010 - 00:50:35 CST)
  - Re: Fwd: autopsf error: failed on end of segment Dong Luo (Wed Dec 22 2010 - 09:51:39 CST)
  - Re: Fwd: autopsf error: failed on end of segment Jim Phillips (Tue Dec 28 2010 - 17:03:41 CST)
    - Re: Fwd: autopsf error: failed on end of segment Peter Freddolino (Tue Dec 28 2010 - 19:01:22 CST)
Installing vmd-1.8.7 on LINUXAMD64 Michael Mwalaba (Tue Dec 21 2010 - 08:01:18 CST)
- Re: Installing vmd-1.8.7 on LINUXAMD64 Axel Kohlmeyer (Tue Dec 21 2010 - 08:49:30 CST)
RMSD and PSF generation Bharat Kumar (Mon Dec 20 2010 - 21:29:48 CST)
- Re: RMSD and PSF generation Hurt, Darrell (NIH/NIAID) [E] (Tue Dec 21 2010 - 11:18:00 CST)
selection of amino acids with certain distance each others leila karami (Sun Dec 19 2010 - 13:00:23 CST)
- Re: selection of amino acids with certain distance each others Axel Kohlmeyer (Sun Dec 19 2010 - 13:59:02 CST)
  - Re: selection of amino acids with certain distance each others Francesco Oteri (Sun Dec 19 2010 - 14:39:53 CST)
- Re: selection of amino acids with certain distance each others Ajasja LjubetiÄ (Sun Dec 19 2010 - 14:07:03 CST)
- Re: selection of amino acids with certain distance each others Joshua Adelman (Sun Dec 19 2010 - 15:00:40 CST)
xterm zaizhi lai (Fri Dec 17 2010 - 18:52:30 CST)
- Re: xterm Axel Kohlmeyer (Sat Dec 18 2010 - 04:42:42 CST)
delete water molecules siddesh southekal (Fri Dec 17 2010 - 07:18:17 CST)
- Re: delete water molecules Ajasja LjubetiÄ (Fri Dec 17 2010 - 08:29:52 CST)
  - Re: delete water molecules Joshua Adelman (Fri Dec 17 2010 - 10:31:41 CST)
    - Re: delete water molecules siddesh southekal (Sat Dec 18 2010 - 08:14:25 CST)
    - Re: delete water molecules Joshua Adelman (Sat Dec 18 2010 - 09:07:59 CST)
Save Atom Selection to DCD David Huggins (Wed Dec 15 2010 - 13:46:16 CST)
- Re: Save Atom Selection to DCD Wei Chen (Wed Dec 15 2010 - 14:55:24 CST)
- Re: Save Atom Selection to DCD Axel Kohlmeyer (Thu Dec 16 2010 - 04:29:53 CST)
why atom positions are reset after readpsf, coordpdb commands? ºÎØ¹»Ô (Wed Dec 15 2010 - 03:37:53 CST)
- Re: why atom positions are reset after readpsf, coordpdb commands? Erik Nordgren (Thu Dec 16 2010 - 13:25:22 CST)
  - Re: why atom positions are reset after readpsf, coordpdb commands? Jim Phillips (Fri Dec 17 2010 - 10:58:39 CST)
problem regarding the MC trajectory Ramya Narasimhan (Wed Dec 15 2010 - 00:41:46 CST)
- Re: problem regarding the MC trajectory John Stone (Wed Dec 15 2010 - 16:25:24 CST)
  - Re: problem regarding the MC trajectory Ramya Narasimhan (Sun Dec 19 2010 - 23:40:19 CST)
Paratool Tutorial Jacqueline Cawthray (Tue Dec 14 2010 - 14:01:59 CST)
Rv: Re: Phonon spectrum and VACF jj mm (Tue Dec 14 2010 - 12:09:38 CST)
- Re: Rv: Re: Phonon spectrum and VACF Axel Kohlmeyer (Tue Dec 14 2010 - 13:08:07 CST)
Adsorption and diffusion candy deck (Tue Dec 14 2010 - 03:38:53 CST)
- Re: Adsorption and diffusion Axel Kohlmeyer (Tue Dec 14 2010 - 04:21:44 CST)
how to measure some constants matziast_at_med.uth.gr (Tue Dec 14 2010 - 03:26:17 CST)
- Re: how to measure some constants Axel Kohlmeyer (Tue Dec 14 2010 - 04:13:41 CST)
load of information on B factor as independent file JhonY. I. (Tue Dec 14 2010 - 00:55:12 CST)
- Re: load of information on B factor as independent file Ajasja LjubetiÄ (Tue Dec 14 2010 - 02:38:42 CST)
- Re: load of information on B factor as independent file Axel Kohlmeyer (Tue Dec 14 2010 - 02:33:54 CST)
HBONDS bug? Nicolas Tilmans (Mon Dec 13 2010 - 15:21:20 CST)
- Re: HBONDS bug? Axel Kohlmeyer (Tue Dec 14 2010 - 02:36:38 CST)
automatic PSF builder leila karami (Mon Dec 13 2010 - 02:22:19 CST)
Using LES with solvated, ionized protein Jacqueline Cawthray (Sun Dec 12 2010 - 18:38:18 CST)
- Re: Using LES with solvated, ionized protein Jim Phillips (Tue Dec 28 2010 - 16:52:12 CST)
automatic PSF builder leila karami (Sun Dec 12 2010 - 08:25:03 CST)
- Re: automatic PSF builder Francesco Oteri (Sun Dec 12 2010 - 10:00:52 CST)
- Re: automatic PSF builder Axel Kohlmeyer (Mon Dec 13 2010 - 04:03:50 CST)
color change on atoms selected using mouse JhonY. I. (Thu Dec 09 2010 - 10:11:35 CST)
- Re: color change on atoms selected using mouse Axel Kohlmeyer (Thu Dec 09 2010 - 11:04:44 CST)
Plotting potential energy Joyce Tan (Thu Dec 09 2010 - 03:36:19 CST)
- Re: Plotting potential energy Axel Kohlmeyer (Thu Dec 09 2010 - 05:27:57 CST)
Phonon spectrum and VACF jj mm (Thu Dec 09 2010 - 03:11:03 CST)
- Re: Phonon spectrum and VACF Axel Kohlmeyer (Thu Dec 09 2010 - 05:26:13 CST)
Rotation about one axis Sweta Iyer (Wed Dec 08 2010 - 19:43:55 CST)
psfgen 1.4.7 and CMAP extended PSF Gianluca Interlandi (Wed Dec 08 2010 - 19:11:17 CST)
Translating protein along one coordinate Sweta Iyer (Tue Dec 07 2010 - 23:18:41 CST)
- Re: Translating protein along one coordinate John Stone (Thu Dec 09 2010 - 16:25:47 CST)
(no subject) Diehl, Alex (NIH/NCI) [V] (Tue Dec 07 2010 - 14:06:41 CST)
(no subject) Olimpia Popko (Tue Dec 07 2010 - 05:08:50 CST)
- Re: Kirby Vandivort (Tue Dec 07 2010 - 11:15:01 CST)
apocynin/1k4u vani panguluri (Mon Dec 06 2010 - 13:50:06 CST)
- Re: apocynin/1k4u John Stone (Tue Dec 07 2010 - 09:23:57 CST)
  - Re: apocynin/1k4u Ajasja LjubetiÄ (Tue Dec 07 2010 - 10:31:25 CST)
Bug in AutoIMD Tristan Croll (Sun Dec 05 2010 - 21:44:48 CST)
- Re: Bug in AutoIMD John Stone (Thu Dec 09 2010 - 16:42:53 CST)
Bug in AutoIMD Tristan Croll (Sun Dec 05 2010 - 19:42:50 CST)
Membrane Protein Tutorial Bharat Kumar (Sat Dec 04 2010 - 01:42:49 CST)
- Re: Membrane Protein Tutorial Bharat Kumar (Sun Dec 05 2010 - 22:40:28 CST)
  - surface representation question Joseph Bylund (Wed Dec 08 2010 - 12:15:02 CST)
- Re: Membrane Protein Tutorial John Stone (Mon Dec 06 2010 - 09:31:05 CST)
Plot the value of the current frame in the Progress Bar for elapsed Time ABEL Stephane 175950 (Thu Dec 02 2010 - 09:51:44 CST)
- Re: Plot the value of the current frame in the Progress Bar for elapsed Time Axel Kohlmeyer (Thu Dec 02 2010 - 10:47:31 CST)
  - RE : Plot the value of the current frame in the Progress Bar for elapsed Time ABEL Stephane 175950 (Thu Dec 02 2010 - 12:15:22 CST)
    - Re: RE : Plot the value of the current frame in the Progress Bar for elapsed Time Axel Kohlmeyer (Thu Dec 02 2010 - 13:44:37 CST)
generating lipid membrane psf file Patrick Fleming (Thu Dec 02 2010 - 07:15:22 CST)
- Re: generating lipid membrane psf file Axel Kohlmeyer (Thu Dec 02 2010 - 10:39:53 CST)
  - Re: generating lipid membrane psf file Ajasja LjubetiÄ (Sat Dec 04 2010 - 14:57:11 CST)
use gelato render with VMD 1.8.7 for movie ABEL Stephane 175950 (Thu Dec 02 2010 - 06:22:36 CST)
- Re: use gelato render with VMD 1.8.7 for movie John Stone (Fri Dec 03 2010 - 11:55:24 CST)
  - RE : use gelato render with VMD 1.8.7 for movie ABEL Stephane 175950 (Fri Dec 03 2010 - 12:18:26 CST)
    - Re: RE Q?= use gelato render with VMD 1.8.7 for movie John Stone (Fri Dec 03 2010 - 14:17:31 CST)
order of atoms in an improper dihedral matziast_at_med.uth.gr (Thu Dec 02 2010 - 04:10:41 CST)
order of atoms in an improper dihedral matziast_at_med.uth.gr (Thu Dec 02 2010 - 03:31:35 CST)
Output of forces Pletezhov Alexandr (Thu Dec 02 2010 - 03:18:26 CST)
- Re: Output of forces Axel Kohlmeyer (Thu Dec 02 2010 - 04:29:05 CST)
Re: namd-l: wrapping problem Ramya Gamini (Wed Dec 01 2010 - 11:37:26 CST)
- Re: namd-l: wrapping problem Ramya Gamini (Wed Dec 01 2010 - 13:45:25 CST)
Plot a time line in the movie made with VMD ABEL Stephane 175950 (Wed Dec 01 2010 - 11:08:39 CST)
- Re: Plot a time line in the movie made with VMD Bogdan Costescu (Wed Dec 01 2010 - 15:44:56 CST)
  - TR : Plot a time line in the movie made with VMD ABEL Stephane 175950 (Thu Dec 02 2010 - 06:48:01 CST)
namdenergy problem Francesco Oteri (Wed Dec 01 2010 - 06:23:23 CST)
- Re: namdenergy problem Peter Freddolino (Wed Dec 01 2010 - 20:35:52 CST)
per-residue alignment Antonija Tomiæ (Wed Dec 01 2010 - 02:24:33 CST)
- Re: per-residue alignment Toni Giorgino (Fri Dec 10 2010 - 09:05:01 CST)
reading of one frame from DCD file JhonY. I. (Tue Nov 30 2010 - 18:13:14 CST)
- Re: reading of one frame from DCD file Eduard Schreiner (Tue Nov 30 2010 - 19:44:55 CST)
reading of one frame from DCD file JhonY. I. (Tue Nov 30 2010 - 18:12:03 CST)
print numerical values in a Ramachandran plot Rebeca García Fandiño (Tue Nov 30 2010 - 17:01:12 CST)
- Re: print numerical values in a Ramachandran plot Ajasja LjubetiÄ (Wed Dec 01 2010 - 01:54:32 CST)
  - RE: print numerical values in a Ramachandran plot Rebeca García Fandiño (Wed Dec 01 2010 - 09:56:45 CST)
top2psf - bridging_waters.tcl script leila karami (Tue Nov 30 2010 - 00:41:58 CST)
- Time line ABEL Stephane 175950 (Tue Nov 30 2010 - 08:55:05 CST)
- Re: top2psf - bridging_waters.tcl script John Stone (Fri Dec 03 2010 - 12:08:59 CST)
Can VMD build predicted protein structures by homology? Seweryn Bialasiewicz (Mon Nov 29 2010 - 21:43:11 CST)
- Re: Can VMD build predicted protein structures by homology? John Stone (Fri Dec 03 2010 - 12:02:47 CST)
missing fragments in molefacture Irene Newhouse (Mon Nov 29 2010 - 16:08:46 CST)
- Re: missing fragments in molefacture Peter Freddolino (Tue Nov 30 2010 - 19:25:50 CST)
  - RE: missing fragments in molefacture Irene Newhouse (Wed Dec 01 2010 - 00:16:32 CST)
RMSD Question snoze pa (Sun Nov 28 2010 - 11:08:25 CST)
- Re: RMSD Question Germain Salvato Vallverdu (Mon Nov 29 2010 - 02:56:05 CST)
top2psf - bridging_waters.tcl script leila karami (Sat Nov 27 2010 - 06:15:37 CST)
- Re: top2psf - bridging_waters.tcl script John Stone (Mon Nov 29 2010 - 10:32:03 CST)
VASP crystal structure visualisation Germain Salvato Vallverdu (Thu Nov 25 2010 - 08:32:11 CST)
- Re: VASP crystal structure visualisation Ajasja LjubetiÄ (Thu Nov 25 2010 - 14:14:58 CST)
  - Re: VASP crystal structure visualisation Ajasja LjubetiÄ (Thu Nov 25 2010 - 14:57:13 CST)
  - Re: VASP crystal structure visualisation Axel Kohlmeyer (Fri Nov 26 2010 - 16:11:41 CST)
VASP crystal structure visualisation Germain Salvato Vallverdu (Thu Nov 25 2010 - 06:41:35 CST)
- Re: VASP crystal structure visualisation Axel Kohlmeyer (Thu Nov 25 2010 - 17:10:04 CST)
subtlety with PSFGEN - angle/dihedral regeneration Erik Nordgren (Wed Nov 24 2010 - 20:55:06 CST)
average structure/solute and solvent Alex Liu (Wed Nov 24 2010 - 10:19:28 CST)
how to display bond btw backbone atom and sidechain atom ³Ì²ýÀû (Wed Nov 24 2010 - 04:58:37 CST)
- Re: how to display bond btw backbone atom and sidechain atom Axel Kohlmeyer (Wed Nov 24 2010 - 06:07:32 CST)
- Re: how to display bond btw backbone atom and sidechain atom Boris Steipe (Wed Nov 24 2010 - 07:57:41 CST)
Seminars Trainings Christian Wohlschlager (Wed Nov 24 2010 - 02:37:48 CST)
average structure/solute and solvent Alex Liu (Tue Nov 23 2010 - 09:21:31 CST)
radial distribution function from the center of mass David Wedner (Thu Nov 18 2010 - 19:41:56 CST)
- Re: radial distribution function from the center of mass Axel Kohlmeyer (Thu Nov 18 2010 - 20:20:18 CST)
  - Re: radial distribution function from the center of mass Axel Kohlmeyer (Thu Nov 18 2010 - 20:27:55 CST)
.xsf triclinic cell contents Erin L. (Thu Nov 18 2010 - 14:23:06 CST)
- Re: .xsf triclinic cell contents Axel Kohlmeyer (Thu Nov 18 2010 - 15:41:28 CST)
  - Re: .xsf triclinic cell contents Axel Kohlmeyer (Fri Nov 19 2010 - 14:49:31 CST)
does vmd allow change in volume David Wedner (Thu Nov 18 2010 - 12:57:00 CST)
- Re: does vmd allow change in volume Axel Kohlmeyer (Thu Nov 18 2010 - 14:34:29 CST)
tcl script problem using -dispdev text .. Alberto Sergio Garay (Thu Nov 18 2010 - 07:12:46 CST)
- Re: tcl script problem using -dispdev text .. Jérôme Hénin (Thu Nov 18 2010 - 08:07:24 CST)
- Re: tcl script problem using -dispdev text .. Axel Kohlmeyer (Thu Nov 18 2010 - 08:28:41 CST)
  - Re: tcl script problem using -dispdev text .. Alberto Sergio Garay (Fri Nov 19 2010 - 04:33:33 CST)
    - Re: tcl script problem using -dispdev text .. Axel Kohlmeyer (Fri Nov 19 2010 - 06:27:46 CST)
    - Re: tcl script problem using -dispdev text .. John Stone (Fri Nov 19 2010 - 21:40:52 CST)
Test Graphic card performance using VMD as benchmark TRINH Minh Hieu (Thu Nov 18 2010 - 06:18:04 CST)
- Re: Test Graphic card performance using VMD as benchmark Axel Kohlmeyer (Fri Nov 19 2010 - 15:50:23 CST)
Max Characters in Writing Files Michael LeVine (Wed Nov 17 2010 - 15:36:49 CST)
missing operator at _@_in expression "$i _@_$n" ç¨‹æ˜Œåˆ© (Wed Nov 17 2010 - 09:59:16 CST)
- Re: missing operator at _@_in expression "$i _@_$n" Axel Kohlmeyer (Wed Nov 17 2010 - 10:39:07 CST)
  - Re: missing operator at _@_in expression "$i _@_$n" Matt Watkins (Wed Nov 17 2010 - 12:31:51 CST)
atom selection in vmd Alex Liu (Wed Nov 17 2010 - 08:49:55 CST)
- Re: atom selection in vmd Axel Kohlmeyer (Wed Nov 17 2010 - 09:56:35 CST)
  - Re: atom selection in vmd Ignacio Fernández Galván (Wed Nov 17 2010 - 12:30:59 CST)
    - Re: atom selection in vmd Alex Liu (Mon Nov 22 2010 - 16:16:45 CST)
- Re: atom selection in vmd Ajasja LjubetiÄ (Wed Nov 17 2010 - 10:25:55 CST)
Problem With No Atoms In Selection David Huggins (Tue Nov 16 2010 - 14:35:20 CST)
- Re: Problem With No Atoms In Selection John Stone (Tue Nov 16 2010 - 15:33:50 CST)
Re: How to Measure Radius of gyration David Wedner (Tue Nov 16 2010 - 13:24:05 CST)
- Re: How to Measure Radius of gyration John Stone (Tue Nov 16 2010 - 23:33:36 CST)
  - Re: How to Measure Radius of gyration David Wedner (Wed Nov 17 2010 - 18:40:22 CST)
Rendering .dat files created from Movie Maker using Tachyon Truc Kim (Tue Nov 16 2010 - 06:34:12 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon Axel Kohlmeyer (Tue Nov 16 2010 - 10:43:38 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon Eduard Schreiner (Tue Nov 16 2010 - 11:25:07 CST)
  - Re: Rendering .dat files created from Movie Maker using Tachyon Truc Kim (Tue Nov 16 2010 - 22:53:54 CST)
    - Re: Rendering .dat files created from Movie Maker using Tachyon Eduard Schreiner (Tue Nov 16 2010 - 23:39:58 CST)
    - Re: Rendering .dat files created from Movie Maker using Tachyon John Stone (Tue Nov 16 2010 - 23:43:17 CST)
Headtracking software Tamás Borsos (Tue Nov 16 2010 - 04:25:04 CST)
- Re: Headtracking software Ajasja LjubetiÄ (Tue Nov 16 2010 - 09:00:27 CST)
  - Re: Headtracking software Axel Kohlmeyer (Tue Nov 16 2010 - 10:48:32 CST)
- Re: Headtracking software Biff Forbush (Tue Nov 16 2010 - 11:01:00 CST)
- Re: Headtracking software Biff Forbush (Tue Nov 16 2010 - 12:37:21 CST)
- Re: Headtracking software John Stone (Tue Nov 16 2010 - 15:23:14 CST)
- PMF vs distance plot from isosurface Aaron Oakley (Tue Dec 14 2010 - 22:17:48 CST)
question on color assignment on trajectories JhonY. I. (Mon Nov 15 2010 - 20:29:49 CST)
- Re: question on color assignment on trajectories Axel Kohlmeyer (Mon Nov 15 2010 - 22:06:45 CST)
Background gradient in image quantrum75 (Mon Nov 15 2010 - 15:45:43 CST)
- Re: Background gradient in image Axel Kohlmeyer (Mon Nov 15 2010 - 16:48:25 CST)
Measure Radius of gyration David Wedner (Mon Nov 15 2010 - 12:31:15 CST)
- Re: Measure Radius of gyration Eduard Schreiner (Mon Nov 15 2010 - 13:47:16 CST)
- Water molecules within a definite radius quantrum75 (Mon Nov 15 2010 - 15:26:18 CST)
  - Re: Water molecules within a definite radius Axel Kohlmeyer (Mon Nov 15 2010 - 16:22:49 CST)
  - Re: Water molecules within a definite radius Joshua Adelman (Mon Nov 15 2010 - 17:06:05 CST)
How to change atom type and make it take effect immediately ï¼Ÿ Cun Zhang (Sat Nov 13 2010 - 08:17:24 CST)
Interactive MD driver/controller software no longer in beta Axel Kohlmeyer (Fri Nov 12 2010 - 09:41:59 CST)
vmd-I:Hbonds nataliaperez_at_infomed.sld.cu (Thu Nov 11 2010 - 10:53:57 CST)
- Re: vmd-I:Hbonds John Stone (Thu Nov 11 2010 - 11:07:55 CST)
vmd-I:Hbonds nataliaperez_at_infomed.sld.cu (Thu Nov 11 2010 - 08:59:11 CST)
POV renderer and volume coloring problem Guido Polles (Thu Nov 11 2010 - 05:33:00 CST)
- Re: POV renderer and volume coloring problem John Stone (Thu Nov 11 2010 - 07:53:50 CST)
Ions conversion from atomic model to coarse grained model ÖÜÎÄ²ý (Wed Nov 10 2010 - 11:41:41 CST)
k3b also launches vmd Francesco Pietra (Wed Nov 10 2010 - 03:05:03 CST)
- Re: k3b also launches vmd John Stone (Wed Nov 10 2010 - 10:47:01 CST)
  - Re: k3b also launches vmd Francesco Pietra (Wed Nov 10 2010 - 13:33:43 CST)
    - Re: k3b also launches vmd Francesco Pietra (Thu Nov 11 2010 - 02:10:36 CST)
dynamic atom selection Stephen Cox (Tue Nov 09 2010 - 07:11:58 CST)
- Re: dynamic atom selection Leonardo Trabuco (Tue Nov 09 2010 - 08:01:15 CST)
  - Re: dynamic atom selection Axel Kohlmeyer (Tue Nov 09 2010 - 11:06:31 CST)
- Re: dynamic atom selection Ajasja LjubetiÄ (Tue Nov 09 2010 - 08:06:58 CST)
- Re: dynamic atom selection Axel Kohlmeyer (Tue Nov 09 2010 - 08:10:49 CST)
- Re: dynamic atom selection Jérôme Hénin (Tue Nov 09 2010 - 08:28:49 CST)
3D protein visualization quantrum75 (Mon Nov 08 2010 - 12:37:50 CST)
- Re: 3D protein visualization Axel Kohlmeyer (Mon Nov 08 2010 - 13:22:50 CST)
  - Re: 3D protein visualization Ajasja LjubetiÄ (Mon Nov 08 2010 - 15:10:33 CST)
  - Re: 3D protein visualization Deepangi Pandit (Mon Nov 08 2010 - 15:59:08 CST)
    - Re: 3D protein visualization John Stone (Mon Nov 08 2010 - 16:33:55 CST)
- Re: 3D protein visualization John Stone (Mon Nov 08 2010 - 16:31:45 CST)
  - Re: 3D protein visualization quantrum75 (Mon Nov 08 2010 - 17:31:55 CST)
    - Re: 3D protein visualization Joseph Bylund (Mon Nov 08 2010 - 18:39:42 CST)
    - Re: 3D protein visualization Ignacio Fernández Galván (Tue Nov 09 2010 - 03:05:03 CST)
Graphics card for VMD, number of atoms, file format Prskalo, Alen-Pilip (Mon Nov 08 2010 - 11:38:22 CST)
- Re: Graphics card for VMD, number of atoms, file format Axel Kohlmeyer (Mon Nov 08 2010 - 12:38:46 CST)
  - RE: Graphics card for VMD, number of atoms, file format Prskalo, Alen-Pilip (Tue Nov 09 2010 - 10:43:08 CST)
    - RE: Graphics card for VMD, number of atoms, file format Axel Kohlmeyer (Tue Nov 09 2010 - 10:51:32 CST)
    - Re: Graphics card for VMD, number of atoms, file format John Stone (Tue Nov 09 2010 - 11:16:54 CST)
- Re: Graphics card for VMD, number of atoms, file format Andrew (Mon Nov 08 2010 - 14:29:07 CST)
Script for counting water molecules aneesh cna (Mon Nov 08 2010 - 07:06:33 CST)
- Re: Script for counting water molecules Joshua Adelman (Mon Nov 08 2010 - 15:26:02 CST)
Building a membrane from a individual surfactant molecule surendra jain (Mon Nov 08 2010 - 06:27:02 CST)
fit.tcl divya nayar (Mon Nov 08 2010 - 03:01:14 CST)
- Re: fit.tcl Bo Liu (Mon Nov 08 2010 - 09:23:24 CST)
VMD: Ability to add terminal carbonyl oxygen Amor San Juan (Sun Nov 07 2010 - 23:32:20 CST)
regarding merging of protein and a ligand vani panguluri (Sat Nov 06 2010 - 15:43:13 CDT)
- Re: regarding merging of protein and a ligand Axel Kohlmeyer (Sat Nov 06 2010 - 16:54:53 CDT)
- Re: regarding merging of protein and a ligand Joshua Adelman (Sat Nov 06 2010 - 18:03:19 CDT)
rgyr calculation problem Branko (Fri Nov 05 2010 - 16:21:05 CDT)
- Re: rgyr calculation problem Axel Kohlmeyer (Fri Nov 05 2010 - 17:09:31 CDT)
DCD write/save with a python script David Huggins (Fri Nov 05 2010 - 14:58:18 CDT)
dtr plugin: does it work for forces traj? Edward Lyman (Fri Nov 05 2010 - 11:03:55 CDT)
- Re: dtr plugin: does it work for forces traj? John Stone (Wed Nov 10 2010 - 13:22:07 CST)
Release of R.E.D. Server 2.0 FyD (Thu Nov 04 2010 - 04:50:36 CDT)
Web Portal NAMD Job Visualisation...possibilities? Heidi Perrett (Wed Nov 03 2010 - 22:15:38 CDT)
- Re: Web Portal NAMD Job Visualisation...possibilities? John Stone (Wed Nov 03 2010 - 22:54:44 CDT)
Regarding merging of two files vani panguluri (Wed Nov 03 2010 - 12:18:16 CDT)
- Re: Regarding merging of two files John Stone (Wed Nov 03 2010 - 13:03:11 CDT)
  - Re: Regarding merging of two files vani panguluri (Wed Nov 03 2010 - 13:30:40 CDT)
    - Re: Regarding merging of two files John Stone (Wed Nov 03 2010 - 13:40:30 CDT)
- Re: Regarding merging of two files Joseph Bylund (Wed Nov 03 2010 - 13:08:21 CDT)
- Re: Regarding merging of two files Joshua Adelman (Wed Nov 03 2010 - 13:44:08 CDT)
Running VMD from the terminal on MacBook Pro Steven S Plotkin (Wed Nov 03 2010 - 08:25:15 CDT)
- Re: Running VMD from the terminal on MacBook Pro Leonardo Trabuco (Wed Nov 03 2010 - 08:37:44 CDT)
  - Re: Running VMD from the terminal on MacBook Pro Steven S Plotkin (Wed Nov 03 2010 - 11:30:51 CDT)
- Re: Running VMD from the terminal on MacBook Pro Shore, Jay (Wed Nov 03 2010 - 10:52:49 CDT)
Asymmetric water molecule Stefan Franzen (Wed Nov 03 2010 - 02:11:22 CDT)
- Re: Asymmetric water molecule Jérôme Hénin (Wed Nov 03 2010 - 05:03:40 CDT)
Text command for isosurface Thomas Steinbrecher (Wed Nov 03 2010 - 01:51:37 CDT)
- Re: Text command for isosurface Leonardo Trabuco (Wed Nov 03 2010 - 02:13:15 CDT)
rmsd divya nayar (Tue Nov 02 2010 - 11:53:26 CDT)
- Re: rmsd Eduard Schreiner (Tue Nov 02 2010 - 13:01:09 CDT)
vmd: Saving output Christian Jorgensen (Mon Nov 01 2010 - 04:30:03 CDT)
- Re: vmd: Saving output Ajasja LjubetiÄ (Mon Nov 01 2010 - 06:00:58 CDT)
VMD text mode/unwrap Parisa Akhski (Sun Oct 31 2010 - 19:53:47 CDT)
- Re: VMD text mode/unwrap Jérôme Hénin (Mon Nov 01 2010 - 05:12:59 CDT)
  - RE: VMD text mode/unwrap Parisa Akhski (Mon Nov 01 2010 - 21:40:11 CDT)
    - Re: VMD text mode/unwrap Axel Kohlmeyer (Tue Nov 02 2010 - 08:43:42 CDT)
Where to download Hbond plugin surendra jain (Sat Oct 30 2010 - 07:52:15 CDT)
- Re: Where to download Hbond plugin Axel Kohlmeyer (Sat Oct 30 2010 - 11:01:01 CDT)
  - Re: Where to download Hbond plugin surendra jain (Sun Oct 31 2010 - 03:27:16 CDT)
    - Re: Where to download Hbond plugin Ajasja LjubetiÄ (Sun Oct 31 2010 - 05:50:10 CDT)
Contour plots for XYZ format Wang Xianqiao (Fri Oct 29 2010 - 23:47:51 CDT)
- Re: Contour plots for XYZ format Axel Kohlmeyer (Sat Oct 30 2010 - 10:56:04 CDT)
  - Re: Contour plots for XYZ format Wang Xianqiao (Sat Oct 30 2010 - 19:02:25 CDT)
    - Re: Contour plots for XYZ format Axel Kohlmeyer (Sat Oct 30 2010 - 19:17:46 CDT)
vmd: Tcl script help Christian Jorgensen (Fri Oct 29 2010 - 14:06:59 CDT)
- Re: vmd: Tcl script help Ajasja LjubetiÄ (Fri Oct 29 2010 - 15:10:54 CDT)
  - Re: vmd: Tcl script help Jérôme Hénin (Sat Oct 30 2010 - 12:47:22 CDT)
namd-I : Constraint failure in RATTLE algorithm for atom 268 surendra jain (Thu Oct 28 2010 - 23:39:30 CDT)
- Re: namd-I : Constraint failure in RATTLE algorithm for atom 268 Ajasja LjubetiÄ (Fri Oct 29 2010 - 01:41:51 CDT)
PBC wrap on hexagonal periodic cells OPC3_at_pitt.edu (Thu Oct 28 2010 - 12:12:51 CDT)
Possible bug in freeing global selections Ajasja LjubetiÄ (Thu Oct 28 2010 - 06:56:02 CDT)
- Re: Possible bug in freeing global selections Ajasja LjubetiÄ (Thu Oct 28 2010 - 08:16:14 CDT)
- Re: Possible bug in freeing global selections Axel Kohlmeyer (Thu Oct 28 2010 - 09:22:13 CDT)
  - Re: Possible bug in freeing global selections Ajasja LjubetiÄ (Thu Oct 28 2010 - 13:05:33 CDT)
    - Re: Possible bug in freeing global selections Axel Kohlmeyer (Thu Oct 28 2010 - 13:11:30 CDT)
    - Re: Possible bug in freeing global selections Ajasja LjubetiÄ (Thu Oct 28 2010 - 17:23:16 CDT)
menus unresponsive in ubuntu 10.10 Andrew Jewett (Thu Oct 28 2010 - 02:42:15 CDT)
- Re: menus unresponsive in ubuntu 10.10 John Stone (Fri Oct 29 2010 - 09:28:23 CDT)
  - Re: menus unresponsive in ubuntu 10.10 Andrew Jewett (Sat Oct 30 2010 - 02:22:06 CDT)
    - Re: menus unresponsive in ubuntu 10.10 Axel Kohlmeyer (Sat Oct 30 2010 - 10:58:17 CDT)
    - Re: menus unresponsive in ubuntu 10.10 Andrew Jewett (Sun Oct 31 2010 - 18:55:33 CDT)
Water mediated hydrogen bond - VMD script ban arn (Tue Oct 26 2010 - 13:31:42 CDT)
Algorithm for RMSD and alignment Ignacio Fernández Galván (Tue Oct 26 2010 - 11:47:18 CDT)
How to delete a residue Kshatresh Dutta Dubey (Tue Oct 26 2010 - 00:51:45 CDT)
- Re: How to delete a residue John Stone (Wed Oct 27 2010 - 12:53:23 CDT)
RDF calculation sarah k (Mon Oct 25 2010 - 10:21:40 CDT)
- Re: RDF calculation Ramya Gamini (Mon Oct 25 2010 - 11:44:58 CDT)
Reading MatStudio/ LAMMPS structures to VMD Aric Newton (Sat Oct 23 2010 - 18:45:06 CDT)
- Re: Reading MatStudio/ LAMMPS structures to VMD Axel Kohlmeyer (Sun Oct 24 2010 - 17:02:38 CDT)
  - Re: Reading MatStudio/ LAMMPS structures to VMD Axel Kohlmeyer (Tue Oct 26 2010 - 09:43:48 CDT)
  - Re: Reading MatStudio/ LAMMPS structures to VMD Aric Newton (Fri Oct 29 2010 - 09:16:30 CDT)
    - Re: Reading MatStudio/ LAMMPS structures to VMD Axel Kohlmeyer (Fri Oct 29 2010 - 11:37:11 CDT)
Adding cadmium into protein Joyce Tan (Wed Oct 20 2010 - 01:55:36 CDT)
- Re: Adding cadmium into protein John Stone (Wed Oct 20 2010 - 10:23:25 CDT)
problem at convert single trajectory frame to pdb Joyce Tan (Tue Oct 19 2010 - 10:36:43 CDT)
- Re: problem at convert single trajectory frame to pdb John Stone (Tue Oct 19 2010 - 10:45:43 CDT)
  - Re: problem at convert single trajectory frame to pdb Joyce Tan (Tue Oct 19 2010 - 11:04:36 CDT)
- Re: problem at convert single trajectory frame to pdb Nicholas Musolino (Tue Oct 19 2010 - 12:10:51 CDT)
Vega ZZ DCD trajectory crashes VMD Ajasja LjubetiÄ (Tue Oct 19 2010 - 09:21:44 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD John Stone (Tue Oct 19 2010 - 10:39:50 CDT)
  - Re: Vega ZZ DCD trajectory crashes VMD John Stone (Tue Oct 19 2010 - 11:07:27 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD Axel Kohlmeyer (Tue Oct 19 2010 - 11:02:34 CDT)
  - Re: Vega ZZ DCD trajectory crashes VMD John Stone (Tue Oct 19 2010 - 11:28:45 CDT)
    - Re: Vega ZZ DCD trajectory crashes VMD Ajasja LjubetiÄ (Tue Oct 19 2010 - 11:56:26 CDT)
    - Re: Vega ZZ DCD trajectory crashes VMD Ajasja LjubetiÄ (Tue Nov 09 2010 - 06:56:26 CST)
Novint Falcon Christian Wohlschlager (Tue Oct 19 2010 - 07:22:21 CDT)
- Re: Novint Falcon Axel Kohlmeyer (Tue Oct 19 2010 - 08:19:49 CDT)
PCA analysis of NAMD dcd files surendra jain (Tue Oct 19 2010 - 04:58:47 CDT)
- Re: PCA analysis of NAMD dcd files Joshua Adelman (Tue Oct 19 2010 - 07:30:16 CDT)
Best way for model post processing? Steve Jensen (Sun Oct 17 2010 - 23:22:14 CDT)
- Re: Best way for model post processing? Axel Kohlmeyer (Mon Oct 18 2010 - 12:11:55 CDT)
Select non-redundant set using struture Qr not working Raul Araya (Sun Oct 17 2010 - 18:52:00 CDT)
- Re: Select non-redundant set using struture Qr not working Kirby Vandivort (Tue Oct 19 2010 - 11:54:26 CDT)
psf format masoumeh ozmaeian (Sun Oct 17 2010 - 02:26:04 CDT)
- Re: psf format Axel Kohlmeyer (Sun Oct 17 2010 - 13:36:34 CDT)
  - Re: psf format masoumeh ozmaeian (Sun Oct 31 2010 - 13:37:18 CDT)
    - Re: psf format Axel Kohlmeyer (Sun Oct 31 2010 - 13:54:12 CDT)
Memory leak with "mol modselect" and index TRINH Minh Hieu (Sat Oct 16 2010 - 20:11:16 CDT)
- Re: Memory leak with "mol modselect" and index Axel Kohlmeyer (Sun Oct 17 2010 - 13:29:22 CDT)
  - Re: Memory leak with "mol modselect" and index TRINH Minh Hieu (Sun Oct 17 2010 - 13:43:40 CDT)
    - Re: Memory leak with "mol modselect" and index John Stone (Sun Oct 17 2010 - 15:52:47 CDT)
test masoumeh ozmaeian (Sat Oct 16 2010 - 14:26:58 CDT)
setenv: Too many arguments Balazs Jojart (Fri Oct 15 2010 - 16:34:52 CDT)
- Re: setenv: Too many arguments John Stone (Fri Oct 15 2010 - 16:42:00 CDT)
  - Re: setenv: Too many arguments Balazs Jojart (Sat Oct 16 2010 - 00:53:21 CDT)
Bond Colors Brooke Dallas (Wed Oct 13 2010 - 08:46:36 CDT)
- Re: Bond Colors Axel Kohlmeyer (Wed Oct 13 2010 - 09:41:00 CDT)
  - Re: Bond Colors Brooke Dallas (Wed Oct 13 2010 - 11:31:16 CDT)
IED 2.02 and VMD 1.8.7 Birgitte Maria Elisabeth Brydsoe (Wed Oct 13 2010 - 08:33:00 CDT)
- Re: IED 2.02 and VMD 1.8.7 Axel Kohlmeyer (Wed Oct 13 2010 - 09:23:19 CDT)
  - Re: IED 2.02 and VMD 1.8.7 Birgitte Maria Elisabeth Brydsoe (Wed Oct 13 2010 - 09:28:13 CDT)
- Re: IED 2.02 and VMD 1.8.7 Hannes Loeffler (Wed Oct 13 2010 - 09:24:33 CDT)
  - Re: IED 2.02 and VMD 1.8.7 Birgitte Maria Elisabeth Brydsoe (Wed Oct 13 2010 - 09:47:39 CDT)
  - Re: IED 2.02 and VMD 1.8.7 Jérôme Hénin (Wed Oct 13 2010 - 16:33:02 CDT)
    - Re: IED 2.02 and VMD 1.8.7 Jérôme Hénin (Wed Nov 03 2010 - 05:44:06 CDT)
    - Re: IED 2.02 and VMD 1.8.7 Vlad Cojocaru (Mon Dec 20 2010 - 09:31:41 CST)
Selecting by X-coordinate Keith Battle (Tue Oct 12 2010 - 17:31:02 CDT)
- Re: Selecting by X-coordinate John Stone (Tue Oct 12 2010 - 17:43:19 CDT)
  - Re: Selecting by X-coordinate Keith Battle (Tue Oct 12 2010 - 18:00:35 CDT)
Real-time ambient occlusion lighting Ajasja LjubetiÄ (Tue Oct 12 2010 - 15:54:00 CDT)
- Re: Real-time ambient occlusion lighting John Stone (Tue Oct 12 2010 - 16:24:42 CDT)
  - Re: Real-time ambient occlusion lighting Boris Steipe (Tue Oct 12 2010 - 19:07:16 CDT)
    - Re: Real-time ambient occlusion lighting John Stone (Tue Oct 12 2010 - 19:58:12 CDT)
  - Re: Real-time ambient occlusion lighting Ajasja LjubetiÄ (Wed Oct 13 2010 - 06:01:01 CDT)
Combined "Within" atom selection jonathan (Mon Oct 11 2010 - 11:59:08 CDT)
- Re: Combined "Within" atom selection John Stone (Tue Oct 12 2010 - 14:59:44 CDT)
How to stop a script (eg : source myscript.tcl) ? TRINH Minh Hieu (Mon Oct 11 2010 - 07:34:31 CDT)
- Re: How to stop a script (eg : source myscript.tcl) ? Axel Kohlmeyer (Mon Oct 11 2010 - 09:23:14 CDT)
  - Re: How to stop a script (eg : source myscript.tcl) ? TRINH Minh Hieu (Tue Oct 12 2010 - 02:20:19 CDT)
    - C-terminus link to side chain amine Al-Ali, Hassan (Tue Oct 12 2010 - 08:33:46 CDT)
Re: psf gen charmm format Hannes Loeffler (Mon Oct 11 2010 - 07:25:58 CDT)
Orientation an rotation of molecules in a movie Daniel Hornburg (Sat Oct 09 2010 - 07:26:21 CDT)
- Re: Orientation an rotation of molecules in a movie John Stone (Tue Oct 12 2010 - 15:04:26 CDT)
Link Patch? Al-Ali, Hassan (Fri Oct 08 2010 - 23:39:15 CDT)
Ubiquitin - patch? Al-Ali, Hassan (Thu Oct 07 2010 - 22:33:23 CDT)
- RE: Ubiquitin - patch? JC Gumbart (Thu Oct 07 2010 - 23:14:10 CDT)
(no subject) Kei Sit (Thu Oct 07 2010 - 21:03:31 CDT)
- RE: JC Gumbart (Thu Oct 07 2010 - 23:19:28 CDT)
patch CT3 and ACE problems in PSFGEN Markus K. Dahlgren (Thu Oct 07 2010 - 15:11:52 CDT)
- Re: patch CT3 and ACE problems in PSFGEN JC Gumbart (Thu Oct 07 2010 - 19:01:15 CDT)
  - Re: patch CT3 and ACE problems in PSFGEN Markus K. Dahlgren (Fri Oct 08 2010 - 11:32:02 CDT)
    - Re: patch CT3 and ACE problems in PSFGEN JC Gumbart (Fri Oct 08 2010 - 19:25:12 CDT)
missing frames in trajectory file Parisa Akhski (Wed Oct 06 2010 - 17:49:29 CDT)
- Re: missing frames in trajectory file John Stone (Tue Oct 12 2010 - 15:28:06 CDT)
  - RE: missing frames in trajectory file Parisa Akhski (Tue Oct 12 2010 - 16:33:12 CDT)
membrane_problem lara lara (Wed Oct 06 2010 - 00:29:39 CDT)
aligning- on top of the bilayer lara lara (Wed Oct 06 2010 - 00:11:00 CDT)
K-linked Ub, ACE patch, and autoPSF Al-Ali, Hassan (Tue Oct 05 2010 - 22:49:42 CDT)
K-linked Ub, ACE patch, and autoPSF Al-Ali, Hassan (Tue Oct 05 2010 - 22:49:37 CDT)
K-linked Ub, ACE patch, and autoPSF Al-Ali, Hassan (Tue Oct 05 2010 - 22:49:34 CDT)
Query regarding RMSD calculcation hirdesh kumar (Tue Oct 05 2010 - 00:50:32 CDT)
- Re: Query regarding RMSD calculcation John Stone (Tue Oct 12 2010 - 15:25:35 CDT)
trouble with measure hbonds Charlotte Siska (Mon Oct 04 2010 - 15:01:36 CDT)
- Re: trouble with measure hbonds Eduard Schreiner (Mon Oct 04 2010 - 15:53:17 CDT)
- Re: trouble with measure hbonds Axel Kohlmeyer (Mon Oct 04 2010 - 16:02:13 CDT)
- RE: trouble with measure hbonds Pat Yee (Mon Oct 04 2010 - 17:09:42 CDT)
  - Re: RE: trouble with measure hbonds charbott_at_gmail.com (Tue Oct 05 2010 - 10:35:14 CDT)
    - Re: RE: trouble with measure hbonds Eduard Schreiner (Tue Oct 05 2010 - 11:33:03 CDT)
Loading DCD Frames in Python David Huggins (Sat Oct 02 2010 - 05:16:05 CDT)
- Re: Loading DCD Frames in Python Cun Zhang (Sun Oct 03 2010 - 00:39:53 CDT)
load-traj for three dimensions Stefan Franzen (Fri Oct 01 2010 - 13:35:55 CDT)
Interaction Energy Using Python David Huggins (Wed Sep 29 2010 - 11:04:25 CDT)
- Re: Interaction Energy Using Python John Stone (Tue Oct 12 2010 - 15:34:49 CDT)
  - Re: Interaction Energy Using Python David Huggins (Wed Oct 13 2010 - 08:48:12 CDT)
    - Re: Interaction Energy Using Python John Stone (Fri Oct 15 2010 - 13:57:51 CDT)
IR Spectra plugin Agarwal, Silvi (Wed Sep 29 2010 - 10:59:59 CDT)
- Re: IR Spectra plugin Axel Kohlmeyer (Wed Sep 29 2010 - 12:03:13 CDT)
Solvent accessible surface area change during MD run hirdesh kumar (Tue Sep 28 2010 - 04:54:14 CDT)
- Re: Solvent accessible surface area change during MD run John Stone (Tue Sep 28 2010 - 10:53:46 CDT)
- Re: Solvent accessible surface area change during MD run Pat Yee (Fri Oct 01 2010 - 19:33:41 CDT)
Check out my photos on Facebook Aneesh Cna (Tue Sep 28 2010 - 04:27:52 CDT)
Water-mediated hydrogen bonds ban arn (Tue Sep 28 2010 - 04:19:30 CDT)
missing atoms yan zhang (Mon Sep 27 2010 - 08:42:07 CDT)
- Re: missing atoms Axel Kohlmeyer (Mon Sep 27 2010 - 10:29:25 CDT)
protein breaks into parts after converting trajectory file to pdb file Joyce Tan (Mon Sep 27 2010 - 04:58:48 CDT)
- Re: protein breaks into parts after converting trajectory file to pdb file Axel Kohlmeyer (Mon Sep 27 2010 - 10:32:58 CDT)
- Re: protein breaks into parts after converting trajectory file to pdb file Cun Zhang (Mon Sep 27 2010 - 20:17:33 CDT)
Experience with Asus Netbook Gianluca Interlandi (Sun Sep 26 2010 - 14:01:40 CDT)
- Re: Experience with Asus Netbook John Stone (Tue Sep 28 2010 - 10:45:08 CDT)
  - Re: Experience with Asus Netbook Thomas C. Bishop (Tue Sep 28 2010 - 14:20:46 CDT)
    - Re: Experience with Asus Netbook Gianluca Interlandi (Tue Sep 28 2010 - 15:19:47 CDT)
- Re: Experience with Asus Netbook TRINH Minh Hieu (Wed Sep 29 2010 - 12:59:46 CDT)
  - Re: Re: Experience with Asus Netbook Gianluca Interlandi (Wed Sep 29 2010 - 15:18:53 CDT)
implicit ligand sampling Marc Zimmer (Sat Sep 25 2010 - 06:26:24 CDT)
Weird bonds in water box/sphere Sujata Sovani (Fri Sep 24 2010 - 18:51:27 CDT)
IED/Tkinter problems Birgitte Maria Elisabeth Brydsoe (Fri Sep 24 2010 - 09:13:43 CDT)
wheris sculptor.tcl Christian Wohlschlager (Fri Sep 24 2010 - 05:39:50 CDT)
about psfgen patch Zhang, Jiong (MU-Student) (Thu Sep 23 2010 - 09:20:39 CDT)
- Re: about psfgen patch Jérôme Hénin (Thu Sep 23 2010 - 11:58:38 CDT)
Clarification on solvent box sizing Ian Stokes-Rees (Wed Sep 22 2010 - 14:42:30 CDT)
write pdbs of selected frames of a trajectory Katherine Parra (Wed Sep 22 2010 - 14:05:58 CDT)
- Re: write pdbs of selected frames of a trajectory Eduard Schreiner (Wed Sep 22 2010 - 15:09:14 CDT)
- Re: write pdbs of selected frames of a trajectory Joshua Adelman (Wed Sep 22 2010 - 15:52:11 CDT)
  - Re: write pdbs of selected frames of a trajectory Jérôme Hénin (Thu Sep 23 2010 - 03:55:43 CDT)
superimpose residues across several protein structures Joyce Tan (Wed Sep 22 2010 - 08:02:18 CDT)
- Re: superimpose residues across several protein structures Eduard Schreiner (Wed Sep 22 2010 - 08:52:20 CDT)
  - Re: superimpose residues across several protein structures Joyce Tan (Wed Sep 22 2010 - 10:20:00 CDT)
- Re: superimpose residues across several protein structures Ajasja LjubetiÄ (Wed Sep 22 2010 - 08:57:04 CDT)
ppmtompeg Carla Jamous (Wed Sep 22 2010 - 07:52:42 CDT)
- Re: ppmtompeg Axel Kohlmeyer (Wed Sep 22 2010 - 10:54:35 CDT)
psf gen charmm format Jorgen Simonsen (Wed Sep 22 2010 - 06:18:45 CDT)
- Re: psf gen charmm format John Stone (Wed Oct 20 2010 - 13:57:18 CDT)
adding a metal ion Joyce Tan (Tue Sep 21 2010 - 20:39:43 CDT)
Hydrogen bonds ban arn (Tue Sep 21 2010 - 11:17:10 CDT)
- Re: Hydrogen bonds Knut Jørgen Bjuland (Wed Sep 22 2010 - 11:19:53 CDT)
movie rendering on MacOS 10.6 Neelanjana Sengupta (Mon Sep 20 2010 - 10:51:59 CDT)
- Re: movie rendering on MacOS 10.6 Toni Giorgino (Tue Sep 21 2010 - 07:13:21 CDT)
ppm files Carla Jamous (Mon Sep 20 2010 - 07:07:52 CDT)
- Re: ppm files John Stone (Mon Sep 20 2010 - 07:32:29 CDT)
  - Re: ppm files Carla Jamous (Mon Sep 20 2010 - 07:36:20 CDT)
    - Re: ppm files John Stone (Mon Sep 20 2010 - 07:39:03 CDT)
    - Re: ppm files Carla Jamous (Tue Sep 21 2010 - 09:50:05 CDT)
vmd can't display Pt-Cl bond ç¨‹æ˜Œåˆ© (Mon Sep 20 2010 - 02:06:38 CDT)
- Re: vmd can't display Pt-Cl bond Ajasja LjubetiÄ (Mon Sep 20 2010 - 03:12:18 CDT)
cg_ionize Sibel Cakan (Sun Sep 19 2010 - 16:37:15 CDT)
- Re: cg_ionize Peter Freddolino (Mon Sep 20 2010 - 20:34:08 CDT)
cg ionization Sibel Cakan (Sun Sep 19 2010 - 15:28:14 CDT)
cg ionization Sibel Cakan (Sun Sep 19 2010 - 15:16:06 CDT)
minimization changed the occupancy of all atoms to zero Parisa Akhski (Fri Sep 17 2010 - 16:17:11 CDT)
- Re: minimization changed the occupancy of all atoms to zero John Stone (Sun Sep 19 2010 - 14:09:41 CDT)
  - RE: minimization changed the occupancy of all atoms to zero Parisa Akhski (Mon Sep 20 2010 - 10:35:35 CDT)
    - Re: minimization changed the occupancy of all atoms to zero John Stone (Mon Sep 20 2010 - 16:37:47 CDT)
vmd_pdb file format Ramasamy, Ellankavi (Fri Sep 17 2010 - 11:43:18 CDT)
- Re: vmd_pdb file format Axel Kohlmeyer (Fri Sep 17 2010 - 12:35:27 CDT)
vmd display water molecules error Cun Zhang (Fri Sep 17 2010 - 02:37:03 CDT)
- Re: vmd display water molecules error John Stone (Sun Sep 19 2010 - 19:46:44 CDT)
  - Re: vmd display water molecules error Cun Zhang (Sun Sep 19 2010 - 20:55:47 CDT)
    - Re: vmd display water molecules error John Stone (Sun Sep 19 2010 - 20:58:44 CDT)
    - Re: vmd display water molecules error Cun Zhang (Sun Sep 19 2010 - 21:16:00 CDT)
bigdcd + salt-bridge analysis Murpholino Peligro (Thu Sep 16 2010 - 15:31:58 CDT)
- Re: bigdcd + salt-bridge analysis John Stone (Sun Sep 19 2010 - 19:39:16 CDT)
maximum trajectory size? Murpholino Peligro (Thu Sep 16 2010 - 15:19:58 CDT)
- Re: maximum trajectory size? Axel Kohlmeyer (Thu Sep 16 2010 - 16:12:11 CDT)
Compatibility with Orcad (PSpice) ? A. M. Carmen Pérez (Thu Sep 16 2010 - 05:06:29 CDT)
- Re: Compatibility with Orcad (PSpice) ? John Stone (Sun Sep 19 2010 - 19:35:12 CDT)
Mouse event listener Gianluca Interlandi (Wed Sep 15 2010 - 16:11:41 CDT)
- Re: Mouse event listener John Stone (Sun Sep 19 2010 - 19:32:23 CDT)
  - Re: Mouse event listener Gianluca Interlandi (Sun Sep 19 2010 - 20:42:36 CDT)
  - Re: Mouse event listener Gianluca Interlandi (Thu Mar 17 2011 - 13:21:42 CDT)
    - Re: Mouse event listener John Stone (Thu Mar 17 2011 - 14:02:14 CDT)
Mouse event listener Gianluca Interlandi (Wed Sep 15 2010 - 15:20:37 CDT)
VMD for windows 64-bit Michel Espinoza-Fonseca (Wed Sep 15 2010 - 14:02:02 CDT)
- Re: VMD for windows 64-bit John Stone (Sun Sep 19 2010 - 16:51:40 CDT)
compile vmd Knut Jørgen Bjuland (Wed Sep 15 2010 - 11:54:17 CDT)
- Re: compile vmd Axel Kohlmeyer (Wed Sep 15 2010 - 13:09:28 CDT)
  - Re: compile vmd Cun Zhang (Thu Sep 16 2010 - 20:25:45 CDT)
    - Re: compile vmd Knut Jørgen Bjuland (Wed Sep 22 2010 - 11:15:13 CDT)
Draw a box cell for a crystal Germain Vallverdu (Wed Sep 15 2010 - 06:43:35 CDT)
- Re: Draw a box cell for a crystal Axel Kohlmeyer (Wed Sep 15 2010 - 08:15:50 CDT)
- Re: Draw a box cell for a crystal Bjoern Olausson (Wed Sep 15 2010 - 08:19:32 CDT)
H-bond life time Nicolas SAPAY (Wed Sep 15 2010 - 03:22:09 CDT)
- Re: H-bond life time Ignacio Fernández Galván (Wed Sep 15 2010 - 07:24:14 CDT)
  - Re: H-bond life time Nicolas SAPAY (Wed Sep 15 2010 - 07:45:06 CDT)
Autoionize question for DNA molecule Parisa Akhski (Tue Sep 14 2010 - 17:45:52 CDT)
- Re: Autoionize question for DNA molecule Peter Freddolino (Tue Sep 14 2010 - 18:55:35 CDT)
  - RE: Autoionize question for DNA molecule Parisa Akhski (Fri Sep 17 2010 - 16:11:50 CDT)
vasp POSCAR plugin Tawhid Ezaz (Tue Sep 14 2010 - 17:36:00 CDT)
- Re: vasp POSCAR plugin John Stone (Sun Sep 19 2010 - 19:26:47 CDT)
Re:vmd_start_problem_in_mac OSX Raman Parkesh (Tue Sep 14 2010 - 12:27:26 CDT)
- Re: Re:vmd_start_problem_in_mac OSX John Stone (Tue Sep 14 2010 - 12:35:46 CDT)
  - Re: Re:vmd_start_problem_in_mac OSX John Stone (Tue Sep 14 2010 - 13:03:43 CDT)
- RE: Re:vmd_start_problem_in_mac OSX Raman Parkesh (Thu Sep 30 2010 - 14:38:38 CDT)
turning on the tcl/tk console in .vmdrc Rosanne Zeiler (Tue Sep 14 2010 - 06:18:13 CDT)
- Re: turning on the tcl/tk console in .vmdrc Ajasja LjubetiÄ (Tue Sep 14 2010 - 07:47:49 CDT)
- Re: turning on the tcl/tk console in .vmdrc Tim Travers (Tue Sep 14 2010 - 07:45:14 CDT)
- Re: turning on the tcl/tk console in .vmdrc Eduard Schreiner (Tue Sep 14 2010 - 07:35:55 CDT)
Error encountered when quitting VMD on the Mac Ben Roberts (Mon Sep 13 2010 - 16:55:53 CDT)
- Re: Error encountered when quitting VMD on the Mac John Stone (Mon Sep 13 2010 - 20:08:36 CDT)
  - Re: Error encountered when quitting VMD on the Mac Ben Roberts (Mon Sep 13 2010 - 21:12:37 CDT)
    - Re: Error encountered when quitting VMD on the Mac Ben Roberts (Wed Oct 13 2010 - 12:39:07 CDT)
GLXBadLargeRequest and BadLength messages Moulton, Steve (Mon Sep 13 2010 - 15:43:32 CDT)
- Re: GLXBadLargeRequest and BadLength messages John Stone (Mon Sep 13 2010 - 16:34:33 CDT)
  - RE: GLXBadLargeRequest and BadLength messages Moulton, Steve (Tue Sep 14 2010 - 11:03:13 CDT)
    - Re: GLXBadLargeRequest and BadLength messages Roland Schulz (Thu Sep 23 2010 - 23:13:03 CDT)
phosphorylation modelling Zhang, Jiong (MU-Student) (Mon Sep 13 2010 - 15:11:49 CDT)
compile windows binary in linux CLEMENTS, ROBERT (Mon Sep 13 2010 - 14:17:51 CDT)
- Re: compile windows binary in linux John Stone (Mon Sep 13 2010 - 14:28:01 CDT)
- Re: compile windows binary in linux Axel Kohlmeyer (Mon Sep 13 2010 - 15:13:13 CDT)
writepdb append Jacopo Sgrignani (Mon Sep 13 2010 - 05:49:20 CDT)
- Re: writepdb append John Stone (Mon Sep 13 2010 - 12:25:47 CDT)
Anaglyph rendering problem Ajasja LjubetiÄ (Mon Sep 13 2010 - 03:50:27 CDT)
- Re: Anaglyph rendering problem John Stone (Mon Sep 13 2010 - 08:43:16 CDT)
  - Re: Anaglyph rendering problem Ajasja LjubetiÄ (Mon Sep 13 2010 - 08:55:39 CDT)
Use of parmtool plugin Christian Wohlschlager (Mon Sep 13 2010 - 01:38:01 CDT)
Visualization problem with aromatic bromo atom? Meyer-Almes, Franz-Josef, Prof. Dr. (Sun Sep 12 2010 - 13:18:46 CDT)
- Re: Visualization problem with aromatic bromo atom? Axel Kohlmeyer (Sun Sep 12 2010 - 14:59:54 CDT)
vmd.ps ³Ì²ýÀû (Sun Sep 12 2010 - 11:14:49 CDT)
(no subject) ³Ì²ýÀû (Sun Sep 12 2010 - 11:12:01 CDT)
- (no subject) Axel Kohlmeyer (Sun Sep 12 2010 - 12:33:25 CDT)
- Re: Rogan Carr (Sun Sep 12 2010 - 18:19:09 CDT)
change residue colors? Fatemesadat Emami (Fri Sep 10 2010 - 14:37:23 CDT)
- Re: change residue colors? John Stone (Mon Sep 13 2010 - 12:42:33 CDT)
Distance lines Patargias, George (Thu Sep 09 2010 - 15:24:38 CDT)
- Re: Distance lines Joseph Bylund (Thu Sep 09 2010 - 16:46:55 CDT)
maximum trajectory size? Patrick Burney (Wed Sep 08 2010 - 19:04:38 CDT)
- Re: maximum trajectory size? John Stone (Wed Sep 08 2010 - 19:58:19 CDT)
  - Re: maximum trajectory size? Joshua A. Anderson (Thu Sep 09 2010 - 06:50:43 CDT)
Loss of VDW upon rendering with POV3 Stefan Oliver (Wed Sep 08 2010 - 14:10:34 CDT)
- Re: Loss of VDW upon rendering with POV3 John Stone (Wed Sep 08 2010 - 14:26:11 CDT)
  - Re: Loss of VDW upon rendering with POV3 John Stone (Wed Sep 08 2010 - 16:08:05 CDT)
two coloring method Tawhid Ezaz (Fri Sep 03 2010 - 17:18:38 CDT)
- Re: two coloring method John Stone (Fri Sep 03 2010 - 18:01:00 CDT)
problem about dowser Chen, Zhihong (chenz2) (Fri Sep 03 2010 - 16:38:05 CDT)
- Re: problem about dowser Leonardo Trabuco (Sat Sep 04 2010 - 04:36:45 CDT)
Matrix based intermediate rotations Bogdan Costescu (Fri Sep 03 2010 - 05:50:40 CDT)
- Re: Matrix based intermediate rotations John Stone (Fri Sep 03 2010 - 10:08:34 CDT)
- Re: Matrix based intermediate rotations Eduardo (Fri Sep 03 2010 - 11:16:26 CDT)
  - Re: Matrix based intermediate rotations Bogdan Costescu (Sat Sep 04 2010 - 05:35:41 CDT)
Symposium on Accelerating Biology jani vinod (Fri Sep 03 2010 - 00:11:03 CDT)
Problem with orient.tcl Salvador H-V (Thu Sep 02 2010 - 12:59:38 CDT)
Best way to bond peptides Sujata Sovani (Wed Sep 01 2010 - 18:30:08 CDT)
Best way to join two PDB fragments by a peptide bond Sujata Sovani (Wed Sep 01 2010 - 17:36:46 CDT)
How to set the default mol style as VDW? Eric Grzelak (Wed Sep 01 2010 - 15:07:49 CDT)
- VMD and named pipes Thomas C. Bishop (Thu Sep 02 2010 - 14:28:55 CDT)
  - Re: VMD and named pipes Bogdan Costescu (Thu Sep 02 2010 - 23:51:23 CDT)
    - Re: VMD and named pipes Thomas C. Bishop (Fri Sep 03 2010 - 13:18:17 CDT)
    - Re: VMD and named pipes Bogdan Costescu (Sat Sep 04 2010 - 05:26:52 CDT)
- Re: How to set the default mol style as VDW? Ajasja LjubetiÄ (Fri Sep 03 2010 - 06:36:08 CDT)
question about Ca-dist.tcl dhacademic (Wed Sep 01 2010 - 10:14:24 CDT)
paratool error Goutham (Tue Aug 31 2010 - 20:02:30 CDT)
vmd paratool - getting GAUSSIAN charges Goutham (Tue Aug 31 2010 - 10:51:48 CDT)
Using Bigdcd with RMSD Trajectory tool in VMD Dan J Martingano (Mon Aug 30 2010 - 14:33:29 CDT)
- Re: Using Bigdcd with RMSD Trajectory tool in VMD Ajasja LjubetiÄ (Tue Aug 31 2010 - 05:42:16 CDT)
creating psf file unni kuttan (Mon Aug 30 2010 - 12:14:15 CDT)
- Re: creating psf file John Stone (Sun Sep 19 2010 - 20:09:03 CDT)
- Re: creating psf file Eduard Schreiner (Sun Sep 19 2010 - 21:39:29 CDT)
  - VMD 1.8.7 terminal window Gianluca Interlandi (Mon Sep 20 2010 - 00:10:26 CDT)
    - Re: VMD 1.8.7 terminal window John Stone (Mon Sep 20 2010 - 00:23:29 CDT)
    - Re: VMD 1.8.7 terminal window Gianluca Interlandi (Sat Sep 25 2010 - 20:02:55 CDT)
Faster secondary structure assignment Jérôme Hénin (Mon Aug 30 2010 - 11:28:45 CDT)
- Re: Faster secondary structure assignment John Stone (Mon Aug 30 2010 - 11:57:25 CDT)
  - Re: Faster secondary structure assignment Jérôme Hénin (Tue Aug 31 2010 - 10:38:49 CDT)
    - Re: Faster secondary structure assignment John Stone (Tue Aug 31 2010 - 10:57:35 CDT)
paratool doan dung (Sun Aug 29 2010 - 10:04:29 CDT)
plugin for Abinit output files Rob (Sat Aug 28 2010 - 03:22:05 CDT)
- Re: plugin for Abinit output files John Stone (Sun Sep 19 2010 - 20:18:56 CDT)
- Re: plugin for Abinit output files Rob (Sun Sep 26 2010 - 23:36:52 CDT)
- Re: plugin for Abinit output files Rob (Sun Sep 26 2010 - 23:45:15 CDT)
  - Re: Re: plugin for Abinit output files John Stone (Sun Oct 17 2010 - 17:54:20 CDT)
RMSD trajectory tool Parisa Akhski (Fri Aug 27 2010 - 13:06:40 CDT)
- Re: RMSD trajectory tool John Stone (Fri Aug 27 2010 - 14:32:05 CDT)
  - RE: RMSD trajectory tool Parisa Akhski (Fri Aug 27 2010 - 15:22:03 CDT)
Hydrogen bond angle hirdesh kumar (Fri Aug 27 2010 - 08:19:29 CDT)
- Re: Hydrogen bond angle Axel Kohlmeyer (Fri Aug 27 2010 - 09:41:22 CDT)
  - Re: Hydrogen bond angle hirdesh kumar (Fri Aug 27 2010 - 23:25:21 CDT)
BB Trace Rex Palmer (Thu Aug 26 2010 - 14:49:39 CDT)
showing the backbone trace of a cyclic peptide Rex Palmer (Thu Aug 26 2010 - 14:45:33 CDT)
DCD Based on a parameter Pat Yee (Thu Aug 26 2010 - 09:01:51 CDT)
- Re: DCD Based on a parameter Ajasja LjubetiÄ (Thu Aug 26 2010 - 10:12:42 CDT)
  - Re: DCD Based on a parameter Axel Kohlmeyer (Thu Aug 26 2010 - 11:11:07 CDT)
vmd - rendering Ramasamy, Ellankavi (Wed Aug 25 2010 - 09:32:14 CDT)
- Re: vmd - rendering John Stone (Wed Aug 25 2010 - 09:49:28 CDT)
Re: runsqm plugin required but not installed John Stone (Tue Aug 24 2010 - 17:12:24 CDT)
hydrophobic accessible surface area Jorgen Simonsen (Tue Aug 24 2010 - 13:55:20 CDT)
[carlos.simmerling@gmail.com: Re: ACS award information, Oct 15 deadline] John Stone (Tue Aug 24 2010 - 09:48:02 CDT)
Structure won't move after loading trajectory NG HUI WEN (Mon Aug 23 2010 - 19:40:36 CDT)
- Re: Structure won't move after loading trajectory Axel Kohlmeyer (Mon Aug 23 2010 - 20:39:30 CDT)
  - Re: Structure won't move after loading trajectory Tim Travers (Mon Aug 23 2010 - 23:26:00 CDT)
    - RE: Structure won't move after loading trajectory NG HUI WEN (Tue Aug 24 2010 - 00:08:49 CDT)
    - Re: Structure won't move after loading trajectory hirdesh kumar (Tue Aug 24 2010 - 23:38:00 CDT)
converting old LAMMPS ASCII dumps Dan Lussier (Mon Aug 23 2010 - 19:08:01 CDT)
- Re: converting old LAMMPS ASCII dumps Axel Kohlmeyer (Mon Aug 23 2010 - 20:04:32 CDT)
  - Re: converting old LAMMPS ASCII dumps Dan Lussier (Tue Aug 24 2010 - 09:38:11 CDT)
    - Re: converting old LAMMPS ASCII dumps Axel Kohlmeyer (Tue Aug 24 2010 - 09:48:26 CDT)
    - Re: converting old LAMMPS ASCII dumps Dan Lussier (Tue Aug 24 2010 - 12:59:40 CDT)
OSX 10.6 support? Steve Smith (Mon Aug 23 2010 - 15:32:05 CDT)
- Re: OSX 10.6 support? Axel Kohlmeyer (Mon Aug 23 2010 - 17:28:21 CDT)
- Re: OSX 10.6 support? Joshua A. Anderson (Tue Aug 24 2010 - 07:00:36 CDT)
  - Re: OSX 10.6 support? Steve Smith (Tue Aug 24 2010 - 09:39:59 CDT)
Problem with 'unwrap' Sandra Rennebaum (Mon Aug 23 2010 - 03:44:34 CDT)
(no subject) Janani.S (Fri Aug 20 2010 - 22:39:10 CDT)
- Re: Ajasja LjubetiÄ (Sat Aug 21 2010 - 02:14:19 CDT)
  - Re: Edelmiro Moman (Sat Aug 21 2010 - 04:03:35 CDT)
POPC from charmm27 to charmm36 Raul Araya (Fri Aug 20 2010 - 18:43:00 CDT)
RMSF calculation: residue wise hirdesh kumar (Fri Aug 20 2010 - 11:22:55 CDT)
- Re: RMSF calculation: residue wise Axel Kohlmeyer (Fri Aug 20 2010 - 12:13:21 CDT)
- Re: RMSF calculation: residue wise Nicholas Musolino (Fri Aug 20 2010 - 12:46:36 CDT)
  - Re: RMSF calculation: residue wise hirdesh kumar (Fri Aug 20 2010 - 13:30:42 CDT)
    - Re: RMSF calculation: residue wise hirdesh kumar (Sat Aug 21 2010 - 06:03:46 CDT)
(no subject) yan zhang (Fri Aug 20 2010 - 03:54:47 CDT)
- Re: John Stone (Fri Aug 20 2010 - 14:05:26 CDT)
catdcd usage with Desmond trajectory Irene Newhouse (Thu Aug 19 2010 - 16:19:10 CDT)
- Re: catdcd usage with Desmond trajectory John Stone (Thu Aug 19 2010 - 20:32:23 CDT)
  - RE: catdcd usage with Desmond trajectory Irene Newhouse (Thu Aug 19 2010 - 22:26:26 CDT)
    - Re: catdcd usage with Desmond trajectory John Stone (Tue Aug 24 2010 - 16:44:25 CDT)
    - RE: catdcd usage with Desmond trajectory Irene Newhouse (Wed Aug 25 2010 - 15:33:25 CDT)
VMD plus Phantom Christian Wohlschlager (Wed Aug 18 2010 - 11:04:42 CDT)
- Re: VMD plus Phantom John Stone (Wed Aug 18 2010 - 13:11:03 CDT)
- Re: VMD plus Phantom Axel Kohlmeyer (Wed Aug 18 2010 - 14:13:53 CDT)
plugin : membrane builder : "integer value too large to represent" Lepore, Bryan (Wed Aug 18 2010 - 10:21:07 CDT)
- Re: plugin : membrane builder : "integer value too large to represent" John Stone (Wed Aug 18 2010 - 13:07:13 CDT)
  - Re: plugin : membrane builder : "integer value too large to represent" Lepore, Bryan (Wed Aug 18 2010 - 17:40:37 CDT)
Is it possible to load a part of a big xtc file faster... Alberto Sergio Garay (Wed Aug 18 2010 - 09:44:56 CDT)
- Re: Is it possible to load a part of a big xtc file faster... John Stone (Wed Aug 18 2010 - 10:00:08 CDT)
  - Re: Is it possible to load a part of a big xtc file faster... Bogdan Costescu (Wed Aug 18 2010 - 10:50:43 CDT)
PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha Knut Jørgen Bjuland (Wed Aug 18 2010 - 09:11:21 CDT)
- Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha John Stone (Wed Aug 18 2010 - 13:38:40 CDT)
  - Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha John Stone (Wed Aug 18 2010 - 15:30:39 CDT)
    - Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha Knut Jørgen Bjuland (Wed Aug 18 2010 - 16:14:53 CDT)
Re: tcl script Cun Zhang (Wed Aug 18 2010 - 03:25:21 CDT)
tcl script deepti nayar (Wed Aug 18 2010 - 01:14:06 CDT)
- Re: tcl script Axel Kohlmeyer (Wed Aug 18 2010 - 04:01:00 CDT)
REMD + RBCG Gregorio Alanislobato (Tue Aug 17 2010 - 16:12:22 CDT)
- Re: REMD + RBCG Peter Freddolino (Tue Aug 17 2010 - 18:14:05 CDT)
  - Re: REMD + RBCG Gregorio Alanislobato (Tue Aug 17 2010 - 18:26:08 CDT)
    - Re: REMD + RBCG Gregorio Alanislobato (Tue Aug 17 2010 - 19:51:10 CDT)
    - Re: REMD + RBCG Peter Freddolino (Wed Aug 18 2010 - 00:30:20 CDT)
RSMD of coarse grained molecules Gregorio Alanislobato (Mon Aug 16 2010 - 12:13:59 CDT)
- Re: RSMD of coarse grained molecules John Stone (Mon Aug 16 2010 - 12:57:59 CDT)
- Re: RSMD of coarse grained molecules Mert Gür (Mon Aug 16 2010 - 13:58:02 CDT)
  - Re: RSMD of coarse grained molecules Gregorio Alanislobato (Mon Aug 16 2010 - 20:29:13 CDT)
workaround for DynamicBonds Georg Spiekermann (Mon Aug 16 2010 - 10:12:10 CDT)
- Re: workaround for DynamicBonds John Stone (Mon Aug 16 2010 - 11:05:28 CDT)
VMD 3D movies rendering Daniel Hornburg (Mon Aug 16 2010 - 05:07:59 CDT)
- Re: VMD 3D movies rendering Axel Kohlmeyer (Mon Aug 16 2010 - 08:40:36 CDT)
  - Re: VMD 3D movies rendering John Stone (Mon Aug 16 2010 - 11:20:00 CDT)
where can I download Tachyon version 0.98.10 ? Cun Zhang (Fri Aug 13 2010 - 23:06:19 CDT)
- Re: where can I download Tachyon version 0.98.10 ? Axel Kohlmeyer (Sat Aug 14 2010 - 08:19:12 CDT)
  - Re: where can I download Tachyon version 0.98.10 ? Cun Zhang (Sun Aug 15 2010 - 08:01:14 CDT)
- Re: where can I download Tachyon version 0.98.10 ? John Stone (Sat Aug 14 2010 - 23:10:51 CDT)
  - Re: where can I download Tachyon version 0.98.10 ? Cun Zhang (Sun Aug 15 2010 - 03:16:45 CDT)
    - Re: where can I download Tachyon version 0.98.10 ? Axel Kohlmeyer (Sun Aug 15 2010 - 04:28:42 CDT)
"Hands-On" Workshop on Computational Biophysics, November 1-5, 2010 & November 29-December 3, 2010 in Urbana, IL TCBG Workshops (Thu Aug 12 2010 - 17:10:53 CDT)
Interpreting a contact map Ian Stokes-Rees (Thu Aug 12 2010 - 16:17:12 CDT)
- Re: Interpreting a contact map John Stone (Thu Aug 12 2010 - 16:33:23 CDT)
  - Re: Interpreting a contact map Ian Stokes-Rees (Fri Aug 13 2010 - 16:11:29 CDT)
VMD questions about animating residue distance lines and contact maps Ian Stokes-Rees (Thu Aug 12 2010 - 15:56:18 CDT)
- Re: VMD questions about animating residue distance lines and contact maps John Stone (Thu Aug 12 2010 - 16:43:46 CDT)
  - Re: VMD questions about animating residue distance lines and contact maps Ian Stokes-Rees (Fri Aug 13 2010 - 10:30:15 CDT)
    - Re: VMD questions about animating residue distance lines and contact maps Axel Kohlmeyer (Fri Aug 13 2010 - 11:12:55 CDT)
    - Re: VMD questions about animating residue distance lines and contact maps John Stone (Fri Aug 13 2010 - 13:03:59 CDT)
Solvent Accessible Surface R. Johnson (Thu Aug 12 2010 - 13:26:48 CDT)
- Re: Solvent Accessible Surface Edward Lyman (Thu Aug 12 2010 - 14:10:25 CDT)
cant connect Novint Falcon with VMD Shawn (Thu Aug 12 2010 - 13:21:56 CDT)
- Re: cant connect Novint Falcon with VMD Axel Kohlmeyer (Thu Aug 12 2010 - 14:22:13 CDT)
  - Re: cant connect Novint Falcon with VMD Shawn (Thu Aug 12 2010 - 14:28:06 CDT)
About Atom Index Order Cun Zhang (Wed Aug 11 2010 - 20:59:08 CDT)
- Re: About Atom Index Order Axel Kohlmeyer (Wed Aug 11 2010 - 22:01:11 CDT)
  - Re: About Atom Index Order Cun Zhang (Thu Aug 12 2010 - 03:52:10 CDT)
Problem Material Studio/VMD candy deck (Wed Aug 11 2010 - 01:49:55 CDT)
- Re: Problem Material Studio/VMD Ajasja LjubetiÄ (Wed Aug 11 2010 - 03:48:44 CDT)
- Re: Problem Material Studio/VMD Axel Kohlmeyer (Wed Aug 11 2010 - 04:26:56 CDT)
  - Re: Problem Material Studio/VMD Vikas Varshney (Wed Aug 11 2010 - 12:54:07 CDT)
- Re: Problem Material Studio/VMD m.raviprasad_at_ndsu.edu (Wed Aug 11 2010 - 12:55:52 CDT)
Solvate plug-in Charles Zhao (Tue Aug 10 2010 - 21:53:22 CDT)
- Re: Solvate plug-in Axel Kohlmeyer (Tue Aug 10 2010 - 23:28:11 CDT)
Writing Python Plugins properly jonathan (Mon Aug 09 2010 - 11:48:25 CDT)
- Re: Writing Python Plugins properly Axel Kohlmeyer (Tue Aug 10 2010 - 21:38:07 CDT)
  - Re: Writing Python Plugins properly jonathan (Wed Aug 11 2010 - 06:54:10 CDT)
input file Agnieszka Sobkiewicz (Mon Aug 09 2010 - 06:41:18 CDT)
- Re: input file John Stone (Wed Aug 18 2010 - 15:00:41 CDT)
ion bead (residue based CG) Demet Akten (Mon Aug 09 2010 - 05:34:26 CDT)
- Re: ion bead (residue based CG) John Stone (Wed Aug 18 2010 - 15:06:39 CDT)
  - Re: ion bead (residue based CG) Peter Freddolino (Wed Aug 18 2010 - 19:16:17 CDT)
Superimpose protein - plot water position - visualize water pathway Marc Zimmer (Sat Aug 07 2010 - 19:51:26 CDT)
- Re: Superimpose protein - plot water position - visualize water pathway Axel Kohlmeyer (Sat Aug 07 2010 - 20:42:05 CDT)
upgrading vmd's nvidia component Bob Wohlhueter (Thu Aug 05 2010 - 16:04:53 CDT)
- Re: upgrading vmd's nvidia component John Stone (Thu Aug 05 2010 - 16:11:09 CDT)
  - Re: upgrading vmd's nvidia component Robert Wohlhueter (Thu Aug 05 2010 - 17:01:20 CDT)
Inserting amino acids to a protein Gregorio Alanislobato (Thu Aug 05 2010 - 14:24:56 CDT)
- Re: Inserting amino acids to a protein Ajasja LjubetiÄ (Fri Aug 06 2010 - 02:40:35 CDT)
NAMD energy plugin politr_at_huji.ac.il (Thu Aug 05 2010 - 07:41:37 CDT)
- Re: NAMD energy plugin Mert Gür (Thu Aug 05 2010 - 08:51:04 CDT)
- Re: NAMD energy plugin Axel Kohlmeyer (Thu Aug 05 2010 - 08:53:18 CDT)
- Re: NAMD energy plugin Nicholas Musolino (Thu Aug 05 2010 - 10:17:23 CDT)
Conversion into POVRay coordinates Nicolas Sapay (Wed Aug 04 2010 - 04:01:20 CDT)
- Re: Conversion into POVRay coordinates John Stone (Thu Aug 05 2010 - 17:06:54 CDT)
  - Re: Conversion into POVRay coordinates Nicolas Sapay (Fri Aug 06 2010 - 08:41:47 CDT)
    - Re: Conversion into POVRay coordinates John Stone (Fri Aug 06 2010 - 09:23:02 CDT)
water molecules shooting during SMD + PDB WRITE ERROR koushik.k (Tue Aug 03 2010 - 06:45:25 CDT)
- Re: water molecules shooting during SMD + PDB WRITE ERROR Nicholas Musolino (Tue Aug 03 2010 - 08:59:00 CDT)
povray rendering help Ramasamy, Ellankavi (Fri Jul 30 2010 - 07:45:31 CDT)
- Re: povray rendering help Axel Kohlmeyer (Fri Jul 30 2010 - 08:41:35 CDT)
2D RMSD matrix plot ban arn (Fri Jul 30 2010 - 05:52:02 CDT)
Focal blur with Tachyon Nicolas Sapay (Fri Jul 30 2010 - 03:13:49 CDT)
- Re: Focal blur with Tachyon Bogdan Costescu (Fri Jul 30 2010 - 04:49:55 CDT)
  - Re: Focal blur with Tachyon John Stone (Thu Aug 05 2010 - 17:09:46 CDT)
surface rendering across X11 windows David Hoover (Thu Jul 29 2010 - 16:15:48 CDT)
- Re: surface rendering across X11 windows John Stone (Mon Aug 02 2010 - 11:34:31 CDT)
script to calculate molecular surface area latha (Wed Jul 28 2010 - 12:46:23 CDT)
Dihedrals Angle ban arn (Wed Jul 28 2010 - 11:43:47 CDT)
- Re: Dihedrals Angle Ajasja LjubetiÄ (Thu Jul 29 2010 - 02:13:30 CDT)
2D rmsd matrix plot for C-alpha atoms ban arn (Wed Jul 28 2010 - 05:50:21 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms Leonardo Trabuco (Wed Jul 28 2010 - 06:24:53 CDT)
  - Re: 2D rmsd matrix plot for C-alpha atoms ban arn (Wed Jul 28 2010 - 07:45:52 CDT)
"can not find channel named ... Asmaa Elsheshiny (Wed Jul 28 2010 - 04:14:31 CDT)
- Re: "can not find channel named ... Ajasja LjubetiÄ (Wed Jul 28 2010 - 05:04:28 CDT)
- Re: "can not find channel named ... Axel Kohlmeyer (Wed Jul 28 2010 - 06:55:13 CDT)
multiseq/stamp alignment of coiled coil bundle and homo-dimer Ian Stokes-Rees (Tue Jul 27 2010 - 14:37:02 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer Ian Stokes-Rees (Tue Jul 27 2010 - 16:54:53 CDT)
  - Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer John Stone (Wed Jul 28 2010 - 16:23:51 CDT)
2D rmsd plot for C-alpha atoms ban arn (Tue Jul 27 2010 - 10:55:48 CDT)
- Re: 2D rmsd plot for C-alpha atoms Leonardo Trabuco (Tue Jul 27 2010 - 11:07:03 CDT)
install on Centos - issues Joseph Norris (Fri Jul 23 2010 - 18:48:04 CDT)
- Re: install on Centos - issues John Stone (Wed Jul 28 2010 - 00:01:41 CDT)
VMD XRequest errors Richard Cook (Fri Jul 23 2010 - 18:47:49 CDT)
- Re: VMD XRequest errors John Stone (Tue Jul 27 2010 - 23:58:01 CDT)
  - Re: VMD XRequest errors Richard Cook (Wed Jul 28 2010 - 16:39:08 CDT)
    - RE: VMD XRequest errors Bennion, Brian (Wed Jul 28 2010 - 17:24:33 CDT)
  - Re: VMD XRequest errors Richard Cook (Wed Jul 28 2010 - 20:15:01 CDT)
MDFF Query: how to convert XPLOR style density maps to DX or SITUS format harish vashisth (Fri Jul 23 2010 - 16:28:59 CDT)
- Re: MDFF Query: how to convert XPLOR style density maps to DX or SITUS format Edelmiro Moman (Sat Jul 24 2010 - 03:50:58 CDT)
  - Re: MDFF Query: how to convert XPLOR style density maps to DX or SITUS format harish vashisth (Sat Jul 24 2010 - 11:12:27 CDT)
Extra lines shown in trajectories in VMD Elias Ahadi (Wed Jul 21 2010 - 12:26:08 CDT)
- Re: Extra lines shown in trajectories in VMD John Stone (Wed Jul 21 2010 - 13:08:34 CDT)
PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Prskalo, Alen-Pilip (Wed Jul 21 2010 - 02:40:27 CDT)
- Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Ian Stokes-Rees (Wed Jul 21 2010 - 07:07:51 CDT)
  - Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Axel Kohlmeyer (Wed Jul 21 2010 - 08:11:34 CDT)
  - RE: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Prskalo, Alen-Pilip (Wed Jul 21 2010 - 08:42:42 CDT)
    - Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Axel Kohlmeyer (Wed Jul 21 2010 - 09:09:19 CDT)
    - Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file Ian Stokes-Rees (Wed Jul 21 2010 - 12:20:56 CDT)
compilation of vmd 1.8.7 source Vlad Cojocaru (Tue Jul 20 2010 - 09:22:15 CDT)
- Re: compilation of vmd 1.8.7 source John Stone (Tue Jul 20 2010 - 09:47:22 CDT)
  - trajectory sort by RMSD or other Thomas C. Bishop (Tue Jul 20 2010 - 12:17:14 CDT)
- Re: compilation of vmd 1.8.7 source Ian Stokes-Rees (Tue Jul 20 2010 - 10:07:45 CDT)
  - Re: compilation of vmd 1.8.7 source John Stone (Tue Jul 20 2010 - 10:17:44 CDT)
lowest energy structure Jorgen Simonsen (Mon Jul 19 2010 - 22:52:59 CDT)
VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash Ian Stokes-Rees (Mon Jul 19 2010 - 12:10:16 CDT)
- Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash John Stone (Tue Jul 20 2010 - 10:39:53 CDT)
  - Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash Ian Stokes-Rees (Tue Jul 20 2010 - 11:00:11 CDT)
    - Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash John Stone (Tue Jul 20 2010 - 11:04:44 CDT)
VMD Crashes on Windows Vista when trying to load more than 5000 steps Josiah Zayner (Mon Jul 19 2010 - 09:37:51 CDT)
- Re: VMD Crashes on Windows Vista when trying to load more than 5000 steps John Stone (Mon Jul 19 2010 - 09:55:03 CDT)
Invitation to connect on LinkedIn Deepti Mishra (Mon Jul 19 2010 - 05:57:43 CDT)
Adding other online PDB data bases to VMD Ian Stokes-Rees (Fri Jul 16 2010 - 18:46:31 CDT)
- Re: Adding other online PDB data bases to VMD Axel Kohlmeyer (Fri Jul 16 2010 - 19:58:22 CDT)
  - Re: Adding other online PDB data bases to VMD John Stone (Tue Jul 20 2010 - 10:52:25 CDT)
Cannot find "cionize plugin" in VMD Parisa Akhski (Fri Jul 16 2010 - 14:26:59 CDT)
- Re: Cannot find "cionize plugin" in VMD John Stone (Tue Jul 20 2010 - 09:41:53 CDT)
  - RE: Cannot find "cionize plugin" in VMD Parisa Akhski (Tue Jul 20 2010 - 12:36:32 CDT)
making a movie of an unusual trajectory Edward Lyman (Fri Jul 16 2010 - 11:54:47 CDT)
- Re: making a movie of an unusual trajectory John Stone (Fri Jul 16 2010 - 12:23:01 CDT)
  - Re: making a movie of an unusual trajectory Edward Lyman (Fri Jul 16 2010 - 12:34:06 CDT)
    - Re: making a movie of an unusual trajectory Axel Kohlmeyer (Fri Jul 16 2010 - 13:05:49 CDT)
    - Re: making a movie of an unusual trajectory Edward Lyman (Fri Jul 16 2010 - 13:09:09 CDT)
- Re: making a movie of an unusual trajectory Axel Kohlmeyer (Fri Jul 16 2010 - 12:47:26 CDT)
Building VMD on OS X 10.6 with Python and CUDA support Ian Stokes-Rees (Thu Jul 15 2010 - 22:44:34 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support Ian Stokes-Rees (Fri Jul 16 2010 - 02:24:38 CDT)
  - Re: Building VMD on OS X 10.6 with Python and CUDA support John Stone (Tue Jul 20 2010 - 10:23:56 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support Ian Stokes-Rees (Fri Jul 16 2010 - 02:41:24 CDT)
  - Re: Building VMD on OS X 10.6 with Python and CUDA support John Stone (Tue Jul 20 2010 - 10:22:23 CDT)
Adding Single Residues to a Protein Anwaar Al-Zireeni (Thu Jul 15 2010 - 18:34:56 CDT)
- Re: Adding Single Residues to a Protein John Stone (Tue Jul 20 2010 - 14:59:19 CDT)
locating or creating a .vmdsensors file for windows VMD Jeffrey Sanders (Wed Jul 14 2010 - 12:42:02 CDT)
- Re: locating or creating a .vmdsensors file for windows VMD John Stone (Wed Jul 14 2010 - 12:52:16 CDT)
using tcl variables in representation gui Robert Wohlhueter (Wed Jul 14 2010 - 09:22:09 CDT)
- Re: using tcl variables in representation gui John Stone (Wed Jul 14 2010 - 09:32:33 CDT)
Graphics Representation - Drawing methods puroorava annapaneni (Tue Jul 13 2010 - 17:39:06 CDT)
- Re: Graphics Representation - Drawing methods Axel Kohlmeyer (Tue Jul 13 2010 - 18:08:18 CDT)
Question about vrpn server build for using Phantom with VMD Jeffrey Sanders (Tue Jul 13 2010 - 15:05:58 CDT)
- Re: Question about vrpn server build for using Phantom with VMD John Stone (Tue Jul 13 2010 - 15:13:23 CDT)
Native contacts trajectory tool available Toni Giorgino (Tue Jul 13 2010 - 14:09:49 CDT)
VMD cuda Raul Araya (Mon Jul 12 2010 - 15:59:19 CDT)
- Re: VMD cuda John Stone (Mon Jul 12 2010 - 16:48:39 CDT)
- Re: VMD cuda Axel Kohlmeyer (Mon Jul 12 2010 - 16:50:26 CDT)
  - Re: VMD cuda John Stone (Tue Jul 13 2010 - 14:50:08 CDT)
Autoionize question for DNA molecule Parisa Akhski (Mon Jul 12 2010 - 10:10:11 CDT)
- Re: Autoionize question for DNA molecule Eduard Schreiner (Mon Jul 12 2010 - 11:08:02 CDT)
  - RE: Cionize question for DNA molecule Parisa Akhski (Thu Jul 15 2010 - 11:52:54 CDT)
contact map for Protein-DNA interaction atila petrosian (Mon Jul 12 2010 - 02:19:13 CDT)
- Re: contact map for Protein-DNA interaction Barry Isralewitz (Mon Jul 12 2010 - 13:50:25 CDT)
ILS tool fails Aaron Oakley (Fri Jul 09 2010 - 20:25:38 CDT)
- Re: ILS tool fails John Stone (Tue Jul 13 2010 - 11:39:50 CDT)
DPPC jouko_at_uchicago.edu (Thu Jul 08 2010 - 22:21:25 CDT)
- Re: DPPC Eduard Schreiner (Thu Jul 08 2010 - 23:42:27 CDT)
Modifying amino acid to a non-standard amino acid using VMD (proline to hydroxyproline) Sujata Sovani (Thu Jul 08 2010 - 19:05:55 CDT)
- Re: Modifying amino acid to a non-standard amino acid using VMD (proline to hydroxyproline) Ajasja LjubetiÄ (Fri Jul 09 2010 - 02:33:13 CDT)
Install VMD on intel i5 moacyr comar (Wed Jul 07 2010 - 12:00:18 CDT)
- Re: Install VMD on intel i5 John Stone (Mon Jul 12 2010 - 11:52:30 CDT)
contact map for protein-dna interaction leila karami (Wed Jul 07 2010 - 03:32:51 CDT)
Release of the R.E.D.-III.4 tools FyD (Wed Jul 07 2010 - 02:04:36 CDT)
Selecting basic residues in g(r) GUI Plugin Rabab Toubar (Tue Jul 06 2010 - 10:47:06 CDT)
Autoionize does not neutralize the system Parisa Akhski (Tue Jul 06 2010 - 09:16:20 CDT)
- Re: Autoionize does not neutralize the system Axel Kohlmeyer (Tue Jul 06 2010 - 09:49:19 CDT)
  - Re: Autoionize does not neutralize the system John Stone (Tue Jul 06 2010 - 10:16:43 CDT)
- Re: Autoionize does not neutralize the system John Stone (Tue Jul 06 2010 - 10:42:58 CDT)
  - RE: Autoionize does not neutralize the system Parisa Akhski (Tue Jul 06 2010 - 14:36:20 CDT)
color charmm dcd by kinetic energy Ardy Davari (Mon Jul 05 2010 - 15:59:22 CDT)
- Re: color charmm dcd by kinetic energy Axel Kohlmeyer (Mon Jul 05 2010 - 17:02:53 CDT)
- Re: color charmm dcd by kinetic energy Bjoern Olausson (Tue Jul 06 2010 - 02:51:24 CDT)
  - Re: color charmm dcd by kinetic energy Ardy Davari (Tue Jul 06 2010 - 09:30:27 CDT)
contact map leila karami (Mon Jul 05 2010 - 09:46:04 CDT)
contact map leila karami (Mon Jul 05 2010 - 09:12:47 CDT)
- Re: contact map Axel Kohlmeyer (Mon Jul 05 2010 - 11:47:31 CDT)
contact map leila karami (Mon Jul 05 2010 - 08:33:23 CDT)
Conversion of DCD trajectories to AMBER ones ? Marek Maly (Mon Jul 05 2010 - 05:06:40 CDT)
- Re: Conversion of DCD trajectories to AMBER ones ? Axel Kohlmeyer (Mon Jul 05 2010 - 05:54:16 CDT)
  - Re: Conversion of DCD trajectories to AMBER ones ? Marek Maly (Mon Jul 05 2010 - 09:07:14 CDT)
RGB values... Luis Guillermo Cota Preciado (Thu Jul 01 2010 - 18:10:10 CDT)
- Re: RGB values... Robert Brunner (Fri Jul 02 2010 - 11:07:06 CDT)
- Re: RGB values... John Stone (Sat Jul 03 2010 - 09:12:35 CDT)
Sasa implentation/ algorithm VMD henri mone (Thu Jul 01 2010 - 17:19:06 CDT)
- Re: Sasa implentation/ algorithm VMD John Stone (Sat Jul 03 2010 - 09:14:11 CDT)
  - possible chain select bug on RCSB ".ent" files Thomas C. Bishop (Mon Jul 05 2010 - 09:30:09 CDT)
    - Re: possible chain select bug on RCSB ".ent" files Leonardo Trabuco (Mon Jul 05 2010 - 09:46:18 CDT)
    - Re: possible chain select bug on RCSB ".ent" files Thomas C. Bishop (Mon Jul 05 2010 - 10:08:27 CDT)
Re: Tachyon Rendering with a Surf Representation jamesgiacmo_at_aol.com (Wed Jun 30 2010 - 08:29:39 CDT)
getting python to work Seth Burleigh (Tue Jun 29 2010 - 11:20:09 CDT)
- Re: getting python to work John Stone (Thu Jul 01 2010 - 10:23:41 CDT)
Tachyon Rendering with a Surf Representation jamesgiacmo_at_aol.com (Tue Jun 29 2010 - 10:12:11 CDT)
- Re: Tachyon Rendering with a Surf Representation John Stone (Thu Jul 01 2010 - 10:20:20 CDT)
VMD / Tachyon Questions Andrew (Sun Jun 27 2010 - 19:27:21 CDT)
- Re: VMD / Tachyon Questions John Stone (Thu Jul 01 2010 - 10:58:26 CDT)
  - Re: VMD / Tachyon Questions Andrew (Tue Jul 06 2010 - 17:05:13 CDT)
Re: namd-l: Simulation configuration file not accesible Ajasja LjubetiÄ (Fri Jun 25 2010 - 16:19:34 CDT)
stereo problem with vmd Osmany Guirola Cruz (Fri Jun 25 2010 - 06:58:06 CDT)
- Re: stereo problem with vmd John Stone (Fri Jun 25 2010 - 10:14:20 CDT)
  - Re: stereo problem with vmd Osmany Guirola Cruz (Fri Jun 25 2010 - 12:51:26 CDT)
    - Re: stereo problem with vmd John Stone (Fri Jun 25 2010 - 12:56:34 CDT)
VMD 1.8.7 and NVIDIA 256.35 driver problems (CUDA issue?) ben rodriguez (Thu Jun 24 2010 - 14:29:18 CDT)
- Re: VMD 1.8.7 and NVIDIA 256.35 driver problems (CUDA issue?) John Stone (Thu Jun 24 2010 - 14:58:59 CDT)
Add/Remove Bonds Rabab Toubar (Thu Jun 24 2010 - 12:27:20 CDT)
- Re: Add/Remove Bonds John Stone (Thu Jun 24 2010 - 16:47:36 CDT)
vmd on Microsoft 2000 and Phantom Christian Wohlschlager (Tue Jun 22 2010 - 07:51:03 CDT)
- Re: vmd on Microsoft 2000 and Phantom Axel Kohlmeyer (Tue Jun 22 2010 - 08:48:53 CDT)
- Re: vmd on Microsoft 2000 and Phantom John Stone (Tue Jun 22 2010 - 11:26:18 CDT)
Fwd: convert prmtop to psf Lai zaizhi (Mon Jun 21 2010 - 16:42:10 CDT)
Re: convert prmtop to psf Lai zaizhi (Mon Jun 21 2010 - 16:41:37 CDT)
- Re: Re: convert prmtop to psf John Stone (Mon Jun 21 2010 - 16:56:08 CDT)
- Re: Re: convert prmtop to psf Axel Kohlmeyer (Mon Jun 21 2010 - 17:25:22 CDT)
  - Re: Re: convert prmtop to psf George Madalin Giambasu (Mon Jun 21 2010 - 18:09:28 CDT)
AutoPSF errors Emily Chen (Mon Jun 21 2010 - 14:06:19 CDT)
- Re: AutoPSF errors Peter Freddolino (Mon Jun 21 2010 - 18:42:33 CDT)
  - OpenGL Display slow/freeze Yangyang Shen (Mon Jun 21 2010 - 22:08:11 CDT)
  - Re: AutoPSF errors Peter Freddolino (Tue Jun 22 2010 - 20:16:06 CDT)
Cannot read MSMS data files Jayne Wallace (Mon Jun 21 2010 - 09:12:07 CDT)
- Re: Cannot read MSMS data files John Stone (Mon Jun 21 2010 - 16:00:36 CDT)
  - Re: Cannot read MSMS data files John Stone (Tue Jun 22 2010 - 11:37:48 CDT)
namdenergy: writepdb failed Neelanjana Sengupta (Sun Jun 20 2010 - 06:27:02 CDT)
- Re: namdenergy: writepdb failed Axel Kohlmeyer (Sun Jun 20 2010 - 08:25:03 CDT)
- Re: namdenergy: writepdb failed Peter Freddolino (Sun Jun 20 2010 - 19:09:47 CDT)
structure file for big molecules Moeed (Fri Jun 18 2010 - 21:19:02 CDT)
- Re: structure file for big molecules Axel Kohlmeyer (Sun Jun 20 2010 - 18:55:39 CDT)
- Re: structure file for big molecules Nicholas Musolino (Sun Jun 20 2010 - 20:23:50 CDT)
Hydrophobic interaction ban arn (Fri Jun 18 2010 - 06:53:37 CDT)
- Hydrophobic interaction ban arn (Fri Jun 18 2010 - 07:30:45 CDT)
  - Re: Hydrophobic interaction Nicolas Sapay (Fri Jun 18 2010 - 08:25:09 CDT)
- Re: Hydrophobic interaction Axel Kohlmeyer (Fri Jun 18 2010 - 08:10:23 CDT)
  - Re: Hydrophobic interaction ban arn (Fri Jun 18 2010 - 08:18:23 CDT)
    - Re: Hydrophobic interaction Axel Kohlmeyer (Fri Jun 18 2010 - 08:25:36 CDT)
Hydrophobic interaction ban arn (Fri Jun 18 2010 - 05:59:43 CDT)
- Re: Hydrophobic interaction Nicholas Musolino (Fri Jun 18 2010 - 08:40:44 CDT)
-samples flag of measure sasa Edward Lyman (Thu Jun 17 2010 - 11:47:34 CDT)
- Re: -samples flag of measure sasa John Stone (Fri Jun 18 2010 - 13:10:08 CDT)
  - Re: -samples flag of measure sasa Edward Lyman (Fri Jun 18 2010 - 14:15:10 CDT)
Workshop on GPU Programming for Molecular Modeling, August 6-8, 2010, at the Beckman Institute in Urbana, Illinois TCBG Workshops (Fri Jun 11 2010 - 17:28:26 CDT)
vmd crash at start Bogdan Tarus (Thu Jun 17 2010 - 10:33:35 CDT)
- Re: vmd crash at start John Stone (Thu Jun 17 2010 - 10:41:34 CDT)
  - Re: vmd crash at start Bogdan Tarus (Thu Jun 17 2010 - 12:16:06 CDT)
Invalid command name "His" during Solvation Michael LeVine (Thu Jun 17 2010 - 09:10:52 CDT)
- Re: Invalid command name "His" during Solvation John Stone (Fri Jun 25 2010 - 13:51:18 CDT)
Color by velocity (speed?) Ardy Davari (Wed Jun 16 2010 - 12:04:04 CDT)
- Re: Color by velocity (speed?) Axel Kohlmeyer (Wed Jun 16 2010 - 13:01:21 CDT)
solvate nonstandard patch error Harold Hatch (Wed Jun 16 2010 - 10:42:50 CDT)
- Re: solvate nonstandard patch error Peter Freddolino (Wed Jun 16 2010 - 11:52:23 CDT)
visualize trajectories from lammps parallel results shiziyuan (Tue Jun 15 2010 - 15:44:58 CDT)
- Re: visualize trajectories from lammps parallel results John Stone (Thu Jun 17 2010 - 14:41:03 CDT)
  - Re: visualize trajectories from lammps parallel results Axel Kohlmeyer (Thu Jun 17 2010 - 15:34:31 CDT)
    - Re: visualize trajectories from lammps parallel results shiziyuan (Thu Jun 17 2010 - 15:44:41 CDT)
particular set of xyz coordinates in PDB causes seg fault Daniel Farrell (Tue Jun 15 2010 - 12:16:58 CDT)
- Re: particular set of xyz coordinates in PDB causes seg fault Axel Kohlmeyer (Tue Jun 15 2010 - 12:56:50 CDT)
  - Re: particular set of xyz coordinates in PDB causes seg fault Daniel Farrell (Tue Jun 15 2010 - 13:59:50 CDT)
    - Re: particular set of xyz coordinates in PDB causes seg fault Axel Kohlmeyer (Tue Jun 15 2010 - 15:02:45 CDT)
    - Re: particular set of xyz coordinates in PDB causes seg fault Daniel Farrell (Tue Jun 15 2010 - 15:35:50 CDT)
AutoPSF deleting residues Kelly Leung (Tue Jun 15 2010 - 10:35:38 CDT)
- Re: AutoPSF deleting residues Peter Freddolino (Tue Jun 15 2010 - 20:33:02 CDT)
Re: Grid spacing in mdff Leonardo Trabuco (Tue Jun 15 2010 - 02:54:08 CDT)
Gradient Background Vikas Varshney (Mon Jun 14 2010 - 15:13:26 CDT)
- Re: Gradient Background John Stone (Fri Jun 18 2010 - 15:11:05 CDT)
Change only the CA coordinates in a pdb file via tcl Mert Gür (Mon Jun 14 2010 - 14:26:14 CDT)
- Re: Change only the CA coordinates in a pdb file via tcl John Stone (Mon Jun 14 2010 - 15:12:33 CDT)
  - Re: Change only the CA coordinates in a pdb file via tcl Mert Gür (Mon Jun 14 2010 - 16:24:44 CDT)
- Re: Change only the CA coordinates in a pdb file via tcl genie lfs (Mon Jun 14 2010 - 15:45:07 CDT)
top2psf.tcl Rabab Toubar (Sun Jun 13 2010 - 05:59:28 CDT)
- Re: top2psf.tcl Axel Kohlmeyer (Sun Jun 13 2010 - 07:19:12 CDT)
  - Re: top2psf.tcl Rabab Toubar (Tue Jun 15 2010 - 08:21:19 CDT)
  - Re: top2psf.tcl Rabab Toubar (Tue Jun 15 2010 - 10:14:14 CDT)
Rending to png format using tachyon or otherwise ? maria goranovic (Wed Jun 09 2010 - 09:33:25 CDT)
- Re: Rending to png format using tachyon or otherwise ? John Stone (Wed Jun 09 2010 - 10:06:06 CDT)
  - Re: Rending to png format using tachyon or otherwise ? maria goranovic (Wed Jun 09 2010 - 11:18:13 CDT)
    - Re: Rending to png format using tachyon or otherwise ? Axel Kohlmeyer (Wed Jun 09 2010 - 13:08:57 CDT)
topotools and Partial charges Michael Doig (Wed Jun 09 2010 - 05:25:25 CDT)
- Re: topotools and Partial charges Axel Kohlmeyer (Wed Jun 09 2010 - 11:49:55 CDT)
about vmd solvation plugin David Li (Sat Jun 05 2010 - 18:31:36 CDT)
- Re: about vmd solvation plugin Axel Kohlmeyer (Sat Jun 05 2010 - 19:32:54 CDT)
  - Re: about vmd solvation plugin David Li (Wed Jun 09 2010 - 05:33:10 CDT)
    - Re: about vmd solvation plugin Axel Kohlmeyer (Wed Jun 09 2010 - 07:11:11 CDT)
visualizing small molecule in a trajectory file .trr and .gro using VMD Hassan Shallal (Fri Jun 04 2010 - 22:49:33 CDT)
- Re: visualizing small molecule in a trajectory file .trr and .gro using VMD Joshua Adelman (Sat Jun 05 2010 - 08:16:16 CDT)
Trouble compiling from source - Mac OS X Reid Van Lehn (Fri Jun 04 2010 - 11:36:54 CDT)
- Re: Trouble compiling from source - Mac OS X Axel Kohlmeyer (Fri Jun 04 2010 - 13:11:08 CDT)
- Re: Trouble compiling from source - Mac OS X John Stone (Fri Jun 04 2010 - 17:08:33 CDT)
  - Re: Trouble compiling from source - Mac OS X Reid Van Lehn (Fri Jun 04 2010 - 23:11:38 CDT)
    - Re: Trouble compiling from source - Mac OS X Reid Van Lehn (Fri Jun 04 2010 - 23:36:13 CDT)
    - Re: Trouble compiling from source - Mac OS X Reid Van Lehn (Sun Jun 06 2010 - 14:53:58 CDT)
Retrieving the Cremer-Pople parameters Nicolas Sapay (Fri Jun 04 2010 - 03:46:30 CDT)
- Re: Retrieving the Cremer-Pople parameters John Stone (Fri Jun 04 2010 - 17:03:59 CDT)
  - Re: Retrieving the Cremer-Pople parameters Nicolas Sapay (Mon Jun 07 2010 - 04:05:01 CDT)
Problems with Linux install... Luis Guillermo Cota Preciado (Fri Jun 04 2010 - 02:32:23 CDT)
- Re: Problems with Linux install... John Stone (Fri Jun 04 2010 - 08:37:54 CDT)
  - Re: Problems with Linux install... Luis Guillermo Cota Preciado (Fri Jun 04 2010 - 10:19:01 CDT)
- Re: Problems with Linux install... Luis Guillermo Cota Preciado (Fri Jun 04 2010 - 13:30:30 CDT)
  - Re: Re: Problems with Linux install... Axel Kohlmeyer (Fri Jun 04 2010 - 14:18:40 CDT)
about ".cpmd" format Liu (Thu Jun 03 2010 - 22:31:58 CDT)
- Re: about ".cpmd" format Axel Kohlmeyer (Fri Jun 04 2010 - 00:50:48 CDT)
about paratool Francesco Pietra (Thu Jun 03 2010 - 02:50:05 CDT)
- Re: about paratool Axel Kohlmeyer (Thu Jun 03 2010 - 04:59:08 CDT)
Has anyone done ILS successfully? Irene Newhouse (Wed Jun 02 2010 - 14:39:36 CDT)
CAN ANY ONE HELP ME vani panguluri (Wed Jun 02 2010 - 10:09:08 CDT)
- Re: CAN ANY ONE HELP ME John Stone (Wed Jun 02 2010 - 11:01:15 CDT)
  - Re: CAN ANY ONE HELP ME vani panguluri (Wed Jun 02 2010 - 11:44:33 CDT)
    - Re: CAN ANY ONE HELP ME John Stone (Wed Jun 02 2010 - 12:51:24 CDT)
Interaction Energy ban arn (Wed Jun 02 2010 - 07:29:38 CDT)
- Re: Interaction Energy John Stone (Wed Jun 02 2010 - 11:02:40 CDT)
  - Re: Interaction Energy ban arn (Wed Jun 02 2010 - 11:35:57 CDT)
Visualize intersection of overlapping spheres? Bjoern Olausson (Wed Jun 02 2010 - 06:51:56 CDT)
- Re: Visualize intersection of overlapping spheres? John Stone (Wed Jun 02 2010 - 12:57:04 CDT)
  - Re: Visualize intersection of overlapping spheres? Axel Kohlmeyer (Wed Jun 02 2010 - 13:46:02 CDT)
    - Re: Visualize intersection of overlapping spheres? John Stone (Wed Jun 02 2010 - 13:48:36 CDT)
    - Re: Visualize intersection of overlapping spheres? Bjoern Olausson (Thu Jun 03 2010 - 02:24:02 CDT)
psfgen plugin sriteja mantha (Wed Jun 02 2010 - 05:23:51 CDT)
- Re: psfgen plugin John Stone (Wed Jun 02 2010 - 12:58:54 CDT)
Bug in VMD-1.8.7 multiseq functionality genie lfs (Wed Jun 02 2010 - 04:54:48 CDT)
RMSD Trajectory Tool Philip Peartree (Tue Jun 01 2010 - 20:33:54 CDT)
- Re: RMSD Trajectory Tool Axel Kohlmeyer (Tue Jun 01 2010 - 22:02:36 CDT)
- Re: RMSD Trajectory Tool Thomas C Bishop (Wed Jun 02 2010 - 09:24:13 CDT)
Compiling without graphics Philip Peartree (Tue Jun 01 2010 - 20:31:18 CDT)
- Re: Compiling without graphics John Stone (Tue Jun 01 2010 - 22:06:55 CDT)
- Re: Compiling without graphics Axel Kohlmeyer (Tue Jun 01 2010 - 21:55:58 CDT)
Deleting/modifying specific molecule representations Bob Johnson (Tue Jun 01 2010 - 11:23:58 CDT)
- Re: Deleting/modifying specific molecule representations Ajasja LjubetiÄ (Wed Jun 02 2010 - 11:53:00 CDT)
- Re: Deleting/modifying specific molecule representations John Stone (Fri Jun 18 2010 - 16:20:57 CDT)
Mol2 with Charmm atom types? Edelmiro Moman (Mon May 31 2010 - 04:45:51 CDT)
- Re: Mol2 with Charmm atom types? Peter Freddolino (Tue Jun 01 2010 - 21:11:12 CDT)
Residue Number Assignment by VMD Sally Fisher (Fri May 28 2010 - 07:29:55 CDT)
- Re: Residue Number Assignment by VMD Axel Kohlmeyer (Fri May 28 2010 - 08:24:45 CDT)
  - Re: Residue Number Assignment by VMD: RESID vs RESIDUE Thomas C. Bishop (Fri May 28 2010 - 10:47:05 CDT)
- Re: Residue Number Assignment by VMD John Stone (Fri May 28 2010 - 13:32:38 CDT)
RDF and Coordination Number Amir Hajiahmadi Farmahini (Fri May 28 2010 - 05:40:15 CDT)
- Re: RDF and Coordination Number Axel Kohlmeyer (Fri May 28 2010 - 08:52:10 CDT)
APBS plugin Sladjana Maric (Thu May 27 2010 - 18:16:15 CDT)
- Re: APBS plugin John Stone (Thu Jun 03 2010 - 11:37:06 CDT)
  - Re: APBS plugin Sladjana Maric (Thu Jun 03 2010 - 11:50:33 CDT)
pbc wrap Salvador H-V (Thu May 27 2010 - 17:35:54 CDT)
- Re: pbc wrap Olaf Lenz (Tue Jun 01 2010 - 05:23:05 CDT)
Modelling program that does hydrogen adjust Jennifer Williams (Thu May 27 2010 - 10:21:49 CDT)
- Re: Modelling program that does hydrogen adjust Bjoern Olausson (Fri May 28 2010 - 06:14:24 CDT)
- Re: Modelling program that does hydrogen adjust Axel Kohlmeyer (Fri May 28 2010 - 08:30:34 CDT)
- Slice through molecule Jennifer Williams (Wed May 11 2011 - 06:32:13 CDT)
  - Re: Slice through molecule Axel Kohlmeyer (Wed May 11 2011 - 09:16:40 CDT)
Tcl-wrapped "lightweight plugin" in C++ Jérôme Hénin (Thu May 27 2010 - 07:27:00 CDT)
- Re: Tcl-wrapped "lightweight plugin" in C++ John Stone (Thu May 27 2010 - 22:16:44 CDT)
  - Re: Tcl-wrapped "lightweight plugin" in C++ Jérôme Hénin (Sun May 30 2010 - 04:26:07 CDT)
    - Re: Tcl-wrapped "lightweight plugin" in C++ John Stone (Tue Jun 01 2010 - 11:04:09 CDT)
    - Re: Tcl-wrapped "lightweight plugin" in C++ Jérôme Hénin (Thu Jun 03 2010 - 07:56:51 CDT)
Residue Ordering in Sequence Viewer/MultiSeq Sally Fisher (Wed May 26 2010 - 10:15:20 CDT)
radial distribution function problem Hyun Tae Jung (Wed May 26 2010 - 08:42:48 CDT)
- Re: radial distribution function problem Axel Kohlmeyer (Wed May 26 2010 - 11:26:30 CDT)
Problem with display on Intel graphics card Tim Travers (Tue May 25 2010 - 17:29:09 CDT)
- Re: Problem with display on Intel graphics card John Stone (Wed May 26 2010 - 09:46:45 CDT)
  - Re: Problem with display on Intel graphics card Tim Travers (Wed May 26 2010 - 16:27:01 CDT)
  - Re: Problem with display on Intel graphics card Tim Travers (Wed May 26 2010 - 16:25:03 CDT)
parameter file for CHARMM matziast_at_med.uth.gr (Tue May 25 2010 - 16:03:33 CDT)
monomer transposes boundary box Hugo Gutiérrez de Teran (Tue May 25 2010 - 06:48:04 CDT)
- Re: monomer transposes boundary box Axel Kohlmeyer (Tue May 25 2010 - 08:16:51 CDT)
  - Re: monomer transposes boundary box Hugo Gutierrez de Teran (Tue May 25 2010 - 08:25:37 CDT)
  - Re: monomer transposes boundary box Olaf Lenz (Wed May 26 2010 - 05:10:21 CDT)
Tachyon 0.9.10 and recommende version of cuda? Knut Jørgen Bjuland (Mon May 24 2010 - 05:10:37 CDT)
- Re: Tachyon 0.9.10 and recommende version of cuda? Axel Kohlmeyer (Mon May 24 2010 - 07:45:24 CDT)
LAMMPS Trajectory Moslem Sabouri (Sun May 23 2010 - 04:46:17 CDT)
- Re: LAMMPS Trajectory Axel Kohlmeyer (Sun May 23 2010 - 17:24:08 CDT)
generating PSF file for a small molecule Hassan Shallal (Sun May 23 2010 - 03:53:58 CDT)
- Re: generating PSF file for a small molecule Ranyere Deyler (Sun May 23 2010 - 15:52:11 CDT)
Atom Selection for RDF Amir Hajiahmadi Farmahini (Sat May 22 2010 - 09:19:18 CDT)
- Re: Atom Selection for RDF Axel Kohlmeyer (Sat May 22 2010 - 10:25:06 CDT)
  - Re: Atom Selection for RDF Amir Hajiahmadi Farmahini (Sat May 22 2010 - 12:15:36 CDT)
    - Re: Atom Selection for RDF Axel Kohlmeyer (Sat May 22 2010 - 12:46:48 CDT)
Re: namd-l: Error in running minimization Joshua Adelman (Fri May 21 2010 - 07:56:06 CDT)
Cutting a bond Francesco Pietra (Wed May 19 2010 - 13:52:18 CDT)
- Re: Cutting a bond Axel Kohlmeyer (Wed May 19 2010 - 14:33:01 CDT)
Frames-Movie Salvador H-V (Wed May 19 2010 - 11:54:32 CDT)
- Re: Frames-Movie Vikas Varshney (Wed May 19 2010 - 13:12:58 CDT)
  - Re: Frames-Movie Axel Kohlmeyer (Wed May 19 2010 - 14:39:12 CDT)
Adding an atom to the existing pdb Narasimhan LOGANATHAN (Wed May 19 2010 - 05:18:22 CDT)
- Re: Adding an atom to the existing pdb Axel Kohlmeyer (Wed May 19 2010 - 06:36:59 CDT)
LANG setting needs to be solved in next release.... Rob (Tue May 18 2010 - 19:33:06 CDT)
- Re: LANG setting needs to be solved in next release.... John Stone (Tue May 18 2010 - 22:18:28 CDT)
- Re: LANG setting needs to be solved in next release.... Bogdan Costescu (Wed May 19 2010 - 08:34:38 CDT)
  - Re: LANG setting needs to be solved in next release.... John Stone (Wed May 19 2010 - 08:41:47 CDT)
    - Re: LANG setting needs to be solved in next release.... Bogdan Costescu (Wed May 19 2010 - 09:14:27 CDT)
- Re: LANG setting needs to be solved in next release.... Rob (Thu May 20 2010 - 02:16:43 CDT)
  - Re: Re: LANG setting needs to be solved in next release.... Bogdan Costescu (Thu May 20 2010 - 08:47:06 CDT)
compile error Liu Shiyong (Tue May 18 2010 - 04:40:12 CDT)
- Re: compile error Axel Kohlmeyer (Tue May 18 2010 - 06:27:22 CDT)
adding water box Hao Sun (Mon May 17 2010 - 19:09:57 CDT)
- Re: adding water box John Stone (Tue May 18 2010 - 12:36:24 CDT)
  - Multimodel PDB files with different models (again)? Boris Steipe (Tue May 18 2010 - 16:19:46 CDT)
adding water box Hao Sun (Mon May 17 2010 - 19:09:36 CDT)
Radial distribution function: "y" axis martin klvana (Sun May 16 2010 - 12:39:54 CDT)
- Re: Radial distribution function: "y" axis Axel Kohlmeyer (Sun May 16 2010 - 14:01:26 CDT)
  - Re: Radial distribution function: "y" axis martin klvana (Mon May 17 2010 - 17:05:03 CDT)
    - Re: Radial distribution function: "y" axis Axel Kohlmeyer (Mon May 17 2010 - 17:13:23 CDT)
append pdb politr_at_huji.ac.il (Sun May 16 2010 - 09:48:19 CDT)
- Re: append pdb Axel Kohlmeyer (Sun May 16 2010 - 11:00:52 CDT)
Xrequest in VMD Mantzalis, Dimitrios (Wed May 12 2010 - 06:03:28 CDT)
- Re: Xrequest in VMD Axel Kohlmeyer (Wed May 12 2010 - 06:44:02 CDT)
Recenter membrane bilayer to unit cell Mühlbacher, Markus (Wed May 12 2010 - 03:37:13 CDT)
- Re: Recenter membrane bilayer to unit cell Olaf Lenz (Wed May 12 2010 - 04:55:06 CDT)
Selecting CUDA devices in VMD 1.8.7 Joakim Swedberg (Tue May 11 2010 - 17:49:54 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 John Stone (Tue May 11 2010 - 19:23:48 CDT)
  - Re: Selecting CUDA devices in VMD 1.8.7 Axel Kohlmeyer (Tue May 11 2010 - 20:08:25 CDT)
    - Re: Selecting CUDA devices in VMD 1.8.7 John Stone (Tue May 11 2010 - 22:07:03 CDT)
  - Re: Selecting CUDA devices in VMD 1.8.7 John Stone (Wed May 26 2010 - 10:39:53 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 Axel Kohlmeyer (Tue May 11 2010 - 19:19:21 CDT)
units of "measure dipole" Edward Lyman (Tue May 11 2010 - 14:47:45 CDT)
- Re: units of "measure dipole" Axel Kohlmeyer (Tue May 11 2010 - 15:29:59 CDT)
  - Re: units of "measure dipole" Edward Lyman (Tue May 11 2010 - 15:35:56 CDT)
    - Re: units of "measure dipole" Axel Kohlmeyer (Tue May 11 2010 - 15:53:29 CDT)
    - Re: units of "measure dipole" Axel Kohlmeyer (Tue May 11 2010 - 16:23:51 CDT)
Atom movement within a range of Z value muniyamuthu.raviprasad_at_ndsu.edu (Tue May 11 2010 - 14:47:15 CDT)
- Re: namd-l: Atom movement within a range of Z value Axel Kohlmeyer (Tue May 11 2010 - 15:27:44 CDT)
- Re: namd-l: Atom movement within a range of Z value Eduardo Cruz-Chu (Tue May 11 2010 - 15:45:59 CDT)
regarding fit_angle.tcl jani vinod (Tue May 11 2010 - 07:04:20 CDT)
- Re: regarding fit_angle.tcl John Stone (Tue May 18 2010 - 16:02:37 CDT)
  - Re: regarding fit_angle.tcl jani vinod (Tue May 18 2010 - 23:14:46 CDT)
    - Re: regarding fit_angle.tcl John Stone (Tue May 18 2010 - 23:40:16 CDT)
    - Re: regarding fit_angle.tcl jani vinod (Wed May 19 2010 - 01:41:34 CDT)
namd gui problem sarah k (Tue May 11 2010 - 02:29:02 CDT)
- Re: namd gui problem Joshua Adelman (Tue May 11 2010 - 07:26:58 CDT)
  - Re: namd gui problem sarah k (Fri May 14 2010 - 00:16:34 CDT)
LAMMPS trajectory file Anna Ceguerra (Mon May 10 2010 - 21:12:28 CDT)
- Re: LAMMPS trajectory file Axel Kohlmeyer (Mon May 10 2010 - 23:25:23 CDT)
  - Re: LAMMPS trajectory file Anna Ceguerra (Tue May 11 2010 - 03:32:52 CDT)
Creating AVI movies David Poger (Mon May 10 2010 - 07:28:24 CDT)
- Re: Creating AVI movies Axel Kohlmeyer (Mon May 10 2010 - 08:21:13 CDT)
- Re: Creating AVI movies Bjoern Olausson (Mon May 10 2010 - 08:37:58 CDT)
Stereoscopic visualization Emiliano Ippoliti (Sun May 09 2010 - 10:58:46 CDT)
- Re: Stereoscopic visualization Axel Kohlmeyer (Sun May 09 2010 - 11:58:13 CDT)
  - Re: Stereoscopic visualization Emiliano Ippoliti (Sun May 09 2010 - 13:56:59 CDT)
    - Re: Stereoscopic visualization Axel Kohlmeyer (Sun May 09 2010 - 14:12:14 CDT)
- Re: Stereoscopic visualization John Stone (Mon May 10 2010 - 11:47:46 CDT)
  - Re: Stereoscopic visualization Emiliano Ippoliti (Tue May 11 2010 - 02:37:15 CDT)
adding atomselections? Fatemesadat Emami (Sat May 08 2010 - 18:28:48 CDT)
- Re: adding atomselections? Axel Kohlmeyer (Sat May 08 2010 - 19:34:30 CDT)
  - Re: adding atomselections? Fatemesadat Emami (Sat May 08 2010 - 19:42:24 CDT)
- Re: adding atomselections? Nicholas Musolino (Sat May 08 2010 - 20:10:24 CDT)
  - Re: adding atomselections? Fatemesadat Emami (Sat May 08 2010 - 22:15:43 CDT)
How to remove hydrogens from a pdb file? Francesca Ricci-Tam (Thu May 06 2010 - 23:17:19 CDT)
- Re: How to remove hydrogens from a pdb file? Ajasja LjubetiÄ (Fri May 07 2010 - 02:45:30 CDT)
- Re: How to remove hydrogens from a pdb file? Bjoern Olausson (Fri May 07 2010 - 02:41:51 CDT)
G(r) tcl script not including intramolecular correlations Hall, Lisa Michelle (Thu May 06 2010 - 18:12:49 CDT)
- Re: G(r) tcl script not including intramolecular correlations Axel Kohlmeyer (Thu May 06 2010 - 19:46:26 CDT)
  - Re: G(r) tcl script not including intramolecular correlations Hall, Lisa Michelle (Fri May 07 2010 - 10:46:27 CDT)
selecting from different molecules simultaneously Fatemesadat Emami (Wed May 05 2010 - 18:35:26 CDT)
- Re: selecting from different molecules simultaneously Axel Kohlmeyer (Wed May 05 2010 - 21:39:54 CDT)
  - Re: selecting from different molecules simultaneously Axel Kohlmeyer (Thu May 06 2010 - 19:55:33 CDT)
problem with "animate delete all" Wei Chen (Tue May 04 2010 - 17:07:54 CDT)
- Re: problem with "animate delete all" Ajasja LjubetiÄ (Wed May 05 2010 - 02:44:02 CDT)
  - Re: problem with "animate delete all" Wei Chen (Wed May 05 2010 - 13:57:16 CDT)
- Re: problem with "animate delete all" John Stone (Mon May 10 2010 - 16:20:55 CDT)
  - Re: problem with "animate delete all" Wei Chen (Mon May 10 2010 - 17:37:31 CDT)
Re: drawing a length scale on the vmd display maria goranovic (Tue May 04 2010 - 03:56:00 CDT)
drawing a length scale on the vmd display maria goranovic (Tue May 04 2010 - 03:01:07 CDT)
animation with variable number/names of atoms Maxim Paliy. (Mon May 03 2010 - 09:10:58 CDT)
- Re: animation with variable number/names of atoms John Stone (Mon May 03 2010 - 14:46:34 CDT)
  - Re: animation with variable number/names of atoms Axel Kohlmeyer (Mon May 03 2010 - 16:47:05 CDT)
    - Re: animation with variable number/names of atoms Maxim Paliy. (Mon May 03 2010 - 19:05:44 CDT)
  - Re: animation with variable number/names of atoms Axel Kohlmeyer (Tue May 04 2010 - 07:40:37 CDT)
Using RMSD in colvar Stefan Franzen (Mon May 03 2010 - 08:48:10 CDT)
- Re: Using RMSD in colvar John Stone (Mon May 03 2010 - 14:47:55 CDT)
Follow-up to PME question Stefan Franzen (Sun May 02 2010 - 16:54:06 CDT)
Question Regarding PME Set-up Stefan Franzen (Sun May 02 2010 - 16:48:20 CDT)
- Re: Question Regarding PME Set-up John Stone (Mon May 03 2010 - 15:08:32 CDT)
ellipsoidal particles Germain Vallverdu (Sun May 02 2010 - 14:10:43 CDT)
- Re: ellipsoidal particles Axel Kohlmeyer (Sun May 02 2010 - 15:08:54 CDT)
  - Re : ellipsoidal particles Germain Vallverdu (Sun May 02 2010 - 15:29:22 CDT)
    - Re: Re : ellipsoidal particles Tru Huynh (Mon May 03 2010 - 02:57:21 CDT)
  - Re: ellipsoidal particles John Stone (Mon May 03 2010 - 15:05:03 CDT)
    - Re: ellipsoidal particles Aleksei Aksimentiev (Mon May 03 2010 - 16:14:13 CDT)
Tachyon? Fatemesadat Emami (Fri Apr 30 2010 - 11:41:25 CDT)
- Re: Tachyon? John Stone (Fri Apr 30 2010 - 12:58:46 CDT)
- Re: Tachyon? John Stone (Fri Apr 30 2010 - 12:48:26 CDT)
choice of VDW radius Nicolas Floquet (Fri Apr 30 2010 - 02:43:58 CDT)
- Re: choice of VDW radius Axel Kohlmeyer (Fri Apr 30 2010 - 08:34:36 CDT)
paratools charmm partial charges Corey Fugate (Thu Apr 29 2010 - 23:30:19 CDT)
- Re: paratools charmm partial charges Axel Kohlmeyer (Fri Apr 30 2010 - 08:38:27 CDT)
  - Re: paratools charmm partial charges Corey Fugate (Mon May 03 2010 - 13:42:02 CDT)
VMD: set light coordinates Nicolas Floquet (Thu Apr 29 2010 - 02:48:16 CDT)
- Re: VMD: set light coordinates John Stone (Thu Apr 29 2010 - 12:10:07 CDT)
Paratools Question Corey Fugate (Wed Apr 28 2010 - 23:17:39 CDT)
- Re: Paratools Question Axel Kohlmeyer (Wed Apr 28 2010 - 23:47:45 CDT)
  - Re: Paratools Question Corey Fugate (Thu Apr 29 2010 - 01:35:23 CDT)
topotools Chenchen Wang (Wed Apr 28 2010 - 00:19:21 CDT)
- Re: topotools Axel Kohlmeyer (Wed Apr 28 2010 - 04:46:11 CDT)
  - Re: topotools Axel Kohlmeyer (Wed Apr 28 2010 - 10:37:36 CDT)
    - Re: topotools Chenchen Wang (Wed Apr 28 2010 - 15:15:38 CDT)
    - Re: topotools Axel Kohlmeyer (Wed Apr 28 2010 - 15:30:47 CDT)
Is nvidia 3D Vision + quadro working in linux ben rodriguez (Tue Apr 27 2010 - 17:16:48 CDT)
- Re: Is nvidia 3D Vision + quadro working in linux Axel Kohlmeyer (Tue Apr 27 2010 - 18:20:38 CDT)
merge structure : It is working muniyamuthu.raviprasad_at_ndsu.edu (Tue Apr 27 2010 - 10:26:45 CDT)
Run Python Scripts in VMD on Mac OS X Burkhard Heil (Tue Apr 27 2010 - 06:52:50 CDT)
- Re: Run Python Scripts in VMD on Mac OS X Axel Kohlmeyer (Tue Apr 27 2010 - 08:38:32 CDT)
representation question Joseph Bylund (Mon Apr 26 2010 - 14:01:40 CDT)
- Re: representation question Axel Kohlmeyer (Mon Apr 26 2010 - 15:09:17 CDT)
Conversion of GAMESS Quantum MD trajectory file Diego Javier Alonso de Armiño (Mon Apr 26 2010 - 13:59:49 CDT)
- Re: Conversion of GAMESS Quantum MD trajectory file Axel Kohlmeyer (Mon Apr 26 2010 - 15:01:16 CDT)
- Re: Conversion of GAMESS Quantum MD trajectory file radak004_at_umn.edu (Mon Apr 26 2010 - 16:38:36 CDT)
merge structure: error processing angles muniyamuthu.raviprasad_at_ndsu.edu (Fri Apr 23 2010 - 17:36:32 CDT)
- Re: merge structure: error processing angles Robert Brunner (Mon Apr 26 2010 - 18:32:44 CDT)
  - Re: merge structure: error processing angles muniyamuthu.raviprasad_at_ndsu.edu (Mon Apr 26 2010 - 18:57:55 CDT)
    - Re: merge structure: error processing angles Robert Brunner (Mon Apr 26 2010 - 19:12:07 CDT)
    - Re: merge structure: error processing angles John Stone (Mon Apr 26 2010 - 19:30:05 CDT)
Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" Mario Saavedra (Fri Apr 23 2010 - 16:41:06 CDT)
- Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" John Stone (Wed Apr 28 2010 - 11:13:11 CDT)
  - Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" Mario Saavedra (Thu Apr 29 2010 - 08:23:42 CDT)
    - Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" Mario Saavedra (Thu Apr 29 2010 - 13:47:24 CDT)
VRPN driver for Novint Falcon haptic device available - Looking for Testers Axel Kohlmeyer (Fri Apr 23 2010 - 15:59:34 CDT)
Problems with licorice representation when rendering 3D PDF for Power Point Bob Johnson (Thu Apr 22 2010 - 14:56:52 CDT)
- Re: Problems with licorice representation when rendering 3D PDF for Power Point John Stone (Thu Apr 22 2010 - 17:22:33 CDT)
  - Re: Problems with licorice representation when rendering 3D PDF for Power Point Bob Johnson (Fri Apr 23 2010 - 09:59:08 CDT)
    - Re: Problems with licorice representation when rendering 3D PDF for Power Point John Stone (Fri Apr 23 2010 - 12:54:49 CDT)
Coloring atoms based on timeframe range? Bjoern Olausson (Thu Apr 22 2010 - 08:51:34 CDT)
- Re: Coloring atoms based on timeframe range? Joseph Bylund (Thu Apr 22 2010 - 10:04:08 CDT)
  - Re: Coloring atoms based on timeframe range? John Stone (Thu Apr 22 2010 - 10:11:43 CDT)
- Re: Coloring atoms based on timeframe range? Axel Kohlmeyer (Thu Apr 22 2010 - 10:11:05 CDT)
  - Re: Coloring atoms based on timeframe range? Bjoern Olausson (Thu Apr 22 2010 - 10:41:46 CDT)
- Re: Coloring atoms based on timeframe range? Nicholas Musolino (Thu Apr 22 2010 - 10:53:08 CDT)
  - Re: Coloring atoms based on timeframe range? Bjoern Olausson (Fri Apr 23 2010 - 04:01:19 CDT)
Re: namd-l: building a MARTINI bilayer Peter Freddolino (Wed Apr 21 2010 - 13:16:00 CDT)
High quality movies, bmp frames and videomach=poor quality Jennifer Williams (Wed Apr 21 2010 - 05:57:11 CDT)
- Re: High quality movies, bmp frames and videomach=poor quality Bjoern Olausson (Wed Apr 21 2010 - 08:34:00 CDT)
Fwd: High quality movies, bmp frames and videomach=poor quality Jennifer Williams (Wed Apr 21 2010 - 05:56:33 CDT)
Fragments Olaf Lenz (Wed Apr 21 2010 - 03:19:04 CDT)
- Re: Fragments John Stone (Thu Apr 22 2010 - 10:26:59 CDT)
Problem with creation of child fragment in Molefacture Alexandre Suman de Araujo (Tue Apr 20 2010 - 14:04:31 CDT)
- Re: Problem with creation of child fragment in Molefacture Peter Freddolino (Tue Apr 20 2010 - 18:02:23 CDT)
  - Re: Problem with creation of child fragment in Molefacture Alexandre Suman de Araujo (Tue Apr 20 2010 - 20:04:05 CDT)
rmsd trajectory tool question Joseph Bylund (Tue Apr 20 2010 - 13:23:07 CDT)
run_vmd_tmp: Permission denied adil mughal (Tue Apr 20 2010 - 10:37:09 CDT)
- Re: run_vmd_tmp: Permission denied John Stone (Thu Apr 22 2010 - 10:32:35 CDT)
  - Re: run_vmd_tmp: Permission denied adil mughal (Thu Apr 22 2010 - 11:38:37 CDT)
pbc and measure hbond yongpingzeng (Tue Apr 20 2010 - 10:11:38 CDT)
- Re: pbc and measure hbond Nicholas Musolino (Tue Apr 20 2010 - 11:27:39 CDT)
- Re:pbc and measure hbond yongpingzeng (Tue Apr 20 2010 - 23:16:04 CDT)
  - Re:pbc and measure hbond yongpingzeng (Wed Apr 21 2010 - 08:33:43 CDT)
  - Re: Re:pbc and measure hbond Dong Luo (Wed Apr 21 2010 - 10:38:30 CDT)
pbc and measure hbond yongpingzeng (Tue Apr 20 2010 - 10:07:29 CDT)
- Re: pbc and measure hbond John Stone (Thu Apr 22 2010 - 10:30:17 CDT)
vmd does not read pqr file correct, vmd parse chain information incorrect. Knut Jørgen Bjuland (Tue Apr 20 2010 - 09:58:35 CDT)
- Re: vmd does not read pqr file correct, vmd parse chain information incorrect. Axel Kohlmeyer (Tue Apr 20 2010 - 19:18:09 CDT)
vmd does not read pqr file correct, vmd parse chain information incorrect. Knut Jørgen Bjuland (Tue Apr 20 2010 - 09:53:57 CDT)
Re: vmd-l digest V1 #1583 Nicholas Musolino (Sun Apr 18 2010 - 20:14:36 CDT)
Load and change representation? Fatemesadat Emami (Sat Apr 17 2010 - 16:51:53 CDT)
Problem with vmd and pqr file Knut Jørgen Bjuland (Sat Apr 17 2010 - 13:51:13 CDT)
- Re: Problem with vmd and pqr file Rodrigo Silveira (Sat Apr 17 2010 - 14:33:58 CDT)
  - Re: Problem with vmd and pqr file Knut Jørgen Bjuland (Sun Apr 18 2010 - 00:55:54 CDT)
    - Re: Problem with vmd and pqr file Axel Kohlmeyer (Sun Apr 18 2010 - 11:14:01 CDT)
  - Re: Problem with vmd and pqr file Axel Kohlmeyer (Sun Apr 18 2010 - 18:50:33 CDT)
RE : pbc tools in vmd for simulation bharat gupta (Sat Apr 17 2010 - 08:40:16 CDT)
- Re: RE : pbc tools in vmd for simulation Olaf Lenz (Sat Apr 17 2010 - 10:06:32 CDT)
  - Re: RE : pbc tools in vmd for simulation Knut JÃ¸rgen Bjuland (Sun Apr 18 2010 - 00:54:27 CDT)
problem about running chiloo777 777 (Sat Apr 17 2010 - 01:54:41 CDT)
- Re: problem about running John Stone (Thu Apr 22 2010 - 10:36:39 CDT)
Load and change representation? Fatemesadat Emami (Fri Apr 16 2010 - 23:37:32 CDT)
- Re: Load and change representation? Nicholas Musolino (Sun Apr 18 2010 - 12:13:12 CDT)
Resonable visualisation of the molecules inside the periodic box ? Marek Maly (Fri Apr 16 2010 - 09:59:50 CDT)
Colouring atoms named with the same first letter Jennifer Williams (Fri Apr 16 2010 - 08:15:07 CDT)
- Re: Colouring atoms named with the same first letter Joshua Anderson (Fri Apr 16 2010 - 11:09:23 CDT)
  - Re: Colouring atoms named with the same first letter Axel Kohlmeyer (Fri Apr 16 2010 - 12:03:24 CDT)
    - Re: Colouring atoms named with the same first letter Joshua Anderson (Fri Apr 16 2010 - 12:25:47 CDT)
- Re: Colouring atoms named with the same first letter John Stone (Fri Apr 16 2010 - 16:42:22 CDT)
- Re: Colouring atoms named with the same first letter Jennifer Williams (Tue Apr 20 2010 - 10:13:04 CDT)
recognizing TCL variables in a matrix argument Ronald Salesky (Thu Apr 15 2010 - 16:06:56 CDT)
- Re: recognizing TCL variables in a matrix argument Axel Kohlmeyer (Thu Apr 15 2010 - 19:45:15 CDT)
- mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) Andrew M. Simms (Fri Apr 16 2010 - 11:30:09 CDT)
  - Re: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) John Stone (Fri Apr 16 2010 - 17:00:15 CDT)
how to download & install QMTool plugin Russell, John Thomas (Wed Apr 14 2010 - 09:33:33 CDT)
- Re: how to download & install QMTool plugin Axel Kohlmeyer (Wed Apr 14 2010 - 10:42:52 CDT)
how to pick certain water molecular from a .mdcrd ÅÓÑ©ÇÛ Pang Xueqin (Tue Apr 13 2010 - 01:37:16 CDT)
- Re: how to pick certain water molecular from a .mdcrd Joseph Bylund (Tue Apr 13 2010 - 05:30:48 CDT)
VMD has problem displaying glsl rendermode Euclid Sun (Mon Apr 12 2010 - 09:04:29 CDT)
- Re: VMD has problem displaying glsl rendermode John Stone (Mon Apr 12 2010 - 09:10:01 CDT)
calculate side-chain dihedral/torsion angles Ajasja LjubetiÄ (Mon Apr 12 2010 - 03:43:25 CDT)
- Re: calculate side-chain dihedral/torsion angles Axel Kohlmeyer (Mon Apr 12 2010 - 05:43:37 CDT)
  - Re: calculate side-chain dihedral/torsion angles Ajasja LjubetiÄ (Mon Apr 12 2010 - 06:38:16 CDT)
Andres Morales sent you a little gift Andres Morales (Sun Apr 11 2010 - 20:33:52 CDT)
DynamicBonding Ziemys, Arturas (Fri Apr 09 2010 - 14:10:56 CDT)
- Re: DynamicBonding Axel Kohlmeyer (Fri Apr 09 2010 - 15:23:38 CDT)
  - RE: DynamicBonding Ziemys, Arturas (Fri Apr 09 2010 - 15:50:58 CDT)
  - RE: DynamicBonding Ziemys, Arturas (Fri Apr 09 2010 - 15:34:09 CDT)
    - Re: DynamicBonding Axel Kohlmeyer (Fri Apr 09 2010 - 15:43:03 CDT)
regarding installation Asfa Ali (Fri Apr 09 2010 - 10:45:45 CDT)
- Re: regarding installation John Stone (Sun Apr 11 2010 - 22:25:56 CDT)
AutoHotkey script for managing VMD windows Ajasja LjubetiÄ (Fri Apr 09 2010 - 07:56:42 CDT)
Turn off initial VMD animation and "menu tkcon on" problem Ajasja LjubetiÄ (Fri Apr 09 2010 - 07:18:57 CDT)
- Re: Turn off initial VMD animation and "menu tkcon on" problem Axel Kohlmeyer (Fri Apr 09 2010 - 08:37:36 CDT)
  - Re: Turn off initial VMD animation and "menu tkcon on" problem Ajasja LjubetiÄ (Fri Apr 09 2010 - 09:12:05 CDT)
build dependency Knut Jørgen Bjuland (Fri Apr 09 2010 - 02:28:48 CDT)
- Re: build dependency Ajasja LjubetiÄ (Fri Apr 09 2010 - 03:43:19 CDT)
- Re: build dependency Axel Kohlmeyer (Fri Apr 09 2010 - 04:37:59 CDT)
question about vmd use Knut Jørgen Bjuland (Fri Apr 09 2010 - 02:26:32 CDT)
- Re: question about vmd use Axel Kohlmeyer (Fri Apr 09 2010 - 04:42:49 CDT)
- Re: question about vmd use Bjoern Olausson (Mon Apr 12 2010 - 06:16:42 CDT)
creating and appending to DCD in VMD Nicholas Musolino (Thu Apr 08 2010 - 15:50:04 CDT)
- Re: creating and appending to DCD in VMD John Stone (Thu Apr 08 2010 - 16:18:41 CDT)
  - Re: creating and appending to DCD in VMD Nicholas Musolino (Thu Apr 08 2010 - 17:04:40 CDT)
Hydrogen bonds plugin obscures charged atoms -- help! Hurt, Darrell (NIH/NIAID) [E] (Thu Apr 08 2010 - 11:48:39 CDT)
- Re: Hydrogen bonds plugin obscures charged atoms -- help! Hurt, Darrell (NIH/NIAID) [E] (Thu Apr 08 2010 - 15:32:18 CDT)
Rotating the current view Muhammet ©smet Töreh Balta (Thu Apr 08 2010 - 11:10:17 CDT)
- Re: Rotating the current view John Stone (Sun Apr 11 2010 - 22:20:06 CDT)
center of unit cell Yinglong Miao (Thu Apr 08 2010 - 10:10:17 CDT)
- Re: center of unit cell Axel Kohlmeyer (Thu Apr 08 2010 - 11:13:45 CDT)
- Re: center of unit cell Bhargava (Thu Apr 08 2010 - 11:10:51 CDT)
problem with IED: 'numpy.ndarray' object has no attribute 'typecode' J. Rui Rodrigues (Wed Apr 07 2010 - 14:01:37 CDT)
Way to change ColorScale Method to single color gradient? Bjoern Olausson (Wed Apr 07 2010 - 03:33:18 CDT)
- Re: Way to change ColorScale Method to single color gradient? Axel Kohlmeyer (Wed Apr 07 2010 - 06:08:23 CDT)
  - Re: Way to change ColorScale Method to single color gradient? Bjoern Olausson (Wed Apr 07 2010 - 08:05:07 CDT)
    - Re: Way to change ColorScale Method to single color gradient? Axel Kohlmeyer (Wed Apr 07 2010 - 08:43:19 CDT)
    - Re: Way to change ColorScale Method to single color gradient? Bjoern Olausson (Thu Apr 08 2010 - 02:18:05 CDT)
problems with hotkeys and "user add key" command Rocchia Walter (Mon Apr 05 2010 - 16:31:03 CDT)
- Re: problems with hotkeys and "user add key" command John Stone (Mon Apr 05 2010 - 16:45:53 CDT)
NAMD energy plugin question Rachel Ruskin (Mon Apr 05 2010 - 12:02:44 CDT)
- Re: NAMD energy plugin question Peter Freddolino (Mon Apr 05 2010 - 20:44:59 CDT)
Generating nanotubes psf file Ranyere Deyler (Mon Apr 05 2010 - 08:58:55 CDT)
- Re: Generating nanotubes psf file Axel Kohlmeyer (Mon Apr 05 2010 - 09:52:55 CDT)
  - Re: Generating nanotubes psf file Ranyere Deyler (Mon Apr 05 2010 - 11:33:46 CDT)
[Help] cross-sections Jervis Chu (Sat Apr 03 2010 - 23:18:54 CDT)
- Re: [Help] cross-sections Axel Kohlmeyer (Sun Apr 04 2010 - 05:27:44 CDT)
RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) J. Rui Rodrigues (Thu Apr 01 2010 - 11:51:06 CDT)
- Re: RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) John Stone (Fri Apr 02 2010 - 00:26:18 CDT)
  - Re: RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) J. Rui Rodrigues (Tue Apr 06 2010 - 08:11:00 CDT)
Extract specific frames from trajectory Cathal Leahy (Thu Apr 01 2010 - 10:40:19 CDT)
- Re: Extract specific frames from trajectory Roman Petrenko (Thu Apr 01 2010 - 17:19:17 CDT)
Creating length dependent coloured bonds in VMD Willie Maddox (Tue Mar 30 2010 - 14:17:33 CDT)
- Re: Creating length dependent coloured bonds in VMD Axel Kohlmeyer (Tue Mar 30 2010 - 15:12:28 CDT)
Creating bonds using VMD Mihir Tungare (Mon Mar 29 2010 - 16:34:21 CDT)
- Re: Creating bonds using VMD John Stone (Sun Apr 11 2010 - 23:07:21 CDT)
(no subject) Irene Newhouse (Mon Mar 29 2010 - 15:12:41 CDT)
can't find file sarah k (Mon Mar 29 2010 - 02:46:20 CDT)
- Re: can't find file John Stone (Mon Mar 29 2010 - 10:11:23 CDT)
  - Re: can't find file sarah k (Sun Apr 04 2010 - 12:02:56 CDT)
VMD 1.8.7 hangs on launch Leif Halvorsen (Fri Mar 26 2010 - 14:37:03 CDT)
- Re: VMD 1.8.7 hangs on launch Marek Maly (Fri Mar 26 2010 - 18:07:55 CDT)
problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory Knut Jørgen Bjuland (Thu Mar 25 2010 - 04:26:35 CDT)
- Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory Axel Kohlmeyer (Thu Mar 25 2010 - 06:01:48 CDT)
  - Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory Knut Jørgen Bjuland (Thu Mar 25 2010 - 09:49:05 CDT)
    - Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory Axel Kohlmeyer (Thu Mar 25 2010 - 10:49:09 CDT)
visualizing trr file gurvisha sandhu (Thu Mar 25 2010 - 03:27:23 CDT)
- Re: visualizing trr file Esteban Gabriel Vega Hissi (Fri Mar 26 2010 - 16:28:57 CDT)
Visualisation of VTF trajectories using VMD under Windows ? Marek Maly (Wed Mar 24 2010 - 05:31:36 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? Olaf Lenz (Wed Mar 24 2010 - 10:19:33 CDT)
solventplugin-Watermodels Salvador H-V (Tue Mar 23 2010 - 13:08:13 CDT)
Wrapping membrane to center of PBC-Box Bjoern Olausson (Tue Mar 23 2010 - 12:06:31 CDT)
implicit solvent politr_at_huji.ac.il (Tue Mar 23 2010 - 09:16:29 CDT)
- Re: implicit solvent Ajasja LjubetiÄ (Tue Mar 23 2010 - 10:57:54 CDT)
- Re: implicit solvent Axel Kohlmeyer (Tue Mar 23 2010 - 12:00:04 CDT)
Fwd: [ACS award information, March 30 deadline] John Stone (Mon Mar 22 2010 - 12:23:45 CDT)
writepdb using selection form different molecules Bernardo Sosa Padilla Araujo (Fri Mar 19 2010 - 23:29:56 CDT)
- Re: writepdb using selection form different molecules John Stone (Mon Mar 22 2010 - 11:05:53 CDT)
  - Re: writepdb using selection form different molecules Axel Kohlmeyer (Mon Mar 22 2010 - 13:16:43 CDT)
    - Re: writepdb using selection form different molecules Bernardo Sosa Padilla Araujo (Mon Mar 22 2010 - 13:25:35 CDT)
Running IMD interactivelly under the shell Nuno Sousa Cerqueira (Thu Mar 18 2010 - 14:18:22 CDT)
- Re: Running IMD interactivelly under the shell John Stone (Thu Mar 18 2010 - 16:16:06 CDT)
- Re: Running IMD interactivelly under the shell Axel Kohlmeyer (Thu Mar 18 2010 - 16:54:42 CDT)
  - Re: Running IMD interactivelly under the shell Nuno Sousa Cerqueira (Thu Mar 18 2010 - 17:50:33 CDT)
    - Re: Running IMD interactivelly under the shell Axel Kohlmeyer (Thu Mar 18 2010 - 17:56:52 CDT)
why electrostatic interaction energy increases with the increase of cutoff using namdenergy Lan Hua (Wed Mar 17 2010 - 21:18:55 CDT)
Selecting AMBER ions Cl- and Na+ using VMD DimitryASuplatov (Wed Mar 17 2010 - 06:42:41 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD Thomas C. Bishop (Wed Mar 17 2010 - 09:22:57 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD Ajasja LjubetiÄ (Wed Mar 17 2010 - 09:31:12 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD Balazs Jojart (Wed Mar 17 2010 - 13:29:27 CDT)
  - was: Selecting Cl- Na; now: redefining key words in VMD Thomas C. Bishop (Wed Mar 17 2010 - 16:38:25 CDT)
    - Re: was: Selecting Cl- Na; now: redefining key words in VMD Axel Kohlmeyer (Wed Mar 17 2010 - 17:20:02 CDT)
Installing VMD Salvador H-V (Tue Mar 16 2010 - 12:26:08 CDT)
- Re: Installing VMD John Stone (Tue Mar 16 2010 - 12:55:29 CDT)
  - Re: Installing VMD Joseph Bylund (Tue Mar 16 2010 - 13:22:27 CDT)
(no subject) Roshan Tasgaonkar (Mon Mar 15 2010 - 18:07:34 CDT)
- Re: Joshua Adelman (Mon Mar 15 2010 - 19:56:04 CDT)
why huge positive vdw energy from namdenergy plugin Lan Hua (Mon Mar 15 2010 - 18:02:56 CDT)
Re: Loading Gaussian Log File into Paratool Kovács, Sándor Ádám (Mon Mar 15 2010 - 16:54:39 CDT)
Aligning Desmond Trajectories again Irene Newhouse (Mon Mar 15 2010 - 15:05:46 CDT)
CGenFF atom types Ziemys, Arturas (Sun Mar 14 2010 - 19:44:53 CDT)
- Re: CGenFF atom types Axel Kohlmeyer (Sun Mar 14 2010 - 21:19:30 CDT)
IMD with Phantom Omni Mark Cunningham (Sun Mar 14 2010 - 14:45:21 CDT)
running ILS under Windows 7 Irene Newhouse (Sat Mar 13 2010 - 22:32:15 CST)
- Re: running ILS under Windows 7 Axel Kohlmeyer (Sun Mar 14 2010 - 14:11:16 CDT)
  - RE: running ILS under Windows 7 Irene Newhouse (Sun Mar 14 2010 - 16:51:20 CDT)
Loading Gaussian Log File into Paratool Will Bricker (Sat Mar 13 2010 - 16:19:08 CST)
Topotools1.0 muniyamuthu.raviprasad_at_ndsu.edu (Sat Mar 13 2010 - 13:04:38 CST)
- Re: Topotools1.0 Axel Kohlmeyer (Sat Mar 13 2010 - 14:03:22 CST)
Problems with VMD installation Fedora 12 64bits Edith Euan (Sat Mar 13 2010 - 00:57:39 CST)
- Re: Problems with VMD installation Fedora 12 64bits John Stone (Sat Mar 13 2010 - 08:50:37 CST)
Patch for Three or More monomers muniyamuthu.raviprasad_at_ndsu.edu (Fri Mar 12 2010 - 10:41:03 CST)
- Re: Patch for Three or More monomers Axel Kohlmeyer (Fri Mar 12 2010 - 11:32:10 CST)
CUDA out of memory Ajasja LjubetiÄ (Fri Mar 12 2010 - 08:22:40 CST)
- Re: CUDA out of memory John Stone (Fri Mar 12 2010 - 09:02:19 CST)
  - Re: CUDA out of memory Ajasja LjubetiÄ (Mon Mar 15 2010 - 04:41:14 CDT)
    - Re: CUDA out of memory John Stone (Mon Mar 15 2010 - 10:20:37 CDT)
Re: WIN64 build Ajasja LjubetiÄ (Fri Mar 12 2010 - 07:46:55 CST)
Re: properly applying patches to create DPPC JC Gumbart (Thu Mar 11 2010 - 17:48:11 CST)
(no subject) Roshan Tasgaonkar (Wed Mar 10 2010 - 22:55:31 CST)
- RE: JC Gumbart (Wed Mar 10 2010 - 23:00:43 CST)
properly applying patches to create DPPC Ronald Salesky (Wed Mar 10 2010 - 18:33:59 CST)
- RE: properly applying patches to create DPPC JC Gumbart (Wed Mar 10 2010 - 22:56:48 CST)
Problems with "animate next" inside for-loops nicholas lee (Wed Mar 10 2010 - 16:41:45 CST)
- Re: Problems with "animate next" inside for-loops Axel Kohlmeyer (Wed Mar 10 2010 - 17:23:04 CST)
Charmm parameters for Polybutylene terephthalate (PBT) muniyamuthu.raviprasad_at_ndsu.edu (Wed Mar 10 2010 - 13:20:38 CST)
- Re: Charmm parameters for Polybutylene terephthalate (PBT) Eduardo (Thu Mar 11 2010 - 01:33:56 CST)
Isosurface wraps in PME Electrostatics calc'n Irene Newhouse (Tue Mar 09 2010 - 14:06:02 CST)
- Re: Isosurface wraps in PME Electrostatics calc'n John Stone (Tue Mar 09 2010 - 14:40:45 CST)
- Re: Isosurface wraps in PME Electrostatics calc'n Axel Kohlmeyer (Tue Mar 09 2010 - 14:59:13 CST)
  - RE: Isosurface wraps in PME Electrostatics calc'n Irene Newhouse (Tue Mar 09 2010 - 15:56:22 CST)
MergeStructs Plugin in text mode Alexandre Suman de Araujo (Tue Mar 09 2010 - 12:24:46 CST)
- Re: MergeStructs Plugin in text mode Axel Kohlmeyer (Tue Mar 09 2010 - 13:24:49 CST)
  - Re: MergeStructs Plugin in text mode Alexandre Suman de Araujo (Wed Mar 10 2010 - 06:03:01 CST)
keyboard-mouse-controlled view for VMDMovie plugin Tibbitt, Jeffrey A. (Tue Mar 09 2010 - 10:27:36 CST)
- Re: keyboard-mouse-controlled view for VMDMovie plugin Kirby Vandivort (Tue Mar 09 2010 - 16:00:47 CST)
Viewing changing beta along a trajectory Thomas Steinbrecher (Tue Mar 09 2010 - 10:26:16 CST)
- Re: Viewing changing beta along a trajectory John Stone (Tue Mar 09 2010 - 10:39:57 CST)
  - Re: Viewing changing beta along a trajectory John Stone (Tue Mar 09 2010 - 10:54:06 CST)
Error vmd and Nvidia Graphik Card Christian Wohlschlager (Tue Mar 09 2010 - 10:19:47 CST)
- Re: Error vmd and Nvidia Graphik Card John Stone (Tue Mar 09 2010 - 10:37:25 CST)
analyzing gromacs trajectory (.trr) with VMD politr_at_huji.ac.il (Tue Mar 09 2010 - 03:48:24 CST)
- Re: analyzing gromacs trajectory (.trr) with VMD Axel Kohlmeyer (Tue Mar 09 2010 - 04:47:13 CST)
Mean atom position Katherine Parra (Mon Mar 08 2010 - 13:04:47 CST)
- Re: Mean atom position John Stone (Mon Mar 08 2010 - 14:34:04 CST)
(no subject) Roshan Tasgaonkar (Mon Mar 08 2010 - 12:21:08 CST)
- Re: Edelmiro Moman (Mon Mar 08 2010 - 14:05:52 CST)
Add a surface to a pdb file Fatemesadat Emami (Mon Mar 08 2010 - 08:59:14 CST)
- Re: Add a surface to a pdb file John Stone (Mon Mar 08 2010 - 09:25:27 CST)
  - Re: Add a surface to a pdb file Fatemesadat Emami (Mon Mar 08 2010 - 09:57:02 CST)
script for area per lipid Demet Akten (Mon Mar 08 2010 - 06:39:16 CST)
- Re: script for area per lipid Ajeeta kaushiki (Tue Mar 09 2010 - 05:04:27 CST)
trajectory_path.tcl queries Francesco Pietra (Sun Mar 07 2010 - 02:55:03 CST)
- Re: trajectory_path.tcl queries Axel Kohlmeyer (Sun Mar 07 2010 - 10:53:39 CST)
- Fwd: trajectory_path.tcl queries Francesco Pietra (Sun Mar 14 2010 - 04:51:02 CDT)
  - Re: Fwd: trajectory_path.tcl queries Axel Kohlmeyer (Sun Mar 14 2010 - 10:10:02 CDT)
Question Regarding User-Defined Trajectories Wallace Dumars (Fri Mar 05 2010 - 15:53:01 CST)
- Re: Question Regarding User-Defined Trajectories John Stone (Mon Mar 08 2010 - 09:37:25 CST)
MDFF plug-in A D (Fri Mar 05 2010 - 15:09:06 CST)
- Re: MDFF plug-in John Stone (Fri Mar 05 2010 - 15:12:10 CST)
STRIDE error: too many atoms in res Nadine Utz (Fri Mar 05 2010 - 10:29:34 CST)
- Re: STRIDE error: too many atoms in res John Stone (Fri Mar 05 2010 - 14:46:07 CST)
VMD-Cones and Povray rendering Olaf Lenz (Fri Mar 05 2010 - 02:31:11 CST)
- Re: VMD-Cones and Povray rendering John Stone (Fri Mar 05 2010 - 08:58:23 CST)
pbc in water count Agarwal, Silvi (Thu Mar 04 2010 - 12:07:37 CST)
- Re: pbc in water count Olaf Lenz (Fri Mar 05 2010 - 01:06:46 CST)
  - RE: pbc in water count Agarwal, Silvi (Sat Mar 06 2010 - 11:52:55 CST)
CUDA issues Filippo Federici (Thu Mar 04 2010 - 01:18:14 CST)
- Re: CUDA issues John Stone (Thu Mar 04 2010 - 08:11:53 CST)
  - Re: CUDA issues Filippo Federici (Thu Mar 04 2010 - 10:29:44 CST)
Finding residues with some distance Neeraj Jagdish Agrawal (Wed Mar 03 2010 - 17:38:33 CST)
- Re: Finding residues with some distance Anurag Sethi (Wed Mar 03 2010 - 18:25:11 CST)
- Re: Finding residues with some distance John Stone (Wed Mar 03 2010 - 22:35:10 CST)
intersurf plugin missing in VMD 1.8.7 ? Bennion, Brian (Wed Mar 03 2010 - 11:11:49 CST)
- Re: intersurf plugin missing in VMD 1.8.7 ? John Stone (Wed Mar 03 2010 - 11:24:15 CST)
Binary VMD buid for Linux, text mode only Benjamin Bouvier (Wed Mar 03 2010 - 09:26:20 CST)
- Re: Binary VMD buid for Linux, text mode only John Stone (Wed Mar 03 2010 - 17:09:42 CST)
display of the atom number beyond 100000 in pdb file YangMingjun (Tue Mar 02 2010 - 20:36:25 CST)
- Re: display of the atom number beyond 100000 in pdb file Dipesh Bhattarai (Tue Mar 02 2010 - 21:41:53 CST)
  - Re: Re: display of the atom number beyond 100000 in pdb file YangMingjun (Wed Mar 03 2010 - 00:52:07 CST)
    - Re: Re: display of the atom number beyond 100000 in pdb file John Stone (Wed Mar 03 2010 - 01:11:27 CST)
3D Connexion - Space Navigator (OSX drivers) Tibbitt, Jeffrey A. (Tue Mar 02 2010 - 20:24:34 CST)
- Re: 3D Connexion - Space Navigator (OSX drivers) John Stone (Wed Mar 03 2010 - 10:34:03 CST)
wrapping dimer units in a Desmond traj Irene Newhouse (Tue Mar 02 2010 - 13:51:25 CST)
- RE: wrapping dimer units in a Desmond traj Irene Newhouse (Thu Mar 18 2010 - 19:43:16 CDT)
Running Python within VMD radak004_at_umn.edu (Tue Mar 02 2010 - 13:07:51 CST)
- Re: Running Python within VMD John Stone (Wed Mar 03 2010 - 10:41:49 CST)
psfgen for protein-RNA complex YangMingjun (Tue Mar 02 2010 - 10:50:13 CST)
- Re: psfgen for protein-RNA complex Schreiner Eduard (Tue Mar 02 2010 - 11:17:42 CST)
measure command problem Bernardo Sosa Padilla Araujo (Mon Mar 01 2010 - 21:44:09 CST)
- Re: measure command problem Bernardo Sosa Padilla Araujo (Tue Mar 02 2010 - 12:33:57 CST)
  - Re: measure command problem Edelmiro Moman (Tue Mar 02 2010 - 13:53:08 CST)
    - Re: measure command problem Bernardo Sosa Padilla Araujo (Tue Mar 02 2010 - 14:15:42 CST)
Generating a PSF for a Non-protien Aziz, John (Mon Mar 01 2010 - 08:27:10 CST)
- Re: Generating a PSF for a Non-protien John Stone (Wed Mar 03 2010 - 10:47:52 CST)
Problem with New cartoon representation Carla Jamous (Mon Mar 01 2010 - 02:37:33 CST)
- Re: Problem with New cartoon representation Axel Kohlmeyer (Mon Mar 01 2010 - 03:33:05 CST)
Hbonds calc with residue not in CHARMm Irene Newhouse (Fri Feb 26 2010 - 14:40:28 CST)
- RE: Hbonds calc with residue not in CHARMm JC Gumbart (Fri Feb 26 2010 - 22:34:42 CST)
  - RE: Hbonds calc with residue not in CHARMm Irene Newhouse (Sat Feb 27 2010 - 11:33:43 CST)
  - RE: Hbonds calc with residue not in CHARMm Irene Newhouse (Thu Mar 04 2010 - 12:52:08 CST)
Rotating user-defined graphics? Reid Van Lehn (Fri Feb 26 2010 - 12:24:43 CST)
- Re: Rotating user-defined graphics? Axel Kohlmeyer (Fri Feb 26 2010 - 13:24:30 CST)
Can anyone help me get the coordinate of the cylinders in the cartoon representation? Chen, Bo (NIH/NIDDK) [F] (Fri Feb 26 2010 - 11:11:42 CST)
- Re: Can anyone help me get the coordinate of the cylinders in the cartoon representation? John Stone (Wed Mar 03 2010 - 10:56:00 CST)
slower trajectory loading when CUDA support is enabled Michel Espinoza-Fonseca (Thu Feb 25 2010 - 14:35:18 CST)
- Re: slower trajectory loading when CUDA support is enabled John Stone (Thu Feb 25 2010 - 15:01:19 CST)
  - RE: slower trajectory loading when CUDA support is enabled Michel Espinoza-Fonseca (Thu Feb 25 2010 - 15:48:00 CST)
    - Re: slower trajectory loading when CUDA support is enabled John Stone (Thu Feb 25 2010 - 15:51:50 CST)
    - RE: slower trajectory loading when CUDA support is enabled Michel Espinoza-Fonseca (Thu Feb 25 2010 - 15:59:32 CST)
VMD Asfa Ali (Thu Feb 25 2010 - 13:18:21 CST)
about command measure dipole matziast_at_med.uth.gr (Wed Feb 24 2010 - 12:37:49 CST)
- Re: about command measure dipole Axel Kohlmeyer (Wed Feb 24 2010 - 13:22:51 CST)
Bigdcd and Namdenergy batch problem Andrea Carotti (Wed Feb 24 2010 - 10:21:34 CST)
- Re: Bigdcd and Namdenergy batch problem John Stone (Thu Feb 25 2010 - 16:46:08 CST)
Regarding coordinates transformation aneesh cna (Wed Feb 24 2010 - 01:04:27 CST)
- Re: Regarding coordinates transformation John Stone (Thu Feb 25 2010 - 16:33:13 CST)
  - Re: Regarding coordinates transformation aneesh cna (Thu Feb 25 2010 - 23:51:15 CST)
a problem in visualizing dump files with vmd Robabeh Moosavi (Tue Feb 23 2010 - 05:43:46 CST)
- Re: a problem in visualizing dump files with vmd Axel Kohlmeyer (Tue Feb 23 2010 - 05:44:27 CST)
VMD water protein anlysis snoze pa (Mon Feb 22 2010 - 15:39:54 CST)
- Re: VMD water protein anlysis John Stone (Mon Feb 22 2010 - 15:45:47 CST)
  - Re: VMD water protein anlysis Roman Petrenko (Mon Feb 22 2010 - 17:28:19 CST)
Probe orientations in ILS Irene Newhouse (Mon Feb 22 2010 - 13:19:56 CST)
- Principle Component Analysis of Protein PDB Structures MUHAMMAD IMTIA SHAFIQ (Mon Feb 22 2010 - 14:03:47 CST)
  - Re: Principle Component Analysis of Protein PDB Structures Benjamin Bouvier (Mon Feb 22 2010 - 14:43:40 CST)
- Re: Probe orientations in ILS John Stone (Mon Feb 22 2010 - 15:41:08 CST)
Mutator plugin console q (Mon Feb 22 2010 - 07:04:50 CST)
- Re: Mutator plugin console John Stone (Thu Feb 25 2010 - 16:53:16 CST)
gradient background not rendered BIN ZHANG (Fri Feb 19 2010 - 16:50:59 CST)
- Re: gradient background not rendered John Stone (Fri Feb 19 2010 - 16:58:46 CST)
Numeric Library of Python for VMD 1.8.7 Yue Yang (Wed Feb 17 2010 - 22:22:27 CST)
- Re: Numeric Library of Python for VMD 1.8.7 Axel Kohlmeyer (Wed Feb 17 2010 - 23:36:39 CST)
  - Re: Numeric Library of Python for VMD 1.8.7 Yue Yang (Thu Feb 18 2010 - 00:08:41 CST)
    - Re: Numeric Library of Python for VMD 1.8.7 John Stone (Thu Feb 18 2010 - 00:11:12 CST)
producing high quality video on Mac Dan Lussier (Wed Feb 17 2010 - 17:51:03 CST)
- Re: producing high quality video on Mac John Stone (Wed Feb 17 2010 - 19:57:08 CST)
- slowing down movie maker Samuel Coulbourn Flores (Wed Feb 17 2010 - 20:20:16 CST)
  - Re: slowing down movie maker John Stone (Wed Feb 17 2010 - 20:43:50 CST)
  - Re: slowing down movie maker Axel Kohlmeyer (Wed Feb 17 2010 - 21:24:14 CST)
2 questions about "measure sasa" Edward Lyman (Wed Feb 17 2010 - 14:40:53 CST)
- Re: 2 questions about "measure sasa" John Stone (Thu Feb 25 2010 - 17:00:31 CST)
  - Re: 2 questions about "measure sasa" Edward Lyman (Thu Feb 25 2010 - 17:05:37 CST)
  - Re: 2 questions about "measure sasa" Edward Lyman (Fri Feb 26 2010 - 13:44:59 CST)
    - Re: 2 questions about "measure sasa" John Stone (Thu Mar 04 2010 - 10:50:11 CST)
creating a povray file gschlau-cohen_at_berkeley.edu (Wed Feb 17 2010 - 10:44:02 CST)
- Re: creating a povray file John Stone (Wed Feb 17 2010 - 10:51:44 CST)
  - Re: creating a povray file gschlau-cohen_at_berkeley.edu (Wed Feb 17 2010 - 15:56:34 CST)
    - Re: creating a povray file John Stone (Wed Feb 17 2010 - 16:07:16 CST)
problem of installing vmd 1.8.7 on Mac osx 10.4.11 Jane Bailey (Wed Feb 17 2010 - 09:35:53 CST)
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 John Stone (Wed Feb 17 2010 - 09:47:58 CST)
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 Benjamin Bouvier (Wed Feb 17 2010 - 10:50:33 CST)
  - Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 Jane Bailey (Wed Feb 17 2010 - 11:14:55 CST)
    - Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 John Stone (Wed Feb 17 2010 - 11:55:01 CST)
Porcupine update Carsten Olbrich (Wed Feb 17 2010 - 03:03:27 CST)
How to make Porcupine plots in VMD Surendra Kumar Jain (Tue Feb 16 2010 - 13:28:07 CST)
VMD and Amber coordinates rebeca (Tue Feb 16 2010 - 12:31:52 CST)
- Re: VMD and Amber coordinates John Stone (Tue Feb 16 2010 - 13:12:14 CST)
  - Re: VMD and Amber coordinates rebeca (Tue Feb 16 2010 - 13:35:07 CST)
    - Re: VMD and Amber coordinates rebeca (Tue Feb 16 2010 - 16:44:13 CST)
get view direction Jacob Kirkensgaard (Tue Feb 16 2010 - 03:58:24 CST)
- Re: get view direction Axel Kohlmeyer (Tue Feb 16 2010 - 06:21:23 CST)
- Re: get view direction John Stone (Tue Feb 16 2010 - 10:25:37 CST)
  - Re: get view direction Jacob Kirkensgaard (Tue Feb 16 2010 - 15:21:21 CST)
PSF Generation BIPLAB NANDI (Mon Feb 15 2010 - 23:10:53 CST)
- Re: PSF Generation Rogan Carr (Tue Feb 16 2010 - 09:24:06 CST)
Can't find C-PDB bond parameters Francesco Pietra (Mon Feb 15 2010 - 03:46:29 CST)
- RE: namd-l: Can't find C-PDB bond parameters JC Gumbart (Mon Feb 15 2010 - 08:15:53 CST)
  - Re: namd-l: Can't find C-PDB bond parameters Francesco Pietra (Mon Feb 15 2010 - 11:44:52 CST)
    - Re: namd-l: Can't find C-PDB bond parameters JC Gumbart (Mon Feb 15 2010 - 12:06:41 CST)
running namd2 on Mac PPC cluster Robert Wohlhueter (Sun Feb 14 2010 - 13:13:16 CST)
- Re: running namd2 on Mac PPC cluster Axel Kohlmeyer (Sun Feb 14 2010 - 15:16:22 CST)
CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES Francesco Pietra (Sun Feb 14 2010 - 10:26:01 CST)
- Re: CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES Francesco Pietra (Sun Feb 14 2010 - 11:32:57 CST)
  - Re: CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES snoze pa (Sun Feb 14 2010 - 12:47:04 CST)
top_all22_prot.inp & par_all22_prot.inp geetha9999_at_aol.com (Sun Feb 14 2010 - 09:49:24 CST)
- Re: top_all22_prot.inp & par_all22_prot.inp Axel Kohlmeyer (Sun Feb 14 2010 - 13:06:20 CST)
Retrieving an atom and its coordinates Marc Charendoff (Sat Feb 13 2010 - 16:19:50 CST)
- Re: Retrieving an atom and its coordinates Schreiner Eduard (Sat Feb 13 2010 - 16:35:39 CST)
- Re: Retrieving an atom and its coordinates Axel Kohlmeyer (Sat Feb 13 2010 - 17:20:59 CST)
- Re: Retrieving an atom and its coordinates Roman Petrenko (Sat Feb 13 2010 - 20:14:34 CST)
Mirror reflection Rachel Ruskin (Sat Feb 13 2010 - 01:24:58 CST)
- Re: Mirror reflection John Stone (Sat Feb 13 2010 - 01:32:37 CST)
psfgen generates 0 atom .psf file Ronald Salesky (Fri Feb 12 2010 - 19:41:10 CST)
- Re: psfgen generates 0 atom .psf file Axel Kohlmeyer (Fri Feb 12 2010 - 22:52:25 CST)
- RE: psfgen generates 0 atom .psf file JC Gumbart (Fri Feb 12 2010 - 22:58:35 CST)
X_ChangeProperty error Bennion, Brian (Fri Feb 12 2010 - 14:50:27 CST)
- Re: X_ChangeProperty error John Stone (Mon Feb 15 2010 - 16:18:27 CST)
xyz file and VASP CHGCAR file do not overlap Decai Yu (Fri Feb 12 2010 - 13:29:44 CST)
- Re: xyz file and VASP CHGCAR file do not overlap Axel Kohlmeyer (Fri Feb 12 2010 - 15:00:45 CST)
  - RE: xyz file and VASP CHGCAR file do not overlap Decai Yu (Fri Feb 12 2010 - 15:20:16 CST)
  - Re: xyz file and VASP CHGCAR file do not overlap matt watkins (Fri Feb 12 2010 - 19:54:08 CST)
RMSD trajectory tools Asfa Ali (Fri Feb 12 2010 - 06:16:22 CST)
- Re: RMSD trajectory tools Axel Kohlmeyer (Fri Feb 12 2010 - 07:20:42 CST)
amino acid mutation plugin geetha9999_at_aol.com (Thu Feb 11 2010 - 13:37:08 CST)
how to set PBC for ILS Irene Newhouse (Wed Feb 10 2010 - 16:35:17 CST)
- Re: how to set PBC for ILS John Stone (Wed Feb 10 2010 - 16:43:43 CST)
  - RE: how to set PBC for ILS Irene Newhouse (Wed Feb 10 2010 - 16:53:43 CST)
    - Re: how to set PBC for ILS John Stone (Wed Feb 10 2010 - 16:59:29 CST)
    - RE: how to set PBC for ILS Irene Newhouse (Wed Feb 10 2010 - 17:01:24 CST)
Boolean operators and the new atomsel type Daniel Terry (Wed Feb 10 2010 - 12:30:21 CST)
- Re: Boolean operators and the new atomsel type Axel Kohlmeyer (Wed Feb 10 2010 - 14:35:37 CST)
convert unformatted delphi phi to formatted Jun Cheng (Wed Feb 10 2010 - 10:09:55 CST)
psf file generation.? zubin mehta (Wed Feb 10 2010 - 05:58:45 CST)
- Re: psf file generation.? John Stone (Fri Feb 12 2010 - 00:00:21 CST)
invalid command name 'vmdcon' zubin mehta (Wed Feb 10 2010 - 04:41:01 CST)
- Re: invalid command name 'vmdcon' John Stone (Fri Feb 12 2010 - 00:21:01 CST)
What occupancy at the Hbond plugin mean? Itamar Kass (Tue Feb 09 2010 - 05:15:27 CST)
- Re: What occupancy at the Hbond plugin mean? Dong Luo (Tue Feb 09 2010 - 10:21:29 CST)
how long do ILS runs take? Irene Newhouse (Mon Feb 08 2010 - 14:05:30 CST)
- Re: how long do ILS runs take? John Stone (Mon Feb 08 2010 - 14:48:16 CST)
  - RE: how long do ILS runs take? Irene Newhouse (Mon Feb 08 2010 - 14:56:53 CST)
    - RE: how long do ILS runs take? Irene Newhouse (Mon Feb 08 2010 - 16:51:23 CST)
Converting tracker coordinates to molecule coordinate for selection Dipesh Bhattarai (Mon Feb 08 2010 - 10:57:03 CST)
- Re: Converting tracker coordinates to molecule coordinate for selection John Stone (Fri Feb 12 2010 - 00:26:09 CST)
  - Re: Converting tracker coordinates to molecule coordinate for selection Dipesh Bhattarai (Fri Feb 12 2010 - 09:24:58 CST)
    - Re: Converting tracker coordinates to molecule coordinate for selection John Stone (Fri Feb 12 2010 - 11:32:37 CST)
    - Re: Converting tracker coordinates to molecule coordinate for selection Dipesh Bhattarai (Fri Feb 12 2010 - 11:57:03 CST)
Blank thumbnails and non-working snapshots Christopher McLean (Mon Feb 08 2010 - 09:55:13 CST)
- Re: Blank thumbnails and non-working snapshots Axel Kohlmeyer (Mon Feb 08 2010 - 11:47:35 CST)
  - RE: Blank thumbnails and non-working snapshots Christopher McLean (Tue Feb 09 2010 - 03:47:41 CST)
problem with generating PSF file for guanine based molecule Parisa Akhski (Sun Feb 07 2010 - 11:51:03 CST)
- Re: problem with generating PSF file for guanine based molecule Axel Kohlmeyer (Sun Feb 07 2010 - 14:05:19 CST)
VMD, Tachyon and depth of field Marc Baaden (Sat Feb 06 2010 - 10:07:07 CST)
- Re: VMD, Tachyon and depth of field John Stone (Sat Feb 06 2010 - 11:15:34 CST)
  - Re: VMD, Tachyon and depth of field John Stone (Sat Feb 06 2010 - 15:01:42 CST)
how to do acetylated lysine in VMD Vo Cam Quy (Fri Feb 05 2010 - 14:27:46 CST)
Changing decimal places in a label? Dr. Seth Olsen (Wed Feb 03 2010 - 23:21:12 CST)
- Re: Changing decimal places in a label? John Stone (Thu Feb 04 2010 - 10:48:38 CST)
Trouble building VMD 1.8.7 on Mac OS X Joshua Anderson (Wed Feb 03 2010 - 15:39:52 CST)
- Re: Trouble building VMD 1.8.7 on Mac OS X John Stone (Wed Feb 03 2010 - 15:55:51 CST)
  - Re: Trouble building VMD 1.8.7 on Mac OS X Joshua Anderson (Thu Feb 04 2010 - 07:26:10 CST)
    - Re: Trouble building VMD 1.8.7 on Mac OS X John Stone (Thu Feb 04 2010 - 10:06:33 CST)
  - Re: Trouble building VMD 1.8.7 on Mac OS X Joshua Anderson (Thu Feb 04 2010 - 10:04:53 CST)
    - Re: Trouble building VMD 1.8.7 on Mac OS X John Stone (Thu Feb 04 2010 - 10:14:13 CST)
molecular dipole moment Jelle van Sijl (Wed Feb 03 2010 - 11:21:33 CST)
- Re: molecular dipole moment Axel Kohlmeyer (Thu Feb 04 2010 - 05:11:59 CST)
VMD script: save coordinates problem martin klvana (Mon Feb 01 2010 - 20:25:49 CST)
- Re: VMD script: save coordinates problem Axel Kohlmeyer (Mon Feb 01 2010 - 21:10:15 CST)
running LAMMPS output via VMD Krigel, Igal (Mon Feb 01 2010 - 06:10:56 CST)
- Re: running LAMMPS output via VMD Axel Kohlmeyer (Mon Feb 01 2010 - 07:37:44 CST)
Number of H bond formation in VMD snoze pa (Thu Jan 28 2010 - 17:32:10 CST)
- Re: Number of H bond formation in VMD Axel Kohlmeyer (Fri Jan 29 2010 - 09:18:32 CST)
vmd hbond Calculation snoze pa (Thu Jan 28 2010 - 11:54:45 CST)
import xyz file Naiyin Yu (Tue Jan 26 2010 - 16:51:04 CST)
- Re: import xyz file John Stone (Tue Jan 26 2010 - 20:48:30 CST)
About Paratool Caio Veloso (Tue Jan 26 2010 - 11:21:13 CST)
- Re: About Paratool Axel Kohlmeyer (Wed Jan 27 2010 - 04:48:11 CST)
VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 A D (Mon Jan 25 2010 - 13:50:06 CST)
- Re: VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 Axel Kohlmeyer (Mon Jan 25 2010 - 16:08:58 CST)
  - Re: VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 John Stone (Mon Jan 25 2010 - 16:32:25 CST)
SASA and SESA Khaled Barakat (Sun Jan 24 2010 - 14:44:45 CST)
- Re: SASA and SESA John Stone (Sun Jan 24 2010 - 14:51:08 CST)
  - Re: SASA and SESA Khaled Barakat (Sun Jan 24 2010 - 15:31:59 CST)
    - Re: SASA and SESA John Stone (Sun Jan 24 2010 - 15:47:28 CST)
    - DNA form Taufik Al-Sarraj (Thu Feb 11 2010 - 12:42:19 CST)
- Re: SASA and SESA Eduard Schreiner (Sun Jan 24 2010 - 15:38:54 CST)
Re: VMD installation: Windows OpenGL John Stone (Sun Jan 24 2010 - 13:33:16 CST)
Number of Hydrogen Bonds among Water an Protein Mert Gür (Sun Jan 24 2010 - 13:17:09 CST)
- Re: Number of Hydrogen Bonds among Water an Protein Leonardo Trabuco (Sun Jan 24 2010 - 13:22:31 CST)
  - Re: Number of Hydrogen Bonds among Water an Protein Mert Gür (Sun Jan 24 2010 - 14:00:32 CST)
autopsf needs at least one atom error Ronald Salesky (Sun Jan 24 2010 - 12:43:51 CST)
- Re: autopsf needs at least one atom error Peter Freddolino (Sun Jan 24 2010 - 13:55:07 CST)
  - Re: autopsf needs at least one atom error Ronald Salesky (Sun Jan 24 2010 - 14:09:57 CST)
    - Re: autopsf needs at least one atom error John Stone (Sun Jan 24 2010 - 14:18:22 CST)
autopsf generator need at least one atom error Ronald Salesky (Sun Jan 24 2010 - 12:29:12 CST)
- Re: autopsf generator need at least one atom error John Stone (Sun Jan 24 2010 - 13:51:27 CST)
Graphics card for molecular graphics Edelmiro Moman (Sun Jan 24 2010 - 10:57:42 CST)
- Re: Graphics card for molecular graphics John Stone (Sun Jan 24 2010 - 13:01:36 CST)
- Re: Graphics card for molecular graphics Axel Kohlmeyer (Sun Jan 24 2010 - 13:09:26 CST)
- Re: Graphics card for molecular graphics Edelmiro Moman (Thu Feb 11 2010 - 06:03:47 CST)
SASA and SESA Khaled Barakat (Fri Jan 22 2010 - 20:22:25 CST)
Syntax and capabilities of writetrr Marc Baaden (Fri Jan 22 2010 - 02:43:27 CST)
- Re: Syntax and capabilities of writetrr John Stone (Fri Jan 22 2010 - 10:45:53 CST)
water in a certein box Naiyin Yu (Thu Jan 21 2010 - 17:09:10 CST)
- Re: water in a certein box John Stone (Thu Jan 21 2010 - 23:43:32 CST)
sasa function Bernhard Knapp (Thu Jan 21 2010 - 02:32:31 CST)
- Re: sasa function Deepangi Pandit (Thu Jan 21 2010 - 09:13:45 CST)
- Re: sasa function John Stone (Thu Jan 21 2010 - 14:09:13 CST)
3D glasses with LCD Nicolas Floquet (Wed Jan 20 2010 - 06:52:16 CST)
- Re: 3D glasses with LCD John Stone (Wed Jan 20 2010 - 10:08:24 CST)
Re: namd-l: NAMD ibverbs not working on new cluster Carsten Olbrich (Wed Jan 20 2010 - 06:49:43 CST)
- Re: Re: namd-l: NAMD ibverbs not working on new cluster John Stone (Wed Jan 20 2010 - 12:46:35 CST)
3D Glasses with LCD for VMD Nicolas Floquet (Wed Jan 20 2010 - 06:46:11 CST)
How to display real time when reading trr file? Cun Zhang (Wed Jan 20 2010 - 01:59:20 CST)
How to display real time when reading trr file? Cun Zhang (Wed Jan 20 2010 - 01:59:16 CST)
- Re: How to display real time when reading trr file? Axel Kohlmeyer (Wed Jan 20 2010 - 05:06:06 CST)
3D Stereo : Windows 7, nVIDIA GEFORCE Deepangi Pandit (Tue Jan 19 2010 - 17:32:04 CST)
- Re: 3D Stereo : Windows 7, nVIDIA GEFORCE John Stone (Tue Jan 19 2010 - 17:57:23 CST)
  - Re: 3D Stereo : Windows 7, nVIDIA GEFORCE Deepangi Pandit (Wed Jan 20 2010 - 09:39:38 CST)
visualizing APBS output Irene Newhouse (Tue Jan 19 2010 - 13:31:08 CST)
- Re: visualizing APBS output John Stone (Tue Jan 19 2010 - 13:50:55 CST)
  - RE: visualizing APBS output Irene Newhouse (Tue Jan 19 2010 - 14:21:33 CST)
    - Re: visualizing APBS output John Stone (Tue Jan 19 2010 - 22:07:43 CST)
    - RE: visualizing APBS output Irene Newhouse (Wed Jan 20 2010 - 12:26:48 CST)
Selection tool Narasimhan LOGANATHAN (Tue Jan 19 2010 - 03:06:21 CST)
masure distance trajectory - delete variable Balazs Jojart (Sun Jan 17 2010 - 05:11:07 CST)
- Re: masure distance trajectory - delete variable Axel Kohlmeyer (Sun Jan 17 2010 - 11:54:03 CST)
  - Re: masure distance trajectory - delete variable Balazs Jojart (Sun Jan 17 2010 - 13:20:20 CST)
bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) Dong Luo (Fri Jan 15 2010 - 11:30:48 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) John Stone (Fri Jan 15 2010 - 12:01:17 CST)
  - Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) Dong Luo (Wed Jan 20 2010 - 10:17:57 CST)
  - Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) John Stone (Wed Jan 20 2010 - 12:24:16 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) Axel Kohlmeyer (Fri Jan 15 2010 - 12:11:21 CST)
APBS tutorial link broken Irene Newhouse (Thu Jan 14 2010 - 17:01:14 CST)
- Re: APBS tutorial link broken John Stone (Thu Jan 14 2010 - 17:11:56 CST)
labeling bonds between two atoms gurunath katagi (Thu Jan 14 2010 - 12:12:36 CST)
- Re: labeling bonds between two atoms Axel Kohlmeyer (Thu Jan 14 2010 - 17:17:35 CST)
harmonic constraint when equilibrate the system Naiyin Yu (Wed Jan 13 2010 - 21:44:03 CST)
Topotools plugin: guessimpropers? MyLinkka (Wed Jan 13 2010 - 08:28:28 CST)
- Re: Topotools plugin: guessimpropers? Axel Kohlmeyer (Wed Jan 13 2010 - 09:19:16 CST)
  - Re: Topotools plugin: guessimpropers? MyLinkka (Wed Jan 13 2010 - 10:41:18 CST)
HOOMD plugin Benjamin Bouvier (Tue Jan 12 2010 - 11:04:08 CST)
- Re: HOOMD plugin Axel Kohlmeyer (Tue Jan 12 2010 - 13:11:32 CST)
PME isosurface not superimposed on protein Irene Newhouse (Mon Jan 11 2010 - 16:20:50 CST)
- Re: PME isosurface not superimposed on protein Axel Kohlmeyer (Mon Jan 11 2010 - 16:59:59 CST)
  - RE: PME isosurface not superimposed on protein Irene Newhouse (Mon Jan 11 2010 - 17:17:50 CST)
vmdcollab in VMD xaneorat_at_mail.uni-paderborn.de (Mon Jan 11 2010 - 05:19:33 CST)
- Re: vmdcollab in VMD John Stone (Wed Jan 13 2010 - 15:55:01 CST)
Maestro file export Jacob Poehlsgaard (Mon Jan 11 2010 - 03:21:22 CST)
- Re: Maestro file export John Stone (Tue Jan 12 2010 - 16:46:07 CST)
  - Re: Maestro file export Jacob Poehlsgaard (Wed Jan 13 2010 - 09:15:03 CST)
display surface amino acid beads Christine Horejs (Sat Jan 09 2010 - 04:22:34 CST)
- Re: display surface amino acid beads John Stone (Tue Jan 12 2010 - 14:25:28 CST)
obscurity in sbcg tutorial description Francesco Pietra (Sat Jan 09 2010 - 03:37:49 CST)
- Fwd: obscurity in sbcg tutorial description Francesco Pietra (Sat Jan 09 2010 - 16:01:21 CST)
Compiling VMD plugins on Windows? Olaf Lenz (Fri Jan 08 2010 - 09:20:47 CST)
- Re: Compiling VMD plugins on Windows? John Stone (Tue Jan 12 2010 - 10:51:39 CST)
Fwd: Re: allowing negative 'resid' numbers in selection strings Vlad Cojocaru (Fri Jan 08 2010 - 09:10:02 CST)
allowing negative 'resid' numbers in selection strings Vlad Cojocaru (Fri Jan 08 2010 - 07:56:16 CST)
- Re: allowing negative 'resid' numbers in selection strings Axel Kohlmeyer (Fri Jan 08 2010 - 08:49:01 CST)
vmd 1.8.7 getting the terminal free maria goranovic (Fri Jan 08 2010 - 05:20:46 CST)
- Re: vmd 1.8.7 getting the terminal free Axel Kohlmeyer (Fri Jan 08 2010 - 06:25:40 CST)
  - Re: vmd 1.8.7 getting the terminal free Axel Kohlmeyer (Fri Jan 08 2010 - 06:26:43 CST)
    - Re: vmd 1.8.7 getting the terminal free Nuno Sousa Cerqueira (Fri Jan 08 2010 - 07:38:29 CST)
    - Re: vmd 1.8.7 getting the terminal free Axel Kohlmeyer (Fri Jan 08 2010 - 08:03:21 CST)
VMD lammps plugin: a possible bug MyLinkka (Thu Jan 07 2010 - 10:35:57 CST)
- Re: VMD lammps plugin: a possible bug Axel Kohlmeyer (Thu Jan 07 2010 - 12:03:23 CST)
  - Re: VMD lammps plugin: a possible bug Axel Kohlmeyer (Fri Jan 08 2010 - 08:19:15 CST)
VMD hangs up with a file size ~ 1.2 GB ? maria goranovic (Wed Jan 06 2010 - 04:32:30 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? Olaf Lenz (Wed Jan 06 2010 - 05:57:47 CST)
  - Re: VMD hangs up with a file size ~ 1.2 GB ? maria goranovic (Wed Jan 06 2010 - 15:58:02 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? Axel Kohlmeyer (Wed Jan 06 2010 - 07:41:05 CST)
  - Re: VMD hangs up with a file size ~ 1.2 GB ? maria goranovic (Wed Jan 06 2010 - 08:26:00 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? John Stone (Wed Jan 06 2010 - 10:06:34 CST)
CUDA-NAMD hangs -- check the Northbridge temp! Biff Forbush (Tue Jan 05 2010 - 21:51:51 CST)
conflict between VMD and Netbeans IDE on MacOSX Wayne Dawson (Tue Jan 05 2010 - 21:16:58 CST)
- Re: conflict between VMD and Netbeans IDE on MacOSX Robert Brunner (Wed Jan 06 2010 - 11:18:11 CST)
  - Re: conflict between VMD and Netbeans IDE on MacOSX Wayne Dawson (Thu Jan 07 2010 - 06:44:52 CST)
    - Re: conflict between VMD and Netbeans IDE on MacOSX Leonardo Trabuco (Thu Jan 07 2010 - 08:02:37 CST)
    - Re: conflict between VMD and Netbeans IDE on MacOSX John Stone (Tue Jan 12 2010 - 14:13:30 CST)
New Cartoon representation problem Kassem Ghaddar (Tue Jan 05 2010 - 04:09:16 CST)
- retrieving atom indexes from measure contacts Sunita Patel (Tue Jan 05 2010 - 19:56:22 CST)
  - Re: retrieving atom indexes from measure contacts Leonardo Trabuco (Tue Jan 05 2010 - 20:16:54 CST)
- Re: New Cartoon representation problem John Stone (Wed Jan 06 2010 - 12:49:18 CST)
slow visualization using molecular representations with VMD 1.8.7 on mac Matthieu Chavent (Tue Jan 05 2010 - 03:47:17 CST)
- Re: slow visualization using molecular representations with VMD 1.8.7 on mac John Stone (Tue Jan 05 2010 - 08:59:04 CST)
VMD-Xplor interface problem Vitaly Vostrikov (Sun Jan 03 2010 - 20:18:01 CST)
- Re: VMD-Xplor interface problem John Stone (Sun Jan 03 2010 - 21:38:24 CST)
  - Re: VMD-Xplor interface problem Vitaly Vostrikov (Mon Jan 04 2010 - 12:04:14 CST)
    - Re: VMD-Xplor problem Vitaly Vostrikov (Tue Jan 05 2010 - 22:22:12 CST)
Failure of AutoSCFBuilder to recognize all monomers Francesco Pietra (Sun Jan 03 2010 - 04:54:24 CST)
- Fwd: Failure of AutoSCFBuilder to recognize all monomers Francesco Pietra (Sun Jan 03 2010 - 09:24:22 CST)
vmd 1.8.7CUDA/1.8.7/1.8.6 can not start Guo Zhi (Sat Jan 02 2010 - 18:16:54 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start John Stone (Sun Jan 03 2010 - 01:56:14 CST)
  - Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start Guo Zhi (Sun Jan 03 2010 - 11:41:03 CST)
reply Prathit Chatterjee (Sat Jan 02 2010 - 05:33:04 CST)
- Re: reply John Stone (Sat Jan 02 2010 - 08:53:01 CST)
About the criterion of H bond yongle (Sat Jan 02 2010 - 02:23:18 CST)
- Re: About the criterion of H bond Axel Kohlmeyer (Sat Jan 02 2010 - 03:33:38 CST)
vmd installation in linux Prathit Chatterjee (Fri Jan 01 2010 - 22:08:09 CST)
- Re: vmd installation in linux John Stone (Sat Jan 02 2010 - 01:08:58 CST)
  - Re: vmd installation in linux Ocar Campos (Sat Jan 02 2010 - 06:20:15 CST)
  - Re: vmd installation in linux Prathit Chatterjee (Sun Jan 03 2010 - 04:09:13 CST)
Superposition of Multiple Trajectory Timesteps ÖÜÎÄ²ý (Thu Dec 31 2009 - 05:47:20 CST)
- Re: Superposition of Multiple Trajectory Timesteps Axel Kohlmeyer (Thu Dec 31 2009 - 08:08:03 CST)
  - Re: Re: Superposition of Multiple Trajectory Timesteps Axel Kohlmeyer (Thu Dec 31 2009 - 10:57:08 CST)
sbcg with multimers Francesco Pietra (Wed Dec 30 2009 - 15:22:43 CST)
- Fwd: sbcg with multimers Francesco Pietra (Thu Dec 31 2009 - 04:40:14 CST)
- Re: sbcg with multimers Anton Arkhipov (Sun Jan 17 2010 - 23:37:48 CST)
IMD in VMD Lixia Jin Day (Tue Dec 29 2009 - 17:42:57 CST)
- Re: IMD in VMD Axel Kohlmeyer (Wed Dec 30 2009 - 00:58:00 CST)
  - Re: IMD in VMD John Stone (Wed Dec 30 2009 - 12:55:28 CST)
- Re: IMD in VMD John Stone (Wed Dec 30 2009 - 12:39:10 CST)
UNIT CELL Narasimhan LOGANATHAN (Tue Dec 29 2009 - 09:49:29 CST)
- Re: UNIT CELL Axel Kohlmeyer (Tue Dec 29 2009 - 10:37:59 CST)
  - Re: UNIT CELL Olaf Lenz (Wed Dec 30 2009 - 04:13:59 CST)
PDB file Burak Cankurtaran (Tue Dec 29 2009 - 05:41:23 CST)
- Re: PDB file John Stone (Sun Jan 03 2010 - 02:23:41 CST)
Re: Problem when using VMD Python Library Cun Zhang (Sun Dec 27 2009 - 08:31:04 CST)
Problem when using VMD Python Library Cun Zhang (Fri Dec 25 2009 - 06:03:46 CST)
- Re: Problem when using VMD Python Library John Stone (Wed Dec 30 2009 - 12:46:36 CST)
remove water snoze pa (Wed Dec 23 2009 - 14:44:45 CST)
installation problem Jin Wen (Tue Dec 22 2009 - 17:46:43 CST)
- Re: installation problem Ale Gomez (Tue Dec 22 2009 - 20:54:29 CST)
- Re: installation problem Axel Kohlmeyer (Wed Dec 23 2009 - 02:14:47 CST)
  - Re: installation problem Jin Wen (Wed Dec 23 2009 - 14:13:05 CST)
    - Re: installation problem Axel Kohlmeyer (Wed Dec 23 2009 - 14:30:56 CST)
    - Re: installation problem John Stone (Wed Dec 30 2009 - 12:53:37 CST)
rdf curve gurunath katagi (Tue Dec 22 2009 - 08:17:57 CST)
- Re: rdf curve Axel Kohlmeyer (Tue Dec 22 2009 - 09:08:20 CST)
- vmd 1.8.7 - console window fullscreen gbellesia_at_chem.ucsb.edu (Thu Dec 24 2009 - 16:20:17 CST)
  - Re: vmd 1.8.7 - console window fullscreen Axel Kohlmeyer (Fri Dec 25 2009 - 02:23:27 CST)
superimposed structure leila karami (Sun Dec 20 2009 - 08:46:03 CST)
- Re: superimposed structure Axel Kohlmeyer (Sun Dec 20 2009 - 09:55:04 CST)
superimposed structure leila karami (Sun Dec 20 2009 - 08:07:16 CST)
vmd won't display in lines Gard Nelson (Fri Dec 18 2009 - 16:17:45 CST)
- Re: vmd won't display in lines John Stone (Fri Dec 18 2009 - 16:32:12 CST)
Re: VMD CVS Request for Richard Cook Rich Cook (Thu Dec 17 2009 - 16:45:07 CST)
- Re: Re: VMD CVS Request for Richard Cook John Stone (Thu Dec 17 2009 - 17:03:07 CST)
  - Re: Re: VMD CVS Request for Richard Cook Rich Cook (Thu Dec 17 2009 - 18:05:34 CST)
Re: Request for information John Stone (Thu Dec 17 2009 - 13:29:52 CST)
- Re: Request for information Rich Cook (Thu Dec 17 2009 - 13:58:45 CST)
Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation Francesco Pietra (Thu Dec 17 2009 - 02:34:23 CST)
- Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation Francesco Pietra (Thu Dec 17 2009 - 12:27:15 CST)
- Re: Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation John Stone (Thu Dec 17 2009 - 13:33:34 CST)
Problem generating psf file in psfgen Ranyere Deyler (Wed Dec 16 2009 - 23:24:58 CST)
- Re: Problem generating psf file in psfgen John Stone (Sat Dec 19 2009 - 01:52:07 CST)
Re: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation Peter Freddolino (Wed Dec 16 2009 - 18:49:13 CST)
Graphical Representations doesn't recognize chain ID z Samuel Coulbourn Flores (Wed Dec 16 2009 - 09:59:47 CST)
- Re: Graphical Representations doesn't recognize chain ID z John Stone (Wed Dec 16 2009 - 10:21:12 CST)
VMD plugin: filenames supposed to have dot in it?!?! Rob (Wed Dec 16 2009 - 01:07:20 CST)
- Re: VMD plugin: filenames supposed to have dot in it?!?! John Stone (Wed Dec 16 2009 - 10:51:29 CST)
- Re: VMD plugin: filenames supposed to have dot in it?!?! Rob (Thu Dec 17 2009 - 18:12:46 CST)
- pbc wrap center on protein Balazs Jojart (Sat Dec 19 2009 - 12:16:22 CST)
  - Re: pbc wrap center on protein Axel Kohlmeyer (Sat Dec 19 2009 - 14:45:59 CST)
    - Re: pbc wrap center on protein Balazs Jojart (Sat Dec 19 2009 - 14:56:22 CST)
  - Re: pbc wrap center on protein Luca Bellucci (Sat Dec 19 2009 - 16:06:12 CST)
VMD plugin for abinit Rob (Tue Dec 15 2009 - 21:47:08 CST)
- Re: VMD plugin for abinit John Stone (Thu Dec 17 2009 - 13:38:12 CST)
how to label the distances using tk console mode YangMingjun (Tue Dec 15 2009 - 19:24:00 CST)
- Re: how to label the distances using tk console mode Eric H. Lee (Tue Dec 15 2009 - 20:09:58 CST)
  - Re: Re: how to label the distances using tk console mode YangMingjun (Tue Dec 15 2009 - 20:39:49 CST)
    - Re: how to label the distances using tk console mode Eric H. Lee (Tue Dec 15 2009 - 20:54:17 CST)
- Re: how to label the distances using tk console mode Schreiner Eduard (Tue Dec 15 2009 - 20:40:02 CST)
VMD on AIX --- successful build, failed execution Rich Cook (Tue Dec 15 2009 - 16:26:00 CST)
- Re: VMD on AIX --- successful build, failed execution John Stone (Wed Dec 16 2009 - 10:56:56 CST)
  - Re: VMD on AIX --- successful build, failed execution Rich Cook (Wed Dec 16 2009 - 14:07:52 CST)
Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac Rich Cook (Tue Dec 15 2009 - 15:03:07 CST)
- Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac John Stone (Tue Dec 15 2009 - 15:20:01 CST)
  - Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac John Stone (Wed Dec 16 2009 - 23:55:15 CST)
    - Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac Rich Cook (Thu Dec 17 2009 - 12:52:54 CST)
Graphics card for VMD Berit Hinnemann (Tue Dec 15 2009 - 11:25:25 CST)
- Re: Graphics card for VMD Axel Kohlmeyer (Tue Dec 15 2009 - 12:26:08 CST)
  - Re: Graphics card for VMD Berit Hinnemann (Wed Dec 16 2009 - 07:16:14 CST)
hbonds.tcl selection problem in command-line Nicola Giacche' (Tue Dec 15 2009 - 05:25:01 CST)
- Re: hbonds.tcl selection problem in command-line Axel Kohlmeyer (Tue Dec 15 2009 - 06:17:46 CST)
IDs of representations Carsten Olbrich (Tue Dec 15 2009 - 03:30:54 CST)
- Re: IDs of representations Leonardo Trabuco (Tue Dec 15 2009 - 11:30:26 CST)
Re: namd-l: Fwd: conf file for coarse grained simulation Francesco Pietra (Tue Dec 15 2009 - 02:40:55 CST)
- Re: namd-l: Fwd: conf file for coarse grained simulation Francesco Pietra (Tue Dec 15 2009 - 10:01:30 CST)
- Re: Re: namd-l: Fwd: conf file for coarse grained simulation Peter Freddolino (Tue Dec 15 2009 - 10:45:27 CST)
superimposed structure leila karami (Tue Dec 15 2009 - 00:21:04 CST)
- Re: superimposed structure Joshua Adelman (Tue Dec 15 2009 - 07:15:52 CST)
  - Re: superimposed structure Axel Kohlmeyer (Tue Dec 15 2009 - 09:34:12 CST)
File owner/group settings after installing precompiled VMD. Rob (Mon Dec 14 2009 - 21:13:23 CST)
- Re: File owner/group settings after installing precompiled VMD. John Stone (Thu Dec 17 2009 - 00:24:11 CST)
solvating diferent regions in VMD Ranyere Deyler (Mon Dec 14 2009 - 17:07:38 CST)
PBC + DCD wrap/unwrap Goutham (Mon Dec 14 2009 - 13:37:36 CST)
- Re: PBC + DCD wrap/unwrap Olaf Lenz (Tue Dec 15 2009 - 03:38:55 CST)
Re: namd CG minimization error: unable to find angle parameters for nxg nxx nxg Francesco Pietra (Fri Dec 11 2009 - 09:52:43 CST)
namd CG minimization error: unable to find angle parameters for nxg nxx nxg Francesco Pietra (Thu Dec 10 2009 - 10:27:13 CST)
- Re: namd CG minimization error: unable to find angle parameters for nxg nxx nxg Peter Freddolino (Thu Dec 10 2009 - 15:06:05 CST)
Fwd: Calculation the Surface Area/Volume of a Protein Cavity Nuno Sousa Cerqueira (Thu Dec 10 2009 - 07:13:07 CST)
About "Visualization and Analysis of CPMD data with VMD" tutorial Aurum Bai (Thu Dec 10 2009 - 02:29:22 CST)
- Re: About "Visualization and Analysis of CPMD data with VMD" tutorial Joshua Adelman (Thu Dec 10 2009 - 05:29:17 CST)
Fwd: paratool - parameter generation from gaussian log files Nuno Sousa Cerqueira (Thu Dec 10 2009 - 01:05:51 CST)
Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" Rob (Wed Dec 09 2009 - 22:24:16 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" Bogdan Costescu (Thu Dec 10 2009 - 06:14:34 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" John Stone (Thu Dec 10 2009 - 10:15:06 CST)
paratool - parameter generation from gaussian log files Yu Fang (Wed Dec 09 2009 - 22:17:57 CST)
- Re: paratool - parameter generation from gaussian log files sarah k (Thu Dec 10 2009 - 00:07:06 CST)
  - Re: paratool - parameter generation from gaussian log files Yu Fang (Thu Dec 10 2009 - 05:08:03 CST)
  - Re: paratool - parameter generation from gaussian log files Yu Fang (Mon Dec 14 2009 - 17:41:06 CST)
error in rmsd.tcl for tutorial TAE BUM LEE (Wed Dec 09 2009 - 16:37:42 CST)
- Re: error in rmsd.tcl for tutorial John Stone (Thu Dec 10 2009 - 10:28:16 CST)
  - Re: error in rmsd.tcl for tutorial TAE BUM LEE (Thu Dec 10 2009 - 17:42:04 CST)
    - Re: error in rmsd.tcl for tutorial John Stone (Fri Dec 11 2009 - 16:12:22 CST)
    - Re: error in rmsd.tcl for tutorial TAE BUM LEE (Sun Dec 13 2009 - 12:23:03 CST)
Counting number of water molecules Bernardo Sosa Padilla Araujo (Wed Dec 09 2009 - 16:30:13 CST)
- Re: Counting number of water molecules Axel Kohlmeyer (Wed Dec 09 2009 - 17:32:07 CST)
- Re: Counting number of water molecules Andrew Dalke (Wed Dec 09 2009 - 17:20:43 CST)
  - Re: Counting number of water molecules Bernardo Sosa Padilla Araujo (Thu Dec 10 2009 - 18:48:20 CST)
Re: A VMD script to emulate the Matlab "jet" colorscale John Stone (Wed Dec 09 2009 - 11:48:11 CST)
A VMD script to emulate the Matlab "jet" colorscale John Stone (Tue Dec 08 2009 - 16:49:40 CST)
Restraints on coarse grained model Francesco Pietra (Tue Dec 08 2009 - 13:23:59 CST)
- Fwd: Restraints on coarse grained model Francesco Pietra (Wed Dec 09 2009 - 03:07:36 CST)
  - Re: Restraints on coarse grained model Anton Arkhipov (Wed Dec 09 2009 - 10:58:56 CST)
- Re: Restraints on coarse grained model BIN ZHANG (Wed Dec 09 2009 - 12:07:37 CST)
  - Re: Restraints on coarse grained model Francesco Pietra (Wed Dec 09 2009 - 12:49:28 CST)
    - Re: Restraints on coarse grained model BIN ZHANG (Wed Dec 09 2009 - 13:01:58 CST)
Broken bonds in trajectory due to pbc Jennifer Williams (Tue Dec 08 2009 - 05:41:07 CST)
- Re: Broken bonds in trajectory due to pbc Olaf Lenz (Tue Dec 08 2009 - 07:39:39 CST)
  - Re: Broken bonds in trajectory due to pbc Olaf Lenz (Tue Dec 08 2009 - 13:07:39 CST)
Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (however: 1.8.6 works!) Rob (Tue Dec 08 2009 - 01:03:29 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (however: 1.8.6 works!) John Stone (Tue Dec 08 2009 - 01:17:25 CST)
vmd 1.8.7 on Intel 64 bit: segmentation fault Rob (Mon Dec 07 2009 - 21:25:11 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault John Stone (Mon Dec 07 2009 - 21:45:44 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault Rob (Tue Dec 08 2009 - 08:05:26 CST)
  - Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault John Stone (Tue Dec 08 2009 - 12:34:57 CST)
    - Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault Axel Kohlmeyer (Tue Dec 08 2009 - 16:53:15 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault Rob (Fri Dec 11 2009 - 08:53:35 CST)
  - Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault John Stone (Fri Dec 11 2009 - 14:34:23 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault Rob (Sun Dec 13 2009 - 18:33:35 CST)
  - Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault Bogdan Costescu (Mon Dec 14 2009 - 06:21:14 CST)
FW: VMD 1.8.7 build with VRPN 7.23 Mark Cunningham (Mon Dec 07 2009 - 14:09:59 CST)
- Re: FW: VMD 1.8.7 build with VRPN 7.23 John Stone (Mon Dec 07 2009 - 14:42:26 CST)
vmd-1.8.7 building from source ->few plugins "package could not be loaded" Tru Huynh (Mon Dec 07 2009 - 09:40:30 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" John Stone (Mon Dec 07 2009 - 14:43:51 CST)
  - Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" Tru Huynh (Tue Dec 08 2009 - 14:22:23 CST)
cluster of particles Salvador H-V (Sun Dec 06 2009 - 20:00:39 CST)
porcupine plots for PC1 Dawn (Sun Dec 06 2009 - 13:29:19 CST)
- Re: porcupine plots for PC1 Joshua Adelman (Sun Dec 06 2009 - 15:22:06 CST)
  - Re: porcupine plots for PC1 Joshua Adelman (Mon Dec 07 2009 - 06:49:11 CST)
    - Re: porcupine plots for PC1 Carsten Olbrich (Thu Dec 10 2009 - 04:43:03 CST)
    - Calculation the Surface Area/Volume of a Protein Cavity MUHAMMAD IMTIA SHAFIQ (Thu Dec 10 2009 - 05:24:12 CST)
Fwd: Failure with AutoPSF (PDB has x, y, z zero) Francesco Pietra (Sat Dec 05 2009 - 12:51:22 CST)
- Fwd: Failure with AutoPSF (PDB has x, y, z zero) Francesco Pietra (Sat Dec 05 2009 - 14:25:41 CST)
  - Re: Fwd: Failure with AutoPSF (PDB has x, y, z zero) Peter Freddolino (Sat Dec 05 2009 - 15:40:27 CST)
Failure with AutoPSF (PDB has x, y, z zero) Francesco Pietra (Fri Dec 04 2009 - 12:35:12 CST)
- Re: Failure with AutoPSF (PDB has x, y, z zero) Peter Freddolino (Sat Dec 05 2009 - 08:21:29 CST)
regarding generating movie jani sahil (Fri Dec 04 2009 - 02:49:19 CST)
- Re: regarding generating movie John Stone (Fri Dec 04 2009 - 14:06:51 CST)
  - Re: regarding generating movie jani sahil (Fri Dec 04 2009 - 23:56:42 CST)
RMSD for individual residue for a tetarmer gurunath katagi (Fri Dec 04 2009 - 00:20:03 CST)
- Re: RMSD for individual residue for a tetarmer John Stone (Wed Dec 09 2009 - 00:25:01 CST)
  - Re: RMSD for individual residue for a tetarmer gurunath katagi (Wed Dec 09 2009 - 04:41:11 CST)
Nucleic acid topology file for PSF generation Jim Parker (Thu Dec 03 2009 - 21:56:00 CST)
- Re: Nucleic acid topology file for PSF generation Schreiner Eduard (Thu Dec 03 2009 - 23:01:58 CST)
  - [Solved] Re: Nucleic acid topology file for PSF generation Jim Parker (Fri Dec 04 2009 - 22:13:50 CST)
desmond plugin Nuno Sousa Cerqueira (Thu Dec 03 2009 - 17:43:02 CST)
- Re: desmond plugin John Stone (Fri Dec 04 2009 - 10:43:25 CST)
  - Re: desmond plugin John Stone (Wed Dec 09 2009 - 09:11:33 CST)
- Re: desmond plugin John Stone (Fri Dec 04 2009 - 13:54:38 CST)
  - Re: desmond plugin Nuno Sousa Cerqueira (Fri Dec 04 2009 - 15:07:32 CST)
    - Re: desmond plugin John Stone (Fri Dec 04 2009 - 17:28:31 CST)
desmond plugin Nuno Sousa Cerqueira (Thu Dec 03 2009 - 17:37:51 CST)
in search of lipid files Francesco Pietra (Thu Dec 03 2009 - 16:11:43 CST)
ccp4 in vmd pebblepeddle_at_gmail.com (Wed Dec 02 2009 - 21:55:58 CST)
- Re: ccp4 in vmd John Stone (Wed Dec 02 2009 - 22:41:17 CST)
Drawing cylinder in VMD rainy908_at_yahoo.com (Wed Dec 02 2009 - 17:29:24 CST)
- Re: Drawing cylinder in VMD John Stone (Wed Dec 02 2009 - 17:35:04 CST)
  - Re: Drawing cylinder in VMD rainy908_at_yahoo.com (Wed Dec 02 2009 - 20:22:50 CST)
    - Re: Drawing cylinder in VMD John Stone (Wed Dec 02 2009 - 20:36:13 CST)
- Re: Drawing cylinder in VMD rainy908_at_yahoo.com (Wed Dec 02 2009 - 17:36:00 CST)
CG lipid bilayer vmd 1.8.7 Francesco Pietra (Wed Dec 02 2009 - 12:13:53 CST)
- Re: CG lipid bilayer vmd 1.8.7 BIN ZHANG (Wed Dec 02 2009 - 14:03:58 CST)
  - Re: CG lipid bilayer vmd 1.8.7 BIN ZHANG (Wed Dec 02 2009 - 15:17:05 CST)
  - Re: CG lipid bilayer vmd 1.8.7 Francesco Pietra (Thu Dec 03 2009 - 02:57:24 CST)
    - Re: CG lipid bilayer vmd 1.8.7 Peter Freddolino (Thu Dec 03 2009 - 05:31:58 CST)
- Re: CG lipid bilayer vmd 1.8.7 Anton Arkhipov (Sun Dec 06 2009 - 00:35:46 CST)
  - Re: CG lipid bilayer vmd 1.8.7 Francesco Pietra (Sun Dec 06 2009 - 13:24:06 CST)
coloring by difference in beta factors cubellis_at_unina.it (Tue Dec 01 2009 - 06:25:28 CST)
- Re: coloring by difference in beta factors Axel Kohlmeyer (Tue Dec 01 2009 - 07:30:43 CST)
Cant start IED Thomas Steinbrecher (Tue Dec 01 2009 - 05:00:15 CST)
- Re: Cant start IED Axel Kohlmeyer (Tue Dec 01 2009 - 07:26:44 CST)
building VMD is tricky -please help Rich Cook (Mon Nov 30 2009 - 17:49:23 CST)
- Re: building VMD is tricky -please help Dipesh Bhattarai (Mon Nov 30 2009 - 19:32:09 CST)
  - Re: building VMD is tricky -please help Pieter van 't Hof (Tue Dec 01 2009 - 03:40:05 CST)
- Re: building VMD is tricky -please help John Stone (Tue Dec 01 2009 - 10:05:01 CST)
  - Re: building VMD is tricky -please help Rich Cook (Tue Dec 01 2009 - 13:59:29 CST)
Survey: 3 minutes of your time Pieter van 't Hof (Mon Nov 30 2009 - 07:56:47 CST)
generating .xsc file from .dcd Neelanjana Sengupta (Mon Nov 30 2009 - 04:19:43 CST)
- Re: generating .xsc file from .dcd John Stone (Tue Dec 01 2009 - 10:07:57 CST)
Polyhedra with two selections? Georg Spiekermann (Mon Nov 30 2009 - 04:01:12 CST)
- Re: Polyhedra with two selections? Axel Kohlmeyer (Mon Nov 30 2009 - 05:10:54 CST)
  - Re: Polyhedra with two selections? John Stone (Mon Nov 30 2009 - 09:54:00 CST)
Color by position behavior JT (Sun Nov 29 2009 - 02:59:31 CST)
- Re: Color by position behavior Axel Kohlmeyer (Sun Nov 29 2009 - 03:47:08 CST)
  - Re: Color by position behavior JT (Sun Nov 29 2009 - 08:23:06 CST)
error in rbcg-2007.par file BIN ZHANG (Fri Nov 27 2009 - 13:15:01 CST)
- Re: error in rbcg-2007.par file Peter Freddolino (Fri Nov 27 2009 - 19:27:37 CST)
desmond plug-in error Nuno Sousa Cerqueira (Thu Nov 26 2009 - 11:53:58 CST)
- Re: desmond plug-in error John Stone (Thu Nov 26 2009 - 14:16:26 CST)
  - Re: desmond plug-in error Justin Gullingsrud (Mon Nov 30 2009 - 16:35:13 CST)
    - Re: desmond plug-in error Nuno Sousa Cerqueira (Mon Nov 30 2009 - 18:35:39 CST)
Secondary structure with Timeline Florentina Tofoleanu (Thu Nov 26 2009 - 06:19:15 CST)
- Re: Secondary structure with Timeline John Stone (Tue Dec 01 2009 - 10:53:00 CST)
- Re: Secondary structure with Timeline Florentina Tofoleanu (Tue Dec 01 2009 - 12:18:05 CST)
Hydrogen bonds with different evaluations Florentina Tofoleanu (Thu Nov 26 2009 - 05:16:34 CST)
Move molecule to the origin of coordinate system snoze pa (Wed Nov 25 2009 - 10:49:12 CST)
- Re: Move molecule to the origin of coordinate system John Stone (Wed Nov 25 2009 - 11:22:07 CST)
- Re: Move molecule to the origin of coordinate system Joshua Adelman (Wed Nov 25 2009 - 12:46:13 CST)
GRID maps visualization problems Sergey Samsonov (Tue Nov 24 2009 - 07:50:51 CST)
- Re: GRID maps visualization problems Björn Windshügel (Tue Nov 24 2009 - 12:22:47 CST)
  - Re: GRID maps visualization problems John Stone (Wed Nov 25 2009 - 15:05:30 CST)
GRID maps visualization problems Sergey Samsonov (Tue Nov 24 2009 - 07:35:51 CST)
- Re: GRID maps visualization problems John Stone (Tue Nov 24 2009 - 09:12:30 CST)
aligning trajectories maria goranovic (Tue Nov 24 2009 - 04:22:54 CST)
Using class UIVR Dipesh Bhattarai (Mon Nov 23 2009 - 10:59:57 CST)
- Re: Using class UIVR John Stone (Mon Nov 23 2009 - 17:15:49 CST)
  - Re: Using class UIVR Dipesh Bhattarai (Tue Nov 24 2009 - 10:27:22 CST)
    - Re: Using class UIVR John Stone (Tue Nov 24 2009 - 11:06:52 CST)
VMD 1.8.7 amd64 python libs? Tru Huynh (Mon Nov 23 2009 - 10:30:17 CST)
- Re: VMD 1.8.7 amd64 python libs? John Stone (Mon Nov 23 2009 - 17:30:30 CST)
  - Re: VMD 1.8.7 amd64 python libs? John Stone (Wed Dec 02 2009 - 10:29:56 CST)
  - Re: VMD 1.8.7 amd64 python libs? John Stone (Wed Dec 02 2009 - 11:16:06 CST)
    - Re: VMD 1.8.7 amd64 python libs? Ondrej Marsalek (Wed Dec 02 2009 - 11:22:21 CST)
    - Re: VMD 1.8.7 amd64 python libs? John Stone (Wed Dec 02 2009 - 11:48:41 CST)
Re: namd-l: Re: problems with CG protein-lipidbilayer-water system Francesco Pietra (Sun Nov 22 2009 - 15:32:18 CST)
problems with CG protein-lipidbilayer-water system Francesco Pietra (Sat Nov 21 2009 - 12:00:54 CST)
- Re: problems with CG protein-lipidbilayer-water system Axel Kohlmeyer (Sat Nov 21 2009 - 16:54:04 CST)
- Re: problems with CG protein-lipidbilayer-water system Anton Arkhipov (Mon Nov 23 2009 - 00:51:43 CST)
destroyed molecule sarah k (Sat Nov 21 2009 - 06:57:32 CST)
- Re: destroyed molecule Peter Freddolino (Sat Nov 21 2009 - 08:59:35 CST)
coarse-grained solvate usage Francesco Pietra (Fri Nov 20 2009 - 05:12:35 CST)
- Re: coarse-grained solvate usage Kirby Vandivort (Fri Nov 20 2009 - 12:09:51 CST)
aquire coordinates from the points of the solvent representation Nuno Sousa Cerqueira (Thu Nov 19 2009 - 13:53:40 CST)
- Re: aquire coordinates from the points of the solvent representation Axel Kohlmeyer (Fri Nov 20 2009 - 13:23:11 CST)
  - Re: aquire coordinates from the points of the solvent representation John Stone (Sat Nov 21 2009 - 01:01:15 CST)
solvate error Rebecca Alexander (Thu Nov 19 2009 - 11:48:42 CST)
- Re: solvate error Axel Kohlmeyer (Thu Nov 19 2009 - 12:29:08 CST)
paratool problem sarah k (Wed Nov 18 2009 - 23:43:52 CST)
Is it the bug of VMD1.87_partool? Aurum Bai (Wed Nov 18 2009 - 06:29:56 CST)
xzy format and ResType Christine Horejs (Tue Nov 17 2009 - 14:03:01 CST)
- Re: xzy format and ResType Axel Kohlmeyer (Tue Nov 17 2009 - 14:40:46 CST)
Holo-Bench with VMD and Flystick2 and/or Phantom Carsten Olbrich (Tue Nov 17 2009 - 12:03:56 CST)
- Re: Holo-Bench with VMD and Flystick2 and/or Phantom Dipesh Bhattarai (Tue Nov 17 2009 - 13:04:59 CST)
polymer bead spring model file format Ding, L. (Tue Nov 17 2009 - 11:15:50 CST)
- Re: polymer bead spring model file format Axel Kohlmeyer (Tue Nov 17 2009 - 12:40:49 CST)
  - Re: polymer bead spring model file format Olaf Lenz (Wed Nov 18 2009 - 02:20:38 CST)
    - Re: polymer bead spring model file format Joshua Adelman (Wed Nov 18 2009 - 06:48:36 CST)
Changing Nvidia driver Christian Wohlschlager (Tue Nov 17 2009 - 02:46:23 CST)
VMD video-projection in 3D Nicolas Floquet (Mon Nov 16 2009 - 08:08:49 CST)
- Re: VMD video-projection in 3D John Stone (Mon Nov 16 2009 - 15:22:41 CST)
Error: failed on end of segment with RBCG Francesco Pietra (Sun Nov 15 2009 - 03:18:57 CST)
- Re: Error: failed on end of segment with RBCG Peter Freddolino (Sun Nov 15 2009 - 08:46:47 CST)
Multiseq question Tomek Wlodarski (Sat Nov 14 2009 - 08:02:43 CST)
- Re: Multiseq question John Stone (Mon Nov 16 2009 - 15:28:45 CST)
  - Re: Multiseq question Tomek Wlodarski (Mon Nov 23 2009 - 05:43:14 CST)
    - Re: Multiseq question Boris Steipe (Mon Nov 23 2009 - 09:48:34 CST)
    - Re: Multiseq question Tomek Wlodarski (Tue Nov 24 2009 - 05:17:59 CST)
parent molecule sarah k (Fri Nov 13 2009 - 23:59:28 CST)
- Re: parent molecule Joshua Adelman (Sat Nov 14 2009 - 07:47:23 CST)
  - Re: parent molecule Joshua Adelman (Sun Nov 15 2009 - 07:06:58 CST)
  - Re: parent molecule Joshua Adelman (Wed Nov 18 2009 - 11:43:00 CST)
(no subject) Francesco Pietra (Fri Nov 13 2009 - 03:23:21 CST)
- Re: J. Rui Rodrigues (Fri Nov 13 2009 - 06:13:52 CST)
  - Re: John Stone (Fri Nov 13 2009 - 08:19:04 CST)
version 1.8.7 for amd64 and cg tools Francesco Pietra (Thu Nov 12 2009 - 23:15:31 CST)
- Re: version 1.8.7 for amd64 and cg tools John Stone (Thu Nov 12 2009 - 23:20:18 CST)
  - Re: version 1.8.7 for amd64 and cg tools Francesco Pietra (Fri Nov 13 2009 - 00:02:43 CST)
- Fwd: version 1.8.7 for amd64 and cg tools Francesco Pietra (Thu Nov 12 2009 - 23:33:42 CST)
  - Re: Fwd: version 1.8.7 for amd64 and cg tools John Stone (Thu Nov 12 2009 - 23:40:32 CST)
PBCTools-problem getting unitcell parameters A D (Thu Nov 12 2009 - 19:40:31 CST)
- Re: PBCTools-problem getting unitcell parameters Axel Kohlmeyer (Thu Nov 12 2009 - 20:25:30 CST)
problems displaying newcartoon representation Robert Meklemburg (Thu Nov 12 2009 - 11:17:19 CST)
- Re: problems displaying newcartoon representation John Stone (Thu Nov 12 2009 - 12:24:42 CST)
- Re: problems displaying newcartoon representation Axel Kohlmeyer (Thu Nov 12 2009 - 12:09:16 CST)
  - Re: problems displaying newcartoon representation Joseph Bylund (Thu Nov 12 2009 - 12:43:24 CST)
Stop using directory from previous session J. Rui Rodrigues (Wed Nov 11 2009 - 10:54:01 CST)
- Re: Stop using directory from previous session John Stone (Wed Nov 11 2009 - 11:13:36 CST)
  - Re: Stop using directory from previous session J. Rui Rodrigues (Wed Nov 11 2009 - 11:51:38 CST)
  - Re: Stop using directory from previous session J. Rui Rodrigues (Wed Nov 11 2009 - 11:57:37 CST)
    - Re: Stop using directory from previous session John Stone (Wed Nov 11 2009 - 12:38:08 CST)
vmd bug in ubuntu 9.10 ChoiHeeSung (Wed Nov 11 2009 - 10:53:04 CST)
- Re: vmd bug in ubuntu 9.10 John Stone (Wed Nov 11 2009 - 11:15:09 CST)
- Re: vmd bug in ubuntu 9.10 Ale Gomez (Wed Nov 11 2009 - 17:56:44 CST)
- Re: vmd bug in ubuntu 9.10 Olaf Lenz (Thu Nov 12 2009 - 02:06:03 CST)
  - Re: vmd bug in ubuntu 9.10 Olaf Lenz (Thu Nov 12 2009 - 02:28:14 CST)
bad_alloc error Gustavo Gust (Wed Nov 11 2009 - 09:04:34 CST)
- Re: bad_alloc error John Stone (Wed Nov 11 2009 - 09:20:20 CST)
  - Re: bad_alloc error Gustavo Gust (Wed Nov 11 2009 - 09:58:01 CST)
paratool and fatal error sarah k (Tue Nov 10 2009 - 23:27:33 CST)
Problem with exit button Nuno Sousa Cerqueira (Tue Nov 10 2009 - 04:55:24 CST)
- Re: Problem with exit button John Stone (Tue Nov 10 2009 - 16:33:36 CST)
  - Re: Problem with exit button Nuno Sousa Cerqueira (Tue Nov 10 2009 - 18:14:12 CST)
    - Re: Problem with exit button John Stone (Tue Nov 10 2009 - 18:41:04 CST)
CG Builder Francesco Pietra (Mon Nov 09 2009 - 14:06:44 CST)
- Re: CG Builder Roman Petrenko (Mon Nov 09 2009 - 15:01:26 CST)
plugin for reading (and writing) trajectories with a varying number of atoms Axel Kohlmeyer (Fri Nov 06 2009 - 14:51:02 CST)
Question about Keyboaerd events send from other PC Christian Wohlschlager (Thu Nov 05 2009 - 02:29:36 CST)
- Re: Question about Keyboaerd events send from other PC John Stone (Thu Nov 05 2009 - 08:46:50 CST)
rmsd calculation and plot sarah k (Tue Nov 03 2009 - 23:18:29 CST)
- Re: rmsd calculation and plot John Stone (Tue Nov 10 2009 - 16:25:00 CST)
  - Re: rmsd calculation and plot sarah k (Tue Nov 10 2009 - 23:20:06 CST)
radius of gyration units Bernardo Sosa Padilla Araujo (Tue Nov 03 2009 - 15:08:36 CST)
- Re: radius of gyration units Leonardo Trabuco (Tue Nov 03 2009 - 15:13:19 CST)
  - Re: radius of gyration units Roman Petrenko (Tue Nov 03 2009 - 15:59:54 CST)
Matrix: Warning: no convergence (0.00000000<390.26229858 after 1000 iterations). Bob Johnson (Tue Nov 03 2009 - 14:49:29 CST)
- Re: Matrix: Warning: no convergence (0.00000000<390.26229858 after 1000 iterations). John Stone (Tue Nov 03 2009 - 16:18:43 CST)
Control of aminoacid ionization in VMD Luis Agullo (LAB) (Tue Nov 03 2009 - 04:50:55 CST)
- Re: Control of aminoacid ionization in VMD L. Michel Espinoza-Fonseca (Tue Nov 03 2009 - 05:24:46 CST)
  - Re: Control of aminoacid ionization in VMD Luis Agullo (LAB) (Thu Nov 05 2009 - 02:24:26 CST)
VMD autopsfgen and Mg2+ Luis Agullo (LAB) (Tue Nov 03 2009 - 04:17:59 CST)
- Re: VMD autopsfgen and Mg2+ John Stone (Wed Nov 04 2009 - 09:49:17 CST)
- Re: VMD autopsfgen and Mg2+ Peter Freddolino (Thu Nov 05 2009 - 09:03:44 CST)
running under Shell using VMD Nuno Sousa Cerqueira (Tue Nov 03 2009 - 02:29:30 CST)
- Re: running under Shell using VMD Nicolas Sapay (Tue Nov 03 2009 - 05:07:45 CST)
  - Re: running under Shell using VMD Nuno Sousa Cerqueira (Tue Nov 03 2009 - 07:41:11 CST)
    - Re: running under Shell using VMD John Stone (Tue Nov 03 2009 - 09:11:05 CST)
- Re: running under Shell using VMD Axel Kohlmeyer (Tue Nov 03 2009 - 21:43:33 CST)
memory issues Paymon Pirzadeh (Mon Nov 02 2009 - 12:02:14 CST)
- Re: memory issues John Stone (Mon Nov 02 2009 - 13:50:12 CST)
Using Tcl functions in a C-plugin Olaf Lenz (Mon Nov 02 2009 - 07:29:24 CST)
- Re: Using Tcl functions in a C-plugin John Stone (Mon Nov 02 2009 - 14:08:27 CST)
  - Re: Using Tcl functions in a C-plugin Olaf Lenz (Mon Nov 02 2009 - 14:57:49 CST)
movie rendering Liang, Linus H. (Mon Nov 02 2009 - 07:08:35 CST)
- Re: movie rendering John Stone (Mon Nov 02 2009 - 13:54:09 CST)
dll by c++ cannot be recognized by VMD tk console ? vmd_chcwaaa (Sun Nov 01 2009 - 01:32:42 CDT)
- Re: dll by c++ cannot be recognized by VMD tk console ? John Stone (Mon Nov 02 2009 - 13:57:35 CST)
full version OEM soft chucruz_at_ks.uiuc.edu (Thu Oct 29 2009 - 23:14:25 CDT)
Downloadable version chucruz_at_ks.uiuc.edu (Thu Oct 29 2009 - 02:51:04 CDT)
RBCG bead diameter Christine Horejs (Wed Oct 28 2009 - 11:54:50 CDT)
- Re: RBCG bead diameter Axel Kohlmeyer (Sat Oct 31 2009 - 14:42:05 CDT)
abnormal water surface after nvt and npt for POPC membrane pxq ÅÓÑ©ÇÛ (Tue Oct 27 2009 - 19:57:58 CDT)
- Re: namd-l: abnormal water surface after nvt and npt for POPC membrane Axel Kohlmeyer (Wed Oct 28 2009 - 10:55:16 CDT)
Unable to find Stride output file: /usr/tmp/... Bob Johnson (Tue Oct 27 2009 - 12:22:03 CDT)
- Re: Unable to find Stride output file: /usr/tmp/... John Stone (Tue Oct 27 2009 - 12:37:28 CDT)
  - Re: Unable to find Stride output file: /usr/tmp/... Bob Johnson (Tue Oct 27 2009 - 12:42:06 CDT)
lammpstrj file as pdb Christine Horejs (Tue Oct 27 2009 - 11:50:06 CDT)
- Re: lammpstrj file as pdb John Stone (Tue Oct 27 2009 - 12:06:56 CDT)
  - Re: lammpstrj file as pdb Christine Horejs (Tue Oct 27 2009 - 12:18:15 CDT)
    - Re: lammpstrj file as pdb John Stone (Tue Oct 27 2009 - 12:21:49 CDT)
Tachyon Rendering daniel aguayo (Tue Oct 27 2009 - 10:27:52 CDT)
- Re: Tachyon Rendering Axel Kohlmeyer (Tue Oct 27 2009 - 11:23:48 CDT)
  - Re: Tachyon Rendering John Stone (Tue Oct 27 2009 - 12:05:06 CDT)
    - Re: Tachyon Rendering daniel aguayo (Tue Oct 27 2009 - 14:14:55 CDT)
RBCG Model Katherine Parra (Tue Oct 27 2009 - 09:19:55 CDT)
order parameters for long lipids Raul Araya (Tue Oct 27 2009 - 08:47:38 CDT)
pbwithin and within differences Gustavo Gust (Tue Oct 27 2009 - 06:48:51 CDT)
- Re: pbwithin and within differences Olaf Lenz (Tue Oct 27 2009 - 08:26:08 CDT)
- Re: pbwithin and within differences Roman Petrenko (Tue Oct 27 2009 - 09:09:36 CDT)
Solvate-GUI Problem: Collapses Solvent to Origin Joshua Adelman (Mon Oct 26 2009 - 20:03:37 CDT)
- Re: Solvate-GUI Problem: Collapses Solvent to Origin Peter Freddolino (Mon Oct 26 2009 - 21:31:23 CDT)
using NAMD with SPC water politr_at_huji.ac.il (Mon Oct 26 2009 - 07:48:26 CDT)
- Re: using NAMD with SPC water Axel Kohlmeyer (Mon Oct 26 2009 - 08:48:24 CDT)
  - Re: using NAMD with SPC water L. Michel Espinoza-Fonseca (Mon Oct 26 2009 - 09:40:33 CDT)
unparameterized residue sarah k (Sun Oct 25 2009 - 02:24:21 CDT)
VMD and Intel X3100 GPU Mohd Farid Ismail (Sat Oct 24 2009 - 16:27:38 CDT)
- Re: VMD and Intel X3100 GPU Axel Kohlmeyer (Sat Oct 24 2009 - 17:28:33 CDT)
  - Re: VMD and Intel X3100 GPU Mohd Farid Ismail (Sat Oct 24 2009 - 21:18:49 CDT)
Loading trajectory into Multiseq stephane acoca (Fri Oct 23 2009 - 18:07:02 CDT)
- Re: Loading trajectory into Multiseq John Stone (Mon Oct 26 2009 - 10:22:21 CDT)
Selections based on "bonded to" Schmidt, Mike (Fri Oct 23 2009 - 10:56:00 CDT)
- Re: Selections based on "bonded to" John Stone (Fri Oct 23 2009 - 11:13:51 CDT)
  - Re: Selections based on "bonded to" John Stone (Fri Oct 23 2009 - 13:39:08 CDT)
Bugs ? Representation window does not update new material TRINH Minh Hieu (Fri Oct 23 2009 - 08:57:49 CDT)
- Re: Bugs ? Representation window does not update new material John Stone (Fri Oct 23 2009 - 09:56:47 CDT)
  - Re: Bugs ? Representation window does not update new material TRINH Minh Hieu (Fri Oct 23 2009 - 10:52:39 CDT)
    - Re: Bugs ? Representation window does not update new material John Stone (Fri Oct 23 2009 - 11:06:20 CDT)
Cuda an a cluster ? Christian Wohlschlager (Thu Oct 22 2009 - 02:56:18 CDT)
- Re: Cuda an a cluster ? John Stone (Thu Oct 22 2009 - 11:04:45 CDT)
  - Antw: Re: Cuda an a cluster ? Christian Wohlschlager (Fri Oct 23 2009 - 00:20:59 CDT)
Problem with vmd and ssh -X Thomas Lemmin (Thu Oct 22 2009 - 02:51:44 CDT)
- Re: Problem with vmd and ssh -X Thomas Lemmin (Thu Oct 22 2009 - 06:39:16 CDT)
- Re: Problem with vmd and ssh -X John Stone (Thu Oct 22 2009 - 10:58:34 CDT)
  - Re: Problem with vmd and ssh -X Thomas Lemmin (Fri Oct 23 2009 - 07:22:28 CDT)
    - Re: Problem with vmd and ssh -X John Stone (Fri Oct 23 2009 - 09:52:29 CDT)
Input File Format Arian Arian (Wed Oct 21 2009 - 14:03:01 CDT)
- Re: Input File Format Axel Kohlmeyer (Wed Oct 21 2009 - 14:52:05 CDT)
questions Umesh Ghoshdastider (Wed Oct 21 2009 - 11:56:24 CDT)
- Re: questions Axel Kohlmeyer (Wed Oct 21 2009 - 13:03:57 CDT)
- Re: questions John Stone (Wed Oct 21 2009 - 16:50:06 CDT)
bond connectivity not displayed in VMD Elias Ahadi (Wed Oct 21 2009 - 11:36:39 CDT)
- Re: bond connectivity not displayed in VMD Axel Kohlmeyer (Wed Oct 21 2009 - 12:58:15 CDT)
Atom sorting according to resid andrea carotti (Wed Oct 21 2009 - 10:16:33 CDT)
- Re: Atom sorting according to resid Axel Kohlmeyer (Wed Oct 21 2009 - 11:21:58 CDT)
Direct manipulation of the camera poker_at_physics.usyd.edu.au (Wed Oct 21 2009 - 00:21:57 CDT)
- Re: Direct manipulation of the camera poker_at_physics.usyd.edu.au (Wed Oct 21 2009 - 03:26:59 CDT)
X server is not capable of displaying double RGB images with a Z buffer Ma.Busch (Tue Oct 20 2009 - 04:09:40 CDT)
- Re: X server is not capable of displaying double RGB images with a Z buffer Axel Kohlmeyer (Tue Oct 20 2009 - 10:40:59 CDT)
Translating an atom along a specific direction and saving the pdb files priyodorshi satpati (Tue Oct 20 2009 - 04:08:12 CDT)
- Re: Translating an atom along a specific direction and saving the pdb files John Stone (Tue Oct 20 2009 - 09:39:48 CDT)
  - Re: Translating an atom along a specific direction and saving the pdb files Axel Kohlmeyer (Tue Oct 20 2009 - 10:38:17 CDT)
glycerol AyÅŸe Ã–zlem Aykut (Tue Oct 20 2009 - 03:13:57 CDT)
NAMD can't malloc() error Ronald Salesky (Mon Oct 19 2009 - 12:44:55 CDT)
- Re: NAMD can't malloc() error Axel Kohlmeyer (Mon Oct 19 2009 - 13:29:20 CDT)
Arbitrary values of isosurface aizoon_at_gmx.net (Mon Oct 19 2009 - 06:25:32 CDT)
- Re: Arbitrary values of isosurface Axel Kohlmeyer (Mon Oct 19 2009 - 08:58:17 CDT)
- Re: Arbitrary values of isosurface John Stone (Thu Oct 22 2009 - 17:10:14 CDT)
paratool: unable to load optimized geometry Stanislaw Bobritsky (Mon Oct 19 2009 - 03:21:33 CDT)
- Re: paratool: unable to load optimized geometry Axel Kohlmeyer (Mon Oct 19 2009 - 08:51:46 CDT)
- Re: paratool: unable to load optimized geometry JC Gumbart (Mon Oct 19 2009 - 12:15:56 CDT)
Calculate Free Volume? YingZhe (Sun Oct 18 2009 - 20:07:30 CDT)
- Re: Calculate Free Volume? Axel Kohlmeyer (Mon Oct 19 2009 - 08:59:32 CDT)
Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) Alberto Sergio Garay (Fri Oct 16 2009 - 17:48:04 CDT)
- Re: Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) Axel Kohlmeyer (Fri Oct 16 2009 - 18:25:07 CDT)
MDFF sim Problem Joshua Adelman (Fri Oct 16 2009 - 16:20:03 CDT)
- Re: MDFF sim Problem Leonardo Trabuco (Sat Oct 17 2009 - 15:26:03 CDT)
  - Re: MDFF sim Problem Joshua Adelman (Sun Oct 18 2009 - 22:19:28 CDT)
Re: Align membrane Ramya Gamini (Fri Oct 16 2009 - 15:02:57 CDT)
- Re: Align membrane Ale Gomez (Fri Oct 16 2009 - 19:18:41 CDT)
Align membrane Ale Gomez (Fri Oct 16 2009 - 13:24:48 CDT)
vmd mailing list Roman Petrenko (Thu Oct 15 2009 - 17:14:10 CDT)
- Re: vmd mailing list Benjamin Bouvier (Fri Oct 16 2009 - 03:46:43 CDT)
Re: Water Sphere Solvation Peter Murphy (Tue Oct 13 2009 - 16:54:45 CDT)
- Re: Re: Water Sphere Solvation Axel Kohlmeyer (Sun Oct 18 2009 - 09:25:30 CDT)
Problems with selecting atoms for representations Joseph Bylund (Tue Oct 13 2009 - 10:39:52 CDT)
- Re: Problems with selecting atoms for representations Axel Kohlmeyer (Tue Oct 13 2009 - 11:29:09 CDT)
writing gromacs .trr format with nonorthorhomic cells Matt Watkins (Tue Oct 13 2009 - 07:05:27 CDT)
- Re: writing gromacs .trr format with nonorthorhomic cells Axel Kohlmeyer (Tue Oct 13 2009 - 08:59:59 CDT)
  - Re: writing gromacs .trr format with nonorthorhomic cells Matt Watkins (Tue Oct 13 2009 - 11:48:27 CDT)
FW: Disulfide bonds Andres Morales N (Tue Oct 13 2009 - 01:02:30 CDT)
- Re: FW: Disulfide bonds Pavan Ghatty (Mon Oct 19 2009 - 10:55:24 CDT)
Disulfude bonds Andres Morales N (Tue Oct 13 2009 - 01:00:39 CDT)
- Re: Disulfude bonds Schreiner Eduard (Tue Oct 13 2009 - 01:12:23 CDT)
- RE: Disulfude bonds JC Gumbart (Tue Oct 13 2009 - 01:08:13 CDT)
  - RE: Disulfude bonds JC Gumbart (Tue Oct 13 2009 - 01:20:11 CDT)
colour residues Christine Horejs (Mon Oct 12 2009 - 17:58:31 CDT)
- Re: colour residues Eric H. Lee (Mon Oct 12 2009 - 18:26:11 CDT)
  - Re: colour residues Leonardo Trabuco (Mon Oct 12 2009 - 18:56:31 CDT)
- Re: colour residues Axel Kohlmeyer (Mon Oct 12 2009 - 19:05:13 CDT)
  - Re: colour residues Eric H. Lee (Mon Oct 12 2009 - 21:31:18 CDT)
covalently bonded atoms politr_at_huji.ac.il (Mon Oct 12 2009 - 11:11:22 CDT)
- Re: covalently bonded atoms Axel Kohlmeyer (Mon Oct 12 2009 - 12:41:31 CDT)
catdcd Katherine Parra (Mon Oct 12 2009 - 09:59:23 CDT)
- Re: catdcd Axel Kohlmeyer (Mon Oct 12 2009 - 10:43:42 CDT)
  - Re: catdcd John Stone (Fri Oct 23 2009 - 13:44:52 CDT)
- Re: catdcd Eric H. Lee (Mon Oct 12 2009 - 10:05:09 CDT)
format of pdb file Christine Horejs (Mon Oct 12 2009 - 09:04:51 CDT)
- Re: format of pdb file Axel Kohlmeyer (Mon Oct 12 2009 - 10:10:06 CDT)
Load struture form memory Nuno Sousa Cerqueira (Mon Oct 12 2009 - 06:06:47 CDT)
- Re: Load struture form memory Axel Kohlmeyer (Mon Oct 12 2009 - 08:35:22 CDT)
Lipid Membrane Ale Gomez (Sun Oct 11 2009 - 22:58:08 CDT)
- Re: Lipid Membrane Axel Kohlmeyer (Mon Oct 12 2009 - 08:39:20 CDT)
mac tk widgets Nuno Sousa Cerqueira (Sat Oct 10 2009 - 21:13:15 CDT)
- Re: mac tk widgets John Stone (Mon Oct 12 2009 - 15:55:19 CDT)
  - Re: mac tk widgets Nuno Sousa Cerqueira (Mon Oct 12 2009 - 15:58:03 CDT)
VMD 1.8.7 CUDA on Mac OS X 10.6.1 Mengjuei Hsieh (Sat Oct 10 2009 - 18:23:52 CDT)
- Re: VMD 1.8.7 CUDA on Mac OS X 10.6.1 John Stone (Mon Oct 12 2009 - 15:36:23 CDT)
  - Re: VMD 1.8.7 CUDA on Mac OS X 10.6.1 Mengjuei Hsieh (Mon Oct 12 2009 - 19:23:08 CDT)
Parameter file for protein siloxane interactions Nilesh Ingle (Thu Oct 08 2009 - 21:47:14 CDT)
Problem using psfgen and carbohydrate charmm parameters. Alexandre Suman de Araujo (Thu Oct 08 2009 - 16:19:26 CDT)
- Re: Problem using psfgen and carbohydrate charmm parameters. John Stone (Mon Oct 12 2009 - 15:50:56 CDT)
how to display the periodic box in VMD Lan He (Wed Oct 07 2009 - 17:51:41 CDT)
- Re: how to display the periodic box in VMD Axel Kohlmeyer (Wed Oct 07 2009 - 18:39:55 CDT)
  - Re: how to display the periodic box in VMD Olaf Lenz (Thu Oct 08 2009 - 02:03:54 CDT)
CatDCD Desmond Support andrea carotti (Wed Oct 07 2009 - 10:31:53 CDT)
- Re: CatDCD Desmond Support John Stone (Wed Oct 07 2009 - 13:24:00 CDT)
- Re: CatDCD Desmond Support John Stone (Fri Oct 23 2009 - 13:44:15 CDT)
How to generate a monolayer in VMD Nilesh Ingle (Mon Oct 05 2009 - 18:55:37 CDT)
- Re: How to generate a monolayer in VMD Leandro Martínez (Mon Oct 05 2009 - 19:24:44 CDT)
  - Re: How to generate a monolayer in VMD John Stone (Mon Oct 05 2009 - 20:54:03 CDT)
How to translate my diffused protein back to COM? A D (Mon Oct 05 2009 - 18:20:15 CDT)
- Re: How to translate my diffused protein back to COM? Axel Kohlmeyer (Mon Oct 05 2009 - 20:31:13 CDT)
Tracking atoms automatically Nanako Takahashi (Mon Oct 05 2009 - 11:52:37 CDT)
- Re: Tracking atoms automatically Axel Kohlmeyer (Mon Oct 05 2009 - 13:24:17 CDT)
  - Re: Tracking atoms automatically Nanako Takahashi (Tue Oct 06 2009 - 13:03:16 CDT)
distance of two center of mass Nicola Giacche' (Mon Oct 05 2009 - 04:36:37 CDT)
- Re: distance of two center of mass Axel Kohlmeyer (Mon Oct 05 2009 - 06:04:33 CDT)
Breaking a trajectory into separate files with tcl Patrick Redmill (Sun Oct 04 2009 - 21:48:27 CDT)
- Re: Breaking a trajectory into separate files with tcl Schreiner Eduard (Sun Oct 04 2009 - 22:06:21 CDT)
  - Re: Breaking a trajectory into separate files with tcl Axel Kohlmeyer (Mon Oct 05 2009 - 01:41:49 CDT)
    - Re: Breaking a trajectory into separate files with tcl Patrick Redmill (Mon Oct 05 2009 - 05:41:39 CDT)
R.E.D.-III.3 tools release - q4md-forcefieldtools.org FyD (Sun Oct 04 2009 - 09:37:06 CDT)
problem with psfgen Q=C5=CC=C1=CC=CF=D7_=E9=CC=D8=D1?= (Sat Oct 03 2009 - 05:35:24 CDT)
Problems with Stride Martin K. Jones (Fri Oct 02 2009 - 12:18:41 CDT)
- Re: Problems with Stride Axel Kohlmeyer (Fri Oct 02 2009 - 13:06:45 CDT)
  - RE: Problems with Stride Martin K. Jones (Fri Oct 02 2009 - 13:16:54 CDT)
- Re: Problems with Stride John Stone (Fri Oct 02 2009 - 16:22:26 CDT)
Rx for VMD crashing PC? Ronald Salesky (Thu Oct 01 2009 - 21:57:00 CDT)
- Re: Rx for VMD crashing PC? John Stone (Fri Oct 02 2009 - 10:26:13 CDT)
  - Re: Rx for VMD crashing PC? Ronald Salesky (Fri Oct 02 2009 - 11:42:51 CDT)
  - Re: Rx for VMD crashing PC? MyLinkka (Mon Oct 05 2009 - 17:40:16 CDT)
    - Re: Rx for VMD crashing PC? John Stone (Mon Oct 05 2009 - 20:46:10 CDT)
how to load an external file to user field Sun Yicheng (Thu Oct 01 2009 - 10:28:39 CDT)
- Re: how to load an external file to user field Axel Kohlmeyer (Thu Oct 01 2009 - 16:12:41 CDT)
multiseq and fasta files from pdb Vlad Cojocaru (Thu Oct 01 2009 - 04:26:01 CDT)
- Re: multiseq and fasta files from pdb John Stone (Mon Oct 05 2009 - 21:14:10 CDT)
Reading output of quantum packages and plotting orbitals Ignacio Fernández Galván (Wed Sep 30 2009 - 11:57:35 CDT)
- Re: Reading output of quantum packages and plotting orbitals Axel Kohlmeyer (Wed Sep 30 2009 - 17:38:26 CDT)
  - Re: Reading output of quantum packages and plotting orbitals Ignacio Fernández Galván (Fri Oct 02 2009 - 03:01:36 CDT)
namd2.7b1, tip4p, and dummies Edward Lyman (Wed Sep 30 2009 - 01:36:06 CDT)
trace cartoon etc displaying incompletely after alignment Rahul Mahajan (Tue Sep 29 2009 - 21:23:53 CDT)
- Re: trace cartoon etc displaying incompletely after alignment mirandaisbest (Fri Oct 02 2009 - 10:18:56 CDT)
- Re: trace cartoon etc displaying incompletely after alignment Yi Shang (Fri Oct 02 2009 - 10:39:21 CDT)
Representation problem Ahmet Bakan (Mon Sep 28 2009 - 16:22:36 CDT)
- Re: Representation problem John Stone (Mon Sep 28 2009 - 16:34:18 CDT)
  - Re: Representation problem Ahmet Bakan (Tue Sep 29 2009 - 09:42:41 CDT)
    - Re: Representation problem John Stone (Tue Sep 29 2009 - 17:38:21 CDT)
    - Re: Representation problem Ahmet Bakan (Thu Oct 15 2009 - 12:16:26 CDT)
model protein chain not displayed properly Elias Ahadi (Mon Sep 28 2009 - 13:38:32 CDT)
- Re: model protein chain not displayed properly Benjamin Bouvier (Mon Sep 28 2009 - 14:54:09 CDT)
- Re: model protein chain not displayed properly John Stone (Mon Sep 28 2009 - 15:08:22 CDT)
H_Bonds Katherine Parra (Mon Sep 28 2009 - 12:53:21 CDT)
- Re: H_Bonds Axel Kohlmeyer (Mon Sep 28 2009 - 14:16:12 CDT)
Return value of a vector Stephanie Held (Mon Sep 28 2009 - 08:39:27 CDT)
- Re: Return value of a vector Axel Kohlmeyer (Mon Sep 28 2009 - 09:35:25 CDT)
  - Re: Return value of a vector Stephanie Held (Mon Sep 28 2009 - 09:57:08 CDT)
user field Sun Yicheng (Mon Sep 28 2009 - 08:36:34 CDT)
- Re: user field Axel Kohlmeyer (Mon Sep 28 2009 - 09:28:03 CDT)
text timer in vmd animations maria goranovic (Mon Sep 28 2009 - 04:57:16 CDT)
- Re: text timer in vmd animations Axel Kohlmeyer (Mon Sep 28 2009 - 09:30:19 CDT)
  - Re: text timer in vmd animations maria goranovic (Mon Sep 28 2009 - 09:55:02 CDT)
Paratool: QMTool::bondlist error message Sebastian Stolzenberg (Fri Sep 25 2009 - 21:53:27 CDT)
- Re: Paratool: QMTool::bondlist error message John Stone (Fri Sep 25 2009 - 22:09:51 CDT)
Overlaying 2 structures madura_at_duq.edu (Fri Sep 25 2009 - 15:55:05 CDT)
- Re: Overlaying 2 structures John Stone (Fri Sep 25 2009 - 22:17:31 CDT)
ERROR) Error reading bond information. Luca Gelisio (Fri Sep 25 2009 - 05:40:17 CDT)
- Re: ERROR) Error reading bond information. John Stone (Fri Sep 25 2009 - 07:41:11 CDT)
  - Re: ERROR) Error reading bond information. Luca Gelisio (Fri Sep 25 2009 - 09:10:23 CDT)
- Re: ERROR) Error reading bond information. Axel Kohlmeyer (Fri Sep 25 2009 - 07:55:47 CDT)
  - Re: ERROR) Error reading bond information. Luca Gelisio (Fri Sep 25 2009 - 09:03:41 CDT)
Frame creation Andreas Wagenmann (Thu Sep 24 2009 - 09:28:50 CDT)
- Re: Frame creation Axel Kohlmeyer (Thu Sep 24 2009 - 10:13:16 CDT)
  - Re: Frame creation Andreas Wagenmann (Fri Sep 25 2009 - 02:01:27 CDT)
    - Re: Frame creation Axel Kohlmeyer (Fri Sep 25 2009 - 05:14:03 CDT)
- Re: Frame creation John Stone (Thu Sep 24 2009 - 10:02:58 CDT)
problem in reading .nc NETCDF FILE Genform GK (Wed Sep 23 2009 - 23:02:10 CDT)
- Re: problem in reading .nc NETCDF FILE John Stone (Thu Sep 24 2009 - 08:18:59 CDT)
  - Re: problem in reading .nc NETCDF FILE Genform GK (Fri Sep 25 2009 - 00:21:15 CDT)
Web-based Flash/Quicktime 3-D VMD/Tachyon renderings of PDB structures John Stone (Wed Sep 23 2009 - 15:45:30 CDT)
double bonds Taufik Al-Sarraj (Wed Sep 23 2009 - 13:13:12 CDT)
- Re: double bonds John Stone (Wed Sep 23 2009 - 13:17:09 CDT)
trajectory analysis Barry Bickmore (Wed Sep 23 2009 - 11:39:08 CDT)
"Lines" representation does not show Martin Lep¹ík (Wed Sep 23 2009 - 10:49:33 CDT)
- Re: "Lines" representation does not show John Stone (Wed Sep 23 2009 - 11:03:05 CDT)
  - Re: "Lines" representation does not show Martin Lepsik (Thu Sep 24 2009 - 05:16:09 CDT)
atom selection Myunggi Yi (Mon Sep 21 2009 - 13:45:20 CDT)
- Re: atom selection Myunggi Yi (Mon Sep 21 2009 - 13:57:29 CDT)
  - Re: atom selection Myunggi Yi (Mon Sep 21 2009 - 14:02:49 CDT)
    - double bonds Taufik Al-Sarraj (Wed Sep 23 2009 - 12:22:27 CDT)
    - Re: double bonds J. Rui Rodrigues (Thu Sep 24 2009 - 07:22:09 CDT)
- Re: atom selection Axel Kohlmeyer (Mon Sep 21 2009 - 14:22:08 CDT)
[carlos.simmerling@gmail.com: ACS awards application announcements] John Stone (Mon Sep 21 2009 - 12:54:04 CDT)
Resize window from TCL Ondrej Marsalek (Mon Sep 21 2009 - 11:51:46 CDT)
- Re: Resize window from TCL Axel Kohlmeyer (Mon Sep 21 2009 - 13:08:14 CDT)
- Re: Resize window from TCL John Stone (Mon Sep 21 2009 - 12:48:08 CDT)
  - Re: Resize window from TCL Ondrej Marsalek (Mon Sep 21 2009 - 12:52:02 CDT)
automated loading Myunggi Yi (Mon Sep 21 2009 - 10:27:58 CDT)
- Re: automated loading Myunggi Yi (Mon Sep 21 2009 - 11:01:19 CDT)
  - Re: Re: automated loading John Stone (Mon Sep 21 2009 - 11:17:21 CDT)
    - Re: Re: automated loading Myunggi Yi (Mon Sep 21 2009 - 11:53:53 CDT)
- Re: automated loading Axel Kohlmeyer (Mon Sep 21 2009 - 11:18:17 CDT)
problem with density map obtained by volmap Ana Célia Vila Verde (Sun Sep 20 2009 - 08:01:12 CDT)
- Re: problem with density map obtained by volmap Axel Kohlmeyer (Sun Sep 20 2009 - 13:44:03 CDT)
Velocity Auto Correlation Goutham (Fri Sep 18 2009 - 14:53:42 CDT)
- Re: Velocity Auto Correlation Axel Kohlmeyer (Fri Sep 18 2009 - 15:36:45 CDT)
  - Re: Velocity Auto Correlation Goutham (Fri Sep 18 2009 - 15:52:44 CDT)
  - Re: Velocity Auto Correlation Axel Kohlmeyer (Thu Sep 24 2009 - 09:30:33 CDT)
water molecules around proteins Katherine Parra (Fri Sep 18 2009 - 12:04:04 CDT)
- Re: water molecules around proteins Thomas Evangelidis (Sat Sep 19 2009 - 09:04:36 CDT)
  - Re: water molecules around proteins Axel Kohlmeyer (Sat Sep 19 2009 - 09:55:57 CDT)
    - Re: water molecules around proteins Florentina Tofoleanu (Wed Mar 10 2010 - 16:27:37 CST)
    - Re: water molecules around proteins Axel Kohlmeyer (Wed Mar 10 2010 - 17:41:03 CST)
  - Re: water molecules around proteins Axel Kohlmeyer (Thu Mar 11 2010 - 11:51:01 CST)
    - Re: water molecules around proteins Florentina Tofoleanu (Thu Mar 11 2010 - 14:54:57 CST)
    - Re: water molecules around proteins Axel Kohlmeyer (Fri Mar 12 2010 - 09:20:07 CST)
Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available" Jim Parker (Thu Sep 17 2009 - 19:33:51 CDT)
- Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available" John Stone (Thu Sep 17 2009 - 21:34:36 CDT)
  - Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available"--Solved Jim Parker (Sun Oct 11 2009 - 21:31:05 CDT)
    - Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available"--Solved John Stone (Sun Oct 11 2009 - 22:43:17 CDT)
Installing Multiseq updates Jeremias Corradi (Thu Sep 17 2009 - 08:42:51 CDT)
- Re: Installing Multiseq updates Kirby Vandivort (Thu Sep 17 2009 - 10:44:07 CDT)
  - Re: Installing Multiseq updates Kirby Vandivort (Thu Sep 17 2009 - 11:54:44 CDT)
  - Re: Installing Multiseq updates Jeremias Corradi (Sat Sep 19 2009 - 11:10:11 CDT)
    - Re: Installing Multiseq updates Jeremias Corradi (Tue Sep 22 2009 - 14:24:43 CDT)
Average structure and NamdEnergy Andres Morales N (Thu Sep 17 2009 - 00:03:36 CDT)
- Re: Average structure and NamdEnergy John Stone (Thu Sep 17 2009 - 11:35:58 CDT)
Install VMD with plugins to NAMD Jim Parker (Wed Sep 16 2009 - 21:44:31 CDT)
- Re: Install VMD with plugins to NAMD John Stone (Wed Sep 16 2009 - 22:04:35 CDT)
  - Re: Install VMD with plugins to NAMD Jim Parker (Wed Sep 16 2009 - 22:53:24 CDT)
DLP Stereo and VR toolkit integration with vmd Simon Su (Wed Sep 16 2009 - 16:04:25 CDT)
- Re: DLP Stereo and VR toolkit integration with vmd John Stone (Wed Sep 16 2009 - 16:10:38 CDT)
  - Re: DLP Stereo and VR toolkit integration with vmd Simon Su (Wed Sep 16 2009 - 16:29:22 CDT)
Average structure and NamdEnergy Andres Morales N (Wed Sep 16 2009 - 14:27:23 CDT)
Reading new amber prmtop formats. Crowley, Michael (Wed Sep 16 2009 - 12:21:42 CDT)
- Re: Reading new amber prmtop formats. Axel Kohlmeyer (Wed Sep 16 2009 - 13:28:37 CDT)
  - Re: Reading new amber prmtop formats. Thomas C. Bishop (Wed Sep 16 2009 - 15:37:17 CDT)
    - Re: Reading new amber prmtop formats. John Stone (Wed Sep 16 2009 - 16:08:07 CDT)
- Re: Reading new amber prmtop formats. John Stone (Wed Sep 16 2009 - 13:46:26 CDT)
- Re: Reading new amber prmtop formats. John Stone (Thu Sep 17 2009 - 12:50:48 CDT)
Re: segid WT100 is longer than 4 characters allowed by psf format Ramya Gamini (Wed Sep 16 2009 - 08:01:57 CDT)
segid WT100 is longer than 4 characters allowed by psf format Luca Gelisio (Wed Sep 16 2009 - 03:34:16 CDT)
PSF for AMBER top + crd files Goutham (Tue Sep 15 2009 - 16:35:23 CDT)
- Re: PSF for AMBER top + crd files John Stone (Tue Sep 15 2009 - 16:56:34 CDT)
- Re: PSF for AMBER top + crd files Axel Kohlmeyer (Tue Sep 15 2009 - 17:10:32 CDT)
rotate dihedral angle Jorgen Simonsen (Mon Sep 14 2009 - 14:08:21 CDT)
- Re: rotate dihedral angle Peter Freddolino (Mon Sep 14 2009 - 21:32:23 CDT)
  - Re: rotate dihedral angle Sebastian Stolzenberg (Wed Sep 16 2009 - 14:21:00 CDT)
CGTools error: atom select: cannot parse selection text... wuxiao (Mon Sep 14 2009 - 08:48:36 CDT)
- Re: CGTools error: atom select: cannot parse selection text... Kirby Vandivort (Mon Sep 14 2009 - 14:16:24 CDT)
  - Re: CGTools error: atom select: cannot parse selection text... Kirby Vandivort (Tue Sep 15 2009 - 11:32:35 CDT)
Segmentation fault on linux Fedora 11 Rob (Sun Sep 13 2009 - 19:16:28 CDT)
- Re: Segmentation fault on linux Fedora 11 John Stone (Mon Sep 14 2009 - 14:08:35 CDT)
  - Re: Segmentation fault on linux Fedora 11 Axel Kohlmeyer (Mon Sep 14 2009 - 14:45:02 CDT)
VMD and NetCDF under Windows Vista 32bit Jan F. Totz (Sun Sep 13 2009 - 01:57:02 CDT)
- Re: VMD and NetCDF under Windows Vista 32bit John Stone (Mon Sep 14 2009 - 14:10:54 CDT)
get coordinates Andres Morales N (Sat Sep 12 2009 - 12:05:35 CDT)
- Re: get coordinates Axel Kohlmeyer (Sat Sep 12 2009 - 13:01:35 CDT)
"measure fit" problem Yi Shang (Wed Sep 09 2009 - 13:31:17 CDT)
- Re: "measure fit" problem John Stone (Wed Sep 09 2009 - 13:34:18 CDT)
Mistakes in the 1.8.7 User guide Myunggi Yi (Wed Sep 09 2009 - 10:18:40 CDT)
- Re: Mistakes in the 1.8.7 User guide Myunggi Yi (Wed Sep 09 2009 - 13:20:21 CDT)
psf for CNT? Ronald Salesky (Wed Sep 09 2009 - 09:55:05 CDT)
- Re: psf for CNT? Axel Kohlmeyer (Wed Sep 09 2009 - 10:46:49 CDT)
Question about PSF generation NAMITA BHADRA (Tue Sep 08 2009 - 23:01:53 CDT)
- Re: Question about PSF generation John Stone (Thu Sep 10 2009 - 11:04:05 CDT)
  - Re: Question about PSF generation NAMITA BHADRA (Sun Sep 20 2009 - 08:50:18 CDT)
    - Re: Question about PSF generation Schreiner Eduard (Sun Sep 20 2009 - 12:04:52 CDT)
    - Re: Question about PSF generation Axel Kohlmeyer (Sun Sep 20 2009 - 13:34:12 CDT)
catdcd in Windows Wei Chen (Tue Sep 08 2009 - 21:44:25 CDT)
- Re: catdcd in Windows John Stone (Wed Sep 09 2009 - 13:38:54 CDT)
(no subject) Roshan Tasgaonkar (Tue Sep 08 2009 - 20:48:01 CDT)
- Re: Roman Petrenko (Wed Sep 09 2009 - 14:09:35 CDT)
  - Re: John Stone (Wed Sep 09 2009 - 14:14:58 CDT)
- Re: John Stone (Wed Sep 09 2009 - 14:14:08 CDT)
How to select a hetatom while get rid of N-term ACE in atomselect Sujata Sovani (Tue Sep 08 2009 - 17:47:43 CDT)
- Re: How to select a hetatom while get rid of N-term ACE in atomselect John Stone (Thu Sep 10 2009 - 10:56:08 CDT)
Main menu not compiled? Pieter van 't Hof (Fri Sep 04 2009 - 09:00:56 CDT)
- Re: Main menu not compiled? John Stone (Fri Sep 04 2009 - 09:27:33 CDT)
RE: namd-l: Re: rmsd matrix Andres Morales N (Thu Sep 03 2009 - 15:00:30 CDT)
rmsd matrix Andres Morales N (Thu Sep 03 2009 - 07:45:06 CDT)
Bond representation of coarse grained molecules BAN,YOUNG MIN (Wed Sep 02 2009 - 16:52:23 CDT)
- Re: Bond representation of coarse grained molecules John Stone (Fri Sep 04 2009 - 09:49:26 CDT)
  - Re: Bond representation of coarse grained molecules Axel Kohlmeyer (Sat Sep 05 2009 - 14:45:59 CDT)
- VMD on Suse 11.1 w/ NVIDIA dies. Bishop, Thomas C (Fri Sep 04 2009 - 17:52:35 CDT)
  - Re: VMD on Suse 11.1 w/ NVIDIA dies. Axel Kohlmeyer (Sat Sep 05 2009 - 14:33:34 CDT)
  - Re: VMD on Suse 11.1 w/ NVIDIA dies. John Stone (Tue Sep 08 2009 - 10:57:12 CDT)
- Re: Bond representation of coarse grained molecules Baofu Qiao (Wed Oct 07 2009 - 02:21:14 CDT)
  - Re: Bond representation of coarse grained molecules Axel Kohlmeyer (Wed Oct 07 2009 - 09:39:42 CDT)
    - Re: Bond representation of coarse grained molecules Sunjoo Lee (Wed Oct 07 2009 - 12:17:12 CDT)
Script error Negar Ashari Astani (Tue Sep 01 2009 - 11:58:32 CDT)
- Re: Script error Axel Kohlmeyer (Tue Sep 01 2009 - 12:55:26 CDT)
VMD on MacOSX 10.6 Snow Leopard: fast Christoph Weber (Mon Aug 31 2009 - 18:31:11 CDT)
- Re: VMD on MacOSX 10.6 Snow Leopard: fast Joshua D. Moore (Mon Aug 31 2009 - 22:20:51 CDT)
  - Re: VMD on MacOSX 10.6 Snow Leopard: fast Christoph Weber (Tue Sep 01 2009 - 13:30:07 CDT)
    - RE: VMD on MacOSX 10.6 Snow Leopard: fast David Poger (Mon Sep 07 2009 - 04:01:48 CDT)
    - Re: VMD on MacOSX 10.6 Snow Leopard: fast John Stone (Mon Sep 07 2009 - 16:31:54 CDT)
3D pdf problem Michael K. Gilson (Mon Aug 31 2009 - 06:24:06 CDT)
- Re: 3D pdf problem John Stone (Mon Aug 31 2009 - 11:51:01 CDT)
  - Re: 3D pdf problem Michael K. Gilson (Mon Aug 31 2009 - 14:36:49 CDT)
    - Re: 3D pdf problem John Stone (Mon Aug 31 2009 - 14:50:33 CDT)
    - Re: 3D pdf problem Michael K. Gilson (Mon Aug 31 2009 - 16:22:55 CDT)
superimpose two proteins with different residue numbers Soumya Lipsa Rath (Mon Aug 31 2009 - 02:55:13 CDT)
- Re: superimpose two proteins with different residue numbers John Stone (Mon Aug 31 2009 - 11:34:03 CDT)
  - label options Taufik Al-Sarraj (Thu Sep 17 2009 - 13:46:29 CDT)
    - Re: label options John Stone (Sun Sep 20 2009 - 15:35:25 CDT)
VMD, MultiSeq, STAMP Damian Loska (Sun Aug 30 2009 - 11:42:14 CDT)
- Re: VMD, MultiSeq, STAMP Kirby Vandivort (Mon Aug 31 2009 - 14:25:30 CDT)
  - Re: VMD, MultiSeq, STAMP John Stone (Mon Aug 31 2009 - 14:37:44 CDT)
User field Urahata (Fri Aug 28 2009 - 10:40:43 CDT)
- Re: User field Axel Kohlmeyer (Fri Aug 28 2009 - 16:14:00 CDT)
viewing MOs Dan thomas Major (Fri Aug 28 2009 - 09:47:34 CDT)
- Re: viewing MOs John Stone (Fri Aug 28 2009 - 09:55:37 CDT)
- Re: viewing MOs Axel Kohlmeyer (Fri Aug 28 2009 - 10:29:57 CDT)
  - Re: viewing MOs saam (Fri Aug 28 2009 - 15:37:59 CDT)
superimposing proteins with non-similar coordinates Mark M Huntress (Wed Aug 26 2009 - 16:17:41 CDT)
- Re: superimposing proteins with non-similar coordinates Schreiner Eduard (Wed Aug 26 2009 - 16:33:39 CDT)
- Re: superimposing proteins with non-similar coordinates John Stone (Wed Aug 26 2009 - 16:31:46 CDT)
- Re: superimposing proteins with non-similar coordinates Christopher MacDermaid (Wed Aug 26 2009 - 17:17:34 CDT)
rotating ligand Steve Seibold (Wed Aug 26 2009 - 14:58:19 CDT)
- Re: rotating ligand Schreiner Eduard (Wed Aug 26 2009 - 15:07:49 CDT)
drawing waterbox Narender Singh Maan (Wed Aug 26 2009 - 09:35:56 CDT)
- Re: drawing waterbox John Stone (Wed Aug 26 2009 - 13:29:10 CDT)
  - Re: drawing waterbox Narender Singh Maan (Thu Aug 27 2009 - 10:14:58 CDT)
    - Re: drawing waterbox John Stone (Thu Aug 27 2009 - 10:29:08 CDT)
    - Re: drawing waterbox BIN ZHANG (Thu Aug 27 2009 - 11:02:46 CDT)
Bond in pbc condition Yew Yong Kin (Wed Aug 26 2009 - 01:46:27 CDT)
- Re: Bond in pbc condition Olaf Lenz (Fri Aug 28 2009 - 04:06:39 CDT)
  - Re: Bond in pbc condition John Stone (Fri Aug 28 2009 - 10:22:06 CDT)
selection for polar hydrogens only poker_at_physics.usyd.edu.au (Tue Aug 25 2009 - 22:13:26 CDT)
- Re: selection for polar hydrogens only Schreiner Eduard (Tue Aug 25 2009 - 22:50:43 CDT)
  - Re: selection for polar hydrogens only poker_at_physics.usyd.edu.au (Wed Aug 26 2009 - 02:05:44 CDT)
tinkerxyz Mark M Huntress (Tue Aug 25 2009 - 19:21:48 CDT)
- Re: tinkerxyz Urahata (Tue Aug 25 2009 - 20:58:41 CDT)
- Re: tinkerxyz Axel Kohlmeyer (Tue Aug 25 2009 - 21:21:28 CDT)
- Re: tinkerxyz Joshua D. Moore (Sat Aug 29 2009 - 02:26:29 CDT)
problem with 1.8.7 installation Barbault Florent (Tue Aug 25 2009 - 04:50:41 CDT)
- Re: problem with 1.8.7 installation Axel Kohlmeyer (Tue Aug 25 2009 - 06:43:51 CDT)
Mac and cmd line Jorgen Simonsen (Mon Aug 24 2009 - 11:58:16 CDT)
- Re: Mac and cmd line Robert Brunner (Mon Aug 24 2009 - 15:02:20 CDT)
  - Re: Mac and cmd line Ben Eisenbraun (Mon Aug 24 2009 - 15:50:58 CDT)
    - Re: Mac and cmd line Jorgen Simonsen (Mon Aug 24 2009 - 17:50:49 CDT)
  - Re: Mac and cmd line JT (Mon Aug 24 2009 - 17:27:44 CDT)
Moving Molecule Steve Seibold (Mon Aug 24 2009 - 10:37:42 CDT)
- Re: Moving Molecule BIN ZHANG (Mon Aug 24 2009 - 11:21:41 CDT)
using VMD 1.8.7 on a Mac Carolyn Phillips (Sun Aug 23 2009 - 15:13:40 CDT)
- Re: using VMD 1.8.7 on a Mac John Stone (Sun Aug 23 2009 - 21:32:18 CDT)
  - Re: using VMD 1.8.7 on a Mac Carolyn Phillips (Mon Aug 24 2009 - 11:33:04 CDT)
Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole Eric H. Lee (Fri Aug 21 2009 - 17:13:21 CDT)
NAMD tutorial for Windows problem reading pgn file from vmd tkconsole Carmen Valladares (Fri Aug 21 2009 - 16:26:04 CDT)
- Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole John Stone (Fri Aug 21 2009 - 16:30:30 CDT)
- Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole Eric H. Lee (Fri Aug 21 2009 - 16:40:52 CDT)
VMD: 1.8.7 win32 opengl runtime error Guanglei Cui (Fri Aug 21 2009 - 09:14:56 CDT)
- Re: VMD: 1.8.7 win32 opengl runtime error John Stone (Fri Aug 21 2009 - 09:56:33 CDT)
  - Re: VMD: 1.8.7 win32 opengl runtime error Guanglei Cui (Fri Aug 21 2009 - 21:48:43 CDT)
    - Re: VMD: 1.8.7 win32 opengl runtime error John Stone (Fri Aug 21 2009 - 21:58:25 CDT)
Force extension from SMD log file snoze pa (Thu Aug 20 2009 - 17:25:20 CDT)
Color bar Iman Salehinia (Thu Aug 20 2009 - 16:46:36 CDT)
- Re: Color bar Axel Kohlmeyer (Thu Aug 20 2009 - 17:28:26 CDT)
Pyhton Mode Peyman Yamin (Thu Aug 20 2009 - 04:49:33 CDT)
- Re: Pyhton Mode Axel Kohlmeyer (Thu Aug 20 2009 - 08:10:51 CDT)
Mutator: Losing Chromophore Carmen Valladares (Wed Aug 19 2009 - 19:14:57 CDT)
Render command not executed Nicolas SAPAY (Wed Aug 19 2009 - 02:22:18 CDT)
- Re: Render command not executed Axel Kohlmeyer (Wed Aug 19 2009 - 04:30:36 CDT)
  - Re: Render command not executed Nicolas SAPAY (Wed Aug 19 2009 - 04:59:45 CDT)
VMD Tracking VRPN Christian Wohlschlager (Wed Aug 19 2009 - 02:01:49 CDT)
Rendering polyhedra with POV-Ray Nicolas SAPAY (Tue Aug 18 2009 - 09:53:10 CDT)
- Re: Rendering polyhedra with POV-Ray John Stone (Tue Aug 18 2009 - 10:23:05 CDT)
  - Re: Rendering polyhedra with POV-Ray Nicolas Sapay (Tue Aug 18 2009 - 10:54:44 CDT)
    - Re: Rendering polyhedra with POV-Ray John Stone (Tue Aug 18 2009 - 10:59:37 CDT)
    - Re: Rendering polyhedra with POV-Ray Nicolas Sapay (Tue Aug 18 2009 - 11:11:35 CDT)
positioning of a compound Steve Seibold (Wed Aug 12 2009 - 14:48:23 CDT)
- Re: positioning of a compound John Stone (Wed Aug 12 2009 - 14:59:04 CDT)
  - RE: positioning of a compound Steve Seibold (Wed Aug 12 2009 - 15:11:00 CDT)
    - Re: positioning of a compound Esteban Gabriel Vega Hissi (Wed Aug 12 2009 - 16:07:37 CDT)
- Re: positioning of a compound jen hsin (Wed Aug 12 2009 - 15:02:15 CDT)
Periodic Bonding Liang, Linus H. (Wed Aug 12 2009 - 08:44:19 CDT)
- Re: Periodic Bonding Axel Kohlmeyer (Wed Aug 12 2009 - 09:42:00 CDT)
  - RE: Periodic Bonding Bishop, Thomas C (Thu Aug 13 2009 - 14:46:24 CDT)
- Re: Periodic Bonding Olaf Lenz (Wed Aug 12 2009 - 10:56:53 CDT)
Turn off the autobond feature in VMD Liang, Linus H. (Wed Aug 12 2009 - 08:27:55 CDT)
- Re: Turn off the autobond feature in VMD John Stone (Wed Aug 12 2009 - 09:58:01 CDT)
- Re: Turn off the autobond feature in VMD Axel Kohlmeyer (Wed Aug 12 2009 - 09:40:08 CDT)
VMD Periodic cells Florentina Tofoleanu (Wed Aug 12 2009 - 07:03:53 CDT)
- Re: VMD Periodic cells Olaf Lenz (Wed Aug 12 2009 - 08:43:09 CDT)
- Re: VMD Periodic cells Olaf Lenz (Wed Aug 12 2009 - 09:06:01 CDT)
CUDA Support Christian Wohlschlager (Wed Aug 12 2009 - 03:09:35 CDT)
- Re: CUDA Support John Stone (Wed Aug 12 2009 - 07:55:30 CDT)
  - Antw: Re: CUDA Support Christian Wohlschlager (Tue Aug 18 2009 - 01:06:27 CDT)
    - Re: Antw: Re: CUDA Support John Stone (Tue Aug 18 2009 - 01:18:10 CDT)
can we control the number and distribution of solvate molecular pxq ÅÓÑ©ÇÛ (Wed Aug 12 2009 - 03:02:33 CDT)
- Re: can we control the number and distribution of solvate molecular John Stone (Wed Aug 12 2009 - 16:14:30 CDT)
Re: namd-l: how to write a command to close vmd in shell script? Benjamin Bouvier (Mon Aug 10 2009 - 03:07:38 CDT)
HRTEM Joshua D. Moore (Fri Aug 07 2009 - 02:20:45 CDT)
- Re: HRTEM John Stone (Fri Aug 07 2009 - 12:22:53 CDT)
How to compile the source of VMD1.8.7 on linux system Aurum Bai (Fri Aug 07 2009 - 00:10:40 CDT)
- Re: How to compile the source of VMD1.8.7 on linux system John Stone (Fri Aug 07 2009 - 00:24:09 CDT)
NEW New Christian Wohlschlager (Thu Aug 06 2009 - 07:44:37 CDT)
- Re: NEW New John Stone (Thu Aug 06 2009 - 10:31:36 CDT)
Cionize on mac cuda daniel aguayo (Wed Aug 05 2009 - 20:29:07 CDT)
- Re: Cionize on mac cuda John Stone (Wed Aug 05 2009 - 20:43:04 CDT)
  - Re: Cionize on mac cuda daniel aguayo (Wed Aug 05 2009 - 20:46:10 CDT)
Announce: VMD 1.8.7 released John Stone (Mon Aug 03 2009 - 14:21:59 CDT)
"mol scaleminmax auto" vs. "mol scaleminmax $min_val $max_val" Nadja Lederer (Mon Aug 03 2009 - 06:21:42 CDT)
Why the win_version of vmd1.86 can not change to python interpreter? Aurum Bai (Sat Aug 01 2009 - 08:21:06 CDT)
- Re: Why the win_version of vmd1.86 can not change to python interpreter? Axel Kohlmeyer (Sat Aug 01 2009 - 09:30:12 CDT)
vmd Linux 64 Christian Wohlschlager (Fri Jul 31 2009 - 03:29:04 CDT)
- Re: vmd Linux 64 Axel Kohlmeyer (Fri Jul 31 2009 - 07:50:20 CDT)
visualization problem Srikanth Dhondi (Thu Jul 30 2009 - 21:58:27 CDT)
- Re: visualization problem Axel Kohlmeyer (Fri Jul 31 2009 - 07:44:29 CDT)
- Re: visualization problem John Stone (Fri Jul 31 2009 - 10:41:30 CDT)
Building polymer psf from monomer topology Alexandre Suman de Araujo (Thu Jul 30 2009 - 14:48:13 CDT)
NAMDEnergy Plugin Andres Morales N (Tue Jul 28 2009 - 00:34:43 CDT)
removed all proton in protein with vmd albert albert (Mon Jul 27 2009 - 01:40:34 CDT)
- Re: removed all proton in protein with vmd Nicolas SAPAY (Mon Jul 27 2009 - 03:36:38 CDT)
PDB COORDINATES Edward P. Manning (Sun Jul 26 2009 - 19:08:28 CDT)
- Re: PDB COORDINATES Axel Kohlmeyer (Sun Jul 26 2009 - 19:59:55 CDT)
Stripping out H20 Jehanzeb Hameed (Sun Jul 26 2009 - 18:24:33 CDT)
- Re: Stripping out H20 Axel Kohlmeyer (Sun Jul 26 2009 - 18:47:33 CDT)
  - Re: Stripping out H20 Axel Kohlmeyer (Sun Jul 26 2009 - 20:09:45 CDT)
File to benchmark a new GPU system luc Renambot (Sun Jul 26 2009 - 16:20:28 CDT)
- Re: File to benchmark a new GPU system Axel Kohlmeyer (Sun Jul 26 2009 - 18:22:59 CDT)
  - Re: File to benchmark a new GPU system luc Renambot (Sun Jul 26 2009 - 18:52:30 CDT)
    - Re: File to benchmark a new GPU system Axel Kohlmeyer (Sun Jul 26 2009 - 20:07:37 CDT)
- Re: File to benchmark a new GPU system John Stone (Mon Jul 27 2009 - 16:39:45 CDT)
order parameter from trajectory Roman Petrenko (Fri Jul 24 2009 - 17:08:50 CDT)
Lovyeou gumbart_at_ks.uiuc.edu (Fri Jul 24 2009 - 09:31:56 CDT)
time-averaged RMSD per residue Dawn (Fri Jul 24 2009 - 08:06:08 CDT)
- Re: time-averaged RMSD per residue Roman Petrenko (Fri Jul 24 2009 - 09:00:08 CDT)
  - Re: time-averaged RMSD per residue Roman Petrenko (Fri Jul 24 2009 - 11:15:02 CDT)
    - Re: time-averaged RMSD per residue Roman Petrenko (Sun Jul 26 2009 - 05:39:19 CDT)
- Re: time-averaged RMSD per residue Axel Kohlmeyer (Fri Jul 24 2009 - 09:19:52 CDT)
question about atomselect and periodic condition Linchen Gong (Fri Jul 24 2009 - 05:44:41 CDT)
- Re: question about atomselect and periodic condition Axel Kohlmeyer (Fri Jul 24 2009 - 09:17:13 CDT)
Hydrogen Bonding energy Goutham (Thu Jul 23 2009 - 20:56:52 CDT)
Loevyou gumbart_at_ks.uiuc.edu (Thu Jul 23 2009 - 16:55:17 CDT)
stereo anaglyph Roman Petrenko (Thu Jul 23 2009 - 16:16:07 CDT)
TkConsole not working Ziemys, Arturas (Thu Jul 23 2009 - 14:45:20 CDT)
- Re: TkConsole not working John Stone (Thu Jul 23 2009 - 14:52:24 CDT)
  - RE: TkConsole not working Ziemys, Arturas (Thu Jul 23 2009 - 14:56:57 CDT)
drawing bond for coarse grained model Sunjoo Lee (Thu Jul 23 2009 - 13:25:46 CDT)
- Re: drawing bond for coarse grained model Axel Kohlmeyer (Thu Jul 23 2009 - 14:06:53 CDT)
Save State Fails Carmen Valladares (Tue Jul 21 2009 - 18:57:00 CDT)
- Re: Save State Fails Leonardo Trabuco (Wed Jul 22 2009 - 00:52:57 CDT)
  - Re: Save State Fails Andrew Dalke (Thu Jul 23 2009 - 13:11:46 CDT)
could not visualize DCD file downloaded from VMD website Yi Shang (Tue Jul 21 2009 - 14:59:04 CDT)
- Re: could not visualize DCD file downloaded from VMD website Yi Shang (Tue Jul 21 2009 - 15:05:51 CDT)
  - Re: could not visualize DCD file downloaded from VMD website Yi Shang (Tue Jul 21 2009 - 15:24:30 CDT)
insert a protein into a membrane Lixia Jin Day (Tue Jul 21 2009 - 13:41:21 CDT)
- Re: insert a protein into a membrane Leonardo Trabuco (Tue Jul 21 2009 - 21:17:29 CDT)
of diet pills, like a racing heart or queasy stomach ltrabuco_at_ks.uiuc.edu (Tue Jul 21 2009 - 09:47:48 CDT)
error using Molecule.save() (vmd python) Michael Kreim (Tue Jul 21 2009 - 06:49:44 CDT)
- Re: error using Molecule.save() (vmd python) Axel Kohlmeyer (Tue Jul 21 2009 - 08:43:21 CDT)
IMD interface for VASP Michael Robbert (Mon Jul 20 2009 - 17:54:36 CDT)
- Re: IMD interface for VASP Axel Kohlmeyer (Mon Jul 20 2009 - 19:03:45 CDT)
need convert when using VMD to make a movie under Mac Yongmei Pan (Mon Jul 20 2009 - 17:49:29 CDT)
- Re: need convert when using VMD to make a movie under Mac Eric H. Lee (Mon Jul 20 2009 - 18:34:53 CDT)
- Re: need convert when using VMD to make a movie under Mac John Stone (Tue Jul 21 2009 - 01:13:44 CDT)
VMD on laptop with ATI Radeon 3650 Ramon Rocha (Mon Jul 20 2009 - 16:00:40 CDT)
- Re: VMD on laptop with ATI Radeon 3650 John Stone (Mon Jul 20 2009 - 16:09:18 CDT)
  - RE: VMD on laptop with ATI Radeon 3650 Mark Cunningham (Tue Jul 21 2009 - 10:00:33 CDT)
Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer Stanislav Polonsky (Mon Jul 20 2009 - 11:04:25 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer John Stone (Mon Jul 20 2009 - 11:29:20 CDT)
  - Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer Stanislav Polonsky (Mon Jul 20 2009 - 11:40:40 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer Axel Kohlmeyer (Mon Jul 20 2009 - 11:36:28 CDT)
Re PSF file generation karthigeyan karthigeyantp (Mon Jul 20 2009 - 07:34:51 CDT)
- Re: Re PSF file generation Axel Kohlmeyer (Mon Jul 20 2009 - 08:49:33 CDT)
VMD 1.8.7 installation problem Ajeeta kaushiki (Mon Jul 20 2009 - 06:55:41 CDT)
- Re: VMD 1.8.7 installation problem Axel Kohlmeyer (Mon Jul 20 2009 - 08:49:00 CDT)
Problem With Psfgen again avl211_at_lehigh.edu (Fri Jul 17 2009 - 13:53:49 CDT)
- Re: Problem With Psfgen again Axel Kohlmeyer (Fri Jul 17 2009 - 14:37:13 CDT)
error after changing of PYTHONPATH variable Michael Kreim (Fri Jul 17 2009 - 07:12:52 CDT)
- Re: error after changing of PYTHONPATH variable Axel Kohlmeyer (Fri Jul 17 2009 - 08:22:13 CDT)
  - Re: error after changing of PYTHONPATH variable Michael Kreim (Fri Jul 17 2009 - 08:51:46 CDT)
    - Re: error after changing of PYTHONPATH variable Axel Kohlmeyer (Fri Jul 17 2009 - 09:16:22 CDT)
File conversion for from Amber to Charmm Yogesh Aher (Fri Jul 17 2009 - 04:34:55 CDT)
- Re: File conversion for from Amber to Charmm Axel Kohlmeyer (Fri Jul 17 2009 - 07:23:35 CDT)
  - Re: File conversion for from Amber to Charmm Axel Kohlmeyer (Fri Jul 17 2009 - 10:14:24 CDT)
    - Re: File conversion for from Amber to Charmm Yogesh Aher (Mon Jul 20 2009 - 07:22:21 CDT)
    - Re: File conversion for from Amber to Charmm Axel Kohlmeyer (Mon Jul 20 2009 - 08:54:41 CDT)
Problems with psfgen avl211_at_lehigh.edu (Thu Jul 16 2009 - 16:06:31 CDT)
- Re: Problems with psfgen Axel Kohlmeyer (Thu Jul 16 2009 - 17:30:59 CDT)
algorithm for command *within* BIN ZHANG (Thu Jul 16 2009 - 11:29:43 CDT)
- Re: algorithm for command *within* John Stone (Thu Jul 16 2009 - 11:32:50 CDT)
  - Re: algorithm for command *within* Thomas Evangelidis (Fri Jul 17 2009 - 03:30:45 CDT)
ied and gypython gurunath katagi (Thu Jul 16 2009 - 02:16:21 CDT)
- Re: ied and gypython Axel Kohlmeyer (Thu Jul 16 2009 - 09:22:39 CDT)
A problem on PBC yzliu (Thu Jul 16 2009 - 02:06:34 CDT)
- Re: A problem on PBC Axel Kohlmeyer (Thu Jul 16 2009 - 11:56:57 CDT)
HETATM records are written as ATOM Thomas Evangelidis (Wed Jul 15 2009 - 16:58:27 CDT)
- Re: HETATM records are written as ATOM Leonardo Trabuco (Wed Jul 15 2009 - 17:32:07 CDT)
Natural WeightL0SS Solution ltrabuco_at_ks.uiuc.edu (Wed Jul 15 2009 - 17:35:35 CDT)
Can I build a structure by VMD? Lixia Jin Day (Wed Jul 15 2009 - 14:29:01 CDT)
- Re: Can I build a structure by VMD? John Stone (Wed Jul 15 2009 - 14:36:56 CDT)
.xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? Patrick Kiley (Wed Jul 15 2009 - 05:05:01 CDT)
- Re: .xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? John Stone (Wed Jul 15 2009 - 14:32:57 CDT)
- Re: .xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? Olaf Lenz (Thu Jul 16 2009 - 01:14:37 CDT)
python and vmd Jorgen Simonsen (Wed Jul 15 2009 - 04:23:12 CDT)
- Re: python and vmd Axel Kohlmeyer (Wed Jul 15 2009 - 07:46:20 CDT)
scan interleaved stereo on Zalman M220W monitor Sinan Arslan (Tue Jul 14 2009 - 13:11:39 CDT)
- Re: scan interleaved stereo on Zalman M220W monitor John Stone (Tue Jul 14 2009 - 13:25:50 CDT)
molecule jumps from one site to the other? uu zhu (Mon Jul 13 2009 - 21:11:52 CDT)
- Re: namd-l: molecule jumps from one site to the other? Eric H. Lee (Mon Jul 13 2009 - 21:33:42 CDT)
getting other variables out of LAMMPS ascii dump files Dan Lussier (Mon Jul 13 2009 - 13:44:23 CDT)
- Re: getting other variables out of LAMMPS ascii dump files Axel Kohlmeyer (Mon Jul 13 2009 - 14:21:03 CDT)
  - Re: getting other variables out of LAMMPS ascii dump files Dan Lussier (Tue Jul 14 2009 - 17:31:57 CDT)
    - Re: getting other variables out of LAMMPS ascii dump files Axel Kohlmeyer (Tue Jul 14 2009 - 18:00:35 CDT)
    - Re: getting other variables out of LAMMPS ascii dump files Dan Lussier (Thu Jul 16 2009 - 04:46:03 CDT)
Be someone whom you have never been before with DrMaxMan ltrabuco_at_ks.uiuc.edu (Mon Jul 13 2009 - 10:30:41 CDT)
Problem: I got a runtime error "CthCreate failed to create fiber!". Chuck (Sun Jul 12 2009 - 03:49:44 CDT)
Need Guidance with pbctools Angelo Rossi (Sat Jul 11 2009 - 13:47:11 CDT)
- Re: Need Guidance with pbctools Olaf Lenz (Sun Jul 12 2009 - 03:00:58 CDT)
  - Re: Need Guidance with pbctools Angelo Rossi (Sun Jul 12 2009 - 08:02:21 CDT)
residue based CG model Xiang Yu (Fri Jul 10 2009 - 09:20:42 CDT)
- Re: residue based CG model Anton Arkhipov (Fri Jul 10 2009 - 10:47:00 CDT)
measure rmsf Alison Grinthal (Fri Jul 10 2009 - 08:31:26 CDT)
- Re: measure rmsf John Stone (Fri Jul 10 2009 - 10:42:33 CDT)
  - Re: measure rmsf Alison Grinthal (Fri Jul 10 2009 - 13:10:14 CDT)
    - Re: measure rmsf John Stone (Fri Jul 10 2009 - 13:31:54 CDT)
- list of residue contacts Alison Grinthal (Wed Sep 23 2009 - 15:02:23 CDT)
A problem on SASA measure yzliu (Fri Jul 10 2009 - 08:12:23 CDT)
- Re: A problem on SASA measure John Stone (Wed Jul 15 2009 - 16:03:25 CDT)
  - make movie w/ VMD in SUSE environment Thomas C. Bishop (Thu Jul 16 2009 - 10:55:57 CDT)
Need GAMESS logfiles for testing VMD's new QM interface saam (Thu Jul 09 2009 - 11:58:08 CDT)
How to make a selection in atomselect using an element in a list? maria goranovic (Wed Jul 08 2009 - 10:39:39 CDT)
- Re: How to make a selection in atomselect using an element in a list? Axel Kohlmeyer (Wed Jul 08 2009 - 11:17:14 CDT)
LES problem Irene Newhouse (Tue Jul 07 2009 - 00:25:20 CDT)
- re: LES problem Irene Newhouse (Tue Jul 07 2009 - 00:28:21 CDT)
Make sure girls notice your package petefred_at_ks.uiuc.edu (Sat Jul 04 2009 - 22:12:43 CDT)
NAMDenergy: problems on changing VMD version/platform Neelanjana Sengupta (Sat Jul 04 2009 - 11:17:44 CDT)
- Re: NAMDenergy: problems on changing VMD version/platform Axel Kohlmeyer (Sat Jul 04 2009 - 11:54:50 CDT)
  - Re: NAMDenergy: problems on changing VMD version/platform Axel Kohlmeyer (Sun Jul 05 2009 - 13:58:50 CDT)
    - Re: NAMDenergy: problems on changing VMD version/platform Neelanjana Sengupta (Mon Jul 06 2009 - 05:17:30 CDT)
GPL compatible PluginMgr/vmddlopen Roland Schulz (Sat Jul 04 2009 - 08:13:37 CDT)
- Re: GPL compatible PluginMgr/vmddlopen John Stone (Sun Jul 05 2009 - 20:14:35 CDT)
  - Re: GPL compatible PluginMgr/vmddlopen Roland Schulz (Mon Jul 06 2009 - 04:19:52 CDT)
    - Re: GPL compatible PluginMgr/vmddlopen John Stone (Mon Jul 06 2009 - 21:45:27 CDT)
    - Re: GPL compatible PluginMgr/vmddlopen Roland Schulz (Wed Jul 08 2009 - 09:56:08 CDT)
Hardware for NAMD / VMD machine Olve Peersen (Fri Jul 03 2009 - 01:26:11 CDT)
- Re: namd-l: Hardware for NAMD / VMD machine Axel Kohlmeyer (Fri Jul 03 2009 - 11:56:08 CDT)
- Re: Hardware for NAMD / VMD machine John Stone (Mon Jul 06 2009 - 11:04:30 CDT)
  - Re: Hardware for NAMD / VMD machine Olve Peersen (Mon Jul 06 2009 - 13:39:53 CDT)
    - Re: namd-l: Re: Hardware for NAMD / VMD machine Axel Kohlmeyer (Mon Jul 06 2009 - 16:46:40 CDT)
Be the largest man around petefred_at_ks.uiuc.edu (Thu Jul 02 2009 - 13:35:37 CDT)
Manunlly Assign Secondary Structure (May Not Be Realistic) John C. H. Chao (Thu Jul 02 2009 - 06:00:07 CDT)
- Re: Manunlly Assign Secondary Structure (May Not Be Realistic) Axel Kohlmeyer (Thu Jul 02 2009 - 14:42:30 CDT)
  - RE: Manunlly Assign Secondary Structure (May Not Be Realistic) John C. H. Chao (Fri Jul 03 2009 - 04:42:10 CDT)
superimposing proteins based on a few residues Irene Newhouse (Wed Jul 01 2009 - 15:59:33 CDT)
- Re: superimposing proteins based on a few residues Axel Kohlmeyer (Wed Jul 01 2009 - 17:13:25 CDT)
Some VMD questions Steve Jensen (Tue Jun 30 2009 - 12:27:01 CDT)
- Re: Some VMD questions Daniel Gaston (Tue Jun 30 2009 - 13:10:14 CDT)
- Re: Some VMD questions Axel Kohlmeyer (Tue Jun 30 2009 - 13:56:02 CDT)
Coloring atoms by a general scalar Heidenreich, Joseph David (Tue Jun 30 2009 - 12:19:29 CDT)
- Re: Coloring atoms by a general scalar Axel Kohlmeyer (Tue Jun 30 2009 - 12:53:26 CDT)
- Re: Coloring atoms by a general scalar Pawel Kedzierski (Wed Jul 01 2009 - 04:27:32 CDT)
  - Re: Coloring atoms by a general scalar Axel Kohlmeyer (Wed Jul 01 2009 - 08:12:52 CDT)
    - RE: Coloring atoms by a general scalar Heidenreich, Joseph David (Thu Jul 02 2009 - 14:17:25 CDT)
Funny tcl/tk script behavior.... Alberto Sergio Garay (Tue Jun 30 2009 - 08:02:57 CDT)
- Re: Funny tcl/tk script behavior.... Axel Kohlmeyer (Tue Jun 30 2009 - 09:48:45 CDT)
  - Re: Funny tcl/tk script behavior.... Alberto Sergio Garay (Tue Jun 30 2009 - 12:08:32 CDT)
atom name can not exceed four characters in pdb and psf? accomp lin (Mon Jun 29 2009 - 21:59:36 CDT)
- Re: atom name can not exceed four characters in pdb and psf? Axel Kohlmeyer (Mon Jun 29 2009 - 22:32:22 CDT)
Packed with Antioxidants . Acai Berry. petefred_at_ks.uiuc.edu (Mon Jun 29 2009 - 21:30:17 CDT)
Oprah certified wieght loss solution Acai.Berri. petefred_at_ks.uiuc.edu (Mon Jun 29 2009 - 19:29:14 CDT)
GPGPU Programming summer school at University of Tennessee, Aug 10-14. Axel Kohlmeyer (Mon Jun 29 2009 - 14:44:15 CDT)
running vmd on computer node BIN ZHANG (Mon Jun 29 2009 - 12:55:08 CDT)
- Re: running vmd on computer node Axel Kohlmeyer (Mon Jun 29 2009 - 13:46:51 CDT)
selection update kumar prashanth (Fri Jun 26 2009 - 08:03:21 CDT)
- Re: selection update John Stone (Fri Jun 26 2009 - 14:26:51 CDT)
Problem using pbc wrap..... Alberto Sergio Garay (Fri Jun 26 2009 - 07:13:44 CDT)
- Re: Problem using pbc wrap..... Olaf Lenz (Fri Jun 26 2009 - 10:06:06 CDT)
  - Re: Problem using pbc wrap..... Alberto Sergio Garay (Fri Jun 26 2009 - 15:01:35 CDT)
    - Re: Problem using pbc wrap..... Olaf Lenz (Sat Jun 27 2009 - 10:44:53 CDT)
Curious about analytical capabilities of VMD Bjoern Olausson (Fri Jun 26 2009 - 03:48:05 CDT)
- Re: Curious about analytical capabilities of VMD Axel Kohlmeyer (Fri Jun 26 2009 - 07:09:06 CDT)
  - Re: Curious about analytical capabilities of VMD Bjoern Olausson (Mon Jun 29 2009 - 05:29:33 CDT)
constant region selection for animation Dan Lussier (Thu Jun 25 2009 - 09:55:00 CDT)
- Re: constant region selection for animation John Stone (Thu Jun 25 2009 - 10:03:21 CDT)
Re: regarding positioning of protein molecule Ramya Gamini (Thu Jun 25 2009 - 01:48:07 CDT)
"no CUDA accelerator devices available", Nvidia GeForce 9600 GT card Low Soo Mei (Wed Jun 24 2009 - 21:44:35 CDT)
- Re: "no CUDA accelerator devices available", Nvidia GeForce 9600 GT card John Stone (Wed Jun 24 2009 - 22:17:52 CDT)
  - Re: "no CUDA accelerator devices available", Nvidia GeForce 9600 GT card Low Soo Mei (Thu Jun 25 2009 - 00:41:15 CDT)
Multimodel PDB files with Different Models? Kevin Wu (Wed Jun 24 2009 - 21:05:30 CDT)
- Re: Multimodel PDB files with Different Models? John Stone (Thu Jun 25 2009 - 13:11:30 CDT)
residue index problem Jianhui Tian (Wed Jun 24 2009 - 15:51:54 CDT)
- Re: residue index problem John Stone (Wed Jun 24 2009 - 16:40:44 CDT)
trace the distance between center of mass of one certain residue and the other Naiyin Yu (Wed Jun 24 2009 - 14:59:14 CDT)
- Re: trace the distance between center of mass of one certain residue and the other John Stone (Wed Jun 24 2009 - 15:34:05 CDT)
Rejecting plugin... Gustavo Seabra (Wed Jun 24 2009 - 14:04:25 CDT)
- Re: Rejecting plugin... Axel Kohlmeyer (Wed Jun 24 2009 - 14:30:15 CDT)
- Re: Rejecting plugin... John Stone (Wed Jun 24 2009 - 14:34:53 CDT)
  - Re: Rejecting plugin... Gustavo Seabra (Wed Jun 24 2009 - 17:53:26 CDT)
vmd error message in Fedora 11 snoze pa (Wed Jun 24 2009 - 11:04:15 CDT)
- Re: vmd error message in Fedora 11 Axel Kohlmeyer (Wed Jun 24 2009 - 12:07:24 CDT)
  - vmd 1.8.7 not spawn new console: feature,bug, or just different? Thomas C. Bishop (Wed Jun 24 2009 - 15:08:07 CDT)
bigdcd v3 available. testers needed. Axel Kohlmeyer (Wed Jun 24 2009 - 09:07:14 CDT)
joystick, win32 simple interface Biff Forbush (Tue Jun 23 2009 - 18:32:57 CDT)
- Re: joystick, win32 simple interface John Stone (Wed Jun 24 2009 - 15:50:18 CDT)
VMD 1.8.7 beta5 probs with NVIDIA Quadro FX3450/4000 graphic card Baumert, Uwe Dr.rer.nat. (Mon Jun 22 2009 - 04:18:54 CDT)
- Re: VMD 1.8.7 beta5 probs with NVIDIA Quadro FX3450/4000 graphic card John Stone (Mon Jun 22 2009 - 09:29:11 CDT)
Plugins: plz add one more conversion to unit_conversion.h Rob (Sun Jun 21 2009 - 21:00:57 CDT)
- Re: Plugins: plz add one more conversion to unit_conversion.h John Stone (Mon Jun 22 2009 - 14:54:33 CDT)
tag heuer rep watch for you; Forest Jefferson (Sat Jun 20 2009 - 05:44:49 CDT)
porsche design is your style; Fletcher Quick (Thu Jun 18 2009 - 14:18:17 CDT)
transformation matrix Thomas Evangelidis (Thu Jun 18 2009 - 02:55:52 CDT)
- Re: transformation matrix JC Gumbart (Thu Jun 18 2009 - 15:15:34 CDT)
  - Re: transformation matrix Thomas Evangelidis (Thu Jun 18 2009 - 15:34:51 CDT)
    - Re: transformation matrix Thomas Evangelidis (Thu Jun 18 2009 - 15:36:13 CDT)
    - Re: transformation matrix John Stone (Thu Jun 18 2009 - 15:39:12 CDT)
"Re: ABINIT plugin ready for testing: can read GEO and DEN files. Rob (Thu Jun 18 2009 - 02:27:08 CDT)
- Re: "Re: ABINIT plugin ready for testing: can read GEO and DEN files. John Stone (Thu Jun 18 2009 - 09:59:46 CDT)
  - Re: "Re: ABINIT plugin ready for testing: can read GEO and DEN files. Axel Kohlmeyer (Thu Jun 18 2009 - 11:13:59 CDT)
Wrong coordinates using guesscoord in psfgen - lipids poker_at_physics.usyd.edu.au (Wed Jun 17 2009 - 02:30:55 CDT)
movie maker Alison Grinthal (Tue Jun 16 2009 - 09:44:48 CDT)
- Re: movie maker John Stone (Tue Jun 16 2009 - 09:59:26 CDT)
- alignment Alison Grinthal (Fri Jun 19 2009 - 09:45:28 CDT)
  - Re: alignment Axel Kohlmeyer (Fri Jun 19 2009 - 10:56:09 CDT)
Molscripts Tomek Wlodarski (Tue Jun 16 2009 - 08:54:22 CDT)
- Re: Molscripts John Stone (Tue Jun 16 2009 - 09:23:24 CDT)
using atomselect to write a set of atoms and not some residue whose residue numbers are in a list maria goranovic (Mon Jun 15 2009 - 10:31:26 CDT)
- Re: using atomselect to write a set of atoms and not some residue whose residue numbers are in a list John Stone (Mon Jun 15 2009 - 10:38:18 CDT)
"Save coordinates..." silently overwrites existing files... Rob (Mon Jun 15 2009 - 10:25:10 CDT)
- Re: "Save coordinates..." silently overwrites existing files... Axel Kohlmeyer (Mon Jun 15 2009 - 11:29:10 CDT)
Memory allocation problem kumar prashanth (Mon Jun 15 2009 - 04:06:49 CDT)
- Re: Memory allocation problem Peter Freddolino (Mon Jun 15 2009 - 09:22:49 CDT)
- Re: Memory allocation problem Axel Kohlmeyer (Mon Jun 15 2009 - 10:00:02 CDT)
psfgen: auto none not working Ruchi Sachdeva (Mon Jun 15 2009 - 03:57:25 CDT)
- Re: psfgen: auto none not working Peter Freddolino (Mon Jun 15 2009 - 06:50:46 CDT)
ABINIT plugin ready for testing: can read GEO and DEN files. Rob (Mon Jun 15 2009 - 01:32:28 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. John Stone (Mon Jun 15 2009 - 09:52:21 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. Axel Kohlmeyer (Mon Jun 15 2009 - 10:18:34 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. Rob (Tue Jun 16 2009 - 03:27:28 CDT)
  - Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. Axel Kohlmeyer (Tue Jun 16 2009 - 07:31:03 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. Rob (Tue Jun 16 2009 - 21:23:22 CDT)
  - Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. John Stone (Tue Jun 16 2009 - 21:33:31 CDT)
  - Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. Axel Kohlmeyer (Tue Jun 16 2009 - 22:59:20 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. Rob (Wed Jun 17 2009 - 10:59:23 CDT)
  - Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. John Stone (Wed Jun 17 2009 - 11:33:20 CDT)
  - Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. Axel Kohlmeyer (Wed Jun 17 2009 - 12:01:30 CDT)
vmdnumpy for IED... Cihan Aydin (Sun Jun 14 2009 - 17:42:36 CDT)
- Re: vmdnumpy for IED... Axel Kohlmeyer (Sun Jun 14 2009 - 18:23:41 CDT)
Ho to save exactly the screen structure? Víctor (Sun Jun 14 2009 - 15:35:55 CDT)
- Re: Ho to save exactly the screen structure? Axel Kohlmeyer (Sun Jun 14 2009 - 16:58:32 CDT)
  - Re: Ho to save exactly the screen structure? Víctor (Mon Jun 15 2009 - 02:21:43 CDT)
Tcl commands and X11 craig bullington (Fri Jun 12 2009 - 11:48:37 CDT)
- Re: Tcl commands and X11 Axel Kohlmeyer (Fri Jun 12 2009 - 13:26:59 CDT)
VMD and X forwarding to MacOS 10.5.7 Benjamin Bouvier (Fri Jun 12 2009 - 09:48:29 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 John Stone (Fri Jun 12 2009 - 10:02:33 CDT)
  - Re: VMD and X forwarding to MacOS 10.5.7 Benjamin Bouvier (Fri Jun 12 2009 - 10:28:17 CDT)
FW: Unable to render electrostatic potential cube files with most non-HF densities Whiteside, Alexander (Thu Jun 11 2009 - 08:39:21 CDT)
- Re: FW: Unable to render electrostatic potential cube files with most non-HF densities John Stone (Thu Jun 11 2009 - 08:54:59 CDT)
- Re: FW: Unable to render electrostatic potential cube files with most non-HF densities Axel Kohlmeyer (Thu Jun 11 2009 - 09:19:21 CDT)
vmd cannot be launched after successful installation Stefano Meliga (Wed Jun 10 2009 - 10:58:15 CDT)
- Re: vmd cannot be launched after successful installation John Stone (Wed Jun 10 2009 - 11:02:58 CDT)
Transparency settings Bjoern Olausson (Wed Jun 10 2009 - 09:13:13 CDT)
- Re: Transparency settings Axel Kohlmeyer (Wed Jun 10 2009 - 09:38:57 CDT)
- Re: Transparency settings Eric H. Lee (Wed Jun 10 2009 - 09:23:55 CDT)
  - Re: Transparency settings Bjoern Olausson (Wed Jun 10 2009 - 10:29:08 CDT)
NAMDEnergy Andres Morales N (Wed Jun 10 2009 - 08:59:51 CDT)
- Re: NAMDEnergy John Stone (Wed Jun 10 2009 - 09:47:29 CDT)
plugin: can I load volumetric data as frames (i.e. timesteps)? Rob (Wed Jun 10 2009 - 03:11:34 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? John Stone (Wed Jun 10 2009 - 07:24:05 CDT)
  - Re: plugin: can I load volumetric data as frames (i.e. timesteps)? Ondrej Marsalek (Wed Jun 10 2009 - 07:54:05 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? Axel Kohlmeyer (Wed Jun 10 2009 - 08:16:58 CDT)
bonds not created as desired Akemi Matsuno-Yagi (Tue Jun 09 2009 - 13:01:09 CDT)
- Re: bonds not created as desired John Stone (Tue Jun 09 2009 - 14:55:44 CDT)
  - Re: bonds not created as desired Akemi Matsuno-Yagi (Tue Jun 09 2009 - 15:09:25 CDT)
  - namdplot 1.0 Thomas C. Bishop (Wed Jun 10 2009 - 22:14:11 CDT)
    - Re: namdplot 1.0 John Stone (Wed Jun 10 2009 - 23:03:34 CDT)
Re: Cannot load file for SASA analysis Lili Peng (Mon Jun 08 2009 - 20:39:16 CDT)
MSMS installation craig bullington (Mon Jun 08 2009 - 14:27:57 CDT)
- Re: MSMS installation John Stone (Mon Jun 08 2009 - 16:09:42 CDT)
crystal eyes vmd Thomas Lemmin (Mon Jun 08 2009 - 08:16:22 CDT)
- Re: crystal eyes vmd Thomas Lemmin (Mon Jun 08 2009 - 08:21:48 CDT)
  - Re: Re: crystal eyes vmd John Stone (Mon Jun 08 2009 - 08:43:56 CDT)
atom selection Deepti Mishra (Sun Jun 07 2009 - 23:32:43 CDT)
- Re: atom selection Eric H. Lee (Sun Jun 07 2009 - 23:46:39 CDT)
NAMDEnergy Andres Morales N (Sun Jun 07 2009 - 15:24:33 CDT)
- Re: NAMDEnergy Eric H. Lee (Sun Jun 07 2009 - 15:37:30 CDT)
  - Re: NAMDEnergy Peter Freddolino (Sun Jun 07 2009 - 16:41:54 CDT)
NAMDEnergy Andres Morales N (Sun Jun 07 2009 - 15:23:35 CDT)
Building LPS membrane dipti lele (Sun Jun 07 2009 - 00:35:50 CDT)
Vector corresponding to the long axis Navendu bhatnagar (Fri Jun 05 2009 - 17:26:16 CDT)
- Re: Vector corresponding to the long axis Peter Freddolino (Fri Jun 05 2009 - 19:53:16 CDT)
disulphide bond formation gurunath katagi (Fri Jun 05 2009 - 10:14:11 CDT)
- Re: disulphide bond formation Axel Kohlmeyer (Fri Jun 05 2009 - 10:45:12 CDT)
  - psfgen: how to place patches to end of residue definition in pdb file? Sebastian Stolzenberg (Tue Jun 09 2009 - 11:33:41 CDT)
debugging tool for atomselect Axel Kohlmeyer (Thu Jun 04 2009 - 17:05:10 CDT)
Memory Problem with tcl/tk script...(Solved!) Alberto Sergio Garay (Thu Jun 04 2009 - 07:08:19 CDT)
Energy Andres Morales N (Wed Jun 03 2009 - 21:50:41 CDT)
- Re: Energy Axel Kohlmeyer (Wed Jun 03 2009 - 22:29:45 CDT)
- Re: Energy John Stone (Wed Jun 03 2009 - 22:04:04 CDT)
Memory Problem with tcl/tk script...(3) Alberto Sergio Garay (Wed Jun 03 2009 - 14:17:07 CDT)
Memory Problem with tcl/tk script...(2) Alberto Sergio Garay (Wed Jun 03 2009 - 12:54:53 CDT)
- Re: Memory Problem with tcl/tk script...(2) Robert Brunner (Wed Jun 03 2009 - 13:48:49 CDT)
- Re: Memory Problem with tcl/tk script...(2) Axel Kohlmeyer (Wed Jun 03 2009 - 13:57:40 CDT)
vmd 1.8.7 - problems loading vmd state file lucie delemotte (Tue Jun 02 2009 - 10:31:26 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file John Stone (Tue Jun 02 2009 - 10:39:18 CDT)
APBS error : Cannot read output file Navendu bhatnagar (Tue Jun 02 2009 - 09:51:01 CDT)
- Re: APBS error : Cannot read output file John Stone (Tue Jun 02 2009 - 09:55:51 CDT)
VMD HOLE Result Hyundeok Song (Tue Jun 02 2009 - 08:49:20 CDT)
- Re: VMD HOLE Result John Stone (Tue Jun 02 2009 - 09:53:26 CDT)
  - Re: VMD HOLE Result Hyundeok Song (Tue Jun 02 2009 - 14:05:59 CDT)
    - Re: VMD HOLE Result daniel aguayo (Tue Jun 02 2009 - 17:03:26 CDT)
Memory Problem with tcl/tk script... Alberto Sergio Garay (Tue Jun 02 2009 - 07:25:16 CDT)
- Re: Memory Problem with tcl/tk script... Axel Kohlmeyer (Tue Jun 02 2009 - 09:27:22 CDT)
adding atoms to empty molecules Thomas Evangelidis (Mon Jun 01 2009 - 13:47:07 CDT)
- Re: adding atoms to empty molecules Axel Kohlmeyer (Tue Jun 02 2009 - 09:22:43 CDT)
  - Re: adding atoms to empty molecules Thomas Evangelidis (Tue Jun 02 2009 - 15:57:56 CDT)
VMD 1.8.7 Beta 5 -- Possible bug when typing in the VMD menu boxes. JT (Mon Jun 01 2009 - 17:29:07 CDT)
VMD 1.8.7 beta 5 posted for download John Stone (Mon Jun 01 2009 - 16:11:31 CDT)
Accelerating your VMD 1.8.7 calculations with an NVIDIA Tesla GPU Jacob Story (Mon Jun 01 2009 - 09:20:22 CDT)
- Re: Accelerating your VMD 1.8.7 calculations with an NVIDIA Tesla GPU John Stone (Tue Jun 02 2009 - 10:25:36 CDT)
Linking to molfile_plugin libraries David Tanner (Fri May 29 2009 - 13:02:59 CDT)
- Re: Linking to molfile_plugin libraries John Stone (Fri May 29 2009 - 13:07:26 CDT)
  - Re: Linking to molfile_plugin libraries David Tanner (Fri May 29 2009 - 13:18:28 CDT)
    - Re: Linking to molfile_plugin libraries John Stone (Fri May 29 2009 - 13:24:30 CDT)
    - Re: Linking to molfile_plugin libraries David Tanner (Fri May 29 2009 - 13:30:24 CDT)
Macbook and VMD Tk windows madura_at_duq.edu (Fri May 29 2009 - 06:49:08 CDT)
- Re: Macbook and VMD Tk windows Axel Kohlmeyer (Fri May 29 2009 - 08:07:21 CDT)
- Re: Macbook and VMD Tk windows John Stone (Fri May 29 2009 - 09:17:20 CDT)
VMD crash snoze pa (Thu May 28 2009 - 14:45:10 CDT)
- Re: VMD crash John Stone (Thu May 28 2009 - 15:13:22 CDT)
  - statistics in VMD Thomas C. Bishop (Thu May 28 2009 - 19:18:17 CDT)
    - Re: statistics in VMD John Stone (Thu May 28 2009 - 19:25:09 CDT)
  - Re: VMD crash Axel Kohlmeyer (Thu May 28 2009 - 19:05:48 CDT)
    - Re: VMD crash John Stone (Thu May 28 2009 - 19:32:44 CDT)
    - Re: VMD crash Axel Kohlmeyer (Thu May 28 2009 - 19:46:33 CDT)
Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool Axel Kohlmeyer (Thu May 28 2009 - 10:31:42 CDT)
- RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool Chetan Mahajan (Tue Jun 09 2009 - 13:08:16 CDT)
  - RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool Axel Kohlmeyer (Wed Jun 10 2009 - 08:36:44 CDT)
    - RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool Chetan Mahajan (Wed Jun 10 2009 - 10:00:30 CDT)
    - RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool Axel Kohlmeyer (Sat Jun 13 2009 - 17:00:27 CDT)
problem with dispdev KIRTANA S (Wed May 27 2009 - 15:59:41 CDT)
- Re: problem with dispdev John Stone (Wed May 27 2009 - 16:02:38 CDT)
- Re: problem with dispdev Axel Kohlmeyer (Wed May 27 2009 - 16:20:37 CDT)
main window missing? BIN ZHANG (Wed May 27 2009 - 15:17:40 CDT)
- Re: main window missing? John Stone (Wed May 27 2009 - 15:30:21 CDT)
  - Re: main window missing? BIN ZHANG (Wed May 27 2009 - 15:49:40 CDT)
    - Re: main window missing? John Stone (Wed May 27 2009 - 16:00:55 CDT)
    - Re: main window missing? BIN ZHANG (Wed May 27 2009 - 16:36:07 CDT)
- Re: main window missing? Axel Kohlmeyer (Wed May 27 2009 - 16:01:33 CDT)
Need testers for VMD/Tachyon volumetric coloring feature :-) John Stone (Wed May 27 2009 - 14:37:59 CDT)
Angles in psf file KIRTANA S (Tue May 26 2009 - 15:05:20 CDT)
Re: new problem John Stone (Tue May 26 2009 - 11:05:07 CDT)
Heat capacity zizi moradi (Sun May 24 2009 - 16:39:45 CDT)
Isosurface and Fieldlines Not rendered in colour Burak Cankurtaran (Tue May 26 2009 - 00:15:44 CDT)
- Re: Isosurface and Fieldlines Not rendered in colour Axel Kohlmeyer (Tue May 26 2009 - 08:44:49 CDT)
- Re: Isosurface and Fieldlines Not rendered in colour John Stone (Tue May 26 2009 - 02:42:15 CDT)
  - Re: Isosurface and Fieldlines Not rendered in colour Burak Cankurtaran (Tue May 26 2009 - 21:17:36 CDT)
Plugin: molfile_plugin_t filename_extension; problem and bug... Rob (Sun May 24 2009 - 22:39:33 CDT)
- Re: Plugin: molfile_plugin_t filename_extension; problem and bug... Axel Kohlmeyer (Mon May 25 2009 - 09:52:04 CDT)
- Re: Plugin: molfile_plugin_t filename_extension; problem and bug... John Stone (Mon May 25 2009 - 23:28:34 CDT)
VMD crashes in VolumeSlice representation Suman Chakrabarty (Sun May 24 2009 - 13:09:10 CDT)
- Re: VMD crashes in VolumeSlice representation Axel Kohlmeyer (Sun May 24 2009 - 13:49:41 CDT)
- Re: VMD crashes in VolumeSlice representation John Stone (Mon May 25 2009 - 23:20:24 CDT)
Problem in loading data Jae Hyun Park (Sun May 24 2009 - 10:38:24 CDT)
- Re: Problem in loading data Axel Kohlmeyer (Sun May 24 2009 - 11:08:09 CDT)
- Re: Problem in loading data Peter Freddolino (Sun May 24 2009 - 17:53:19 CDT)
"Determine file type" list is far too long... Rob (Sun May 24 2009 - 04:45:30 CDT)
- Re: "Determine file type" list is far too long... Axel Kohlmeyer (Sun May 24 2009 - 08:52:35 CDT)
  - Re: "Determine file type" list is far too long... John Stone (Mon May 25 2009 - 23:09:16 CDT)
- Re: "Determine file type" list is far too long... Axel Kohlmeyer (Sun May 24 2009 - 11:40:33 CDT)
solvent accessible surface area zizi moradi (Sat May 23 2009 - 13:11:19 CDT)
- Re: solvent accessible surface area Peter Freddolino (Sat May 23 2009 - 14:19:37 CDT)
Offset for frame ids in dcd trajectory DimitryASuplatov (Sat May 23 2009 - 11:11:09 CDT)
- Re: Offset for frame ids in dcd trajectory John Stone (Tue May 26 2009 - 15:32:40 CDT)
Operations with MD frames - acquiring time infromation DimitryASuplatov (Sat May 23 2009 - 08:16:37 CDT)
- Re: Operations with MD frames - acquiring time infromation Peter Freddolino (Sat May 23 2009 - 09:09:49 CDT)
  - Re: Operations with MD frames - acquiring time infromation DimitryASuplatov (Sat May 23 2009 - 09:21:49 CDT)
    - Re: Operations with MD frames - acquiring time infromation Peter Freddolino (Sat May 23 2009 - 09:43:28 CDT)
    - Re: Operations with MD frames - acquiring time infromation John Stone (Mon May 25 2009 - 23:44:49 CDT)
Question3 about introducing variables in "mol selection..." Alberto Sergio Garay (Fri May 22 2009 - 16:47:25 CDT)
- Re: Question3 about introducing variables in "mol selection..." Axel Kohlmeyer (Fri May 22 2009 - 17:09:08 CDT)
Question2 about introducing variables in "mol selection..." Alberto Sergio Garay (Fri May 22 2009 - 15:31:51 CDT)
- Re: Question2 about introducing variables in "mol selection..." Axel Kohlmeyer (Fri May 22 2009 - 16:10:24 CDT)
Question about introducing variables in "mol selection..." Alberto Sergio Garay (Fri May 22 2009 - 10:06:54 CDT)
- Re: Question about introducing variables in "mol selection..." Peter Freddolino (Fri May 22 2009 - 10:18:59 CDT)
- Re: Question about introducing variables in "mol selection..." Axel Kohlmeyer (Fri May 22 2009 - 11:34:03 CDT)
abinit plugin for VMD not yet tried? Rob (Fri May 22 2009 - 02:08:15 CDT)
- Re: abinit plugin for VMD not yet tried? Axel Kohlmeyer (Fri May 22 2009 - 10:05:14 CDT)
- Re: abinit plugin for VMD not yet tried? Rob (Sun May 24 2009 - 04:31:17 CDT)
  - Re: Re: abinit plugin for VMD not yet tried? Axel Kohlmeyer (Sun May 24 2009 - 08:38:11 CDT)
- Re: abinit plugin for VMD not yet tried? Rob (Mon May 25 2009 - 02:04:57 CDT)
  - Re: Re: abinit plugin for VMD not yet tried? Axel Kohlmeyer (Mon May 25 2009 - 10:05:30 CDT)
bonds in .psf file KIRTANA S (Thu May 21 2009 - 12:32:35 CDT)
- Re: bonds in .psf file Axel Kohlmeyer (Thu May 21 2009 - 12:48:40 CDT)
angles and dihedrals in .psf file KIRTANA S (Thu May 21 2009 - 10:45:51 CDT)
- Re: angles and dihedrals in .psf file Axel Kohlmeyer (Thu May 21 2009 - 11:28:15 CDT)
RMSF Maria Sanchez (Wed May 20 2009 - 23:14:17 CDT)
- Re: RMSF John Stone (Fri May 22 2009 - 10:57:39 CDT)
pdb file generated not readable by tleap Yi Shang (Wed May 20 2009 - 14:49:26 CDT)
- Re: pdb file generated not readable by tleap Axel Kohlmeyer (Wed May 20 2009 - 16:28:54 CDT)
  - Re: pdb file generated not readable by tleap Myunggi Yi (Fri May 22 2009 - 09:19:36 CDT)
    - Re: pdb file generated not readable by tleap Axel Kohlmeyer (Fri May 22 2009 - 10:08:06 CDT)
Re: Distance between COM for 2 chains for each frame of trajectory Axel Kohlmeyer (Wed May 20 2009 - 14:05:27 CDT)
Distance between COM for 2 chains for each frame of trajectory Florentina Tofoleanu (Wed May 20 2009 - 11:34:18 CDT)
- Re: Distance between COM for 2 chains for each frame of trajectory Axel Kohlmeyer (Wed May 20 2009 - 12:09:39 CDT)
how to load a state from the command line maria goranovic (Wed May 20 2009 - 09:21:13 CDT)
- Re: how to load a state from the command line Axel Kohlmeyer (Wed May 20 2009 - 09:51:47 CDT)
- Re: how to load a state from the command line Ondrej Marsalek (Wed May 20 2009 - 10:18:24 CDT)
VMD 1.8.7b3 and desktop effects on Fedora 10 Nicolas Sapay (Wed May 20 2009 - 07:48:33 CDT)
- Re: VMD 1.8.7b3 and desktop effects on Fedora 10 Axel Kohlmeyer (Wed May 20 2009 - 08:43:16 CDT)
- Re: VMD 1.8.7b3 and desktop effects on Fedora 10 John Stone (Wed May 20 2009 - 20:54:32 CDT)
default colors MyLinkka (Wed May 20 2009 - 07:11:35 CDT)
- Re: default colors Axel Kohlmeyer (Wed May 20 2009 - 09:38:40 CDT)
  - Re: default colors MyLinkka (Wed May 20 2009 - 11:58:57 CDT)
    - Re: default colors Axel Kohlmeyer (Mon May 25 2009 - 16:10:47 CDT)
    - Re: default colors MyLinkka (Tue May 26 2009 - 04:57:50 CDT)
- Re: default colors John Stone (Wed May 20 2009 - 21:11:25 CDT)
- Re: default colors John Stone (Tue May 26 2009 - 17:03:39 CDT)
  - Re: default colors MyLinkka (Fri May 29 2009 - 05:15:26 CDT)
Why is the 'antialias' option is grey? MyLinkka (Wed May 20 2009 - 05:37:47 CDT)
- Re: Why is the 'antialias' option is grey? John Stone (Wed May 20 2009 - 06:58:21 CDT)
  - Re: Why is the 'antialias' option is grey? MyLinkka (Wed May 20 2009 - 07:31:01 CDT)
Request for change in gaussian cube reader Xavier Cartoixa Soler (Tue May 19 2009 - 13:40:37 CDT)
- Re: Request for change in gaussian cube reader Axel Kohlmeyer (Tue May 19 2009 - 14:32:10 CDT)
NVidia GeForce 3D Vision Christoph Weber (Tue May 19 2009 - 12:38:08 CDT)
- Re: NVidia GeForce 3D Vision John Stone (Tue May 19 2009 - 20:28:10 CDT)
Align mistake Andres Morales N (Tue May 19 2009 - 11:14:21 CDT)
- Re: Align mistake John Stone (Tue May 19 2009 - 20:32:52 CDT)
Average strcuture Andres Morales N (Tue May 19 2009 - 08:51:23 CDT)
- Re: Average strcuture jen hsin (Tue May 19 2009 - 09:08:41 CDT)
  - RE: Average strcuture Andres Morales N (Tue May 19 2009 - 10:21:28 CDT)
New vmd Windows version crash MyLinkka (Tue May 19 2009 - 05:14:34 CDT)
- Re: New vmd Windows version crash John Stone (Tue May 19 2009 - 21:02:57 CDT)
Adding two separate pdb files: Lipid Bilayer's with Protein's Lalit (Mon May 18 2009 - 18:07:34 CDT)
- Re: Adding two separate pdb files: Lipid Bilayer's with Protein's David Tanner (Tue May 19 2009 - 11:00:30 CDT)
  - Re: Adding two separate pdb files: Lipid Bilayer's with Protein's Lalit (Wed May 20 2009 - 13:36:56 CDT)
    - Re: Adding two separate pdb files: Lipid Bilayer's with Protein's Axel Kohlmeyer (Wed May 20 2009 - 16:34:45 CDT)
VMD 1.8.7 beta 3 posted for download... John Stone (Mon May 18 2009 - 15:24:21 CDT)
- Re: VMD 1.8.7 beta 3 posted for download... Axel Kohlmeyer (Mon May 18 2009 - 20:29:44 CDT)
  - Re: VMD 1.8.7 beta 3 posted for download... Thomas Evangelidis (Wed May 20 2009 - 23:20:38 CDT)
    - Re: VMD 1.8.7 beta 3 posted for download... Axel Kohlmeyer (Sun May 24 2009 - 19:52:41 CDT)
    - bigdcd are related issues. was: Re: VMD 1.8.7 beta 3 posted for download... Axel Kohlmeyer (Mon May 25 2009 - 11:42:59 CDT)
Model building questions YangMingjun (Mon May 18 2009 - 08:14:38 CDT)
VMD as a python module Ondrej Marsalek (Mon May 18 2009 - 04:45:39 CDT)
- Re: VMD as a python module Axel Kohlmeyer (Mon May 18 2009 - 09:27:16 CDT)
  - Re: VMD as a python module Ondrej Marsalek (Mon May 18 2009 - 11:30:55 CDT)
resolved [Re: vmd / python / f10] Cameron Mura (Sun May 17 2009 - 19:07:47 CDT)
- Re: resolved [Re: vmd / python / f10] John Stone (Mon May 18 2009 - 00:15:06 CDT)
vmd / python / f10 Cameron Mura (Sat May 16 2009 - 18:43:18 CDT)
- Re: vmd / python / f10 John Stone (Sat May 16 2009 - 18:57:24 CDT)
  - Re: vmd / python / f10 Cameron Mura (Sat May 16 2009 - 22:00:29 CDT)
    - Re: vmd / python / f10 Axel Kohlmeyer (Sun May 17 2009 - 08:37:47 CDT)
    - Re: vmd / python / f10 John Stone (Sun May 17 2009 - 12:20:39 CDT)
Change requested in lammps plugin for VMD Gopinath Subramanian (Fri May 15 2009 - 11:42:38 CDT)
- Re: Change requested in lammps plugin for VMD Axel Kohlmeyer (Fri May 15 2009 - 12:32:48 CDT)
adding bonds with the mouse and writing psf Maxim Paliy. (Thu May 14 2009 - 20:01:40 CDT)
- Re: adding bonds with the mouse and writing psf John Stone (Thu May 14 2009 - 20:59:20 CDT)
- Re: adding bonds with the mouse and writing psf Axel Kohlmeyer (Fri May 15 2009 - 10:28:59 CDT)
a small bug in solvate 1.3 Maxim Paliy. (Thu May 14 2009 - 19:06:32 CDT)
- Re: a small bug in solvate 1.3 John Stone (Thu May 14 2009 - 20:45:17 CDT)
solvate v1.3 bug Íõ—² (Thu May 14 2009 - 07:43:23 CDT)
How to color atom by charge loc duong ding (Thu May 14 2009 - 00:46:38 CDT)
- Re: How to color atom by charge Axel Kohlmeyer (Thu May 14 2009 - 07:01:32 CDT)
Translate Andres Morales N (Wed May 13 2009 - 22:25:22 CDT)
- Re: Translate Peter Freddolino (Wed May 13 2009 - 22:41:34 CDT)
Color problem. knowlesc_at_msu.edu (Wed May 13 2009 - 13:55:31 CDT)
- Re: Color problem. John Stone (Wed May 13 2009 - 16:17:12 CDT)
  - Re: Color problem. Axel Kohlmeyer (Wed May 13 2009 - 17:45:44 CDT)
Can bonds radius be controlled by tcl command? accomp lin (Wed May 13 2009 - 03:54:47 CDT)
- Re: Can bonds radius be controlled by tcl command? John Stone (Wed May 13 2009 - 16:19:16 CDT)
  - Re: Can bonds radius be controlled by tcl command? Roman Petrenko (Wed May 13 2009 - 17:09:09 CDT)
    - Re: Can bonds radius be controlled by tcl command? Axel Kohlmeyer (Wed May 13 2009 - 17:55:17 CDT)
VMD 1.8.7 beta 2 posted for download John Stone (Wed May 13 2009 - 14:09:40 CDT)
- namdenergy missing for -dispdev none (vmd 1.8.6) Thomas C. Bishop (Fri May 15 2009 - 12:37:13 CDT)
  - Re: namdenergy missing for -dispdev none (vmd 1.8.6) Peter Freddolino (Fri May 15 2009 - 12:43:50 CDT)
  - Re: namdenergy missing for -dispdev none (vmd 1.8.6) Axel Kohlmeyer (Fri May 15 2009 - 13:27:22 CDT)
Axes Andres Morales N (Wed May 13 2009 - 08:42:45 CDT)
Sphere representaion with radius from pdb field "occupancy" or "temp. fac" Thomas Zauner (Wed May 13 2009 - 05:08:50 CDT)
- Re: Sphere representaion with radius from pdb field "occupancy" or "temp. fac" Axel Kohlmeyer (Wed May 13 2009 - 05:56:32 CDT)
Alignment Andres Morales N (Mon May 11 2009 - 21:44:55 CDT)
selecting waters Mark M Huntress (Mon May 11 2009 - 12:35:10 CDT)
- Re: selecting waters Rogan Carr (Mon May 11 2009 - 12:53:28 CDT)
  - Re: selecting waters cmhartshorn (Mon May 11 2009 - 17:31:55 CDT)
- Re: selecting waters Axel Kohlmeyer (Mon May 11 2009 - 13:11:50 CDT)
calculate charges of the binding site residues with psfgen Thomas Evangelidis (Sat May 09 2009 - 22:54:16 CDT)
- Re: calculate charges of the binding site residues with psfgen Axel Kohlmeyer (Sun May 10 2009 - 07:00:29 CDT)
How to compute excluded volume using volmap? Suman Chakrabarty (Sat May 09 2009 - 14:46:31 CDT)
- Re: How to compute excluded volume using volmap? Suman Chakrabarty (Tue May 12 2009 - 07:53:12 CDT)
  - Re: How to compute excluded volume using volmap? Axel Kohlmeyer (Tue May 12 2009 - 08:47:43 CDT)
Paratool:Problems to load Hessian for charge distribution Sabine Leroch (Fri May 08 2009 - 11:12:05 CDT)
- Re: Paratool:Problems to load Hessian for charge distribution saam (Sat May 09 2009 - 08:06:00 CDT)
volmap question Jian Dai (Fri May 08 2009 - 01:22:22 CDT)
- Re: volmap question John Stone (Fri May 08 2009 - 09:49:33 CDT)
Thiol on gold KIRTANA S (Thu May 07 2009 - 23:57:48 CDT)
- Re: Thiol on gold Axel Kohlmeyer (Fri May 08 2009 - 10:17:49 CDT)
vmd-read data from lammps H Q (Thu May 07 2009 - 20:26:53 CDT)
- Re: vmd-read data from lammps Axel Kohlmeyer (Thu May 07 2009 - 21:22:51 CDT)
namdenergy BIN ZHANG (Thu May 07 2009 - 17:26:23 CDT)
- Re: namdenergy Peter Freddolino (Thu May 07 2009 - 22:45:00 CDT)
  - Re: namdenergy BIN ZHANG (Mon May 11 2009 - 12:29:37 CDT)
    - Re: namdenergy Peter Freddolino (Mon May 11 2009 - 12:37:07 CDT)
BMP snapshot Tawhid Ezaz (Thu May 07 2009 - 14:04:58 CDT)
- Re: BMP snapshot Eric H. Lee (Thu May 07 2009 - 14:26:24 CDT)
- Re: BMP snapshot John Stone (Thu May 07 2009 - 14:24:57 CDT)
Display not updated when using move() from Python in VMD 1.8.6 Pawel Kedzierski (Wed May 06 2009 - 13:50:47 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 Axel Kohlmeyer (Wed May 06 2009 - 18:18:54 CDT)
  - calculate charges of the binding site residues with psfgen Thomas Evangelidis (Wed May 06 2009 - 20:19:54 CDT)
  - Re: Display not updated when using move() from Python in VMD 1.8.6 Pawel Kedzierski (Thu May 07 2009 - 07:31:25 CDT)
memory allocation issue Edward Lyman (Wed May 06 2009 - 13:37:04 CDT)
- Re: memory allocation issue Leonardo Trabuco (Wed May 06 2009 - 13:48:12 CDT)
Postdoc position in computational biophysics and nanotehnology Aleksei Aksimentiev (Tue May 05 2009 - 14:28:20 CDT)
Satellite tobacco mosaic virus images making by VMD ÖÜÎÄ²ý (Tue May 05 2009 - 08:31:33 CDT)
- Re: Satellite tobacco mosaic virus images making by VMD John Stone (Tue May 05 2009 - 09:24:32 CDT)
  - Re: Satellite tobacco mosaic virus images making by VMD ÖÜÎÄ²ý (Tue May 05 2009 - 10:16:45 CDT)
    - Re: Satellite tobacco mosaic virus images making by VMD John Stone (Tue May 05 2009 - 10:28:42 CDT)
    - Re: Satellite tobacco mosaic virus images making by VMD Anton Arkhipov (Tue May 05 2009 - 12:48:10 CDT)
VMD 1.8.7beta1 doesn't close OpenGL window Olaf Lenz (Tue May 05 2009 - 07:53:57 CDT)
- Re: VMD 1.8.7beta1 doesn't close OpenGL window Axel Kohlmeyer (Tue May 05 2009 - 08:26:03 CDT)
  - Re: VMD 1.8.7beta1 doesn't close OpenGL window Olaf Lenz (Tue May 05 2009 - 09:07:35 CDT)
    - Re: VMD 1.8.7beta1 doesn't close OpenGL window John Stone (Tue May 05 2009 - 09:27:10 CDT)
Solvation energies using implicit ligand sampling Richard Daigle (Mon May 04 2009 - 12:21:41 CDT)
- Re: Solvation energies using implicit ligand sampling John Stone (Mon May 04 2009 - 13:49:44 CDT)
  - Re: Solvation energies using implicit ligand sampling Richard Daigle (Mon May 04 2009 - 14:06:22 CDT)
- Re: Solvation energies using implicit ligand sampling saam (Mon May 04 2009 - 14:31:31 CDT)
VMD on Cray/CNL Jim Pfaendtner (Fri May 01 2009 - 01:03:07 CDT)
- Re: VMD on Cray/CNL John Stone (Fri May 01 2009 - 01:20:53 CDT)
  - Re: VMD on Cray/CNL Jim Pfaendtner (Fri May 01 2009 - 07:56:02 CDT)
    - Re: VMD on Cray/CNL John Stone (Fri May 01 2009 - 10:36:23 CDT)
autopfs: unknown atom type error when processing ATP Sasha Buzko (Thu Apr 30 2009 - 16:13:41 CDT)
- Re: autopfs: unknown atom type error when processing ATP Peter Freddolino (Thu Apr 30 2009 - 16:30:30 CDT)
  - Re: autopfs: unknown atom type error when processing ATP Sasha Buzko (Thu Apr 30 2009 - 16:38:51 CDT)
Selection "@myselection" Olaf Lenz (Thu Apr 30 2009 - 04:25:05 CDT)
- Re: Selection "@myselection" John Stone (Tue May 05 2009 - 10:17:57 CDT)
Size of a protein Khaled Barakat (Wed Apr 29 2009 - 16:06:31 CDT)
- Re: Size of a protein John Stone (Wed Apr 29 2009 - 16:15:05 CDT)
- Re: Size of a protein Axel Kohlmeyer (Wed Apr 29 2009 - 16:50:25 CDT)
VMD 1.8.7 beta 1 posted for download... John Stone (Wed Apr 29 2009 - 15:06:27 CDT)
- Re: VMD 1.8.7 beta 1 posted for download... Low Soo Mei (Wed Apr 29 2009 - 22:35:05 CDT)
  - Re: VMD 1.8.7 beta 1 posted for download... John Stone (Wed Apr 29 2009 - 22:38:21 CDT)
- vdna 2.0 for VMD Thomas C. Bishop (Tue May 12 2009 - 15:08:26 CDT)
  - Re: vdna 2.0 for VMD John Stone (Tue May 12 2009 - 16:04:44 CDT)
hydrogen bonds tcl script politr_at_huji.ac.il (Tue Apr 28 2009 - 09:40:12 CDT)
- Re: hydrogen bonds tcl script Axel Kohlmeyer (Tue Apr 28 2009 - 10:17:26 CDT)
Installation issue Hugh Martin (Tue Apr 28 2009 - 08:09:04 CDT)
- Re: Installation issue John Stone (Tue Apr 28 2009 - 09:29:20 CDT)
  - Re: Installation issue Hugh Martin (Tue Apr 28 2009 - 09:39:29 CDT)
Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? wuxiao (Tue Apr 28 2009 - 02:52:44 CDT)
- Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? Axel Kohlmeyer (Tue Apr 28 2009 - 08:32:24 CDT)
  - Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? Anton Arkhipov (Tue Apr 28 2009 - 10:34:04 CDT)
Manipulating dcd using script in VMD DimitryASuplatov (Tue Apr 28 2009 - 01:26:05 CDT)
- Re: Manipulating dcd using script in VMD Eduardo Cruz-Chu (Tue Apr 28 2009 - 01:55:25 CDT)
  - Re: Manipulating dcd using script in VMD David Tanner (Tue Apr 28 2009 - 08:07:24 CDT)
  - Re: Manipulating dcd using script in VMD Axel Kohlmeyer (Tue Apr 28 2009 - 08:24:04 CDT)
Molefacture "namehead" error Sebastián Gutiérrez (Mon Apr 27 2009 - 16:43:10 CDT)
- Re: Molefacture "namehead" error Peter Freddolino (Mon Apr 27 2009 - 20:29:31 CDT)
Calculating system net charge with tcl in VMD DimitryASuplatov (Mon Apr 27 2009 - 04:43:34 CDT)
- Re: Calculating system net charge with tcl in VMD Athanassios Stavrakoudis (Mon Apr 27 2009 - 05:12:18 CDT)
- Re: Calculating system net charge with tcl in VMD Peter Freddolino (Mon Apr 27 2009 - 07:02:18 CDT)
- Re: Calculating system net charge with tcl in VMD Eduardo Cruz-Chu (Mon Apr 27 2009 - 10:50:01 CDT)
Using clustering tool Andres Morales N (Fri Apr 24 2009 - 22:56:48 CDT)
- Re: Using clustering tool John Stone (Sun Apr 26 2009 - 23:10:24 CDT)
iTrajComp plugin. Andres Morales N (Fri Apr 24 2009 - 22:23:45 CDT)
- Re: iTrajComp plugin. John Stone (Sun Apr 26 2009 - 23:09:29 CDT)
graphics for publication YangMingjun (Fri Apr 24 2009 - 10:14:23 CDT)
- Re: graphics for publication Peter Freddolino (Fri Apr 24 2009 - 11:06:57 CDT)
- Re: graphics for publication Axel Kohlmeyer (Fri Apr 24 2009 - 11:26:58 CDT)
Error processing bonds Gianluca Interlandi (Fri Apr 24 2009 - 01:41:07 CDT)
- Re: Error processing bonds John Stone (Fri Apr 24 2009 - 08:03:21 CDT)
- Re: Error processing bonds Axel Kohlmeyer (Fri Apr 24 2009 - 08:42:34 CDT)
  - Re: Error processing bonds Gianluca Interlandi (Fri Apr 24 2009 - 10:15:38 CDT)
  - Re: Error processing bonds Gianluca Interlandi (Fri Apr 24 2009 - 11:12:31 CDT)
    - Re: Error processing bonds Gianluca Interlandi (Fri Apr 24 2009 - 14:09:59 CDT)
local packing density around a chemical group (say, a methyl group or a side chain) Krishnan, Marimuthu (Thu Apr 23 2009 - 10:15:44 CDT)
- Re: local packing density around a chemical group (say, a methyl group or a side chain) Axel Kohlmeyer (Thu Apr 23 2009 - 11:27:20 CDT)
  - RE: local packing density around a chemical group (say, a methyl group or a side chain) Krishnan, Marimuthu (Thu Apr 23 2009 - 12:11:07 CDT)
- Re: local packing density around a chemical group (say, a methyl group or a side chain) Leandro Martínez (Thu Apr 23 2009 - 12:22:38 CDT)
installed plugin won't show up next time accomp lin (Thu Apr 23 2009 - 06:58:38 CDT)
- Re: installed plugin won't show up next time Axel Kohlmeyer (Thu Apr 23 2009 - 08:45:51 CDT)
  - Re: installed plugin won't show up next time accomp lin (Fri Apr 24 2009 - 04:59:22 CDT)
animate read and write A D (Wed Apr 22 2009 - 15:36:00 CDT)
- Re: animate read and write John Stone (Wed Apr 22 2009 - 15:42:24 CDT)
density profiles Raul Araya (Wed Apr 22 2009 - 11:24:31 CDT)
- Re: density profiles BIN ZHANG (Wed Apr 22 2009 - 12:25:59 CDT)
- Re: density profiles Eduardo (Wed Apr 22 2009 - 22:17:42 CDT)
Select atoms using coordinates Max (Wed Apr 22 2009 - 06:09:16 CDT)
- Re: Select atoms using coordinates Rogan Carr (Wed Apr 22 2009 - 11:30:49 CDT)
- Re: Select atoms using coordinates J. Rui Rodrigues (Wed Apr 22 2009 - 13:52:07 CDT)
  - Re: Select atoms using coordinates John Stone (Wed Apr 22 2009 - 14:03:32 CDT)
    - Re: Select atoms using coordinates Max (Thu Apr 23 2009 - 03:15:15 CDT)
    - Re: Select atoms using coordinates Axel Kohlmeyer (Thu Apr 23 2009 - 08:48:57 CDT)
sys.argv, python and VMD Michael Kreim (Wed Apr 22 2009 - 03:50:59 CDT)
- Re: sys.argv, python and VMD Axel Kohlmeyer (Wed Apr 22 2009 - 10:42:58 CDT)
  - Re: sys.argv, python and VMD Michael Kreim (Fri Apr 24 2009 - 08:43:13 CDT)
setbonds BIN ZHANG (Tue Apr 21 2009 - 23:01:35 CDT)
- Re: setbonds John Stone (Tue Apr 21 2009 - 23:44:35 CDT)
  - Re: Re: setbonds zhngbn_at_gmail.com (Tue Apr 21 2009 - 23:48:30 CDT)
    - Re: setbonds Rogan Carr (Wed Apr 22 2009 - 11:29:32 CDT)
    - Re: setbonds BIN ZHANG (Wed Apr 22 2009 - 14:53:11 CDT)
Spaceball and OSX JT (Tue Apr 21 2009 - 12:30:04 CDT)
- Re: Spaceball and OSX John Stone (Tue Apr 21 2009 - 12:34:34 CDT)
  - Re: Spaceball and OSX JT (Tue Apr 21 2009 - 12:53:31 CDT)
    - Re: Spaceball and OSX JT (Tue Apr 21 2009 - 13:15:22 CDT)
    - Re: Spaceball and OSX John Stone (Tue Apr 21 2009 - 13:49:36 CDT)
Secondary Structure Depiction Daniel Gaston (Tue Apr 21 2009 - 09:25:08 CDT)
- Re: Secondary Structure Depiction L. Michel Espinoza-Fonseca (Tue Apr 21 2009 - 10:33:50 CDT)
  - Re: Secondary Structure Depiction Daniel Gaston (Tue Apr 21 2009 - 10:29:03 CDT)
    - Re: Secondary Structure Depiction Axel Kohlmeyer (Tue Apr 21 2009 - 11:23:10 CDT)
    - Re: Secondary Structure Depiction Daniel Gaston (Tue Apr 21 2009 - 12:02:29 CDT)
  - Re: Secondary Structure Depiction George Madalin Giambasu (Tue Apr 21 2009 - 11:12:54 CDT)
    - Re: Secondary Structure Depiction Axel Kohlmeyer (Tue Apr 21 2009 - 14:07:41 CDT)
- Re: Secondary Structure Depiction John Stone (Tue Apr 21 2009 - 10:51:48 CDT)
  - Re: Secondary Structure Depiction Daniel Gaston (Tue Apr 21 2009 - 12:01:08 CDT)
Mol representation using coordinates Max (Tue Apr 21 2009 - 08:50:05 CDT)
- Re: Mol representation using coordinates Rogan Carr (Tue Apr 21 2009 - 09:03:35 CDT)
RMSD-gaps Karne, Sai Harish Babu (Mon Apr 20 2009 - 17:09:51 CDT)
- Re: RMSD-gaps Daniel Gaston (Mon Apr 20 2009 - 18:57:33 CDT)
  - Re: RMSD-gaps Karne, Sai Harish Babu (Mon Apr 20 2009 - 21:04:53 CDT)
Solvent Accessible Surface Area zizi moradi (Sun Apr 19 2009 - 09:01:49 CDT)
- Re: Solvent Accessible Surface Area John Stone (Wed Apr 22 2009 - 14:14:01 CDT)
(no subject) zizi moradi (Sun Apr 19 2009 - 08:55:44 CDT)
Possible bug in vmd 1.8.7 alpha? Cesar Millan (Sat Apr 18 2009 - 00:09:57 CDT)
- Re: Possible bug in vmd 1.8.7 alpha? Axel Kohlmeyer (Sat Apr 18 2009 - 10:15:24 CDT)
- Re: Possible bug in vmd 1.8.7 alpha? John Stone (Sat Apr 18 2009 - 17:02:20 CDT)
coloring by atom type Ryan Pavlovicz (Fri Apr 17 2009 - 15:53:29 CDT)
- Re: coloring by atom type Rogan Carr (Sat Apr 18 2009 - 16:53:39 CDT)
Re: namd-l: display all frames simultaneously Samuel Coulbourn Flores èŠ±å±± (Fri Apr 17 2009 - 11:35:11 CDT)
pbctools on alpha version Dan Lussier (Fri Apr 17 2009 - 09:05:06 CDT)
- Re: pbctools on alpha version Olaf Lenz (Sat Apr 18 2009 - 04:18:50 CDT)
  - Re: pbctools on alpha version Axel Kohlmeyer (Sat Apr 18 2009 - 10:11:47 CDT)
    - Re: pbctools on alpha version Dan Lussier (Wed Apr 22 2009 - 03:46:23 CDT)
    - Re: pbctools on alpha version Olaf Lenz (Wed Apr 22 2009 - 06:14:42 CDT)
psf file for Doxorubicin mishacat_at_udm.ru (Thu Apr 16 2009 - 08:32:14 CDT)
- display all frames simultaneously Samuel Coulbourn Flores èŠ±å±± (Thu Apr 16 2009 - 21:35:59 CDT)
  - Re: display all frames simultaneously Axel Kohlmeyer (Thu Apr 16 2009 - 22:11:12 CDT)
  - Re: display all frames simultaneously Peter Freddolino (Thu Apr 16 2009 - 22:32:26 CDT)
Multiseq error Karne, Sai Harish Babu (Wed Apr 15 2009 - 13:48:18 CDT)
- Re: Multiseq error John Stone (Wed Apr 15 2009 - 13:57:57 CDT)
VRPN & PHANToM Omni Mark Cunningham (Wed Apr 15 2009 - 13:40:03 CDT)
- Re: VRPN & PHANToM Omni John Stone (Wed Apr 15 2009 - 13:59:42 CDT)
Problem in finding the HBonds Manishi Pandey (Wed Apr 15 2009 - 02:50:29 CDT)
- RE: Problem in finding the HBonds Irene Newhouse (Wed Apr 15 2009 - 03:56:52 CDT)
- Re: Problem in finding the HBonds Axel Kohlmeyer (Wed Apr 15 2009 - 07:56:52 CDT)
(no subject) Narasimhan LOGANATHAN (Tue Apr 14 2009 - 04:33:39 CDT)
- Re: Axel Kohlmeyer (Tue Apr 14 2009 - 07:25:54 CDT)
RMSD of a protein shell, from the NAMD traj priyodorshi satpati (Sun Apr 12 2009 - 11:02:13 CDT)
- Re: RMSD of a protein shell, from the NAMD traj John Stone (Sun Apr 26 2009 - 23:59:51 CDT)
within, used with pbcwrap Neelanjana Sengupta (Fri Apr 10 2009 - 06:35:19 CDT)
- Re: within, used with pbcwrap Axel Kohlmeyer (Fri Apr 10 2009 - 09:03:36 CDT)
  - Re: within, used with pbcwrap John Stone (Fri Apr 10 2009 - 09:14:00 CDT)
    - Re: within, used with pbcwrap Neelanjana Sengupta (Sat Apr 11 2009 - 00:49:22 CDT)
    - Re: within, used with pbcwrap John Stone (Sat Apr 11 2009 - 09:36:08 CDT)
- Re: within, used with pbcwrap Olaf Lenz (Sat Apr 11 2009 - 07:15:51 CDT)
install plugin: problems with vmd_install_extension Steve Massard (Fri Apr 10 2009 - 04:35:45 CDT)
- Re: install plugin: problems with vmd_install_extension Axel Kohlmeyer (Fri Apr 10 2009 - 09:10:13 CDT)
  - Re: install plugin: problems with vmd_install_extension Axel Kohlmeyer (Fri Apr 10 2009 - 10:13:57 CDT)
Release of R.E.D. Server FyD (Thu Apr 09 2009 - 03:31:30 CDT)
isosurface saving question YI Zhang (Tue Apr 07 2009 - 20:41:17 CDT)
about TkConsole cong chen (Mon Apr 06 2009 - 23:16:19 CDT)
- Re: about TkConsole Axel Kohlmeyer (Tue Apr 07 2009 - 12:58:48 CDT)
  - Re: about TkConsole cong chen (Tue Apr 07 2009 - 20:04:45 CDT)
    - Re: about TkConsole Axel Kohlmeyer (Tue Apr 07 2009 - 21:32:40 CDT)
  - Re: about TkConsole cong chen (Wed Apr 08 2009 - 07:27:52 CDT)
Any Mac (Intel) users still running 10.4.x??? John Stone (Sun Apr 05 2009 - 10:13:08 CDT)
- Re: Any Mac (Intel) users still running 10.4.x??? John Stone (Mon Apr 06 2009 - 11:34:31 CDT)
OS X intel binary problem Dan Lussier (Sun Apr 05 2009 - 03:02:20 CDT)
- Re: OS X intel binary problem Axel Kohlmeyer (Sun Apr 05 2009 - 09:05:07 CDT)
  - Re: OS X intel binary problem Dan Lussier (Sun Apr 05 2009 - 09:40:26 CDT)
    - Re: OS X intel binary problem Axel Kohlmeyer (Sun Apr 05 2009 - 09:48:37 CDT)
    - Re: OS X intel binary problem John Stone (Sun Apr 05 2009 - 09:48:59 CDT)
(no subject) Crowley, Michael (Sun Apr 05 2009 - 00:48:58 CDT)
- too many bonds Crowley, Michael (Sun Apr 05 2009 - 01:27:03 CDT)
  - Re: too many bonds JT (Sun Apr 05 2009 - 03:06:17 CDT)
    - Re: too many bonds Axel Kohlmeyer (Sun Apr 05 2009 - 08:57:59 CDT)
ligand names Katherine Parra (Fri Apr 03 2009 - 10:35:54 CDT)
- Re: ligand names Peter Freddolino (Fri Apr 03 2009 - 15:54:42 CDT)
questions about the electron density map YI Zhang (Fri Apr 03 2009 - 05:38:54 CDT)
- Re: questions about the electron density map John Stone (Fri Apr 03 2009 - 08:00:39 CDT)
Problem with autoionize ? Kalavera_at_gmx.net (Thu Apr 02 2009 - 08:50:49 CDT)
- Re: Problem with autoionize ? Axel Kohlmeyer (Thu Apr 02 2009 - 09:25:33 CDT)
  - Re: Problem with autoionize ? Kalavera_at_gmx.net (Thu Apr 02 2009 - 09:58:53 CDT)
    - Re: Problem with autoionize ? Axel Kohlmeyer (Thu Apr 02 2009 - 11:46:33 CDT)
H-bonds Bernhard Knapp (Thu Apr 02 2009 - 06:27:25 CDT)
- Re: H-bonds Peter Freddolino (Thu Apr 02 2009 - 09:27:02 CDT)
VMD atomselect Steve Massard (Thu Apr 02 2009 - 05:57:37 CDT)
- Re: VMD atomselect J. Rui Rodrigues (Thu Apr 02 2009 - 07:19:40 CDT)
pairInteraction and NAMDEnergy Goutham (Wed Apr 01 2009 - 17:05:52 CDT)
- Re: pairInteraction and NAMDEnergy Peter Freddolino (Wed Apr 01 2009 - 20:12:19 CDT)
  - Re: pairInteraction and NAMDEnergy Goutham (Wed Apr 01 2009 - 22:43:23 CDT)
    - Re: pairInteraction and NAMDEnergy Peter Freddolino (Wed Apr 01 2009 - 22:49:26 CDT)
    - Re: pairInteraction and NAMDEnergy Goutham (Thu Apr 02 2009 - 11:21:27 CDT)
paratool questions Lisa Brown (Tue Mar 31 2009 - 15:25:00 CDT)
pKa and Temperature in MD Caterina Bernini (Tue Mar 31 2009 - 14:47:39 CDT)
Re: vmd cvs compilation with CUDA fails John Stone (Tue Mar 31 2009 - 14:26:31 CDT)
Re: cvs plugins do not compile because of errors in the sgsmooth.C John Stone (Tue Mar 31 2009 - 13:34:05 CDT)
- RE: cvs plugins do not compile because of errors in the sgsmooth.C Cojocaru,Vlad (Tue Mar 31 2009 - 13:40:47 CDT)
helix axes Alison Grinthal (Tue Mar 31 2009 - 07:34:56 CDT)
- Re: helix axes Thomas C. Bishop (Tue Mar 31 2009 - 09:44:21 CDT)
  - Re: helix axes Peter Freddolino (Tue Mar 31 2009 - 09:51:11 CDT)
  - Re: helix axes Goutham (Tue Mar 31 2009 - 10:30:30 CDT)
- RE: helix axes Wei Huang (Tue Mar 31 2009 - 10:06:20 CDT)
How to add heme to dowser plugin? Irene Newhouse (Mon Mar 30 2009 - 19:27:01 CDT)
- Re: How to add heme to dowser plugin? Axel Kohlmeyer (Mon Mar 30 2009 - 20:24:24 CDT)
  - RE: How to add heme to dowser plugin? Irene Newhouse (Mon Mar 30 2009 - 20:39:59 CDT)
  - RE: How to add heme to dowser plugin? Irene Newhouse (Tue Mar 31 2009 - 16:48:34 CDT)
selection syntax Peter Jones (Mon Mar 30 2009 - 01:54:32 CDT)
- Re: selection syntax Leonardo Trabuco (Mon Mar 30 2009 - 09:10:29 CDT)
- Re: selection syntax Anton Arkhipov (Mon Mar 30 2009 - 09:03:47 CDT)
Graphical representation Francesco Pietra (Sun Mar 29 2009 - 13:59:15 CDT)
- Re: Graphical representation Eric H. Lee (Sun Mar 29 2009 - 14:22:18 CDT)
- Re: Graphical representation Goutham (Sun Mar 29 2009 - 15:01:50 CDT)
Synchronization of statements in tcl script Raluca Mihaela ANDREI (Fri Mar 27 2009 - 12:44:32 CDT)
- Re: Synchronization of statements in tcl script John Stone (Sat Mar 28 2009 - 14:41:52 CDT)
  - Re: Synchronization of statements in tcl script Raluca Mihaela ANDREI (Tue Mar 31 2009 - 02:57:56 CDT)
    - Re: Synchronization of statements in tcl script John Stone (Wed Apr 01 2009 - 00:31:01 CDT)
openGL library Goutham (Thu Mar 26 2009 - 19:48:52 CDT)
- Re: openGL library Axel Kohlmeyer (Thu Mar 26 2009 - 20:20:31 CDT)
  - Re: openGL library Goutham (Fri Mar 27 2009 - 00:32:34 CDT)
  - Re: openGL library John Stone (Tue Mar 31 2009 - 11:38:28 CDT)
- Re: openGL library John Stone (Thu Mar 26 2009 - 21:38:22 CDT)
  - Re: openGL library Goutham (Fri Mar 27 2009 - 01:34:00 CDT)
    - Re: openGL library John Stone (Fri Mar 27 2009 - 07:53:34 CDT)
Searching for Number of Resname Ocar Campos (Thu Mar 26 2009 - 14:51:44 CDT)
- Re: Searching for Number of Resname Giovanni Bellesia (Thu Mar 26 2009 - 15:16:25 CDT)
  - Re: Searching for Number of Resname Ocar Campos (Thu Mar 26 2009 - 15:21:28 CDT)
- Re: Searching for Number of Resname Roman Petrenko (Thu Mar 26 2009 - 15:28:00 CDT)
howto select stain reveal map Francesco Pietra (Thu Mar 26 2009 - 02:30:29 CDT)
- Re: howto select stain reveal map Axel Kohlmeyer (Thu Mar 26 2009 - 06:41:07 CDT)
  - namdenergy: how set "runextcommand"? Sebastian Stolzenberg (Sat Mar 28 2009 - 18:59:33 CDT)
    - Re: namdenergy: how set "runextcommand"? Peter Freddolino (Sat Mar 28 2009 - 19:36:45 CDT)
    - building psf with CMAP, old topology remark entries still in psf Sebastian Stolzenberg (Fri Apr 10 2009 - 18:22:15 CDT)
how to make a mivie by VMD Lan He (Wed Mar 25 2009 - 17:33:41 CDT)
- Re: how to make a mivie by VMD Eric H. Lee (Wed Mar 25 2009 - 17:44:43 CDT)
  - Re: how to make a mivie by VMD Anton Arkhipov (Wed Mar 25 2009 - 18:00:10 CDT)
  - Re: how to make a mivie by VMD Eric H. Lee (Wed Mar 25 2009 - 20:37:16 CDT)
merging atomselection Goutham (Wed Mar 25 2009 - 16:54:33 CDT)
- Re: merging atomselection Axel Kohlmeyer (Wed Mar 25 2009 - 17:20:45 CDT)
- Re: merging atomselection Tomek Wlodarski (Wed Mar 25 2009 - 17:56:49 CDT)
how to block psfgen warning messages Thomas Evangelidis (Wed Mar 25 2009 - 16:11:12 CDT)
- Re: how to block psfgen warning messages Axel Kohlmeyer (Wed Mar 25 2009 - 17:17:19 CDT)
  - Re: how to block psfgen warning messages John Stone (Wed Mar 25 2009 - 23:34:08 CDT)
Rosetta Academic Training Webinar Nir London (Wed Mar 25 2009 - 11:10:34 CDT)
Command line argument Goutham (Wed Mar 25 2009 - 10:12:19 CDT)
- Re: Command line argument Axel Kohlmeyer (Wed Mar 25 2009 - 10:57:22 CDT)
External renderer not rendering colors from volumetric data Höfling Martin (Wed Mar 25 2009 - 08:34:24 CDT)
- Re: External renderer not rendering colors from volumetric data John Stone (Wed Mar 25 2009 - 09:38:18 CDT)
- Re: External renderer not rendering colors from volumetric data Michael Geoffrey Klein (Wed Mar 25 2009 - 09:35:25 CDT)
vmd_plot Francesco Pietra (Wed Mar 25 2009 - 06:16:36 CDT)
- Re: vmd_plot Axel Kohlmeyer (Wed Mar 25 2009 - 07:47:14 CDT)
GTP topology file tiziano gallo cassarino (Fri Mar 20 2009 - 08:54:12 CDT)
- Re: GTP topology file Peter Freddolino (Fri Mar 20 2009 - 12:03:01 CDT)
near clip Leandro Martínez (Fri Mar 20 2009 - 07:48:51 CDT)
- Re: near clip John Stone (Fri Mar 20 2009 - 11:52:39 CDT)
  - Re: near clip Leandro Martínez (Fri Mar 20 2009 - 14:28:53 CDT)
    - Re: near clip John Stone (Fri Mar 20 2009 - 14:53:20 CDT)
    - Re: near clip Schreiner Eduard (Wed Mar 25 2009 - 23:53:49 CDT)
VMD 1.8.7 alpha 62 posted for all mainstream platforms... John Stone (Fri Mar 20 2009 - 03:30:48 CDT)
accessing values for selection keywords Nadja Lederer (Wed Mar 18 2009 - 05:48:43 CDT)
accessing values for selection keywords Nadja Lederer (Wed Mar 18 2009 - 05:25:54 CDT)
building VMD on LINUX Raluca Mihaela ANDREI (Tue Mar 17 2009 - 06:51:51 CDT)
- Re: building VMD on LINUX Axel Kohlmeyer (Tue Mar 17 2009 - 08:58:38 CDT)
- Re: building VMD on LINUX John Stone (Tue Mar 17 2009 - 10:03:16 CDT)
paratool tutorial/ complete user guide Lisa Brown (Mon Mar 16 2009 - 14:43:49 CDT)
VMD needs your vote. Nir London (Mon Mar 16 2009 - 12:21:07 CDT)
Posting messages to VMD-L truncates the empty spaces in lines JT (Sun Mar 15 2009 - 18:58:01 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines John Stone (Mon Mar 16 2009 - 17:49:34 CDT)
  - Re: Posting messages to VMD-L truncates the empty spaces in lines JT (Mon Mar 16 2009 - 20:31:09 CDT)
rlwrap bug in Ubuntu Thomas Evangelidis (Sun Mar 15 2009 - 01:11:30 CDT)
- Re: rlwrap bug in Ubuntu John Stone (Sun Mar 15 2009 - 09:32:06 CDT)
- Re: rlwrap bug in Ubuntu Axel Kohlmeyer (Sun Mar 15 2009 - 09:32:49 CDT)
  - Re: rlwrap bug in Ubuntu John Stone (Sun Mar 15 2009 - 14:20:26 CDT)
    - Re: rlwrap bug in Ubuntu Axel Kohlmeyer (Sun Mar 15 2009 - 15:14:45 CDT)
how to find the sign of the dihedral angle (full message). karthigeyan karthigeyantp (Sat Mar 14 2009 - 00:23:47 CDT)
- Re: how to find the sign of the dihedral angle (full message). JT (Sat Mar 14 2009 - 03:21:33 CDT)
  - Re: Taufik Al-Sarraj (Mon Mar 16 2009 - 17:01:26 CDT)
isosurface from pdb with beta field Peter Varnai (Fri Mar 13 2009 - 16:09:33 CDT)
- Re: isosurface from pdb with beta field Peter Freddolino (Fri Mar 13 2009 - 20:26:06 CDT)
Problem with the script mono2poly.tcl Fabio Trovato (Fri Mar 13 2009 - 11:46:44 CDT)
- Re: Problem with the script mono2poly.tcl John Stone (Fri Mar 13 2009 - 12:36:37 CDT)
  - Re: Problem with the script mono2poly.tcl Fabio Trovato (Sat Mar 14 2009 - 04:56:17 CDT)
    - Re: Problem with the script mono2poly.tcl John Stone (Sun Mar 15 2009 - 14:22:19 CDT)
color update for xyz trajectory Tawhid Ezaz (Thu Mar 12 2009 - 14:52:14 CDT)
- Re: color update for xyz trajectory John Stone (Thu Mar 12 2009 - 14:57:03 CDT)
question of iso-surface in VMD graphical representations HeeSung Choi (Thu Mar 12 2009 - 13:04:01 CDT)
- Re: question of iso-surface in VMD graphical representations John Stone (Thu Mar 12 2009 - 13:17:23 CDT)
  - Re: question of iso-surface in VMD graphical representations HeeSung Choi (Thu Mar 12 2009 - 14:13:42 CDT)
Script problem Christopher Hartshorn (Thu Mar 12 2009 - 03:40:50 CDT)
- Re: Script problem J. Rui Rodrigues (Thu Mar 12 2009 - 06:16:17 CDT)
  - Re: Script problem J. Rui Rodrigues (Thu Mar 12 2009 - 07:01:30 CDT)
- Re: Script problem Peter Freddolino (Thu Mar 12 2009 - 07:07:14 CDT)
pops/popc lipid bilayer Jianping Lin (Wed Mar 11 2009 - 19:32:42 CDT)
How to use " segment " in tcl script. accomp lin (Wed Mar 11 2009 - 01:31:13 CDT)
- Re: How to use " segment " in tcl script. Axel Kohlmeyer (Wed Mar 11 2009 - 10:15:05 CDT)
obj export Raluca Mihaela ANDREI (Tue Mar 10 2009 - 03:27:40 CDT)
- Re: obj export Axel Kohlmeyer (Tue Mar 10 2009 - 09:24:01 CDT)
  - Re: obj export Raluca Mihaela ANDREI (Tue Mar 10 2009 - 10:02:01 CDT)
    - Re: obj export Axel Kohlmeyer (Tue Mar 10 2009 - 10:25:07 CDT)
    - Re: obj export John Stone (Tue Mar 10 2009 - 12:01:10 CDT)
- Re: obj export John Stone (Tue Mar 10 2009 - 21:56:21 CDT)
  - Re: obj export Raluca Mihaela ANDREI (Wed Mar 11 2009 - 10:04:07 CDT)
regarding draw_arrow.tcl Falgun Shah (Mon Mar 09 2009 - 17:55:58 CDT)
- Re: regarding draw_arrow.tcl John Stone (Wed Mar 11 2009 - 10:36:05 CDT)
  - Re: regarding draw_arrow.tcl Axel Kohlmeyer (Wed Mar 11 2009 - 11:30:30 CDT)
  - Re: regarding draw_arrow.tcl Falgun Shah (Fri Mar 13 2009 - 08:56:31 CDT)
(no subject) Leonhard Henkes (Mon Mar 09 2009 - 07:08:32 CDT)
- <please insert a decent subject here next time, thanks> Axel Kohlmeyer (Mon Mar 09 2009 - 12:08:49 CDT)
- selecting ribose atoms? Samuel Coulbourn Flores (Fri May 01 2009 - 18:47:46 CDT)
  - Re: selecting ribose atoms? Axel Kohlmeyer (Fri May 01 2009 - 19:48:34 CDT)
    - Re: selecting ribose atoms? Samuel Coulbourn Flores (Fri May 01 2009 - 19:59:48 CDT)
vmd crashes bo baker (Mon Mar 09 2009 - 04:49:42 CDT)
- Re: vmd crashes John Stone (Mon Mar 09 2009 - 09:36:56 CDT)
  - Re: vmd crashes bo baker (Mon Mar 09 2009 - 19:09:59 CDT)
    - Re: vmd crashes John Stone (Tue Mar 10 2009 - 21:58:40 CDT)
motion correlation map Falgun Shah (Sun Mar 08 2009 - 12:41:18 CDT)
charmm binary ele. pot. Jure Praznikar (Sun Mar 08 2009 - 11:36:47 CDT)
- Re: charmm binary ele. pot. John Stone (Mon Mar 09 2009 - 09:45:56 CDT)
  - Re: charmm binary ele. pot. Axel Kohlmeyer (Mon Mar 09 2009 - 11:57:21 CDT)
  - Re: charmm binary ele. pot. John Stone (Wed Mar 11 2009 - 14:45:06 CDT)
the scripting interface Dawn (Sun Mar 08 2009 - 10:00:19 CDT)
- Re: the scripting interface John Stone (Mon Mar 09 2009 - 09:43:16 CDT)
correlation Dawn (Sun Mar 08 2009 - 03:05:49 CDT)
- Re: correlation Axel Kohlmeyer (Sun Mar 08 2009 - 10:33:03 CDT)
problem with Dowser Irene Newhouse (Sat Mar 07 2009 - 19:50:35 CST)
- Re: problem with Dowser Leonardo Trabuco (Sat Mar 07 2009 - 20:07:47 CST)
- Re: problem with Dowser Axel Kohlmeyer (Sat Mar 07 2009 - 20:18:42 CST)
  - RE: problem with Dowser Irene Newhouse (Sun Mar 08 2009 - 00:55:03 CST)
    - Re: problem with Dowser Leonardo Trabuco (Tue Mar 10 2009 - 22:41:52 CDT)
    - RE: problem with Dowser Irene Newhouse (Wed Mar 11 2009 - 00:59:08 CDT)
Save thousands... no one will know Olivia Reilly (Sat Mar 07 2009 - 11:23:52 CST)
Your C0deine 0rder #247424 Fran Villa (Fri Mar 06 2009 - 19:51:11 CST)
Charm force field for POPS lipid Jianping Lin (Fri Mar 06 2009 - 15:56:34 CST)
Re: adding lipid bilayers Ramya Gamini (Fri Mar 06 2009 - 02:06:17 CST)
- Re: adding lipid bilayers Goutham (Fri Mar 06 2009 - 08:38:25 CST)
adding lipid bilayers Goutham (Fri Mar 06 2009 - 00:46:47 CST)
use of spring tcl script Falgun Shah (Thu Mar 05 2009 - 20:49:30 CST)
Script for calculating hydrogen-bonding energy Jianping Lin (Thu Mar 05 2009 - 19:19:28 CST)
Hydrophobicity Scale Goutham (Thu Mar 05 2009 - 18:58:41 CST)
- Re: Hydrophobicity Scale John Stone (Thu Mar 05 2009 - 19:17:49 CST)
  - Re: Hydrophobicity Scale Goutham (Thu Mar 05 2009 - 19:36:46 CST)
  - Re: Hydrophobicity Scale Ramya Gamini (Thu Mar 05 2009 - 20:20:42 CST)
    - Re: Hydrophobicity Scale Ramya Gamini (Thu Mar 05 2009 - 20:36:34 CST)
Re: selection by residue Marius Retegan (Thu Mar 05 2009 - 08:29:28 CST)
selection by residue Marius Retegan (Thu Mar 05 2009 - 06:47:53 CST)
- Re: selection by residue Nicolas (Thu Mar 05 2009 - 10:34:05 CST)
Seventh European Workshop in Drug Design - Siena Lucilla Angeli (Thu Mar 05 2009 - 06:42:36 CST)
script to resolve trajectory "jumps" on Desmond dynamic Nicola Giacche' (Wed Mar 04 2009 - 10:15:03 CST)
- RE: script to resolve trajectory "jumps" on Desmond dynamic Brittany Morgan (Wed Mar 04 2009 - 11:21:13 CST)
  - RE: script to resolve trajectory "jumps" on Desmond dynamic Nicola Giacche' (Thu Mar 05 2009 - 09:01:08 CST)
    - Re: script to resolve trajectory "jumps" on Desmond dynamic Peter Freddolino (Thu Mar 05 2009 - 10:43:18 CST)
Problem in IMD with Compiled VMD Amr Rizq (Wed Mar 04 2009 - 06:00:58 CST)
- Re: Problem in IMD with Compiled VMD John Stone (Wed Mar 04 2009 - 08:34:37 CST)
  - RE: Problem in IMD with Compiled VMD Amr Rizq (Wed Mar 04 2009 - 08:55:33 CST)
- Re: Problem in IMD with Compiled VMD Axel Kohlmeyer (Wed Mar 04 2009 - 08:55:24 CST)
  - RE: Problem in IMD with Compiled VMD Amr Rizq (Wed Mar 04 2009 - 09:20:20 CST)
OpenGL Window Max (Wed Mar 04 2009 - 05:16:54 CST)
- Re: OpenGL Window Axel Kohlmeyer (Wed Mar 04 2009 - 07:55:24 CST)
How to convert DCD file into Amber trajectory file in vmd Jianping Lin (Tue Mar 03 2009 - 17:30:33 CST)
- Re: How to convert DCD file into Amber trajectory file in vmd John Stone (Tue Mar 03 2009 - 18:35:31 CST)
  - Re: How to convert DCD file into Amber trajectory file in vmd Jianping Lin (Wed Mar 04 2009 - 11:41:14 CST)
displaying residues within 5 A of ligand in vmd Falgun Shah (Tue Mar 03 2009 - 09:53:29 CST)
- Re: displaying residues within 5 A of ligand in vmd John Stone (Tue Mar 03 2009 - 10:25:12 CST)
Outline rendering style with Tachyon Heikki Kasnanen (Tue Mar 03 2009 - 02:20:08 CST)
- Re: Outline rendering style with Tachyon John Stone (Tue Mar 03 2009 - 14:48:32 CST)
- Re: Outline rendering style with Tachyon Nicolas (Tue Mar 03 2009 - 16:04:17 CST)
- Re: Outline rendering style with Tachyon John Stone (Mon May 18 2009 - 14:47:33 CDT)
  - VS: Outline rendering style with Tachyon Heikki Kasnanen (Mon May 18 2009 - 14:50:52 CDT)
rmsd computation in text mode with a reference pdb Monika Sharma (Mon Mar 02 2009 - 01:18:30 CST)
- Re: rmsd computation in text mode with a reference pdb Leonardo Trabuco (Mon Mar 02 2009 - 01:42:38 CST)
select atoms bo baker (Sun Mar 01 2009 - 22:18:42 CST)
- Re: select atoms Joaquim Rui Rodrigues (Mon Mar 02 2009 - 04:57:41 CST)
  - Re: select atoms bo baker (Mon Mar 02 2009 - 18:30:29 CST)
    - Re: select atoms Axel Kohlmeyer (Mon Mar 02 2009 - 20:24:55 CST)
images for publication Falgun Shah (Sun Mar 01 2009 - 15:23:12 CST)
- Re: images for publication John Stone (Tue Mar 03 2009 - 14:51:18 CST)
  - Re: images for publication John Stone (Tue Mar 03 2009 - 23:49:42 CST)
Re: delete residues from trajectory bo baker (Sat Feb 28 2009 - 23:06:17 CST)
paratool: gaussian output error Falgun Shah (Sat Feb 28 2009 - 17:15:25 CST)
delete residues from trajectory bo baker (Sat Feb 28 2009 - 03:46:20 CST)
delete residues from trajectory bo baker (Sat Feb 28 2009 - 03:44:06 CST)
- Re: delete residues from trajectory Schreiner Eduard (Sun Mar 01 2009 - 01:14:53 CST)
vmd error related to opengl FyD (Fri Feb 27 2009 - 18:12:02 CST)
- Re: vmd error related to opengl John Stone (Fri Feb 27 2009 - 18:15:37 CST)
problem while integrating bigdcd into a namespace Thomas Evangelidis (Fri Feb 27 2009 - 16:19:03 CST)
- Re: problem while integrating bigdcd into a namespace John Stone (Thu Mar 05 2009 - 22:36:23 CST)
wrong bonds during loading pdb file(protein plus lipids) Nikolay Simakov (Fri Feb 27 2009 - 16:01:30 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) John Stone (Fri Feb 27 2009 - 16:23:19 CST)
  - Re: wrong bonds during loading pdb file(protein plus lipids) Nikolay Simakov (Fri Feb 27 2009 - 20:07:52 CST)
(no subject) Irene Newhouse (Fri Feb 27 2009 - 14:08:30 CST)
- Re: Axel Kohlmeyer (Fri Feb 27 2009 - 14:48:42 CST)
  - RE: Irene Newhouse (Tue Mar 03 2009 - 14:55:11 CST)
- Re: John Stone (Fri Feb 27 2009 - 18:03:40 CST)
draw command with different material BIN ZHANG (Thu Feb 26 2009 - 23:31:08 CST)
- Re: draw command with different material John Stone (Thu Feb 26 2009 - 23:46:09 CST)
proline trans to cis Roman Petrenko (Thu Feb 26 2009 - 19:20:07 CST)
Does command "animate delete all" free memory? Fred (Rui FENG) (Thu Feb 26 2009 - 15:00:53 CST)
- Re: Does command "animate delete all" free memory? John Stone (Thu Feb 26 2009 - 15:16:44 CST)
  - Re: Does command "animate delete all" free memory? Fred (Rui FENG) (Thu Feb 26 2009 - 15:57:56 CST)
    - Re: Does command "animate delete all" free memory? John Stone (Thu Feb 26 2009 - 16:48:58 CST)
    - Re: Does command "animate delete all" free memory? Fred (Rui FENG) (Thu Feb 26 2009 - 17:00:49 CST)
Displaying local water molecules throughout trajectory ben rodriguez (Thu Feb 26 2009 - 14:47:26 CST)
- Re: Displaying local water molecules throughout trajectory Axel Kohlmeyer (Thu Feb 26 2009 - 15:20:50 CST)
- Re: Displaying local water molecules throughout trajectory John Stone (Thu Feb 26 2009 - 14:53:56 CST)
Weighted RMS fit bug Jumper, John (Thu Feb 26 2009 - 12:21:15 CST)
- Re: Weighted RMS fit bug John Stone (Thu Feb 26 2009 - 14:25:06 CST)
MM/PBSA in VMD Jianping Lin (Thu Feb 26 2009 - 12:12:46 CST)
- Re: MM/PBSA in VMD L. Michel Espinoza-Fonseca (Fri Feb 27 2009 - 06:49:43 CST)
Help: Installation Problem Lee Amy (Wed Feb 25 2009 - 09:45:12 CST)
- Re: Help: Installation Problem Axel Kohlmeyer (Thu Feb 26 2009 - 10:57:30 CST)
  - Re: Help: Installation Problem Lee Amy (Sat Feb 28 2009 - 05:19:46 CST)
    - Re: Help: Installation Problem Axel Kohlmeyer (Sat Feb 28 2009 - 07:45:27 CST)
    - Re: Help: Installation Problem Lee Amy (Sun Mar 01 2009 - 05:41:39 CST)
to get angle from matrix of rotation around an axis Yinglong Miao (Wed Feb 25 2009 - 14:55:27 CST)
- Re: to get angle from matrix of rotation around an axis John Stone (Wed Feb 25 2009 - 15:37:47 CST)
  - Re: to get angle from matrix of rotation around an axis Yinglong Miao (Wed Feb 25 2009 - 15:45:53 CST)
volmap masks Dan Willenbring (Wed Feb 25 2009 - 14:17:32 CST)
- Re: volmap masks John Stone (Tue Mar 03 2009 - 22:19:47 CST)
embed VMD in web page Xunlei Wu (Wed Feb 25 2009 - 11:21:39 CST)
- Re: embed VMD in web page Axel Kohlmeyer (Wed Feb 25 2009 - 12:03:34 CST)
charm27 forcefield_topology Falgun Shah (Wed Feb 25 2009 - 11:02:02 CST)
- Re: namd-l: charm27 forcefield_topology Peter Freddolino (Wed Feb 25 2009 - 15:09:23 CST)
question about "measure dihed" with COM points Lee, Hwan Kyu (NIH/NHLBI) [E] (Tue Feb 24 2009 - 19:09:27 CST)
- Re: question about "measure dihed" with COM points Axel Kohlmeyer (Tue Feb 24 2009 - 19:51:15 CST)
- Re: question about "measure dihed" with COM points J T (Tue Feb 24 2009 - 21:37:21 CST)
  - RE: question about "measure dihed" with COM points Lee, Hwan Kyu (NIH/NHLBI) [E] (Wed Feb 25 2009 - 12:55:38 CST)
  - RE: question about "measure dihed" with COM points Lee, Hwan Kyu (NIH/NHLBI) [E] (Wed Feb 25 2009 - 13:35:07 CST)
    - Re: question about "measure dihed" with COM points J T (Wed Feb 25 2009 - 14:43:01 CST)
    - Re: question about "measure dihed" with COM points Hwankyu Lee (Wed Feb 25 2009 - 14:55:39 CST)
Test Lee Amy (Tue Feb 24 2009 - 07:48:25 CST)
- Re: Test John Stone (Tue Feb 24 2009 - 08:59:26 CST)
  - Re: Test Katherine Parra (Tue Feb 24 2009 - 10:01:41 CST)
info for computational chemistry awards, please forward Carlos Simmerling (Fri Feb 20 2009 - 10:22:27 CST)
Adding a Water Box Mohamed Seyam (Mon Feb 23 2009 - 17:36:14 CST)
- Re: Adding a Water Box Axel Kohlmeyer (Mon Feb 23 2009 - 19:00:55 CST)
FATAL ERROR: ABNORMAL EOF FOUND - buffer=*0 0* Chuck (Mon Feb 23 2009 - 15:52:05 CST)
Can you show me an example of the .xyz file that is used to calculate the IR spectrum Shuo Li (Mon Feb 23 2009 - 14:05:15 CST)
- Re: Can you show me an example of the .xyz file that is used to calculate the IR spectrum Axel Kohlmeyer (Mon Feb 23 2009 - 14:46:18 CST)
Membrane builder ?'s Christopher Hartshorn (Mon Feb 23 2009 - 13:09:16 CST)
- Re: Membrane builder ?'s John Stone (Tue Feb 24 2009 - 00:06:40 CST)
passing arguments to a vmd script which is executed using play or source mariagoranovic_at_gmail.com (Mon Feb 23 2009 - 04:24:14 CST)
- Re: passing arguments to a vmd script which is executed using play or source Axel Kohlmeyer (Mon Feb 23 2009 - 09:08:58 CST)
  - Re: passing arguments to a vmd script which is executed using play or source maria goranovic (Mon Feb 23 2009 - 09:19:24 CST)
    - Re: passing arguments to a vmd script which is executed using play or source Axel Kohlmeyer (Mon Feb 23 2009 - 10:20:55 CST)
- Re: passing arguments to a vmd script which is executed using play or source Axel Kohlmeyer (Mon Feb 23 2009 - 09:15:44 CST)
multiple colors for a single atom BIN ZHANG (Mon Feb 23 2009 - 00:05:50 CST)
- Re: multiple colors for a single atom John Stone (Mon Feb 23 2009 - 09:06:43 CST)
  - Re: multiple colors for a single atom BIN ZHANG (Mon Feb 23 2009 - 11:55:48 CST)
Is there a way to add custormized representation method to VMD Yang, Shaorui (Sun Feb 22 2009 - 22:42:19 CST)
- Re: Is there a way to add custormized representation method to VMD John Stone (Mon Feb 23 2009 - 15:04:06 CST)
VMD exits immediately after starting on Windows xp Robert Mullen (Sun Feb 22 2009 - 17:35:46 CST)
- Re: VMD exits immediately after starting on Windows xp John Stone (Sun Feb 22 2009 - 17:44:19 CST)
a way to create a nice image politr_at_huji.ac.il (Sat Feb 21 2009 - 08:36:44 CST)
- Re: a way to create a nice image Axel Kohlmeyer (Sat Feb 21 2009 - 11:03:44 CST)
  - Re: a way to create a nice image politr_at_huji.ac.il (Sun Feb 22 2009 - 10:51:35 CST)
  - Re: a way to create a nice image politr_at_huji.ac.il (Sun Feb 22 2009 - 10:52:01 CST)
    - Re: a way to create a nice image Axel Kohlmeyer (Sun Feb 22 2009 - 11:16:17 CST)
transparent background James Rustad (Fri Feb 20 2009 - 13:55:55 CST)
- Re: transparent background Axel Kohlmeyer (Fri Feb 20 2009 - 14:39:17 CST)
  - Re: transparent background John Stone (Fri Feb 20 2009 - 18:14:32 CST)
    - Re: transparent background FX (Fri Feb 20 2009 - 18:52:47 CST)
    - Re: transparent background John Stone (Mon Feb 23 2009 - 15:01:32 CST)
converting trajectory files with catdcd in command line Luciano Costa (Fri Feb 20 2009 - 06:31:00 CST)
- Re: converting trajectory files with catdcd in command line Axel Kohlmeyer (Fri Feb 20 2009 - 08:02:38 CST)
vmd intel compiler prebuild for 64 bit Roman Petrenko (Thu Feb 19 2009 - 19:29:09 CST)
- Re: vmd intel compiler prebuild for 64 bit John Stone (Tue Feb 24 2009 - 00:54:55 CST)
Unrecognized Chains in VMD for tetrameric protein ben rodriguez (Thu Feb 19 2009 - 18:14:55 CST)
- Re: Unrecognized Chains in VMD for tetrameric protein John Stone (Thu Feb 19 2009 - 18:57:54 CST)
SMD question Edward Lyman (Thu Feb 19 2009 - 14:00:32 CST)
"pbcwithin" keyword Thomas Evangelidis (Thu Feb 19 2009 - 09:29:37 CST)
- Re: "pbcwithin" keyword Axel Kohlmeyer (Thu Feb 19 2009 - 11:00:48 CST)
making .psf file based on .gro or .pdb Hideya Nakamura (Tue Feb 17 2009 - 18:19:18 CST)
- Re: making .psf file based on .gro or .pdb John Stone (Tue Feb 17 2009 - 19:04:22 CST)
vmd with cuda1.0 Roman Petrenko (Mon Feb 16 2009 - 21:47:16 CST)
- Re: vmd with cuda1.0 John Stone (Mon Feb 16 2009 - 21:56:04 CST)
  - Re: vmd with cuda1.0 Roman Petrenko (Mon Feb 16 2009 - 22:07:30 CST)
    - Re: vmd with cuda1.0 John Stone (Mon Feb 16 2009 - 22:23:18 CST)
    - Re: vmd with cuda1.0 Roman Petrenko (Mon Feb 16 2009 - 22:25:44 CST)
change cylinder surface properties Peter Varnai (Mon Feb 16 2009 - 11:42:13 CST)
- Re: change cylinder surface properties Axel Kohlmeyer (Mon Feb 16 2009 - 18:29:11 CST)
error messages "*** glibc detected *** free(): invalid pointer" Yinglong Miao (Mon Feb 16 2009 - 11:23:32 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" John Stone (Mon Feb 16 2009 - 11:43:44 CST)
  - Re: error messages "*** glibc detected *** free(): invalid pointer" Yinglong Miao (Mon Feb 16 2009 - 11:51:38 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" Axel Kohlmeyer (Mon Feb 16 2009 - 12:26:19 CST)
  - Re: error messages "*** glibc detected *** free(): invalid pointer" Yinglong Miao (Mon Feb 16 2009 - 12:44:16 CST)
Cannot read MSMS facet file BIN ZHANG (Sun Feb 15 2009 - 23:54:52 CST)
- Re: Cannot read MSMS facet file John Stone (Mon Feb 16 2009 - 00:27:26 CST)
  - Re: Cannot read MSMS facet file BIN ZHANG (Mon Feb 16 2009 - 17:05:31 CST)
The display windows is out of my screen G.H. Zuo (Sun Feb 15 2009 - 00:21:05 CST)
- Re: The display windows is out of my screen John Stone (Sun Feb 15 2009 - 12:57:36 CST)
  - Re: The display windows is out of my screen G.H. Zuo (Mon Feb 16 2009 - 00:23:10 CST)
about measuring volume of the binding site Falgun Shah (Sat Feb 14 2009 - 15:58:14 CST)
- Re: about measuring volume of the binding site John Stone (Sun Feb 15 2009 - 12:59:15 CST)
- creating videos where the representation changes throughout Brian Kidd (Thu Feb 19 2009 - 23:30:20 CST)
  - Re: creating videos where the representation changes throughout John Stone (Thu Feb 19 2009 - 23:45:17 CST)
Membrane Proteins Tutorial Marcos Sotomayor (Fri Feb 13 2009 - 16:25:15 CST)
Atom distances from trajotory bo baker (Thu Feb 12 2009 - 23:50:21 CST)
- Re: Atom distances from trajotory Peter Freddolino (Fri Feb 13 2009 - 09:33:01 CST)
Problem when labeling atoms on machine with intel X4500HD integreted graphic card Shi, Chuanyin (Thu Feb 12 2009 - 15:25:45 CST)
- Re: Problem when labeling atoms on machine with intel X4500HD integreted graphic card John Stone (Thu Feb 12 2009 - 15:46:21 CST)
installation Fernanda S. (Thu Feb 12 2009 - 13:08:19 CST)
- Re: installation John Stone (Thu Feb 12 2009 - 13:40:02 CST)
  - Re: installation John Stone (Sat Feb 14 2009 - 14:32:53 CST)
  - Re: installation Fernanda S. (Sat Feb 14 2009 - 17:18:57 CST)
- Re: installation Ramon Crehuet (Fri Feb 13 2009 - 05:08:51 CST)
  - No 'xterm' needed for next VMD... Was Re: installation John Stone (Sat Feb 14 2009 - 19:37:26 CST)
Atom distances from trajotory bo baker (Thu Feb 12 2009 - 03:27:20 CST)
- Re: Atom distances from trajotory Peter Freddolino (Thu Feb 12 2009 - 07:40:14 CST)
  - Re: Atom distances from trajotory Peter Freddolino (Sat Feb 14 2009 - 08:01:53 CST)
    - Re: Atom distances from trajotory bo baker (Sat Feb 14 2009 - 17:16:27 CST)
Load multiple files bo baker (Wed Feb 11 2009 - 22:43:35 CST)
- Re: Load multiple files John Stone (Thu Feb 12 2009 - 08:36:11 CST)
  - RE: Load multiple files Bishop, Thomas C (Thu Feb 12 2009 - 11:18:57 CST)
- RE: Load multiple files Andres Morales N (Thu Feb 12 2009 - 08:59:39 CST)
problem Barbault Florent (Wed Feb 11 2009 - 02:41:52 CST)
- Re: problem Axel Kohlmeyer (Wed Feb 11 2009 - 09:01:42 CST)
  - Re: problem Barbault Florent (Fri Feb 13 2009 - 05:24:39 CST)
- Re: problem Paulo E. Abreu (Wed Feb 11 2009 - 11:00:15 CST)
Flow Fields Roland Schulz (Tue Feb 10 2009 - 16:04:23 CST)
- Re: Flow Fields John Stone (Tue Feb 10 2009 - 16:28:08 CST)
- Re: Flow Fields Axel Kohlmeyer (Tue Feb 10 2009 - 16:53:19 CST)
How to specify processors for running VMD on a cluster? Yinglong Miao (Tue Feb 10 2009 - 10:45:27 CST)
- Re: How to specify processors for running VMD on a cluster? Axel Kohlmeyer (Tue Feb 10 2009 - 12:24:58 CST)
  - Re: How to specify processors for running VMD on a cluster? Axel Kohlmeyer (Tue Feb 10 2009 - 15:35:46 CST)
Equivalent Mouse Capabilities to Tracker CAVELib Amr Rizq (Mon Feb 09 2009 - 07:06:26 CST)
- Re: Equivalent Mouse Capabilities to Tracker CAVELib John Stone (Mon Feb 09 2009 - 15:24:34 CST)
multiplot : integration of undrawing command (?) Nadja Lederer (Thu Feb 05 2009 - 05:14:43 CST)
- Re: multiplot : integration of undrawing command (?) Axel Kohlmeyer (Sun Feb 08 2009 - 23:48:49 CST)
"Hands-On" Workshop on Computational Biophysics, July 6-10 and August 10-14, 2009 TCBG Workshop (Thu Feb 05 2009 - 15:52:29 CST)
Take a look at jaxtr! Sudipta Sinha (Sun Feb 08 2009 - 22:20:40 CST)
concatenate protein and 2 ligand files Thomas Evangelidis (Sat Feb 07 2009 - 11:02:30 CST)
- Re: concatenate protein and 2 ligand files John Stone (Mon Feb 09 2009 - 15:17:44 CST)
International opportunity robert (Fri Feb 06 2009 - 11:25:07 CST)
VMD and IED on Windows XP Roland Schmucki (Thu Feb 05 2009 - 20:57:34 CST)
- Re: VMD and IED on Windows XP John Stone (Fri Feb 06 2009 - 12:36:04 CST)
Progress Bar for the Elapsed Time: rendering problem Suman Chakrabarty (Thu Feb 05 2009 - 16:42:20 CST)
- Re: Progress Bar for the Elapsed Time: rendering problem Axel Kohlmeyer (Thu Feb 05 2009 - 17:23:40 CST)
Render alpha-carbon trace as cartoon Patrick Buck (Thu Feb 05 2009 - 13:57:54 CST)
- Re: Render alpha-carbon trace as cartoon John Stone (Fri Feb 06 2009 - 12:23:33 CST)
trajectory path script Katherine Parra (Thu Feb 05 2009 - 11:00:12 CST)
- Re: trajectory path script Axel Kohlmeyer (Thu Feb 05 2009 - 11:39:06 CST)
Atomselect in NAMD GUI bo baker (Thu Feb 05 2009 - 05:02:45 CST)
- Re: Atomselect in NAMD GUI bo baker (Sun Feb 08 2009 - 16:17:15 CST)
  - Re: Atomselect in NAMD GUI John Stone (Mon Feb 09 2009 - 00:06:46 CST)
    - Re: Atomselect in NAMD GUI bo baker (Wed Feb 11 2009 - 16:01:37 CST)
    - Re: Atomselect in NAMD GUI Peter Freddolino (Thu Feb 12 2009 - 06:21:11 CST)
"Sorry, this version VMD was compiled with Python support disabled" Maxim Paliy (Wed Feb 04 2009 - 09:19:49 CST)
- Re: "Sorry, this version VMD was compiled with Python support disabled" John Stone (Wed Feb 04 2009 - 16:31:09 CST)
Apologies Lucas Fernandez Seivane (Tue Feb 03 2009 - 17:34:58 CST)
problem with "measure fit " Leontyev Igor (Tue Feb 03 2009 - 15:51:02 CST)
- Re: problem with "measure fit " John Stone (Mon Feb 09 2009 - 16:41:32 CST)
property iterate over a range (representation / draw style) bonicoli_at_loria.fr (Tue Feb 03 2009 - 11:16:12 CST)
- Re: property iterate over a range (representation / draw style) Axel Kohlmeyer (Tue Feb 03 2009 - 12:10:49 CST)
  - Re: property iterate over a range (representation / draw style) bonicoli_at_loria.fr (Wed Feb 04 2009 - 10:04:40 CST)
rmsd matrix Andres Morales N (Tue Feb 03 2009 - 10:01:28 CST)
- Re: rmsd matrix John Stone (Tue Feb 03 2009 - 10:08:00 CST)
deleting specific residues or atoms maria goranovic (Tue Feb 03 2009 - 09:57:54 CST)
- Re: deleting specific residues or atoms Axel Kohlmeyer (Tue Feb 03 2009 - 10:55:28 CST)
add a new representation style to VMD Vlad Cojocaru (Tue Feb 03 2009 - 08:22:24 CST)
- Re: add a new representation style to VMD John Stone (Tue Feb 03 2009 - 09:02:27 CST)
pictures with frame BIN ZHANG (Tue Feb 03 2009 - 01:40:32 CST)
- Re: pictures with frame Mario Valle (Tue Feb 03 2009 - 02:56:50 CST)
- Re: pictures with frame (corrected) Mario Valle (Tue Feb 03 2009 - 02:58:39 CST)
selecting set of residue Falgun Shah (Mon Feb 02 2009 - 14:44:45 CST)
Bug in molefacture proline residue of official version (1.8.6 LINUXAMD64) Alexandre Suman de Araujo (Mon Feb 02 2009 - 12:51:46 CST)
rmsd matrix Andres Morales N (Mon Feb 02 2009 - 10:59:50 CST)
- Re: rmsd matrix Wei Huang (Mon Feb 02 2009 - 11:08:40 CST)
Link between the electrostatic potential on the surface and the grid.dx generated by APBS Emeline Leproult (Mon Feb 02 2009 - 09:57:02 CST)
- Re: Link between the electrostatic potential on the surface and the grid.dx generated by APBS John Stone (Mon Feb 02 2009 - 10:41:09 CST)
scriptable way to add hydrogens Thomas Evangelidis (Sat Jan 31 2009 - 16:25:16 CST)
- Re: scriptable way to add hydrogens Peter Freddolino (Sat Jan 31 2009 - 16:44:37 CST)
- Re: scriptable way to add hydrogens Axel Kohlmeyer (Sat Jan 31 2009 - 17:35:53 CST)
How to install the inorganicbuilder on Windows vista Hideya Nakamura (Thu Jan 29 2009 - 19:41:45 CST)
- Re: How to install the inorganicbuilder on Windows vista John Stone (Fri Jan 30 2009 - 08:28:04 CST)
Unable to run VMD in graphical mode/ ubuntu 8.10 / Open GL problem Katya Lyakhova (Wed Jan 28 2009 - 09:19:35 CST)
- Re: Unable to run VMD in graphical mode/ ubuntu 8.10 / Open GL problem John Stone (Wed Jan 28 2009 - 09:25:52 CST)
- contactmap for RNA Samuel Coulbourn Flores èŠ±å±± (Wed Jan 28 2009 - 16:44:43 CST)
[patch] potential CUDA acceleration - load-balancing on different CUDA devices Martin Aumüller (Wed Jan 28 2009 - 06:35:19 CST)
- Re: [patch] potential CUDA acceleration - load-balancing on different CUDA devices John Stone (Wed Jan 28 2009 - 08:21:58 CST)
get a PDB file from DCD file Andres Morales N (Tue Jan 27 2009 - 07:58:23 CST)
- Re: get a PDB file from DCD file Axel Kohlmeyer (Tue Jan 27 2009 - 08:42:18 CST)
  - Re: get a PDB file from DCD file JT (Tue Jan 27 2009 - 11:01:41 CST)
- Re: get a PDB file from DCD file John Stone (Tue Jan 27 2009 - 08:44:32 CST)
- Re: get a PDB file from DCD file Benjamin Bouvier (Tue Jan 27 2009 - 09:49:51 CST)
Rosetta Academic Training Workshop Nir London (Tue Jan 27 2009 - 07:05:12 CST)
VMD & NAMD atoms naming convention? Javier Goicochea (Tue Jan 27 2009 - 03:05:09 CST)
- Re: VMD & NAMD atoms naming convention? Axel Kohlmeyer (Tue Jan 27 2009 - 08:35:34 CST)
Note to VMD-L about posting attachments etc... John Stone (Mon Jan 26 2009 - 15:58:53 CST)
Re: (Resend) Re: Breaking Bonds in VMD John Stone (Mon Jan 26 2009 - 15:55:29 CST)
(no subject) Andres Morales N (Mon Jan 26 2009 - 14:37:40 CST)
(no subject) gurunath katagi (Mon Jan 26 2009 - 03:19:30 CST)
- Re: Peter Freddolino (Mon Jan 26 2009 - 06:09:46 CST)
how to set color parameters differently for different molecules Thomas Evangelidis (Sun Jan 25 2009 - 12:09:10 CST)
- Re: how to set color parameters differently for different molecules Axel Kohlmeyer (Sun Jan 25 2009 - 13:18:10 CST)
  - Re: how to set color parameters differently for different molecules Thomas Evangelidis (Thu Jan 29 2009 - 15:34:31 CST)
- Re: how to set color parameters differently for different molecules MQO. Carlos Javier NÃºÃ±ez Aguero (Thu Jan 29 2009 - 19:03:40 CST)
VMD not loading in Suse 11.1 Andrew James Bennett (Fri Jan 23 2009 - 05:43:05 CST)
- Re: VMD not loading in Suse 11.1 Axel Kohlmeyer (Fri Jan 23 2009 - 09:04:18 CST)
Tcl script Leonardo Trabuco (Thu Jan 22 2009 - 00:01:39 CST)
Tcl script varsha gautham (Wed Jan 21 2009 - 22:45:29 CST)
accessing bonds angles dihedrals etc lists after PSF file is read into VMD Maxim Paliy (Wed Jan 21 2009 - 15:29:54 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD John Stone (Thu Jan 22 2009 - 11:33:21 CST)
  - Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD Iman Salehinia (Thu Jan 22 2009 - 18:21:59 CST)
Breaking Bonds in VMD nicholas lee (Tue Jan 20 2009 - 10:40:46 CST)
- Re: Breaking Bonds in VMD John Stone (Tue Jan 20 2009 - 10:47:17 CST)
  - Re: Breaking Bonds in VMD nicholas lee (Tue Jan 20 2009 - 15:01:16 CST)
    - Re: Breaking Bonds in VMD John Stone (Tue Jan 20 2009 - 17:26:01 CST)
    - Re: Breaking Bonds in VMD Axel Kohlmeyer (Tue Jan 20 2009 - 17:21:16 CST)
VMD Installation problem on Ubuntu 8.10 maria goranovic (Tue Jan 20 2009 - 08:27:12 CST)
- Re: VMD Installation problem on Ubuntu 8.10 John Stone (Tue Jan 20 2009 - 08:46:05 CST)
  - Re: VMD Installation problem on Ubuntu 8.10 maria goranovic (Tue Jan 20 2009 - 09:10:58 CST)
VMD plugin for Desmond ÖÜÎÄ²ý (Tue Jan 20 2009 - 08:23:13 CST)
- Re: VMD plugin for Desmond John Stone (Tue Jan 20 2009 - 08:42:20 CST)
  - Re: VMD plugin for Desmond ÖÜÎÄ²ý (Tue Jan 20 2009 - 08:58:31 CST)
    - Re: VMD plugin for Desmond John Stone (Tue Jan 20 2009 - 09:34:49 CST)
- Re: VMD plugin for Desmond Axel Kohlmeyer (Tue Jan 20 2009 - 08:58:24 CST)
VMD window transparent in Opensuse 11.1 ATI system Ramon Crehuet (Tue Jan 20 2009 - 06:09:27 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system John Stone (Tue Jan 20 2009 - 08:44:57 CST)
  - Re: VMD window transparent in Opensuse 11.1 ATI system John Stone (Tue Jan 20 2009 - 10:36:12 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system Axel Kohlmeyer (Tue Jan 20 2009 - 08:56:12 CST)
Fwd: Tcl script varsha gautham (Tue Jan 20 2009 - 02:11:56 CST)
- Re: Fwd: Tcl script Roman Petrenko (Tue Jan 20 2009 - 06:24:37 CST)
- Re: Fwd: Tcl script Axel Kohlmeyer (Tue Jan 20 2009 - 08:49:21 CST)
Problems with tcl/tk 8.5 Bernd Doser (Tue Jan 20 2009 - 02:08:05 CST)
- Re: Problems with tcl/tk 8.5 John Stone (Tue Jan 20 2009 - 08:51:08 CST)
- Re: Problems with tcl/tk 8.5 Axel Kohlmeyer (Tue Jan 20 2009 - 08:53:02 CST)
Download the newest version of VMD ÖÜÎÄ²ý (Mon Jan 19 2009 - 04:15:52 CST)
- Re: Download the newest version of VMD Carsten Olbrich (Mon Jan 19 2009 - 05:05:08 CST)
- Re: Download the newest version of VMD Axel Kohlmeyer (Mon Jan 19 2009 - 10:09:33 CST)
How to get rid of default patch for NTER and CTER Jianping Lin (Sun Jan 18 2009 - 15:45:34 CST)
- Re: How to get rid of default patch for NTER and CTER Schreiner Eduard (Sun Jan 18 2009 - 19:11:32 CST)
- RE: How to get rid of default patch for NTER and CTER Aaron.Oakley_at_csiro.au (Sun Jan 18 2009 - 19:24:36 CST)
Test builds of VMD 1.8.7 using Tcl/Tk 8.5.x... John Stone (Fri Jan 16 2009 - 15:34:21 CST)
- Re: Test builds of VMD 1.8.7 using Tcl/Tk 8.5.x... Axel Kohlmeyer (Tue Jan 20 2009 - 17:31:19 CST)
XYZ trajectory with different atom types? AA (Fri Jan 16 2009 - 13:21:15 CST)
- Re: XYZ trajectory with different atom types? Axel Kohlmeyer (Fri Jan 16 2009 - 14:00:00 CST)
trans routine Edward Lyman (Fri Jan 16 2009 - 12:49:24 CST)
- Re: trans routine John Stone (Tue Jan 27 2009 - 22:29:29 CST)
Problem with Install bo baker (Fri Jan 16 2009 - 05:12:34 CST)
- Re: Problem with Install Joaquim Rui Rodrigues (Fri Jan 16 2009 - 06:59:15 CST)
ANGLES and DIHEDRALS ... location in VMD code? Javier Goicochea (Fri Jan 16 2009 - 02:17:00 CST)
- Re: ANGLES and DIHEDRALS ... location in VMD code? John Stone (Fri Jan 16 2009 - 09:31:01 CST)
  - Re: ANGLES and DIHEDRALS ... location in VMD code? Javier Goicochea (Mon Feb 02 2009 - 08:33:15 CST)
helicity score? BIN ZHANG (Thu Jan 15 2009 - 23:39:21 CST)
- Re: helicity score? Suman Chakrabarty (Thu Feb 19 2009 - 12:27:25 CST)
  - Re: helicity score? BIN ZHANG (Thu Feb 19 2009 - 15:14:45 CST)
Understanding topology files? Javier Goicochea (Thu Jan 15 2009 - 08:03:50 CST)
- Re: Understanding topology files? Christopher Gillespie (Thu Jan 15 2009 - 09:25:23 CST)
  - Re: Understanding topology files? Javier Goicochea (Thu Jan 15 2009 - 10:11:05 CST)
    - Re: Understanding topology files? Christopher Gillespie (Thu Jan 15 2009 - 10:27:52 CST)
    - Re: Understanding topology files? Javier Goicochea (Thu Jan 15 2009 - 10:32:55 CST)
- Re: Understanding topology files? Axel Kohlmeyer (Thu Jan 15 2009 - 14:06:16 CST)
  - Re: Understanding topology files? Javier Goicochea (Fri Jan 16 2009 - 02:10:19 CST)
loosing color when rendering molecular surface in VMD Michael Klein (Wed Jan 14 2009 - 20:17:23 CST)
- Re: loosing color when rendering molecular surface in VMD John Stone (Wed Jan 14 2009 - 20:50:03 CST)
  - Re: loosing color when rendering molecular surface in VMD Schreiner Eduard (Wed Jan 14 2009 - 20:58:22 CST)
Data fields in vmd Cesar Luis Avila (Wed Jan 14 2009 - 15:02:25 CST)
- Re: Data fields in vmd Axel Kohlmeyer (Wed Jan 14 2009 - 14:56:10 CST)
  - Re: Data fields in vmd Cesar Luis Avila (Thu Jan 15 2009 - 13:27:14 CST)
    - Re: Data fields in vmd Axel Kohlmeyer (Thu Jan 15 2009 - 14:10:26 CST)
- Re: Data fields in vmd John Stone (Thu Jan 15 2009 - 10:34:56 CST)
  - Re: Data fields in vmd Cesar Luis Avila (Thu Jan 15 2009 - 12:33:09 CST)
    - Re: Data fields in vmd John Stone (Thu Jan 15 2009 - 11:38:22 CST)
updating DCD frames in python Michael Kreim (Wed Jan 14 2009 - 09:55:06 CST)
- Re: updating DCD frames in python Axel Kohlmeyer (Wed Jan 14 2009 - 11:11:45 CST)
  - Re: updating DCD frames in python Michael Kreim (Thu Jan 15 2009 - 03:30:55 CST)
building loops riya doreen (Tue Jan 13 2009 - 18:53:09 CST)
- Re: building loops Peter Freddolino (Tue Jan 13 2009 - 19:18:55 CST)
Dobule and triple bonds Max (Tue Jan 13 2009 - 04:32:04 CST)
- Re: Dobule and triple bonds Peter Freddolino (Tue Jan 13 2009 - 09:30:56 CST)
center of mass Alison Grinthal (Mon Jan 12 2009 - 13:51:43 CST)
- Re: center of mass Axel Kohlmeyer (Mon Jan 12 2009 - 14:37:05 CST)
Release of the R.E.D.-III.1 tools FyD (Mon Jan 12 2009 - 05:59:14 CST)
VMD for Linux bo baker (Mon Jan 12 2009 - 05:14:50 CST)
- Re: VMD for Linux Axel Kohlmeyer (Mon Jan 12 2009 - 09:11:00 CST)
: about complexing protein and ligand! Shirin Awasthi (Sun Jan 11 2009 - 22:40:48 CST)
- Re: : about complexing protein and ligand! Axel Kohlmeyer (Mon Jan 12 2009 - 08:54:21 CST)
odd render problems with Vista Irene Newhouse (Sun Jan 11 2009 - 13:26:57 CST)
- Re: odd render problems with Vista Peter Freddolino (Sun Jan 11 2009 - 14:05:18 CST)
  - Re: odd render problems with Vista Axel Kohlmeyer (Sun Jan 11 2009 - 14:37:10 CST)
    - Re: odd render problems with Vista Peter Freddolino (Sun Jan 11 2009 - 14:49:47 CST)
    - RE: odd render problems with Vista Irene Newhouse (Sun Jan 11 2009 - 18:25:25 CST)
  - RE: odd render problems with Vista Irene Newhouse (Sun Jan 11 2009 - 18:21:59 CST)
- Re: odd render problems with Vista Axel Kohlmeyer (Sun Jan 11 2009 - 14:27:58 CST)
- Re: odd render problems with Vista Benjamin Bouvier (Sun Jan 11 2009 - 14:20:04 CST)
  - RE: odd render problems with Vista Irene Newhouse (Sun Jan 11 2009 - 18:20:08 CST)
putting a set of selections in a list or an array A D (Sun Jan 11 2009 - 12:14:08 CST)
- Re: putting a set of selections in a list or an array Axel Kohlmeyer (Sun Jan 11 2009 - 13:53:41 CST)
cube file question Jun Cheng (Fri Jan 09 2009 - 05:12:20 CST)
- Re: cube file question Axel Kohlmeyer (Fri Jan 09 2009 - 08:23:16 CST)
Functional Groups Max (Fri Jan 09 2009 - 04:51:39 CST)
- Re: Functional Groups Axel Kohlmeyer (Fri Jan 09 2009 - 08:16:12 CST)
Calculating acyl chain order parameter profile on phospholipid vesicles Cesar Luis Avila (Thu Jan 08 2009 - 15:43:55 CST)
- Re: Calculating acyl chain order parameter profile on phospholipid vesicles dimka (Tue Jan 13 2009 - 10:28:43 CST)
which model in pdb vill VMD present? Steven W (Wed Jan 07 2009 - 12:21:59 CST)
- Re: which model in pdb vill VMD present? John Stone (Tue Jan 13 2009 - 14:03:58 CST)
measure rmsf - command (step argument) Nadja Lederer (Wed Jan 07 2009 - 05:20:42 CST)
- Re: measure rmsf - command (step argument) Axel Kohlmeyer (Wed Jan 07 2009 - 10:44:18 CST)
Large dcd file jouko_at_berkeley.edu (Tue Jan 06 2009 - 16:31:46 CST)
- Re: Large dcd file Roman Petrenko (Tue Jan 06 2009 - 17:25:03 CST)
  - Re: Large dcd file Axel Kohlmeyer (Tue Jan 06 2009 - 19:04:46 CST)
  - Re: Large dcd file jouko_at_berkeley.edu (Tue Jan 06 2009 - 22:32:51 CST)
- Re: Large dcd file Axel Kohlmeyer (Tue Jan 06 2009 - 19:01:25 CST)
Problems with NewCartoon Cartoon Representations haosheng_at_hec.utah.edu (Tue Jan 06 2009 - 15:39:43 CST)
- Re: Problems with NewCartoon Cartoon Representations Peter Freddolino (Tue Jan 06 2009 - 19:48:47 CST)
eliminate atoms from psf and pdb files caterinabernini_at_unisi.it (Tue Jan 06 2009 - 11:40:15 CST)
- Re: eliminate atoms from psf and pdb files Peter Freddolino (Tue Jan 06 2009 - 11:51:45 CST)
- Re: eliminate atoms from psf and pdb files Axel Kohlmeyer (Tue Jan 06 2009 - 12:33:37 CST)
changing bond color jfgaff_at_ncsu.edu (Tue Jan 06 2009 - 11:39:20 CST)
- Re: changing bond color Peter Freddolino (Tue Jan 06 2009 - 11:50:11 CST)
- Re: changing bond color Axel Kohlmeyer (Tue Jan 06 2009 - 12:30:19 CST)
- Re: changing bond color Ramya Gamini (Tue Jan 06 2009 - 12:27:22 CST)
tcl scripts in parallel in VMD? Maxim Paliy (Tue Jan 06 2009 - 08:14:41 CST)
- Re: tcl scripts in parallel in VMD? Axel Kohlmeyer (Tue Jan 06 2009 - 10:06:25 CST)
a problem on Red Hat Enterprise Linux 5 Seungho Choe (Mon Jan 05 2009 - 10:48:32 CST)
- Re: a problem on Red Hat Enterprise Linux 5 John Stone (Mon Jan 05 2009 - 16:13:40 CST)
  - Re: a problem on Red Hat Enterprise Linux 5 Seungho Choe (Mon Jan 05 2009 - 11:25:16 CST)
list of all the file type keywords for "mol load"? Maxim Paliy (Mon Jan 05 2009 - 10:00:20 CST)
- Re: list of all the file type keywords for "mol load"? Axel Kohlmeyer (Mon Jan 05 2009 - 10:44:03 CST)
Changing the Secondary Structure of a Protein MIke S (Sun Dec 28 2008 - 01:18:23 CST)
- Re: namd-l: Changing the Secondary Structure of a Protein JC Gumbart (Sun Dec 28 2008 - 08:55:03 CST)
- Re: namd-l: Changing the Secondary Structure of a Protein Peter Freddolino (Sun Dec 28 2008 - 08:48:38 CST)
I need a bid trajectory please!!! Thomas Evangelidis (Thu Dec 25 2008 - 16:54:44 CST)
- Re: I need a bid trajectory please!!! Axel Kohlmeyer (Fri Dec 26 2008 - 14:20:38 CST)
  - Re: I need a bid trajectory please!!! Thomas Evangelidis (Fri Dec 26 2008 - 16:01:33 CST)
Space distribution functions aneesh cna (Wed Dec 24 2008 - 23:08:03 CST)
- Re: Space distribution functions Axel Kohlmeyer (Fri Dec 26 2008 - 14:15:58 CST)
beta column format in PDB BIN ZHANG (Wed Dec 24 2008 - 13:41:23 CST)
- Re: beta column format in PDB Axel Kohlmeyer (Wed Dec 24 2008 - 14:33:53 CST)
  - Re: beta column format in PDB BIN ZHANG (Wed Dec 24 2008 - 14:57:47 CST)
    - Re: beta column format in PDB Axel Kohlmeyer (Wed Dec 24 2008 - 15:53:27 CST)
SBCG membrane Dolan, Michael (NIH/NIAID) [C] (Wed Dec 24 2008 - 11:59:25 CST)
- Re: SBCG membrane Anton Arkhipov (Wed Dec 24 2008 - 15:01:38 CST)
difficulties referencing a variable within a namespace Thomas Evangelidis (Sun Dec 21 2008 - 21:00:38 CST)
- Re: difficulties referencing a variable within a namespace Peter Freddolino (Mon Dec 22 2008 - 14:04:35 CST)
Remove PBC Alessandro.Maiorana_at_roma2.infn.it (Sun Dec 21 2008 - 04:09:38 CST)
- Re: Remove PBC Peter Freddolino (Sun Dec 21 2008 - 21:30:56 CST)
- measure the distance between center of molecules Taufik Al-Sarraj (Tue Dec 23 2008 - 11:06:22 CST)
  - Re: measure the distance between center of molecules John Stone (Tue Dec 23 2008 - 11:12:38 CST)
VMD Animation example doesn't work... Alberto Sergio Garay (Fri Dec 19 2008 - 06:52:05 CST)
- Re: VMD Animation example doesn't work... John Stone (Tue Jan 13 2009 - 16:35:01 CST)
CHARMM to AMBER trajectory conversion Peter Jones (Thu Dec 18 2008 - 22:40:53 CST)
- Re: CHARMM to AMBER trajectory conversion Axel Kohlmeyer (Fri Dec 19 2008 - 09:56:01 CST)
known issues with measure hbonds Harindar Keer (Thu Dec 18 2008 - 17:59:34 CST)
- Re: known issues with measure hbonds JC Gumbart (Mon Dec 29 2008 - 09:31:59 CST)
How to get all the angle combinations? BIN ZHANG (Wed Dec 17 2008 - 23:07:16 CST)
- Re: How to get all the angle combinations? John Stone (Mon Dec 22 2008 - 10:37:35 CST)
QM Geometry optimization bo baker (Tue Dec 16 2008 - 23:59:49 CST)
- Re: QM Geometry optimization Peter Freddolino (Wed Dec 17 2008 - 08:57:05 CST)
- Re: QM Geometry optimization Axel Kohlmeyer (Wed Dec 17 2008 - 09:23:33 CST)
  - Re: QM Geometry optimization bo baker (Wed Dec 17 2008 - 12:30:08 CST)
    - Re: QM Geometry optimization Axel Kohlmeyer (Wed Dec 17 2008 - 13:53:09 CST)
VMD Animation example doesn't work... Alberto Sergio Garay (Tue Dec 16 2008 - 04:43:23 CST)
defintion of alpha helix in vmd? Bernhard Knapp (Tue Dec 16 2008 - 03:30:03 CST)
- Re: defintion of alpha helix in vmd? L. Michel Espinoza-Fonseca (Tue Dec 16 2008 - 04:41:47 CST)
haptics device "novint falcon" angel_at_cbuc.cl (Mon Dec 15 2008 - 09:13:31 CST)
- Re: haptics device "novint falcon" John Stone (Mon Dec 15 2008 - 09:26:40 CST)
the exact definition of the keyword "radius" of the atom selection Lan Hua (Sat Dec 13 2008 - 14:10:40 CST)
- Re: the exact definition of the keyword "radius" of the atom selection Axel Kohlmeyer (Sat Dec 13 2008 - 16:37:11 CST)
paratool dont recognize gaussian output angel_at_cbuc.cl (Fri Dec 12 2008 - 10:10:13 CST)
VMD, VRPN, Phantom Desktop Nicholas Labello (Fri Dec 12 2008 - 09:43:19 CST)
- Re: VMD, VRPN, Phantom Desktop John Stone (Tue Jan 13 2009 - 16:36:20 CST)
coloring of an item created by canvas Nadja Lederer (Wed Dec 10 2008 - 04:07:51 CST)
Problem finding center of mass for all the frames ramya narasimhan (Wed Dec 10 2008 - 01:31:38 CST)
- Re: Problem finding center of mass for all the frames Schreiner Eduard (Wed Dec 10 2008 - 01:52:29 CST)
  - Re: Problem finding center of mass for all the frames ramya narasimhan (Wed Dec 10 2008 - 04:26:16 CST)
    - Re: Problem finding center of mass for all the frames Leonardo Trabuco (Wed Dec 10 2008 - 04:34:27 CST)
    - Re: Problem finding center of mass for all the frames ramya narasimhan (Wed Dec 10 2008 - 04:45:35 CST)
How to get number of electrons of an atom in VMD? BIN ZHANG (Mon Dec 08 2008 - 15:31:42 CST)
- Re: How to get number of electrons of an atom in VMD? John Stone (Mon Dec 08 2008 - 15:35:39 CST)
equilibrating a membrane patch Edward Lyman (Mon Dec 08 2008 - 13:25:30 CST)
regarding writemol2 jani sahil (Sat Dec 06 2008 - 00:34:19 CST)
- Re: regarding writemol2 Peter Freddolino (Sat Dec 06 2008 - 19:42:33 CST)
reagsrding writemol2 jani sahil (Fri Dec 05 2008 - 00:11:42 CST)
- Re: reagsrding writemol2 Peter Freddolino (Fri Dec 05 2008 - 09:00:29 CST)
How to generate an index (.ind) file? Anirban Ghosh (Fri Dec 05 2008 - 00:07:49 CST)
- Re: How to generate an index (.ind) file? Carsten Olbrich (Fri Dec 05 2008 - 01:30:17 CST)
- vmd on fedora Taufik Al-Sarraj (Mon Dec 08 2008 - 16:57:24 CST)
  - Re: vmd on fedora John Stone (Mon Dec 08 2008 - 20:34:48 CST)
    - Re: vmd on fedora Taufik Al-Sarraj (Tue Dec 09 2008 - 10:25:37 CST)
    - Re: vmd on fedora John Stone (Tue Dec 09 2008 - 10:34:33 CST)
atom selection aneesh cna (Wed Dec 03 2008 - 05:32:57 CST)
- Re: atom selection Leonardo Trabuco (Wed Dec 03 2008 - 11:10:53 CST)
- Re: atom selection Joaquim Rui Rodrigues (Wed Dec 03 2008 - 11:44:55 CST)
To find the residues on each side of the protein ramya narasimhan (Wed Dec 03 2008 - 02:42:33 CST)
- Re: To find the residues on each side of the protein Axel Kohlmeyer (Wed Dec 03 2008 - 05:17:48 CST)
  - Re: To find the residues on each side of the protein ramya narasimhan (Wed Dec 03 2008 - 22:36:40 CST)
undrawing lines in multiplot? Nadja Lederer (Wed Dec 03 2008 - 02:29:57 CST)
memory leak found Ondrej Marsalek (Tue Dec 02 2008 - 09:08:09 CST)
- Re: memory leak found John Stone (Tue Dec 02 2008 - 09:14:22 CST)
- Re: memory leak found Axel Kohlmeyer (Tue Dec 02 2008 - 11:23:28 CST)
  - Re: memory leak found Ondrej Marsalek (Tue Dec 02 2008 - 12:19:51 CST)
  - Re: memory leak found Ondrej Marsalek (Tue Dec 02 2008 - 12:40:26 CST)
    - Re: memory leak found Axel Kohlmeyer (Tue Dec 02 2008 - 12:58:25 CST)
Rotation of molecules Björn Windshügel (Tue Dec 02 2008 - 08:20:30 CST)
- Re: Rotation of molecules Axel Kohlmeyer (Tue Dec 02 2008 - 11:29:25 CST)
Getting data as vector or matrix Iman Salehinia (Tue Dec 02 2008 - 00:48:29 CST)
Running VMD on Mac OS X Christopher Share (Mon Dec 01 2008 - 23:23:08 CST)
prepare initial structure oguz gurbulak (Mon Dec 01 2008 - 13:52:31 CST)
- Re: prepare initial structure Schreiner Eduard (Mon Dec 01 2008 - 14:16:48 CST)
script that reacts on movement of frameslider in vmd main Nadja Lederer (Mon Dec 01 2008 - 07:41:36 CST)
- Re: script that reacts on movement of frameslider in vmd main Benjamin Bouvier (Mon Dec 01 2008 - 09:28:55 CST)
how to prevent view reset on data load Ondrej Marsalek (Sat Nov 29 2008 - 10:52:45 CST)
- Re: how to prevent view reset on data load Axel Kohlmeyer (Sun Nov 30 2008 - 05:46:45 CST)
  - Re: how to prevent view reset on data load Ondrej Marsalek (Sun Nov 30 2008 - 15:58:56 CST)
transparent or translucent backgrond for images Neelanjana Sengupta (Sat Nov 29 2008 - 06:18:46 CST)
- Re: transparent or translucent backgrond for images Axel Kohlmeyer (Sun Nov 30 2008 - 05:37:01 CST)
total number of donors and acceptors Roman Petrenko (Wed Nov 26 2008 - 18:27:16 CST)
Desmond trajectory conversion to dcd format Dong Xu (Wed Nov 26 2008 - 16:24:57 CST)
- Re: Desmond trajectory conversion to dcd format John Stone (Wed Nov 26 2008 - 16:52:42 CST)
- Re: Desmond trajectory conversion to dcd format dimka (Wed Nov 26 2008 - 17:09:57 CST)
  - Re: Desmond trajectory conversion to dcd format Dong Xu (Wed Nov 26 2008 - 17:15:25 CST)
Other color scales than the predefined ones? Berit Hinnemann (Wed Nov 26 2008 - 07:00:17 CST)
- Re: Other color scales than the predefined ones? Axel Kohlmeyer (Wed Nov 26 2008 - 10:21:02 CST)
  - Re: Other color scales than the predefined ones? Berit Hinnemann (Thu Nov 27 2008 - 03:38:46 CST)
    - Re: Other color scales than the predefined ones? John Stone (Thu Nov 27 2008 - 09:36:40 CST)
Re: bug in comments interpretation of vmd John Stone (Wed Nov 26 2008 - 11:13:49 CST)
Re: multiplot: control reaction for click on datapoints? Nadja Lederer (Wed Nov 26 2008 - 11:12:20 CST)
- Re: multiplot: control reaction for click on datapoints? Nadja Lederer (Wed Nov 26 2008 - 14:00:18 CST)
- Re: multiplot: control reaction for click on datapoints? Nadja Lederer (Thu Nov 27 2008 - 10:09:53 CST)
Other color scales than the predefined ones Berit Hinnemann (Wed Nov 26 2008 - 09:52:23 CST)
tcl fscript or Removeing protein flucutation karthigeyan karthigeyantp (Wed Nov 26 2008 - 05:45:33 CST)
- Re: tcl fscript or Removeing protein flucutation Axel Kohlmeyer (Wed Nov 26 2008 - 10:24:18 CST)
Movie of a xyz trajectory Roberto Gaspari (Wed Nov 26 2008 - 03:09:43 CST)
- Re: Movie of a xyz trajectory Axel Kohlmeyer (Wed Nov 26 2008 - 05:12:34 CST)
- Re: Movie of a xyz trajectory Berit Hinnemann (Wed Nov 26 2008 - 07:03:06 CST)
multiplot: control reaction for click on datapoints? Nadja Lederer (Wed Nov 26 2008 - 02:34:31 CST)
drawing lines Ryan Pavlovicz (Tue Nov 25 2008 - 12:38:31 CST)
- Re: drawing lines Peter Freddolino (Tue Nov 25 2008 - 18:23:12 CST)
unloading volumetric data Ondrej Marsalek (Mon Nov 24 2008 - 10:18:39 CST)
- Re: unloading volumetric data John Stone (Mon Nov 24 2008 - 10:32:14 CST)
  - Re: unloading volumetric data Ondrej Marsalek (Mon Nov 24 2008 - 11:09:35 CST)
CG bead definition BIN ZHANG (Sun Nov 23 2008 - 23:56:12 CST)
- Re: CG bead definition Anton Arkhipov (Mon Nov 24 2008 - 16:43:28 CST)
  - Re: CG bead definition BIN ZHANG (Mon Nov 24 2008 - 18:24:35 CST)
    - Re: CG bead definition Anton Arkhipov (Mon Nov 24 2008 - 18:36:23 CST)
  - Re: CG bead definition Anton Arkhipov (Mon Aug 31 2009 - 23:24:05 CDT)
entropy calculations Roman Petrenko (Fri Nov 21 2008 - 15:23:07 CST)
entropy calculations Roman Petrenko (Fri Nov 21 2008 - 15:16:40 CST)
- Re: entropy calculations L. Michel Espinoza-Fonseca (Fri Nov 21 2008 - 16:05:11 CST)
Calculating volumes enclosed by SAS Ghaleb El Masri (Fri Nov 21 2008 - 14:44:39 CST)
- Re: Calculating volumes enclosed by SAS Deepangi Pandit (Fri Nov 21 2008 - 16:09:12 CST)
need tcl help, please Irene Newhouse (Fri Nov 21 2008 - 12:57:03 CST)
- Re: need tcl help, please Peter Freddolino (Fri Nov 21 2008 - 13:22:04 CST)
  - RE: need tcl help, please Irene Newhouse (Fri Nov 21 2008 - 14:36:07 CST)
view only parts of the loaded volumetric data Vlad Cojocaru (Fri Nov 21 2008 - 04:18:11 CST)
- Re: view only parts of the loaded volumetric data Axel Kohlmeyer (Fri Nov 21 2008 - 05:01:21 CST)
Loading .vel file in VMD dipti lele (Thu Nov 20 2008 - 23:03:42 CST)
- Re: Loading .vel file in VMD Axel Kohlmeyer (Fri Nov 21 2008 - 03:45:39 CST)
  - Re: namd-l: Re: Loading .vel file in VMD Thomas C. Bishop (Fri Nov 21 2008 - 09:11:42 CST)
question Wojciech Rajchel (Thu Nov 20 2008 - 11:08:31 CST)
- Re: question Axel Kohlmeyer (Thu Nov 20 2008 - 11:55:59 CST)
running a script Mark M Huntress (Thu Nov 20 2008 - 10:03:10 CST)
- Re: running a script Axel Kohlmeyer (Thu Nov 20 2008 - 11:54:38 CST)
how to get temperature fluctuations maria goranovic (Thu Nov 20 2008 - 08:36:06 CST)
3D Graphics Jesper Soerensen (Thu Nov 20 2008 - 05:50:51 CST)
- Re: 3D Graphics John Stone (Mon Nov 24 2008 - 10:40:21 CST)
  - Re: 3D Graphics Jesper Soerensen (Tue Nov 25 2008 - 09:41:12 CST)
  - Re: 3D Graphics John Stone (Wed Nov 26 2008 - 11:16:18 CST)
[patch] Autodetection of formats supported by openbabel FX (Thu Nov 20 2008 - 05:07:17 CST)
- Re: [patch] Autodetection of formats supported by openbabel John Stone (Mon Nov 24 2008 - 10:22:47 CST)
  - Re: [patch] Autodetection of formats supported by openbabel FX (Mon Nov 24 2008 - 17:05:26 CST)
H-bond occupancy Irene Newhouse (Wed Nov 19 2008 - 12:23:58 CST)
representation ColorID in Tcl David Tanner (Wed Nov 19 2008 - 11:25:42 CST)
- Re: representation ColorID in Tcl Peter Freddolino (Wed Nov 19 2008 - 12:16:07 CST)
- Re: representation ColorID in Tcl Axel Kohlmeyer (Wed Nov 19 2008 - 12:24:51 CST)
IED analysis ÖÜÎÄ²ý (Wed Nov 19 2008 - 02:19:19 CST)
- Re: IED analysis John Stone (Mon Nov 24 2008 - 10:34:42 CST)
Autoionize plugin Rabab Toubar (Tue Nov 18 2008 - 19:40:24 CST)
- RE: Autoionize plugin JC Gumbart (Wed Nov 19 2008 - 00:23:56 CST)
  - Re: Autoionize plugin bo liu (Wed Nov 19 2008 - 08:42:58 CST)
    - Re: Autoionize plugin Rabab Toubar (Wed Nov 19 2008 - 10:07:33 CST)
use configure.options Chen Chen (Mon Nov 17 2008 - 19:34:24 CST)
- Re: use configure.options John Stone (Mon Nov 17 2008 - 20:28:36 CST)
  - Re: use configure.options Chen Chen (Mon Nov 17 2008 - 20:53:14 CST)
    - Re: use configure.options John Stone (Mon Nov 17 2008 - 21:06:12 CST)
    - Re: use configure.options Chen Chen (Mon Nov 17 2008 - 21:37:24 CST)
- Re: use configure.options jani sahil (Mon Nov 17 2008 - 21:27:58 CST)
- Re: use configure.options Anirban Ghosh (Mon Nov 17 2008 - 22:34:14 CST)
General question about the memory usage of VMD tinifcarter_at_gmail.com (Mon Nov 17 2008 - 11:48:00 CST)
- Re: General question about the memory usage of VMD Robert Brunner (Mon Nov 17 2008 - 14:42:45 CST)
- Re: General question about the memory usage of VMD Axel Kohlmeyer (Mon Nov 17 2008 - 14:31:02 CST)
- Re: General question about the memory usage of VMD John Stone (Mon Nov 24 2008 - 11:00:33 CST)
  - Re: General question about the memory usage of VMD gurunath katagi (Mon Jan 26 2009 - 03:10:56 CST)
how to run catdcd from within a proc Thomas Evangelidis (Mon Nov 17 2008 - 10:42:44 CST)
- Re: how to run catdcd from within a proc BIN ZHANG (Mon Nov 17 2008 - 11:25:32 CST)
- Re: how to run catdcd from within a proc Axel Kohlmeyer (Mon Nov 17 2008 - 12:48:52 CST)
Installation problems on openSUSE 10.3 Lawrence Wickert (Sat Nov 15 2008 - 20:22:44 CST)
(no subject) Lawrence Wickert (Sat Nov 15 2008 - 20:19:35 CST)
How to set the default properties of drawing methods? Heikki Kasnanen (Thu Nov 13 2008 - 08:39:43 CST)
- Re: How to set the default properties of drawing methods? John Stone (Thu Nov 13 2008 - 08:45:40 CST)
  - Re: How to set the default properties of drawing methods? no tengo nombre (Thu Nov 13 2008 - 11:55:11 CST)
combine.tcl error Jennifer Brookes (Thu Nov 13 2008 - 04:23:03 CST)
About Hydrogen bond calculation ÖÜÎÄ²ý (Thu Nov 13 2008 - 03:20:03 CST)
wavefront and VMD Sandro Canavezzi de Abreu (Wed Nov 12 2008 - 14:07:36 CST)
- Re: wavefront and VMD John Stone (Fri Nov 14 2008 - 15:46:51 CST)
  - Re: wavefront and VMD Sandro Canavezzi de Abreu (Mon Nov 17 2008 - 07:58:08 CST)
    - Re: wavefront and VMD Axel Kohlmeyer (Mon Nov 17 2008 - 09:12:55 CST)
    - Re: wavefront and VMD Sandro Canavezzi de Abreu (Mon Nov 17 2008 - 11:44:29 CST)
(no subject) Anirban Ghosh (Tue Nov 11 2008 - 07:17:04 CST)
- Re: Peter Freddolino (Tue Nov 11 2008 - 10:30:47 CST)
  - Re: Re: Anirban Ghosh (Tue Nov 11 2008 - 21:59:01 CST)
OpenGL Display max_at_liaad.up.pt (Tue Nov 11 2008 - 04:03:12 CST)
- Re: OpenGL Display John Stone (Tue Nov 11 2008 - 08:05:17 CST)
doubling a membrane Edward Lyman (Mon Nov 10 2008 - 16:42:13 CST)
- Re: doubling a membrane Peter Freddolino (Mon Nov 10 2008 - 17:29:24 CST)
  - Re: doubling a membrane Cesar Luis Avila (Tue Nov 11 2008 - 13:23:33 CST)
  - Re: doubling a membrane Cesar Luis Avila (Tue Nov 11 2008 - 18:44:07 CST)
fasta2pdb Roman Petrenko (Mon Nov 10 2008 - 14:33:24 CST)
- Re: fasta2pdb Eric H. Lee (Mon Nov 10 2008 - 15:16:00 CST)
  - Re: fasta2pdb Peter Freddolino (Mon Nov 10 2008 - 17:30:19 CST)
movie Abu Naser (Sun Nov 09 2008 - 11:06:20 CST)
- Re: movie Axel Kohlmeyer (Sun Nov 09 2008 - 11:56:35 CST)
usage for the patch 5DP (there is no information in the tutorial) OZGE ENGIN (Sat Nov 08 2008 - 03:17:41 CST)
usage for the pacth 5DP (there is no information in the tutorial) OZGE ENGIN (Sat Nov 08 2008 - 03:10:17 CST)
usage for the patch 5DP (there is no information in the tutorial) OZGE ENGIN (Fri Nov 07 2008 - 19:04:35 CST)
load MSMS files into vmd Prevost Martine (Fri Nov 07 2008 - 09:29:34 CST)
- Re: load MSMS files into vmd John Stone (Wed Nov 12 2008 - 09:57:39 CST)
  - Re: load MSMS files into vmd John Stone (Wed Nov 12 2008 - 13:51:23 CST)
Multiple incompatible definitions warning Subramanian Vaitheeswaran (Thu Nov 06 2008 - 11:25:01 CST)
- Re: Multiple incompatible definitions warning Peter Freddolino (Thu Nov 06 2008 - 12:04:06 CST)
RMSD error "Matrix: Warning: no convergence" Maria Sanchez (Thu Nov 06 2008 - 09:16:20 CST)
Sequentially numbering atom names in pdb file Subramanian Vaitheeswaran (Wed Nov 05 2008 - 14:29:24 CST)
- Re: Sequentially numbering atom names in pdb file Robert Brunner (Wed Nov 05 2008 - 16:02:54 CST)
- Re: Sequentially numbering atom names in pdb file Axel Kohlmeyer (Wed Nov 05 2008 - 16:24:57 CST)
CG Map Tool Syntax Error Anirban Ghosh (Wed Nov 05 2008 - 04:48:32 CST)
- Re: CG Map Tool Syntax Error Anton Arkhipov (Wed Nov 05 2008 - 16:16:59 CST)
B factor calculation AyÅŸe Ã–zlem Aykut (Tue Nov 04 2008 - 10:51:24 CST)
- RE: B factor calculation Aaron.Oakley_at_csiro.au (Tue Nov 04 2008 - 16:27:02 CST)
Average position of atom set Christopher Hartshorn (Tue Nov 04 2008 - 09:59:56 CST)
- Re: Average position of atom set Leonardo Trabuco (Tue Nov 04 2008 - 20:11:01 CST)
Psfgen : apply patches Nicolas Floquet (Tue Nov 04 2008 - 06:51:57 CST)
- Re: Psfgen : apply patches Peter Freddolino (Tue Nov 04 2008 - 07:16:07 CST)
conformations of a linker Edward Lyman (Fri Oct 31 2008 - 14:07:08 CDT)
- Re: conformations of a linker Peter Freddolino (Fri Oct 31 2008 - 14:37:34 CDT)
- Re: conformations of a linker Boris Steipe (Fri Oct 31 2008 - 16:39:17 CDT)
[Fwd: problems with manipulating control switches on VMS main menu] Piotr Cieplak (Fri Oct 31 2008 - 12:57:15 CDT)
- Re: [Fwd: problems with manipulating control switches on VMS main menu] Axel Kohlmeyer (Fri Oct 31 2008 - 18:05:46 CDT)
Per-frame 'graphics'? Benjamin Bouvier (Fri Oct 31 2008 - 10:46:03 CDT)
- Re: Per-frame 'graphics'? Rogan Carr (Fri Oct 31 2008 - 11:22:55 CDT)
  - Re: Per-frame 'graphics'? Benjamin Bouvier (Fri Oct 31 2008 - 13:36:24 CDT)
    - Re: Per-frame 'graphics'? Axel Kohlmeyer (Fri Oct 31 2008 - 16:59:44 CDT)
    - Re: Per-frame 'graphics'? John Stone (Sat Nov 01 2008 - 10:12:56 CDT)
VMD crashes on displaying NewRibbons or New Cartoon Jufang Shan (Fri Oct 31 2008 - 10:13:32 CDT)
- Re: VMD crashes on displaying NewRibbons or New Cartoon John Stone (Wed Nov 12 2008 - 09:35:13 CST)
  - Re: VMD crashes on displaying NewRibbons or New Cartoon Jufang Shan (Wed Nov 12 2008 - 20:48:17 CST)
    - Re: VMD crashes on displaying NewRibbons or New Cartoon John Stone (Thu Nov 13 2008 - 08:26:20 CST)
    - Re: VMD crashes on displaying NewRibbons or New Cartoon Thomas C. Bishop (Thu Nov 13 2008 - 08:20:50 CST)
Visualizing multiple molecules max_at_liaad.up.pt (Fri Oct 31 2008 - 07:26:00 CDT)
PMEpot units jirasak wong-ekkabut (Thu Oct 30 2008 - 15:10:05 CDT)
problems with manipulating control switches on VMS main menu Piotr Cieplak (Wed Oct 29 2008 - 19:52:24 CDT)
- Re: problems with manipulating control switches on VMS main menu John Stone (Thu Oct 30 2008 - 02:13:11 CDT)
Render surface colored by electrostatic potential Adam Kraut (Tue Oct 28 2008 - 13:27:52 CDT)
- Re: Render surface colored by electrostatic potential Axel Kohlmeyer (Tue Oct 28 2008 - 14:03:47 CDT)
isosurface question Raluca Mihaela ANDREI (Tue Oct 28 2008 - 12:48:14 CDT)
- Re: isosurface question John Stone (Wed Oct 29 2008 - 04:47:48 CDT)
move matrix definition Edward Lyman (Tue Oct 28 2008 - 11:39:42 CDT)
- Re: move matrix definition Axel Kohlmeyer (Tue Oct 28 2008 - 12:14:13 CDT)
Free Trial of New Toxicity Prediction Software (LD50, MRDD, side effects) is now available Maxim Kholin (Tue Oct 28 2008 - 09:00:25 CDT)
reading multiples molecules. no tengo nombre (Tue Oct 28 2008 - 05:05:19 CDT)
- Re: reading multiples molecules. Benjamin Bouvier (Tue Oct 28 2008 - 06:15:45 CDT)
  - Re: reading multiples molecules. no tengo nombre (Wed Oct 29 2008 - 05:26:09 CDT)
- Re: reading multiples molecules. Axel Kohlmeyer (Tue Oct 28 2008 - 09:20:54 CDT)
  - Re: reading multiples molecules. no tengo nombre (Wed Oct 29 2008 - 04:17:12 CDT)
A question about the namd energy plugin of VMD wayj86 wayj86 (Sun Oct 26 2008 - 08:58:21 CDT)
- Re: A question about the namd energy plugin of VMD Axel Kohlmeyer (Sun Oct 26 2008 - 13:12:06 CDT)
Camera in VMD!!! Iman Salehinia (Fri Oct 24 2008 - 23:10:35 CDT)
- Re: Camera in VMD!!! Schreiner Eduard (Sat Oct 25 2008 - 00:18:58 CDT)
Warning: no convergence in alignment Jianhui Tian (Fri Oct 24 2008 - 17:02:08 CDT)
- Re: Warning: no convergence in alignment Jianhui Tian (Mon Oct 27 2008 - 14:01:21 CDT)
  - Re: Warning: no convergence in alignment John Stone (Mon Oct 27 2008 - 16:35:37 CDT)
PBCtools verison 2.3: how to obtain it? mon_sharma_at_research.iiit.ac.in (Fri Oct 24 2008 - 09:19:37 CDT)
- Re: PBCtools verison 2.3: how to obtain it? Axel Kohlmeyer (Fri Oct 24 2008 - 10:32:16 CDT)
- Re: PBCtools verison 2.3: how to obtain it? Olaf Lenz (Sun Oct 26 2008 - 02:57:17 CDT)
advanced selections (or explicit pair list) for measure gofr ? Maxim Paliy (Fri Oct 24 2008 - 07:48:40 CDT)
- Re: advanced selections (or explicit pair list) for measure gofr ? Axel Kohlmeyer (Fri Oct 24 2008 - 10:31:13 CDT)
independent stereo display Petrica GASCA (Thu Oct 23 2008 - 11:39:07 CDT)
- Re: independent stereo display Axel Kohlmeyer (Thu Oct 23 2008 - 14:15:13 CDT)
create movie from multiple frames Petrica GASCA (Thu Oct 23 2008 - 08:25:17 CDT)
extraction of bound water molecules in a trajectory mon_sharma_at_research.iiit.ac.in (Thu Oct 23 2008 - 04:39:07 CDT)
- Re: extraction of bound water molecules in a trajectory Thomas C. Bishop (Thu Oct 23 2008 - 08:46:59 CDT)
change the radius of atoms Iman Salehinia (Wed Oct 22 2008 - 21:35:36 CDT)
- Re: change the radius of atoms Joaquim Rui Rodrigues (Thu Oct 23 2008 - 05:40:59 CDT)
Multiseq error: 'can't read 'SequenceIDtoMolID(122)': no such element in array' Perreault, Roger Edward (Wed Oct 22 2008 - 20:34:57 CDT)
- Re: Multiseq error: 'can't read 'SequenceIDtoMolID(122)': no such element in array' Elijah Roberts (Wed Oct 22 2008 - 22:24:11 CDT)
Re: A question about the plugin of salt bridge plugin Leonardo Trabuco (Wed Oct 22 2008 - 11:24:09 CDT)
dcd format JONATHAN BLACK (Wed Oct 22 2008 - 04:30:19 CDT)
- RE: dcd format Tibbitt, Jeffrey A. (Wed Oct 22 2008 - 11:56:30 CDT)
  - RE: dcd format Axel Kohlmeyer (Wed Oct 22 2008 - 12:49:56 CDT)
Extract parameters of Shape-based Coarse Graining model from AA simulation dongsheng lei (Wed Oct 22 2008 - 01:54:54 CDT)
- Re: Extract parameters of Shape-based Coarse Graining model from AA simulation Anton Arkhipov (Wed Oct 22 2008 - 10:28:02 CDT)
  - Re: Extract parameters of Shape-based Coarse Graining model from AA simulation dongsheng lei (Thu Oct 23 2008 - 04:46:50 CDT)
convert THR and SER to the phosphorylated forms bo baker (Tue Oct 21 2008 - 19:06:11 CDT)
- Re: convert THR and SER to the phosphorylated forms L. Michel Espinoza-Fonseca (Wed Oct 22 2008 - 04:01:01 CDT)
Querry dipti lele (Tue Oct 21 2008 - 08:42:18 CDT)
fitting structure to map generated by Volmap Tomek Wlodarski (Tue Oct 21 2008 - 07:55:09 CDT)
- Re: fitting structure to map generated by Volmap Axel Kohlmeyer (Tue Oct 21 2008 - 09:01:22 CDT)
  - Re: fitting structure to map generated by Volmap Tomek Wlodarski (Tue Oct 21 2008 - 14:46:15 CDT)
volmap Panagiota Georgoulia (Tue Oct 21 2008 - 06:17:51 CDT)
- Re: volmap Peter Freddolino (Tue Oct 21 2008 - 07:26:23 CDT)
  - volmap Panagiota Georgoulia (Tue Oct 21 2008 - 09:07:35 CDT)
    - Re: volmap Anton Arkhipov (Tue Oct 21 2008 - 10:43:40 CDT)
    - Re: volmap Peter Freddolino (Tue Oct 21 2008 - 10:57:44 CDT)
(no subject) JONATHAN BLACK (Tue Oct 21 2008 - 04:16:29 CDT)
- Re: Peter Freddolino (Tue Oct 21 2008 - 07:21:42 CDT)
Selecting some atoms and changing the color of them Iman Salehinia (Tue Oct 21 2008 - 01:55:03 CDT)
- Re: Selecting some atoms and changing the color of them Peter Freddolino (Tue Oct 21 2008 - 07:24:08 CDT)
animated gif Panagiota Georgoulia (Mon Oct 20 2008 - 06:37:32 CDT)
- Re: animated gif Peter Freddolino (Mon Oct 20 2008 - 07:01:18 CDT)
PSFGEN problem with URA residues Anirban Ghosh (Mon Oct 20 2008 - 06:27:06 CDT)
- Re: PSFGEN problem with URA residues Peter Freddolino (Mon Oct 20 2008 - 06:59:42 CDT)
  - Re: PSFGEN problem with URA residues Anirban Ghosh (Mon Oct 20 2008 - 08:30:49 CDT)
    - Re: PSFGEN problem with URA residues Peter Freddolino (Mon Oct 20 2008 - 09:04:03 CDT)
feature request Tamara Rogers (Sun Oct 19 2008 - 12:38:18 CDT)
- Re: feature request Axel Kohlmeyer (Sun Oct 19 2008 - 13:26:42 CDT)
Improving VMD performance on Linux? nbabcock_at_qis.ucalgary.ca (Sat Oct 18 2008 - 14:06:35 CDT)
- Re: Improving VMD performance on Linux? Benjamin Bouvier (Mon Oct 20 2008 - 06:05:26 CDT)
  - Re: Improving VMD performance on Linux? Leandro Martínez (Mon Oct 20 2008 - 07:22:08 CDT)
  - Re: Improving VMD performance on Linux? Olaf Lenz (Mon Oct 20 2008 - 07:37:58 CDT)
    - Re: Improving VMD performance on Linux? Olaf Lenz (Mon Oct 20 2008 - 07:57:28 CDT)
Out of town until November 1 John Stone (Thu Oct 16 2008 - 15:53:42 CDT)
Catdcd? Christopher Hartshorn (Thu Oct 16 2008 - 11:37:15 CDT)
- Re: Catdcd? Christopher Gillespie (Thu Oct 16 2008 - 12:25:42 CDT)
  - Re: Catdcd? Anirban Ghosh (Mon Oct 20 2008 - 06:31:25 CDT)
- Re: Catdcd? Axel Kohlmeyer (Thu Oct 16 2008 - 13:23:14 CDT)
  - Re: Catdcd? bo liu (Fri Oct 17 2008 - 00:01:59 CDT)
saving trajectories from the command line Jim Pfaendtner (Thu Oct 16 2008 - 07:28:00 CDT)
- Re: saving trajectories from the command line Axel Kohlmeyer (Thu Oct 16 2008 - 09:11:17 CDT)
Problem in text mode Wei Huang (Thu Oct 16 2008 - 00:25:07 CDT)
- Re: Problem in text mode Schreiner Eduard (Thu Oct 16 2008 - 00:41:25 CDT)
  - RE: Problem in text mode Wei Huang (Thu Oct 16 2008 - 00:58:55 CDT)
velocity calculations Ryan Pavlovicz (Wed Oct 15 2008 - 10:18:50 CDT)
- Re: velocity calculations John Stone (Wed Oct 15 2008 - 11:11:02 CDT)
- Re: velocity calculations Axel Kohlmeyer (Wed Oct 15 2008 - 11:20:33 CDT)
  - Re: velocity calculations John Stone (Wed Oct 15 2008 - 12:39:12 CDT)
    - Re: velocity calculations Suman Chakrabarty (Wed Oct 15 2008 - 15:40:04 CDT)
    - Re: velocity calculations John Stone (Wed Oct 15 2008 - 15:58:49 CDT)
Deleting frames / molecules does not free up memory! Benjamin Bouvier (Tue Oct 14 2008 - 10:26:55 CDT)
- Re: Deleting frames / molecules does not free up memory! Axel Kohlmeyer (Tue Oct 14 2008 - 11:13:11 CDT)
  - Re: Deleting frames / molecules does not free up memory! Benjamin Bouvier (Tue Oct 14 2008 - 11:34:44 CDT)
why atomselection "protein" can not choose all the protein atoms with different alternate locations? Lan Hua (Mon Oct 13 2008 - 16:49:07 CDT)
- Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? Axel Kohlmeyer (Mon Oct 13 2008 - 18:23:35 CDT)
- Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? John Stone (Tue Oct 14 2008 - 11:43:43 CDT)
  - Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? Lan Hua (Tue Oct 14 2008 - 11:55:14 CDT)
How to specify color based on dihedral angle? Suman Chakrabarty (Mon Oct 13 2008 - 13:09:53 CDT)
- Re: How to specify color based on dihedral angle? Axel Kohlmeyer (Mon Oct 13 2008 - 14:25:11 CDT)
Windows version: Loading/writing files Neelanjana Sengupta (Mon Oct 13 2008 - 07:53:41 CDT)
- Re: Windows version: Loading/writing files Alexander A. Vakhrushev (Mon Oct 13 2008 - 08:49:21 CDT)
  - Re: Windows version: Loading/writing files bo liu (Mon Oct 13 2008 - 09:50:41 CDT)
CHARMM TO AMBER FORMAT CONVERT Semorale (Sun Oct 12 2008 - 18:20:28 CDT)
- Re: CHARMM TO AMBER FORMAT CONVERT Axel Kohlmeyer (Sun Oct 12 2008 - 19:26:18 CDT)
Error in "measure fit" Stephen Hicks (Sat Oct 11 2008 - 15:05:45 CDT)
- Re: Error in "measure fit" John Stone (Thu Oct 16 2008 - 15:43:17 CDT)
Density distribution plots mahesh naalla (Fri Oct 10 2008 - 15:39:30 CDT)
- Re: Density distribution plots Axel Kohlmeyer (Fri Oct 10 2008 - 16:26:20 CDT)
STRIDE analysis of beta-sheets in VMD Tristan Bereau (Fri Oct 10 2008 - 15:28:33 CDT)
- Re: STRIDE analysis of beta-sheets in VMD Axel Kohlmeyer (Fri Oct 10 2008 - 16:50:59 CDT)
  - intersurf in vmd BIN ZHANG (Sat Oct 11 2008 - 14:58:14 CDT)
    - Re: intersurf in vmd Axel Kohlmeyer (Sat Oct 11 2008 - 18:44:10 CDT)
    - Re: intersurf in vmd John Stone (Tue Oct 14 2008 - 16:44:01 CDT)
Question about the Main Menu window display Alfredo Quevedo (Fri Oct 10 2008 - 14:15:47 CDT)
- Re: Question about the Main Menu window display Axel Kohlmeyer (Fri Oct 10 2008 - 14:47:28 CDT)
  - Re: Question about the Main Menu window display Alfredo Quevedo (Wed Oct 15 2008 - 13:31:58 CDT)
loading python Ryan Pavlovicz (Thu Oct 09 2008 - 15:21:15 CDT)
- Re: loading python Axel Kohlmeyer (Thu Oct 09 2008 - 16:31:13 CDT)
  - Re: loading python Ryan Pavlovicz (Thu Oct 09 2008 - 22:10:44 CDT)
    - Re: loading python Axel Kohlmeyer (Fri Oct 10 2008 - 11:37:28 CDT)
Density distribution plots mahesh naalla (Thu Oct 09 2008 - 13:28:31 CDT)
- Re: Density distribution plots Axel Kohlmeyer (Thu Oct 09 2008 - 14:14:57 CDT)
Povray render cuts litorice,bond,cpk representations schwarz_at_titus.u-strasbg.fr (Thu Oct 09 2008 - 05:14:20 CDT)
Fw: VMD 1.8.6 for UBUNTU 8.04LTS Mamta Mohan (Wed Oct 08 2008 - 20:21:11 CDT)
- Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS Axel Kohlmeyer (Wed Oct 08 2008 - 20:57:54 CDT)
  - Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS Alexander A. Vakhrushev (Wed Oct 08 2008 - 23:37:06 CDT)
    - Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS Mamta Mohan (Thu Oct 09 2008 - 10:55:29 CDT)
pbctools usage Subramanian Vaitheeswaran (Wed Oct 08 2008 - 08:21:10 CDT)
- Re: pbctools usage Axel Kohlmeyer (Wed Oct 08 2008 - 10:23:44 CDT)
How to visualize only parts of a molecular surface schwarz (Wed Oct 08 2008 - 08:11:47 CDT)
- Re: How to visualize only parts of a molecular surface John Stone (Wed Oct 08 2008 - 13:51:19 CDT)
Fullscreen mode in VMD Alexandr Bezginov (Tue Oct 07 2008 - 12:34:59 CDT)
- Re: Fullscreen mode in VMD John Stone (Tue Oct 07 2008 - 12:53:07 CDT)
Vmd on MACOSX awkward msg at startup and error when running Ubq simulation Montoya, Jesus Gerardo Galaz (Mon Oct 06 2008 - 14:58:39 CDT)
- Re: Vmd on MACOSX awkward msg at startup and error when running Ubq simulation John Stone (Mon Oct 06 2008 - 15:57:08 CDT)
lipid tail selection BIN ZHANG (Sun Oct 05 2008 - 01:16:45 CDT)
- Re: lipid tail selection Axel Kohlmeyer (Mon Oct 06 2008 - 09:18:15 CDT)
- Re: lipid tail selection Danielle Chandler (Thu Oct 09 2008 - 14:30:37 CDT)
VMD 1.8.6 for UBUNTU 8.04LTS Mamta Mohan (Fri Oct 03 2008 - 14:03:28 CDT)
- Re: VMD 1.8.6 for UBUNTU 8.04LTS John Stone (Fri Oct 03 2008 - 14:15:18 CDT)
Pairwise RMSD Dong Xu (Fri Oct 03 2008 - 10:10:16 CDT)
- Re: Pairwise RMSD John Stone (Tue Oct 07 2008 - 13:20:12 CDT)
  - Re: Pairwise RMSD Elijah Roberts (Tue Oct 07 2008 - 15:13:16 CDT)
Re: Problems after installation (ubuntu 8.04) Alexander A. Vakhrushev (Fri Oct 03 2008 - 08:43:39 CDT)
- Re: Problems after installation (ubuntu 8.04) John Stone (Fri Oct 03 2008 - 09:49:22 CDT)
  - Re: Problems after installation (ubuntu 8.04) Tomek Wlodarski (Fri Oct 03 2008 - 16:23:41 CDT)
- Re: Problems after installation (ubuntu 8.04) Anirban Ghosh (Sat Oct 04 2008 - 13:04:09 CDT)
Problems after installation (ubuntu 8.04) Tomek Wlodarski (Fri Oct 03 2008 - 07:23:25 CDT)
Problem with creating psf file from structure made by inorganic builder Anneta Tzampazi (Fri Oct 03 2008 - 04:43:19 CDT)
TAB key in vmd terminal BIN ZHANG (Thu Oct 02 2008 - 23:32:00 CDT)
- Re: TAB key in vmd terminal John Stone (Fri Oct 03 2008 - 11:16:26 CDT)
suggested graphic card for Mac Pro Joaquim Rui Rodrigues (Thu Oct 02 2008 - 12:09:32 CDT)
- Re: suggested graphic card for Mac Pro John Stone (Thu Oct 02 2008 - 12:22:39 CDT)
volumetric maps markus.mooslechner_at_chello.at (Thu Oct 02 2008 - 07:18:38 CDT)
volumetric maps markus.mooslechner_at_chello.at (Thu Oct 02 2008 - 07:08:11 CDT)
- Re: volumetric maps Axel Kohlmeyer (Thu Oct 02 2008 - 10:57:45 CDT)
- Re: volumetric maps John Stone (Thu Oct 02 2008 - 12:05:19 CDT)
  - AW: volumetric maps markus.mooslechner_at_orf.at (Fri Oct 03 2008 - 05:11:50 CDT)
Does VMD support cfg file format? zhjjvmd (Wed Oct 01 2008 - 03:52:32 CDT)
- Re: Does VMD support cfg file format? John Stone (Wed Oct 01 2008 - 11:03:05 CDT)
  - Re: Re: Does VMD support cfg file format? zhjjvmd (Wed Oct 01 2008 - 12:00:33 CDT)
- Re: Re: Does VMD support cfg file format? zhjjvmd (Wed Oct 01 2008 - 11:58:06 CDT)
  - Re: Re: Does VMD support cfg file format? John Stone (Wed Oct 01 2008 - 12:57:19 CDT)
atom type Rudra Banerjee (Tue Sep 30 2008 - 23:28:58 CDT)
- Re: atom type Boris Steipe (Wed Oct 01 2008 - 11:37:48 CDT)
  - Re: atom type Rudra Banerjee (Thu Oct 02 2008 - 12:14:25 CDT)
    - Re: atom type Axel Kohlmeyer (Thu Oct 02 2008 - 13:16:47 CDT)
  - Re: atom type Rudra Banerjee (Thu Oct 02 2008 - 22:57:47 CDT)
    - Re: atom type bo liu (Fri Oct 03 2008 - 06:51:22 CDT)
water box Rudra Banerjee (Tue Sep 30 2008 - 03:48:37 CDT)
- Re: water box Alexander A. Vakhrushev (Tue Sep 30 2008 - 04:55:46 CDT)
periodic box image in tcl script Brian Kidd (Mon Sep 29 2008 - 11:27:39 CDT)
- Re: periodic box image in tcl script John Stone (Tue Oct 07 2008 - 13:22:02 CDT)
question about sscache qwang_at_mail.uh.edu (Sun Sep 28 2008 - 19:33:02 CDT)
(no subject) studier_at_life.illinois.edu (Sat Sep 27 2008 - 16:22:10 CDT)
- Re: Axel Kohlmeyer (Sun Sep 28 2008 - 13:15:18 CDT)
question about sscache qwang_at_mail.uh.edu (Fri Sep 26 2008 - 14:00:07 CDT)
- Re: question about sscache Alexander A. Vakhrushev (Fri Sep 26 2008 - 22:41:50 CDT)
  - Re: question about sscache Margaret S. Cheung (Sun Sep 28 2008 - 21:04:56 CDT)
    - Re: question about sscache John Stone (Mon Sep 29 2008 - 10:03:46 CDT)
    - Re: question about sscache qwang_at_mail.uh.edu (Mon Sep 29 2008 - 11:44:35 CDT)
visualisation problem with bonds and PBC Jennifer Williams (Fri Sep 26 2008 - 09:32:42 CDT)
- Re: visualisation problem with bonds and PBC Axel Kohlmeyer (Fri Sep 26 2008 - 11:46:39 CDT)
Atoms numbers in VMD Nd S (Thu Sep 25 2008 - 14:07:30 CDT)
- Re: Atoms numbers in VMD Leandro Martínez (Thu Sep 25 2008 - 14:56:01 CDT)
Creating a cuboid box to fit in atoms Ananyo Bandyopadhyay (Thu Sep 25 2008 - 13:29:15 CDT)
- Re: Creating a cuboid box to fit in atoms Leandro Martínez (Thu Sep 25 2008 - 14:51:00 CDT)
Re: psf file generation: once again Rudra Banerjee (Wed Sep 24 2008 - 23:11:04 CDT)
- Re: psf file generation: once again Rudra Banerjee (Wed Sep 24 2008 - 23:42:22 CDT)
  - Re: psf file generation: once again Peter Freddolino (Thu Sep 25 2008 - 08:12:34 CDT)
psf file generation: once again Rudra Banerjee (Wed Sep 24 2008 - 22:45:49 CDT)
- Re: psf file generation: once again Peter Freddolino (Wed Sep 24 2008 - 23:01:48 CDT)
How to render an image like this one with VMD? Dong Xu (Wed Sep 24 2008 - 20:58:12 CDT)
- Re: How to render an image like this one with VMD? Peter Freddolino (Wed Sep 24 2008 - 21:49:25 CDT)
  - Re: How to render an image like this one with VMD? Anton Arkhipov (Thu Sep 25 2008 - 11:29:20 CDT)
water residence time L. Michel Espinoza-Fonseca (Wed Sep 24 2008 - 15:56:53 CDT)
Re: Help, my molecule is being destroyed John Stone (Wed Sep 24 2008 - 15:46:14 CDT)
Movie maker problem in VMD Ananyo Bandyopadhyay (Wed Sep 24 2008 - 11:11:14 CDT)
- Re: Movie maker problem in VMD L. Michel Espinoza-Fonseca (Wed Sep 24 2008 - 11:56:11 CDT)
weird behavior with RMSD Irene Newhouse (Tue Sep 23 2008 - 16:21:02 CDT)
viewing an embryo markt_at_mskcc.org (Tue Sep 23 2008 - 14:04:41 CDT)
- Re: viewing an embryo Anton Arkhipov (Tue Sep 23 2008 - 14:37:15 CDT)
  - RE: viewing an embryo markt_at_mskcc.org (Tue Sep 23 2008 - 14:54:19 CDT)
    - Re: viewing an embryo Anton Arkhipov (Tue Sep 23 2008 - 15:03:01 CDT)
  - Re: viewing an embryo Axel Kohlmeyer (Tue Sep 23 2008 - 15:10:02 CDT)
- Re: viewing an embryo Leandro Martínez (Tue Sep 23 2008 - 14:48:30 CDT)
Re: namd-l: solvate a molecule Chang, Christopher (Tue Sep 23 2008 - 11:57:58 CDT)
- Re: namd-l: solvate a molecule Rudra Banerjee (Tue Sep 23 2008 - 22:32:53 CDT)
Periodic BC Nd S (Mon Sep 22 2008 - 15:26:20 CDT)
- Re: Periodic BC Olaf Lenz (Tue Sep 23 2008 - 02:47:30 CDT)
solvate a molecule Rudra Banerjee (Sat Sep 20 2008 - 01:08:03 CDT)
- Re: solvate a molecule John Stone (Sat Sep 20 2008 - 02:12:59 CDT)
rotation around phi/psi Roman Petrenko (Fri Sep 19 2008 - 21:05:24 CDT)
- Re: rotation around phi/psi John Stone (Sat Sep 20 2008 - 02:05:49 CDT)
  - Re: rotation around phi/psi Roman Petrenko (Sun Sep 21 2008 - 14:46:00 CDT)
Solvation Box Navdeep (Fri Sep 19 2008 - 16:43:25 CDT)
- Re: Solvation Box Robert Brunner (Tue Sep 23 2008 - 11:32:42 CDT)
  - Re: Solvation Box Leandro Martínez (Tue Sep 23 2008 - 13:20:52 CDT)
Projection of a vector on to another. Katherine Parra (Fri Sep 19 2008 - 13:56:01 CDT)
- Re: Projection of a vector on to another. bo liu (Fri Sep 19 2008 - 23:03:42 CDT)
- Re: Projection of a vector on to another. John Stone (Sat Sep 20 2008 - 02:11:41 CDT)
  - Re: Projection of a vector on to another. bo liu (Sat Sep 20 2008 - 06:09:46 CDT)
running simulation on dual core processor Mamta Mohan (Fri Sep 19 2008 - 10:44:27 CDT)
- Re: running simulation on dual core processor JC Gumbart (Fri Sep 19 2008 - 13:50:27 CDT)
Restarting a simulation $ Langevin Anirban Ghosh (Fri Sep 19 2008 - 07:17:12 CDT)
- Re: Restarting a simulation $ Langevin John Stone (Sat Sep 20 2008 - 02:20:34 CDT)
difficulty in installing VMD on linux. Deepti Mishra (Fri Sep 19 2008 - 05:47:18 CDT)
- Re: difficulty in installing VMD on linux. John Stone (Fri Sep 19 2008 - 15:11:32 CDT)
trouble with running vmd after installation , machine gets hung shiladitya_at_jncasr.ac.in (Fri Sep 19 2008 - 04:30:01 CDT)
- Re: trouble with running vmd after installation , machine gets hung Axel Kohlmeyer (Fri Sep 19 2008 - 06:05:42 CDT)
  - Re: trouble with running vmd after installation , machine gets hung shiladitya_at_jncasr.ac.in (Sat Sep 20 2008 - 23:14:50 CDT)
Error generating psf files Nd S (Thu Sep 18 2008 - 18:55:28 CDT)
- Re: Error generating psf files Peter Freddolino (Thu Sep 18 2008 - 20:18:14 CDT)
  - Re: Error generating psf files Nd S (Thu Sep 18 2008 - 22:05:07 CDT)
Solid Support Problem Christopher Hartshorn (Thu Sep 18 2008 - 13:33:07 CDT)
- Re: Solid Support Problem Peter Freddolino (Thu Sep 18 2008 - 22:10:46 CDT)
Fw: warning during psfgen file Mamta Mohan (Thu Sep 18 2008 - 13:08:29 CDT)
warning during psfgen file Mamta Mohan (Thu Sep 18 2008 - 10:11:33 CDT)
counting gas molecules inside the nanotube mishacat_at_udm.ru (Thu Sep 18 2008 - 06:52:51 CDT)
- Re: counting gas molecules inside the nanotube John Stone (Thu Sep 18 2008 - 11:18:43 CDT)
  - Re: counting gas molecules inside the nanotube Alexander A. Vakhrushev (Thu Sep 18 2008 - 12:11:04 CDT)
    - Re: counting gas molecules inside the nanotube John Stone (Thu Sep 18 2008 - 12:29:34 CDT)
    - Re: namd-l: Re: counting gas molecules inside the nanotube bo liu (Fri Sep 19 2008 - 11:38:19 CDT)
Trouble installing VMD on LINUX machine Gregor Kladnik (Thu Sep 18 2008 - 06:43:14 CDT)
- Re: Trouble installing VMD on LINUX machine John Stone (Thu Sep 18 2008 - 11:06:45 CDT)
  - Re: Trouble installing VMD on LINUX machine SOLVED Gregor Kladnik (Thu Sep 18 2008 - 11:18:40 CDT)
Re: problem with psf file generation Rudra Banerjee (Thu Sep 18 2008 - 03:29:07 CDT)
psfgen problem Rudra Banerjee (Thu Sep 18 2008 - 01:45:55 CDT)
- Re: psfgen problem Peter Freddolino (Thu Sep 18 2008 - 07:18:15 CDT)
  - Re: psfgen problem Rudra Banerjee (Thu Sep 18 2008 - 09:34:14 CDT)
    - Re: psfgen problem L. Michel Espinoza-Fonseca (Thu Sep 18 2008 - 10:13:55 CDT)
  - Re: psfgen problem Rudra Banerjee (Thu Sep 18 2008 - 21:48:08 CDT)
problem with psf file generation Rudra Banerjee (Thu Sep 18 2008 - 01:12:44 CDT)
apbs electrostatics James Haven (Wed Sep 17 2008 - 15:15:08 CDT)
- Re: apbs electrostatics John Stone (Wed Sep 17 2008 - 21:42:28 CDT)
solvation Mamta Mohan (Wed Sep 17 2008 - 13:28:55 CDT)
- Re: solvation John Stone (Wed Sep 17 2008 - 21:46:39 CDT)
simulation image question Mamta Mohan (Wed Sep 17 2008 - 12:42:34 CDT)
- Re: simulation image question John Stone (Wed Sep 17 2008 - 12:57:37 CDT)
problem downloading VMD 1.8.6 source code Lai, Massimo (Wed Sep 17 2008 - 09:59:40 CDT)
- Re: problem downloading VMD 1.8.6 source code John Stone (Wed Sep 17 2008 - 10:40:41 CDT)
  - RE: problem downloading VMD 1.8.6 source code Lai, Massimo (Thu Sep 18 2008 - 04:21:38 CDT)
Interface Propensity bo baker (Wed Sep 17 2008 - 05:56:20 CDT)
- Re: Interface Propensity John Stone (Wed Sep 17 2008 - 21:53:13 CDT)
regarding rotating dihedral jani sahil (Tue Sep 16 2008 - 22:26:17 CDT)
- Re: regarding rotating dihedral John Stone (Wed Sep 17 2008 - 21:58:14 CDT)
  - Re: regarding rotating dihedral Peter Freddolino (Wed Sep 17 2008 - 22:39:40 CDT)
Installing VMD on Fedora Neelanjana Sengupta (Tue Sep 16 2008 - 08:25:54 CDT)
- Re: Installing VMD on Fedora John Stone (Tue Sep 16 2008 - 10:58:40 CDT)
  - Re: Installing VMD on Fedora Neelanjana Sengupta (Wed Sep 17 2008 - 03:32:02 CDT)
    - Re: Installing VMD on Fedora Peter Freddolino (Wed Sep 17 2008 - 07:18:07 CDT)
parallel VMD Benjamin Stauch (Tue Sep 16 2008 - 07:47:16 CDT)
- Re: parallel VMD John Stone (Tue Sep 16 2008 - 13:35:03 CDT)
electrostatic potential Raluca Mihaela ANDREI (Tue Sep 16 2008 - 03:28:02 CDT)
- Re: electrostatic potential John Stone (Tue Sep 16 2008 - 11:01:18 CDT)
  - Re: electrostatic potential Raluca Mihaela ANDREI (Thu Sep 18 2008 - 07:33:00 CDT)
extract centers et radii of beads model Matthieu Chavent (Mon Sep 15 2008 - 13:25:13 CDT)
- Re: extract centers et radii of beads model John Stone (Mon Sep 15 2008 - 16:11:20 CDT)
Fwd: ACS awards John Stone (Mon Sep 15 2008 - 12:53:34 CDT)
Tachyon render and Tcl scripting Shay Amram (Mon Sep 15 2008 - 11:42:00 CDT)
- Re: Tachyon render and Tcl scripting John Stone (Tue Sep 16 2008 - 14:00:06 CDT)
How to ionize a Shape Based CG Model? Anirban Ghosh (Mon Sep 15 2008 - 08:09:07 CDT)
- Re: How to ionize a Shape Based CG Model? Anton Arkhipov (Mon Sep 15 2008 - 09:10:04 CDT)
  - Re: How to ionize a Shape Based CG Model? L. Michel Espinoza-Fonseca (Mon Sep 15 2008 - 10:02:27 CDT)
    - Re: How to ionize a Shape Based CG Model? Anton Arkhipov (Mon Sep 15 2008 - 10:15:23 CDT)
    - Re: How to ionize a Shape Based CG Model? Peter Freddolino (Mon Sep 15 2008 - 10:21:44 CDT)
Alias histidine residue Rabab Toubar (Fri Sep 12 2008 - 23:31:47 CDT)
- Re: Alias histidine residue Axel Kohlmeyer (Sat Sep 13 2008 - 09:09:31 CDT)
  - Re: Alias histidine residue Roman Petrenko (Sat Sep 13 2008 - 22:04:46 CDT)
    - Re: Alias histidine residue Roman Petrenko (Sat Sep 13 2008 - 22:07:46 CDT)
a VMD script similar to "Rahmachandran plot' applicable to nucleic acids ? Maxim Paliy (Fri Sep 12 2008 - 19:14:04 CDT)
problems with VMD under linux/64-bit machine Irene Newhouse (Fri Sep 12 2008 - 15:17:56 CDT)
- Re: problems with VMD under linux/64-bit machine John Stone (Fri Sep 12 2008 - 16:03:48 CDT)
How to use Inorganic Builder Nd S (Fri Sep 12 2008 - 03:19:12 CDT)
- Re: How to use Inorganic Builder Robert Brunner (Fri Sep 12 2008 - 10:19:45 CDT)
Rendering problem lillestolen (Thu Sep 11 2008 - 14:16:29 CDT)
- Re: Rendering problem Axel Kohlmeyer (Fri Sep 12 2008 - 01:25:43 CDT)
- Re: Rendering problem John Stone (Fri Sep 12 2008 - 11:27:01 CDT)
Calculating the torsion angles in nucleic acids mon_sharma_at_research.iiit.ac.in (Thu Sep 11 2008 - 06:40:54 CDT)
- Re: Calculating the torsion angles in nucleic acids Peter Freddolino (Thu Sep 11 2008 - 08:52:36 CDT)
Measure hbonds equivalent in Python interface? Chang, Christopher (Wed Sep 10 2008 - 18:52:43 CDT)
Volume slice: slice color pontes_at_if.usp.br (Wed Sep 10 2008 - 10:31:55 CDT)
- Re: Volume slice: slice color John Stone (Wed Sep 10 2008 - 14:07:04 CDT)
  - Volume slice-I: slice color pontes_at_if.usp.br (Thu Sep 11 2008 - 07:22:07 CDT)
    - Re: Volume slice-I: slice color John Stone (Thu Sep 11 2008 - 11:06:03 CDT)
long bonds Marcelo Carignano (Wed Sep 10 2008 - 07:35:36 CDT)
- Re: long bonds Axel Kohlmeyer (Wed Sep 10 2008 - 10:23:18 CDT)
problems with autopsf & psfgen Irene Newhouse (Tue Sep 09 2008 - 13:50:10 CDT)
- psfgen - loss of disulfide bonds Rabab Toubar (Thu Sep 11 2008 - 21:35:53 CDT)
  - Re: psfgen - loss of disulfide bonds Roman Petrenko (Thu Sep 11 2008 - 22:50:34 CDT)
  - Re: psfgen - loss of disulfide bonds Peter Freddolino (Thu Sep 11 2008 - 22:33:18 CDT)
- Re: problems with autopsf & psfgen JC Gumbart (Fri Sep 12 2008 - 02:51:03 CDT)
How to generate more segments? mishacat_at_udm.ru (Tue Sep 09 2008 - 01:30:05 CDT)
- Re: How to generate more segments? John Stone (Tue Sep 09 2008 - 01:46:41 CDT)
Extensions menu is blank Janet Jacobsen (Mon Sep 08 2008 - 18:46:07 CDT)
- Re: Extensions menu is blank John Stone (Tue Sep 09 2008 - 10:52:00 CDT)
  - Re: Extensions menu is blank Janet Jacobsen (Tue Sep 09 2008 - 12:07:24 CDT)
saving charges snoze pa (Mon Sep 08 2008 - 12:14:15 CDT)
- Re: saving charges Axel Kohlmeyer (Mon Sep 08 2008 - 14:13:46 CDT)
feedback on pc-over-ip technology? Tru Huynh (Mon Sep 08 2008 - 10:40:24 CDT)
- Re: feedback on pc-over-ip technology? John Stone (Mon Sep 08 2008 - 11:07:09 CDT)
Concerning protein rotation Anneta Tzampazi (Mon Sep 08 2008 - 05:22:40 CDT)
- Re: Concerning protein rotation John Stone (Mon Sep 08 2008 - 11:25:47 CDT)
Superimposition: atomselect for reverse topology guillaume.santini_at_free.fr (Sat Sep 06 2008 - 09:34:52 CDT)
- Re: Superimposition: atomselect for reverse topology Axel Kohlmeyer (Sun Sep 07 2008 - 14:09:44 CDT)
  - Re: Superimposition: atomselect for reverse topology John Stone (Mon Sep 08 2008 - 11:16:37 CDT)
generate psf structure Rudra Banerjee (Sat Sep 06 2008 - 04:15:25 CDT)
- Re: generate psf structure Axel Kohlmeyer (Sun Sep 07 2008 - 13:50:39 CDT)
how to draw the bonds in VMD? Alfred Shaohui Zheng (Sat Sep 06 2008 - 03:07:16 CDT)
- Re: how to draw the bonds in VMD? Axel Kohlmeyer (Sun Sep 07 2008 - 13:41:30 CDT)
Protein coordinate rotation ianboru_at_email.arizona.edu (Fri Sep 05 2008 - 12:40:48 CDT)
- Re: Protein coordinate rotation John Stone (Fri Sep 05 2008 - 13:07:55 CDT)
Running without interface Emily Moore (Thu Sep 04 2008 - 11:29:02 CDT)
- Re: Running without interface Axel Kohlmeyer (Thu Sep 04 2008 - 12:06:44 CDT)
DIHE in topology file politr_at_huji.ac.il (Thu Sep 04 2008 - 02:31:52 CDT)
- Re: DIHE in topology file Peter Freddolino (Thu Sep 04 2008 - 07:51:51 CDT)
CONECT Records in .pdb file - bonds not getting plotted Paul T. Bauman (Wed Sep 03 2008 - 10:42:10 CDT)
- Re: CONECT Records in .pdb file - bonds not getting plotted Paul T. Bauman (Wed Sep 03 2008 - 11:53:37 CDT)
  - Re: Re: CONECT Records in .pdb file - bonds not getting plotted John Stone (Wed Sep 03 2008 - 14:01:23 CDT)
newbie issues markus mooslechner (Tue Sep 02 2008 - 13:39:19 CDT)
- Re: newbie issues Axel Kohlmeyer (Tue Sep 02 2008 - 14:10:19 CDT)
pbc join Edward Lyman (Tue Sep 02 2008 - 13:34:46 CDT)
- Re: pbc join Olaf Lenz (Tue Sep 02 2008 - 14:14:17 CDT)
Is position dependent color possible? Suman Chakrabarty (Tue Sep 02 2008 - 12:17:59 CDT)
- Re: Is position dependent color possible? John Stone (Tue Sep 02 2008 - 12:28:06 CDT)
  - Re: Is position dependent color possible? Suman Chakrabarty (Tue Sep 02 2008 - 13:27:02 CDT)
  - Re: Is position dependent color possible? Suman Chakrabarty (Tue Sep 02 2008 - 14:02:55 CDT)
Merge psf and pdb max_at_liaad.up.pt (Tue Sep 02 2008 - 04:28:53 CDT)
- Re: Merge psf and pdb Axel Kohlmeyer (Tue Sep 02 2008 - 08:15:39 CDT)
  - Re: Merge psf and pdb bo liu (Tue Sep 02 2008 - 10:02:26 CDT)
Py_atomsel.C: invalid conversion Chang, Christopher (Fri Aug 29 2008 - 13:01:04 CDT)
- Re: Py_atomsel.C: invalid conversion John Stone (Fri Aug 29 2008 - 13:05:06 CDT)
  - Re: Py_atomsel.C: invalid conversion Chang, Christopher (Tue Sep 02 2008 - 13:59:12 CDT)
algorithm for finding center of mass of the side chains in the protein aneesh cna (Fri Aug 29 2008 - 07:26:26 CDT)
- Re: algorithm for finding center of mass of the side chains in the protein Ramya Gamini (Fri Aug 29 2008 - 14:28:15 CDT)
Calculating pocket volume ben rodriguez (Thu Aug 28 2008 - 16:37:55 CDT)
- Re: Calculating pocket volume Peter Freddolino (Thu Aug 28 2008 - 17:27:44 CDT)
TXT program editor Alejandro Ortega (Thu Aug 28 2008 - 14:43:14 CDT)
- Re: TXT program editor Peter Freddolino (Thu Aug 28 2008 - 15:06:53 CDT)
  - Re: TXT program editor Emily Moore (Thu Aug 28 2008 - 17:09:42 CDT)
- Re: TXT program editor Axel Kohlmeyer (Thu Aug 28 2008 - 15:50:21 CDT)
- Re: TXT program editor Sabuj Pattanayek (Thu Aug 28 2008 - 17:03:11 CDT)
- Re: namd-l: TXT program editor Giovanni Bellesia (Thu Aug 28 2008 - 16:21:03 CDT)
diffusion coefficient from rmsd Rudra Banerjee (Wed Aug 27 2008 - 21:55:28 CDT)
- Re: namd-l: diffusion coefficient from rmsd Axel Kohlmeyer (Wed Aug 27 2008 - 22:39:52 CDT)
  - Re: namd-l: diffusion coefficient from rmsd bo liu (Thu Aug 28 2008 - 01:38:38 CDT)
HOLE PROGRAM Semorale (Wed Aug 27 2008 - 18:23:10 CDT)
- Re: HOLE PROGRAM John Stone (Fri Aug 29 2008 - 02:08:14 CDT)
catDCD Robert Fenwick (Wed Aug 27 2008 - 08:01:38 CDT)
- Re: catDCD John Stone (Wed Aug 27 2008 - 11:58:58 CDT)
  - Re: catDCD Robert Fenwick (Wed Aug 27 2008 - 12:16:14 CDT)
- Re: catDCD Peter Freddolino (Wed Aug 27 2008 - 22:04:10 CDT)
- Re: catDCD John Stone (Fri Aug 29 2008 - 01:45:45 CDT)
segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 Chris Berthiaume (Mon Aug 25 2008 - 20:50:12 CDT)
- Re: segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 John Stone (Mon Aug 25 2008 - 22:45:15 CDT)
  - Re: segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 Chris Berthiaume (Tue Aug 26 2008 - 12:23:11 CDT)
Failure to open PDB files hzf101_at_psu.edu (Mon Aug 25 2008 - 13:12:52 CDT)
- Re: Failure to open PDB files Axel Kohlmeyer (Mon Aug 25 2008 - 14:52:38 CDT)
resid of water that is hydrogen bonded nahren manuel (Mon Aug 25 2008 - 07:35:22 CDT)
- Re: resid of water that is hydrogen bonded Axel Kohlmeyer (Mon Aug 25 2008 - 14:56:41 CDT)
  - again :resid of water that is H bonded nahren manuel (Mon Aug 25 2008 - 21:55:40 CDT)
measure gofr - how is g(r) normalised? Maxim Paliy (Mon Aug 25 2008 - 05:07:37 CDT)
- Re: measure gofr - how is g(r) normalised? Axel Kohlmeyer (Mon Aug 25 2008 - 15:14:35 CDT)
Python callbacks in VMD James E. Magee (Wed Aug 20 2008 - 06:41:52 CDT)
- Re: Python callbacks in VMD John Stone (Wed Aug 20 2008 - 22:59:53 CDT)
Inorganic Builder Plugin max_at_liaad.up.pt (Wed Aug 20 2008 - 04:57:09 CDT)
- Re: Inorganic Builder Plugin John Stone (Wed Aug 20 2008 - 23:01:45 CDT)
- Re: Inorganic Builder Plugin Robert Brunner (Thu Aug 21 2008 - 08:31:19 CDT)
Trouble updating frames in script Emily Moore (Tue Aug 19 2008 - 12:21:11 CDT)
- Re: Trouble updating frames in script Axel Kohlmeyer (Tue Aug 19 2008 - 13:06:44 CDT)
  - Re: Trouble updating frames in script Emily Moore (Tue Aug 19 2008 - 14:23:29 CDT)
    - Re: Trouble updating frames in script Axel Kohlmeyer (Tue Aug 19 2008 - 15:14:42 CDT)
how to call dssp in a script Yuan Feng (Sun Aug 17 2008 - 18:51:56 CDT)
- Re: how to call dssp in a script John Stone (Mon Aug 18 2008 - 11:17:44 CDT)
- Re: how to call dssp in a script Axel Kohlmeyer (Mon Aug 18 2008 - 10:42:14 CDT)
Question about trace vmd_frame(molid) Oren Elrad (Fri Aug 15 2008 - 11:33:02 CDT)
- Re: Question about trace vmd_frame(molid) Axel Kohlmeyer (Fri Aug 15 2008 - 12:12:03 CDT)
  - Re: Question about trace vmd_frame(molid) Oren Elrad (Fri Aug 15 2008 - 13:24:25 CDT)
    - Re: Question about trace vmd_frame(molid) Axel Kohlmeyer (Fri Aug 15 2008 - 13:55:54 CDT)
RMSD SCRIPT Semorale (Fri Aug 15 2008 - 05:12:11 CDT)
- Re: RMSD SCRIPT John Stone (Tue Aug 19 2008 - 01:01:07 CDT)
LAMMPS Trajectory Bond Specification nicholas lee (Thu Aug 14 2008 - 14:25:07 CDT)
- Re: LAMMPS Trajectory Bond Specification Nazanin Samadi (Thu Aug 14 2008 - 15:24:45 CDT)
- Re: LAMMPS Trajectory Bond Specification Axel Kohlmeyer (Thu Aug 14 2008 - 16:24:13 CDT)
axes Nazanin Samadi (Wed Aug 13 2008 - 14:21:06 CDT)
- Re: axes John Stone (Tue Aug 19 2008 - 00:54:31 CDT)
renumbering residues Roman Petrenko (Wed Aug 13 2008 - 13:50:44 CDT)
- Re: renumbering residues John Stone (Wed Aug 13 2008 - 18:00:59 CDT)
label all residues Roman Petrenko (Wed Aug 13 2008 - 10:09:17 CDT)
- Re: label all residues Peter Freddolino (Wed Aug 13 2008 - 10:29:20 CDT)
catDCD- convert DCD format Semorale (Tue Aug 12 2008 - 16:10:27 CDT)
- Re: catDCD- convert DCD format John Stone (Wed Aug 13 2008 - 10:58:21 CDT)
protein-water hydrogen bonds Roman Petrenko (Tue Aug 12 2008 - 10:05:46 CDT)
- Re: protein-water hydrogen bonds Axel Kohlmeyer (Tue Aug 12 2008 - 10:37:45 CDT)
  - Re: protein-water hydrogen bonds Roman Petrenko (Tue Aug 12 2008 - 10:52:32 CDT)
    - Re: protein-water hydrogen bonds Axel Kohlmeyer (Tue Aug 12 2008 - 10:53:35 CDT)
rmsd Shadi Mirzae (Mon Aug 11 2008 - 13:52:14 CDT)
- Re: rmsd John Stone (Tue Aug 19 2008 - 01:02:57 CDT)
problem controlling orientation of the simulation box drawn by pbctools shiladitya_at_jncasr.ac.in (Sun Aug 10 2008 - 10:52:54 CDT)
- Re: problem controlling orientation of the simulation box drawn by pbctools Axel Kohlmeyer (Sun Aug 10 2008 - 11:11:34 CDT)
save selected residues bo baker (Sun Aug 10 2008 - 06:04:37 CDT)
- Re: save selected residues Axel Kohlmeyer (Sun Aug 10 2008 - 09:48:15 CDT)
  - Re: save selected residues bo baker (Mon Aug 11 2008 - 06:31:12 CDT)
    - Re: save selected residues Axel Kohlmeyer (Mon Aug 11 2008 - 11:01:48 CDT)
backbone dihedral angles over trajectory Roman Petrenko (Fri Aug 08 2008 - 17:05:59 CDT)
- Re: backbone dihedral angles over trajectory Giovanni Bellesia (Fri Aug 08 2008 - 17:36:44 CDT)
request ability to append in CatDCD (and NAMD) Andrew Jewett (Fri Aug 08 2008 - 14:15:46 CDT)
- Re: request ability to append in CatDCD (and NAMD) John Stone (Fri Aug 08 2008 - 14:45:52 CDT)
Depth Cueing and dispdev none Oleg Stroganov (Thu Aug 07 2008 - 16:10:36 CDT)
- Re: Depth Cueing and dispdev none John Stone (Mon Aug 11 2008 - 14:13:55 CDT)
  - Re: Depth Cueing and dispdev none Oleg Stroganov (Tue Aug 12 2008 - 18:03:29 CDT)
    - Re: Depth Cueing and dispdev none John Stone (Wed Aug 13 2008 - 09:56:44 CDT)
VMD files to SDF max_at_liaad.up.pt (Thu Aug 07 2008 - 05:20:59 CDT)
- Re: VMD files to SDF John Stone (Thu Aug 07 2008 - 12:52:48 CDT)
Problems with Newcartoon representation Cesar Luis Avila (Wed Aug 06 2008 - 11:17:58 CDT)
- Re: Problems with Newcartoon representation John Stone (Wed Aug 06 2008 - 11:33:28 CDT)
  - Re: Problems with Newcartoon representation John Stone (Wed Aug 06 2008 - 13:38:00 CDT)
    - Re: Problems with Newcartoon representation Cesar Luis Avila (Wed Aug 06 2008 - 14:28:00 CDT)
NAMDENERGY crashing repeatedly Chandra Ramananjara (Tue Aug 05 2008 - 09:27:12 CDT)
- Re: NAMDENERGY crashing repeatedly Peter Freddolino (Tue Aug 05 2008 - 16:26:52 CDT)
  - Re: NAMDENERGY crashing repeatedly Chandra Ramananjara (Tue Aug 05 2008 - 18:49:40 CDT)
How to reduce memory usage of a script? David Poger (Mon Aug 04 2008 - 20:31:10 CDT)
- Re: How to reduce memory usage of a script? John Stone (Mon Aug 04 2008 - 21:44:48 CDT)
  - Re: How to reduce memory usage of a script? David Poger (Tue Aug 05 2008 - 00:24:10 CDT)
    - Re: How to reduce memory usage of a script? John Stone (Tue Aug 05 2008 - 00:36:59 CDT)
    - Re: How to reduce memory usage of a script? David Poger (Tue Aug 05 2008 - 02:18:05 CDT)
How to embed 3-D image into powerpoint Claw Isthelaw (Mon Aug 04 2008 - 15:15:33 CDT)
- Re: How to embed 3-D image into powerpoint Axel Kohlmeyer (Mon Aug 04 2008 - 15:57:41 CDT)
- Re: How to embed 3-D image into powerpoint John Stone (Tue Aug 05 2008 - 14:17:47 CDT)
suggested video card for linux Burcin Temel (Mon Aug 04 2008 - 07:32:03 CDT)
- Re: suggested video card for linux John Stone (Mon Aug 04 2008 - 11:24:47 CDT)
  - Re: suggested video card for linux Burcin Temel (Mon Aug 11 2008 - 12:13:06 CDT)
SURF and broken surface Vivek Sharma (Fri Aug 01 2008 - 23:16:14 CDT)
- Re: SURF and broken surface John Stone (Fri Aug 01 2008 - 23:28:04 CDT)
ionize with VMD a TOP file rebeca_at_mmb.pcb.ub.es (Fri Aug 01 2008 - 07:14:40 CDT)
- Re: ionize with VMD a TOP file Axel Kohlmeyer (Fri Aug 01 2008 - 09:28:58 CDT)
vmd-rmsd-color-tool Bernhard Knapp (Fri Aug 01 2008 - 02:27:48 CDT)
- Re: vmd-rmsd-color-tool Axel Kohlmeyer (Fri Aug 01 2008 - 09:27:35 CDT)
Re: namdenergy and simulation with amber ff Alan (Fri Aug 01 2008 - 02:05:23 CDT)
- Re: Re: namdenergy and simulation with amber ff Peter Freddolino (Fri Aug 01 2008 - 08:24:36 CDT)
  - Re: Re: namdenergy and simulation with amber ff Peter Freddolino (Mon Aug 04 2008 - 11:50:31 CDT)
problem using pbc wrap: broken molecule Jianhui Tian (Thu Jul 31 2008 - 20:32:47 CDT)
- Re: problem using pbc wrap: broken molecule Peter Freddolino (Fri Aug 01 2008 - 10:14:47 CDT)
  - Re: problem using pbc wrap: broken molecule Jianhui Tian (Fri Aug 01 2008 - 10:52:45 CDT)
    - Re: problem using pbc wrap: broken molecule Peter Freddolino (Fri Aug 01 2008 - 15:24:51 CDT)
    - Re: problem using pbc wrap: broken molecule Axel Kohlmeyer (Fri Aug 01 2008 - 16:29:59 CDT)
- Re: problem using pbc wrap: broken molecule Axel Kohlmeyer (Fri Aug 01 2008 - 10:00:18 CDT)
Gromacs reading: Why scaling?? Nicolas Bigaouette (Thu Jul 31 2008 - 18:33:26 CDT)
- Re: Gromacs reading: Why scaling?? Axel Kohlmeyer (Thu Jul 31 2008 - 19:11:11 CDT)
  - Re: Gromacs reading: Why scaling?? Nicolas Bigaouette (Thu Jul 31 2008 - 19:21:12 CDT)
    - Re: Gromacs reading: Why scaling?? Axel Kohlmeyer (Thu Jul 31 2008 - 19:51:10 CDT)
- Re: Gromacs reading: Why scaling?? Nicolas (Thu Jul 31 2008 - 19:32:16 CDT)
VMD crasch Lixia Jin Day (Thu Jul 31 2008 - 15:58:28 CDT)
- Re: VMD crasch Eric H. Lee (Thu Jul 31 2008 - 16:11:33 CDT)
  - Re: VMD crasch John Stone (Thu Jul 31 2008 - 17:00:22 CDT)
VMD with amber rst7 and parm7 files Alan (Thu Jul 31 2008 - 03:26:33 CDT)
- Re: VMD with amber rst7 and parm7 files Axel Kohlmeyer (Thu Jul 31 2008 - 09:02:29 CDT)
Hot repl1ca w4tches from 2008 Villa Tory Mohr (Wed Jul 30 2008 - 21:06:33 CDT)
How to disable automatic view rotations? Roman Petrenko (Wed Jul 30 2008 - 13:08:31 CDT)
- Re: How to disable automatic view rotations? John Stone (Wed Jul 30 2008 - 14:34:15 CDT)
  - Re: How to disable automatic view rotations? Roman Petrenko (Wed Jul 30 2008 - 15:37:41 CDT)
    - Re: How to disable automatic view rotations? John Stone (Wed Jul 30 2008 - 15:50:09 CDT)
  - Re: How to disable automatic view rotations? John Stone (Wed Jul 30 2008 - 15:47:05 CDT)
g(r) Rudra Banerjee (Wed Jul 30 2008 - 12:13:40 CDT)
- Re: g(r) Axel Kohlmeyer (Wed Jul 30 2008 - 14:31:55 CDT)
  - Re: g(r) Rudra Banerjee (Thu Jul 31 2008 - 00:46:01 CDT)
    - Re: g(r) Axel Kohlmeyer (Thu Jul 31 2008 - 08:57:34 CDT)
3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X Benjamin Bouvier (Wed Jul 30 2008 - 09:37:32 CDT)
- Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X John Stone (Wed Jul 30 2008 - 10:25:53 CDT)
  - Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X Benjamin Bouvier (Wed Jul 30 2008 - 10:36:17 CDT)
    - Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X John Stone (Wed Jul 30 2008 - 10:38:41 CDT)
- Vmd on Fedora 9 Al-Ali, Hassan (Wed Jul 30 2008 - 11:43:28 CDT)
  - Re: Vmd on Fedora 9 Axel Kohlmeyer (Wed Jul 30 2008 - 12:18:11 CDT)
tcl script problem with "atomselect' combined with "measure fit ...order" Loison Claire (Tue Jul 29 2008 - 09:16:36 CDT)
- Re: tcl script problem with "atomselect' combined with "measure fit ...order" Roman Petrenko (Tue Jul 29 2008 - 15:26:13 CDT)
Query Kaur, Tarandeep (Tue Jul 29 2008 - 07:55:49 CDT)
- Re: Query John Stone (Tue Jul 29 2008 - 13:13:24 CDT)
Multiseq refusing to load a structure due to taxonomy problem Robison, Keith (Tue Jul 29 2008 - 08:22:24 CDT)
- Re: Multiseq refusing to load a structure due to taxonomy problem Elijah Roberts (Tue Jul 29 2008 - 13:17:04 CDT)
  - RE: Multiseq refusing to load a structure due to taxonomy problem Robison, Keith (Tue Jul 29 2008 - 13:32:19 CDT)
periodic boundary conditions (yes, i read the tutorials) Roman Petrenko (Mon Jul 28 2008 - 19:46:09 CDT)
- Re: periodic boundary conditions (yes, i read the tutorials) Roman Petrenko (Mon Jul 28 2008 - 19:50:12 CDT)
  - Re: Re: periodic boundary conditions (yes, i read the tutorials) Axel Kohlmeyer (Mon Jul 28 2008 - 20:44:41 CDT)
  - Re: Re: periodic boundary conditions (yes, i read the tutorials) Balazs Jojart (Tue Jul 29 2008 - 01:21:17 CDT)
    - Re: Re: periodic boundary conditions (yes, i read the tutorials) John Stone (Tue Jul 29 2008 - 13:22:57 CDT)
solvating protein, fixed residue Rudra Banerjee (Mon Jul 28 2008 - 13:01:56 CDT)
- Re: solvating protein, fixed residue Axel Kohlmeyer (Mon Jul 28 2008 - 13:52:42 CDT)
water box...density!!! Rudra Banerjee (Mon Jul 28 2008 - 05:02:55 CDT)
- Re: water box...density!!! Christopher Gillespie (Mon Jul 28 2008 - 09:43:47 CDT)
solvation and box size Sue Legge (Mon Jul 28 2008 - 01:25:43 CDT)
- Re: solvation and box size Roman Petrenko (Mon Jul 28 2008 - 06:52:08 CDT)
- Re: solvation and box size Axel Kohlmeyer (Mon Jul 28 2008 - 06:30:07 CDT)
- Re: solvation and box size Christopher Gillespie (Mon Jul 28 2008 - 07:33:37 CDT)
translation/transformation Roman Petrenko (Sat Jul 26 2008 - 23:31:36 CDT)
- Re: translation/transformation Schreiner Eduard (Sun Jul 27 2008 - 01:52:20 CDT)
  - Re: translation/transformation Schreiner Eduard (Sun Jul 27 2008 - 02:16:58 CDT)
    - Re: translation/transformation Roman Petrenko (Sun Jul 27 2008 - 04:09:35 CDT)
how to create dityrosine links Roman Petrenko (Sat Jul 26 2008 - 17:47:52 CDT)
- Re: how to create dityrosine links JC Gumbart (Sat Jul 26 2008 - 20:21:14 CDT)
  - Re: how to create dityrosine links Roman Petrenko (Sun Jul 27 2008 - 04:14:20 CDT)
Python for OS X Hans Martin Senn (Fri Jul 25 2008 - 10:19:38 CDT)
- Re: Python for OS X Axel Kohlmeyer (Sat Jul 26 2008 - 12:56:18 CDT)
- Re: Python for OS X John Stone (Tue Jul 29 2008 - 14:09:57 CDT)
question about using namdenergy.tcl with vmd -dispdev text -e *.tcl Margaret S. Cheung (Fri Jul 25 2008 - 08:38:20 CDT)
- Re: question about using namdenergy.tcl with vmd -dispdev text -e *.tcl Peter Freddolino (Fri Jul 25 2008 - 17:31:16 CDT)
  - Re: question about using namdenergy.tcl with vmd -dispdev text -e *.tcl Margaret.Cheung_at_mail.uh.edu (Fri Jul 25 2008 - 18:41:40 CDT)
Slow mail deliver for next day or so... John Stone (Fri Jul 25 2008 - 15:15:09 CDT)
membrane plugin | lipid structures Jufang Shan (Fri Jul 25 2008 - 11:50:18 CDT)
- RE: membrane plugin | lipid structures JC Gumbart (Sun Jul 27 2008 - 23:36:37 CDT)
Get your w4tch now Villa Joan Winslow (Thu Jul 24 2008 - 04:40:10 CDT)
questions relating to VolMapTool bo liu (Wed Jul 23 2008 - 02:35:18 CDT)
- Re: questions relating to VolMapTool Axel Kohlmeyer (Wed Jul 23 2008 - 06:30:55 CDT)
rdf for big systems Valeria Molinero (Tue Jul 22 2008 - 16:23:04 CDT)
- Re: rdf for big systems Axel Kohlmeyer (Tue Jul 22 2008 - 17:06:30 CDT)
  - Re: rdf for big systems Valeria Molinero (Tue Jul 22 2008 - 18:58:25 CDT)
    - Re: rdf for big systems Axel Kohlmeyer (Tue Jul 22 2008 - 19:09:09 CDT)
    - Re: rdf for big systems John Stone (Thu Jul 31 2008 - 13:00:35 CDT)
  - Re: rdf for big systems John Stone (Wed Aug 06 2008 - 11:24:27 CDT)
vecsub command Katherine Parra (Tue Jul 22 2008 - 11:03:42 CDT)
- Re: vecsub command Schreiner Eduard (Tue Jul 22 2008 - 11:40:13 CDT)
- Re: vecsub command Axel Kohlmeyer (Tue Jul 22 2008 - 11:48:31 CDT)
Selecting the sides of a benzene ring Ignacio Fernández Galván (Tue Jul 22 2008 - 06:30:21 CDT)
- Re: Selecting the sides of a benzene ring Eduardo Cruz-Chu (Tue Jul 22 2008 - 11:21:42 CDT)
  - Re: Selecting the sides of a benzene ring Ignacio Fernández Galván (Wed Jul 23 2008 - 02:39:23 CDT)
- Re: Selecting the sides of a benzene ring Schreiner Eduard (Tue Jul 22 2008 - 11:01:39 CDT)
- Re: Selecting the sides of a benzene ring Axel Kohlmeyer (Tue Jul 22 2008 - 11:45:54 CDT)
Problem to find the number of frames of a trajectory David Poger (Mon Jul 21 2008 - 20:19:01 CDT)
- Re: Problem to find the number of frames of a trajectory John Stone (Mon Jul 21 2008 - 23:50:56 CDT)
  - Re: Problem to find the number of frames of a trajectory David Poger (Mon Jul 21 2008 - 23:58:48 CDT)
    - Re: Problem to find the number of frames of a trajectory John Stone (Tue Jul 22 2008 - 00:50:30 CDT)
  - Re: Problem to find the number of frames of a trajectory John Stone (Tue Jul 22 2008 - 10:15:00 CDT)
Periodic image and transformation matrix Cesar Avila (Mon Jul 21 2008 - 19:20:06 CDT)
- Re: Periodic image and transformation matrix Axel Kohlmeyer (Mon Jul 21 2008 - 19:50:24 CDT)
Missing angles and dihedrals Rene Prieto (Mon Jul 21 2008 - 18:25:52 CDT)
- Re: Missing angles and dihedrals Schreiner Eduard (Mon Jul 21 2008 - 19:04:44 CDT)
- Re: Missing angles and dihedrals Axel Kohlmeyer (Mon Jul 21 2008 - 19:31:48 CDT)
You can s4ve 80% Villa Norberto Martinez (Mon Jul 21 2008 - 01:18:56 CDT)
Selecting atoms that have real SASA greater than 0, Not using "Surface" Christopher Gillespie (Sun Jul 20 2008 - 16:28:04 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" Schreiner Eduard (Sun Jul 20 2008 - 22:03:40 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" John Stone (Mon Jul 21 2008 - 10:22:51 CDT)
  - Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" Christopher Gillespie (Tue Jul 29 2008 - 18:39:14 CDT)
    - Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" Axel Kohlmeyer (Tue Jul 29 2008 - 20:40:30 CDT)
Parametrization of hydrogen sulfide Raul Araya (Fri Jul 18 2008 - 17:54:45 CDT)
real coordinates Maria Sanchez Farran (Thu Jul 17 2008 - 21:40:46 CDT)
- Re: real coordinates Axel Kohlmeyer (Fri Jul 18 2008 - 12:08:25 CDT)
vmd MacOSX using dispdev Brian Kidd (Thu Jul 17 2008 - 18:08:03 CDT)
- Re: vmd MacOSX using dispdev John Stone (Thu Jul 17 2008 - 22:12:18 CDT)
- Re: vmd MacOSX using dispdev Kevin DeMarco (Fri Jul 18 2008 - 13:33:09 CDT)
- Re: vmd MacOSX using dispdev Giovanni Bellesia (Fri Jul 18 2008 - 16:00:00 CDT)
autopsf from console brosbam_at_berkeley.edu (Thu Jul 17 2008 - 12:23:21 CDT)
- Re: autopsf from console Peter Freddolino (Thu Jul 17 2008 - 12:52:33 CDT)
VMD Does not start on my MacBook Dr. Seth Olsen (Wed Jul 16 2008 - 21:15:57 CDT)
- Re: VMD Does not start on my MacBook John Stone (Thu Jul 17 2008 - 15:39:55 CDT)
Tetrahedral representation FX (Wed Jul 16 2008 - 17:20:22 CDT)
- Re: Tetrahedral representation Axel Kohlmeyer (Wed Jul 16 2008 - 18:24:09 CDT)
  - Re: Tetrahedral representation FX (Thu Jul 17 2008 - 06:19:09 CDT)
    - Re: Tetrahedral representation John Stone (Thu Jul 17 2008 - 16:14:35 CDT)
- Re: Tetrahedral representation John Stone (Wed Aug 13 2008 - 13:07:04 CDT)
- Re: Tetrahedral representation John Stone (Wed Aug 13 2008 - 18:14:03 CDT)
Error message in VMD console when I try to switch to Python mode. Katherine Parra (Wed Jul 16 2008 - 13:16:28 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. John Stone (Wed Jul 16 2008 - 13:28:55 CDT)
  - Re: Error message in VMD console when I try to switch to Python mode. Katherine Parra (Wed Jul 16 2008 - 14:06:06 CDT)
Creating a VMD movie from a Tcl script Samir Unni (Wed Jul 16 2008 - 09:32:37 CDT)
- Re: Creating a VMD movie from a Tcl script John Stone (Thu Jul 17 2008 - 17:02:05 CDT)
Problem writing trajectory to "crd" (Amber) format? Ian (Wed Jul 16 2008 - 04:43:24 CDT)
- Re: Problem writing trajectory to "crd" (Amber) format? Axel Kohlmeyer (Wed Jul 16 2008 - 09:31:59 CDT)
- Re: Problem writing trajectory to "crd" (Amber) format? John Stone (Tue Jul 22 2008 - 14:01:32 CDT)
Fwd: memory overflow problem of Tcl scripting when dealing with trajectories(sorry for cross mailing...) bo liu (Wed Jul 16 2008 - 03:18:43 CDT)
- Re: Fwd: memory overflow problem of Tcl scripting when dealing with trajectories(sorry for cross mailing...) Peter Freddolino (Wed Jul 16 2008 - 07:20:26 CDT)
problem with correct visualization of residues L. Michel Espinoza-Fonseca (Tue Jul 15 2008 - 12:50:58 CDT)
- Re: problem with correct visualization of residues John Stone (Tue Jul 15 2008 - 13:04:18 CDT)
  - Re: problem with correct visualization of residues L. Michel Espinoza-Fonseca (Tue Jul 15 2008 - 13:08:55 CDT)
- Re: problem with correct visualization of residues Axel Kohlmeyer (Tue Jul 15 2008 - 13:21:57 CDT)
pick atom id script Abu Naser (Fri Jul 11 2008 - 06:07:05 CDT)
- Re: pick atom id script Axel Kohlmeyer (Fri Jul 11 2008 - 09:37:49 CDT)
- Re: pick atom id script David Tanner (Fri Jul 11 2008 - 09:32:53 CDT)
purple bacteria and psfgen brosbam_at_berkeley.edu (Tue Jul 15 2008 - 12:37:30 CDT)
- Re: purple bacteria and psfgen John Stone (Wed Jul 16 2008 - 02:50:49 CDT)
Fwd: PDB Bonds versus "distance" bonds Sergey Ivanov (Tue Jul 15 2008 - 10:49:43 CDT)
- Re: Fwd: PDB Bonds versus "distance" bonds Axel Kohlmeyer (Tue Jul 15 2008 - 11:20:53 CDT)
  - Re: Fwd: PDB Bonds versus "distance" bonds John Stone (Tue Jul 15 2008 - 13:00:42 CDT)
    - Re: Fwd: PDB Bonds versus "distance" bonds Sergey Ivanov (Thu Jul 17 2008 - 08:14:39 CDT)
    - Re: Fwd: PDB Bonds versus "distance" bonds John Stone (Thu Jul 17 2008 - 09:24:55 CDT)
Visualizing History file from DL_POLY mahesh naalla (Mon Jul 14 2008 - 11:43:43 CDT)
- Re: Visualizing History file from DL_POLY John Stone (Tue Jul 15 2008 - 10:39:33 CDT)
tachyon rendering on black background figure Lixia Jin Day (Fri Jul 11 2008 - 13:06:30 CDT)
- Re: tachyon rendering on black background figure John Stone (Wed Jul 16 2008 - 01:46:53 CDT)
  - Re: tachyon rendering on black background figure John Stone (Thu Jul 17 2008 - 16:31:06 CDT)
QR factorization for structural alignment Dong Xu (Thu Jul 10 2008 - 17:30:39 CDT)
- Re: QR factorization for structural alignment Leonardo Trabuco (Fri Jul 11 2008 - 01:51:51 CDT)
(no subject) Abu Naser (Thu Jul 10 2008 - 10:43:17 CDT)
- Re: Kirby Vandivort (Thu Jul 10 2008 - 11:05:33 CDT)
  - RE: Abu Naser (Thu Jul 10 2008 - 11:23:19 CDT)
building an uncoming sulfide bridge Jim Pfaendtner (Thu Jul 10 2008 - 08:56:32 CDT)
- Re: building an uncoming sulfide bridge JC Gumbart (Thu Jul 10 2008 - 11:17:46 CDT)
contour plots Aaron.Oakley_at_csiro.au (Wed Jul 09 2008 - 22:50:54 CDT)
- Re: contour plots Peter Freddolino (Thu Jul 10 2008 - 00:27:41 CDT)
- Re: contour plots Giovanni Bellesia (Thu Jul 10 2008 - 01:09:36 CDT)
- Re: contour plots Subramanian Vaitheeswaran (Thu Jul 10 2008 - 10:02:58 CDT)
- Re: contour plots Alexandre A. Vakhrouchev (Mon Jul 21 2008 - 02:25:51 CDT)
Inorganic Builder Plugin Renata KWIECIEN (Wed Jul 09 2008 - 02:56:17 CDT)
- Re: Inorganic Builder Plugin Robert Brunner (Wed Jul 09 2008 - 10:38:27 CDT)
I'm back.. John Stone (Tue Jul 08 2008 - 16:24:12 CDT)
measure forces applied on VMD S.K. Ghosh (Mon Jul 07 2008 - 16:18:17 CDT)
- Re: measure forces applied in VMD S.K. Ghosh (Tue Jul 08 2008 - 20:11:19 CDT)
  - Re: measure forces applied in VMD John Stone (Fri Jul 11 2008 - 10:48:11 CDT)
trajectory to xyz file. Katherine Parra (Mon Jul 07 2008 - 13:16:30 CDT)
- Re: trajectory to xyz file. Christopher Gillespie (Mon Jul 07 2008 - 14:44:12 CDT)
- Re: trajectory to xyz file. Axel Kohlmeyer (Mon Jul 07 2008 - 15:11:30 CDT)
Newbie Questions Paul Dennis Simonson (Sun Jul 06 2008 - 21:15:13 CDT)
- Re: Newbie Questions Peter Freddolino (Sun Jul 06 2008 - 22:06:53 CDT)
QR factorization for structural alignment Dong Xu (Sat Jul 05 2008 - 17:06:29 CDT)
Maximum velocities Alejandro Ortega (Thu Jul 03 2008 - 16:03:13 CDT)
- Re: Maximum velocities Eric H. Lee (Thu Jul 03 2008 - 16:17:54 CDT)
Dihedrale angles in VMD Jorgen Simonsen (Thu Jul 03 2008 - 07:43:07 CDT)
- Re: Dihedrale angles in VMD Axel Kohlmeyer (Thu Jul 03 2008 - 12:24:16 CDT)
Loading Problem hirdesh kumar (Thu Jul 03 2008 - 06:27:44 CDT)
- Re: Loading Problem Axel Kohlmeyer (Thu Jul 03 2008 - 12:28:18 CDT)
- Re: Loading Problem John Stone (Fri Jul 11 2008 - 10:54:39 CDT)
ResdueType and hydrophobicity scale Giovanni Bellesia (Wed Jul 02 2008 - 18:16:29 CDT)
- Re: ResdueType and hydrophobicity scale John Stone (Wed Jul 16 2008 - 01:59:34 CDT)
  - Re: ResdueType and hydrophobicity scale Giovanni Bellesia (Wed Jul 16 2008 - 02:13:46 CDT)
    - Re: ResdueType and hydrophobicity scale John Stone (Wed Jul 16 2008 - 02:47:41 CDT)
    - Re: ResdueType and hydrophobicity scale Andrew Dalke (Wed Jul 16 2008 - 05:45:13 CDT)
The maximal size which can be displayed by VMD? Fred (Rui FENG) (Wed Jul 02 2008 - 16:06:18 CDT)
- Re: The maximal size which can be displayed by VMD? Axel Kohlmeyer (Wed Jul 02 2008 - 16:36:57 CDT)
  - Re: The maximal size which can be displayed by VMD? Fred (Rui FENG) (Wed Jul 02 2008 - 20:55:07 CDT)
VMD Mutator, which side chain rotamer? S. Jamal Rahi (Wed Jul 02 2008 - 07:30:32 CDT)
- Re: VMD Mutator, which side chain rotamer? Peter Freddolino (Wed Jul 02 2008 - 07:52:43 CDT)
VMD Mutator, which side chain rotamer? S. Jamal Rahi (Wed Jul 02 2008 - 07:20:52 CDT)
VMDMODULATERIBBON or sausage representation Tim Meyer (Tue Jul 01 2008 - 13:38:28 CDT)
- Re: VMDMODULATERIBBON or sausage representation Axel Kohlmeyer (Tue Jul 01 2008 - 14:07:42 CDT)
rmsd per residue Alberto Sergio Garay (Tue Jul 01 2008 - 05:36:46 CDT)
rmsd per residue Michal Kolinski (Mon Jun 30 2008 - 10:19:40 CDT)
- Re: rmsd per residue Eric H. Lee (Mon Jun 30 2008 - 14:42:18 CDT)
Error using namdstat.tcl script S.K. Ghosh (Mon Jun 30 2008 - 10:51:20 CDT)
- Re: Error using namdstat.tcl script Axel Kohlmeyer (Mon Jun 30 2008 - 11:42:26 CDT)
Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd James Irving (Sun Jun 29 2008 - 21:14:14 CDT)
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd Axel Kohlmeyer (Mon Jun 30 2008 - 13:17:20 CDT)
  - Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd James Irving (Mon Jun 30 2008 - 18:10:13 CDT)
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd Kevin DeMarco (Mon Jun 30 2008 - 18:50:24 CDT)
  - Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd James Irving (Mon Jun 30 2008 - 20:03:44 CDT)
Problem of Movie Maker Plugin lei wang (Sat Jun 28 2008 - 05:41:29 CDT)
- Re: Problem of Movie Maker Plugin Axel Kohlmeyer (Sat Jun 28 2008 - 11:19:02 CDT)
mutate by D-residues... Yasser Almeida Hernández (Fri Jun 27 2008 - 16:45:00 CDT)
- Re: mutate by D-residues... Axel Kohlmeyer (Fri Jun 27 2008 - 20:47:58 CDT)
mutate by D-residues... Yasser Almeida Hernández (Fri Jun 27 2008 - 16:44:25 CDT)
select cylindrical slab dimka (Fri Jun 27 2008 - 12:08:41 CDT)
- Re: select cylindrical slab Peter Freddolino (Fri Jun 27 2008 - 12:34:01 CDT)
- Re: select cylindrical slab Axel Kohlmeyer (Fri Jun 27 2008 - 12:51:26 CDT)
Compiling from source on Mac OS X 10.5 Marylou Kunkle (Fri Jun 27 2008 - 11:12:37 CDT)
- Re: Compiling from source on Mac OS X 10.5 Marylou Kunkle (Fri Jun 27 2008 - 13:29:37 CDT)
  - Re: Compiling from source on Mac OS X 10.5 Axel Kohlmeyer (Fri Jun 27 2008 - 14:23:44 CDT)
- Re: Compiling from source on Mac OS X 10.5 Axel Kohlmeyer (Fri Jun 27 2008 - 13:54:36 CDT)
- Re: Compiling from source on Mac OS X 10.5 John Stone (Thu Jul 17 2008 - 17:04:38 CDT)
vmd shuts itself down A D (Thu Jun 26 2008 - 19:20:58 CDT)
- Re: vmd shuts itself down Axel Kohlmeyer (Fri Jun 27 2008 - 09:23:12 CDT)
how to make a movie of 2 or more trajectories parth singh (Thu Jun 26 2008 - 15:59:08 CDT)
- Re: how to make a movie of 2 or more trajectories Axel Kohlmeyer (Fri Jun 27 2008 - 20:57:18 CDT)
How to delete anwanted waters in a special area ? Leonhard Henkes (Wed Jun 25 2008 - 07:31:10 CDT)
- Re: How to delete anwanted waters in a special area ? Axel Kohlmeyer (Wed Jun 25 2008 - 11:51:29 CDT)
On solvate plugin S.K. Ghosh (Mon Jun 23 2008 - 07:22:06 CDT)
On solvate plugin S.K. Ghosh (Mon Jun 23 2008 - 07:23:00 CDT)
- Re: On solvate plugin Bhargava (Mon Jun 23 2008 - 09:14:05 CDT)
How to visualize iron and chlorine properly. wangyong_at_dicp.ac.cn (Mon Jun 23 2008 - 19:44:35 CDT)
- Re: How to visualize iron and chlorine properly. Axel Kohlmeyer (Mon Jun 23 2008 - 10:13:41 CDT)
- Re: How to visualize iron and chlorine properly. Ignacio Fernández Galván (Tue Jun 24 2008 - 03:25:40 CDT)
Inquiry concerning the plugin "Inorganic builder" Anneta Tzampazi (Mon Jun 23 2008 - 05:23:46 CDT)
- Re: Inquiry concerning the plugin "Inorganic builder" Axel Kohlmeyer (Mon Jun 23 2008 - 10:11:04 CDT)
how to export into postscript with MultiPlot in tcl mode? Sebastian Stolzenberg (Sun Jun 22 2008 - 19:01:53 CDT)
- Re: how to export into postscript with MultiPlot in tcl mode? Axel Kohlmeyer (Mon Jun 23 2008 - 10:03:21 CDT)
- Re: how to export into postscript with MultiPlot in tcl mode? Johannes Müllegger (Mon Jun 23 2008 - 11:23:24 CDT)
vmd/vista32b/zalman M220 stereo? Michael Galloway (Fri Jun 20 2008 - 16:03:46 CDT)
- Re: vmd/vista32b/zalman M220 stereo? Sabuj Pattanayek (Fri Jun 20 2008 - 19:18:59 CDT)
- Re: vmd/vista32b/zalman M220 stereo? Michael Galloway (Mon Jun 23 2008 - 10:17:32 CDT)
  - Making a water-only sphere S.K. Ghosh (Mon Jun 23 2008 - 14:21:08 CDT)
enantiomers Ed Lowe (Fri Jun 20 2008 - 08:38:06 CDT)
- Re: enantiomers L. Michel Espinoza-Fonseca (Fri Jun 20 2008 - 09:10:31 CDT)
Volume slice color scale Ignacio Fernández Galván (Fri Jun 20 2008 - 04:15:39 CDT)
SpaceNavigator test builds (last note before I go offline!) John Stone (Fri Jun 20 2008 - 02:04:50 CDT)
Away from VMD-L/email until July 8th... John Stone (Thu Jun 19 2008 - 19:50:06 CDT)
- Re: Away from VMD-L/email until July 8th... Alexandre A. Vakhrouchev (Thu Jun 19 2008 - 21:09:17 CDT)
- Re: Away from VMD-L/email until July 8th... daniel aguayo (Fri Jun 20 2008 - 16:27:34 CDT)
Discrepancy between colours when coloured by timestep and Tachyon rendered Tim Carpenter (Thu Jun 19 2008 - 12:48:40 CDT)
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered John Stone (Thu Jun 19 2008 - 13:02:04 CDT)
  - Re: Discrepancy between colours when coloured by timestep and Tachyon rendered John Stone (Thu Jun 19 2008 - 13:05:52 CDT)
Print and save DLPOLY HISTORY plots mahesh naalla (Thu Jun 19 2008 - 12:15:50 CDT)
- Re: Print and save DLPOLY HISTORY plots John Stone (Thu Jun 19 2008 - 13:05:02 CDT)
  - Re: Print and save DLPOLY HISTORY plots mahesh naalla (Thu Jun 19 2008 - 14:08:17 CDT)
    - Re: Print and save DLPOLY HISTORY plots John Stone (Thu Jun 19 2008 - 23:48:06 CDT)
displaying hydrogen bonds when hydrogens are not available Y. U. Sasidhar (Thu Jun 19 2008 - 07:34:23 CDT)
- Re: displaying hydrogen bonds when hydrogens are not available Axel Kohlmeyer (Thu Jun 19 2008 - 09:31:53 CDT)
- Re: displaying hydrogen bonds when hydrogens are not available Eric H. Lee (Thu Jun 19 2008 - 09:46:51 CDT)
Labelling Coordinates (not Atoms) Anthony Ivetac (Wed Jun 18 2008 - 17:52:09 CDT)
- Re: Labelling Coordinates (not Atoms) Axel Kohlmeyer (Wed Jun 18 2008 - 18:43:57 CDT)
- Re: Labelling Coordinates (not Atoms) Anthony Ivetac (Wed Jun 18 2008 - 21:32:03 CDT)
IED Vahdati N. (Wed Jun 18 2008 - 10:26:37 CDT)
PSF works in NAMD but not in VMD Esben A. Gad (Wed Jun 18 2008 - 03:17:04 CDT)
- Re: PSF works in NAMD but not in VMD Peter Freddolino (Wed Jun 18 2008 - 06:53:50 CDT)
- Re: PSF works in NAMD but not in VMD Esben A. Gad (Fri Jun 20 2008 - 06:05:22 CDT)
specify a rtf file when generating a psf file. Nicolas Sapay (Tue Jun 17 2008 - 13:46:22 CDT)
- Re: specify a rtf file when generating a psf file. Peter Freddolino (Tue Jun 17 2008 - 14:32:13 CDT)
- Re: specify a rtf file when generating a psf file. Axel Kohlmeyer (Tue Jun 17 2008 - 14:50:55 CDT)
  - Re: specify a rtf file when generating a psf file. Nicolas Sapay (Tue Jun 17 2008 - 15:28:34 CDT)
render "color by volume" Gerald Mathias (Tue Jun 17 2008 - 13:27:15 CDT)
- Re: render "color by volume" Axel Kohlmeyer (Tue Jun 17 2008 - 14:51:28 CDT)
- Re: render "color by volume" Nicolas Sapay (Tue Jun 17 2008 - 17:11:45 CDT)
  - Re: render "color by volume" Axel Kohlmeyer (Tue Jun 17 2008 - 18:34:28 CDT)
opening gromacs .gro file gives warning messsage and does not display the molecule jake wernik (Mon Jun 16 2008 - 20:19:52 CDT)
- Re: opening gromacs .gro file gives warning messsage and does not display the molecule Axel Kohlmeyer (Tue Jun 17 2008 - 09:11:03 CDT)
- Re: opening gromacs .gro file gives warning messsage and does not display the molecule Nicolas Sapay (Tue Jun 17 2008 - 13:51:36 CDT)
Drawing a line between two atoms Marx Gomes Van der Linden (Mon Jun 16 2008 - 17:10:12 CDT)
Question: Too many arguments Leonhard Henkes (Mon Jun 16 2008 - 08:24:15 CDT)
- Re: Question: Too many arguments Axel Kohlmeyer (Mon Jun 16 2008 - 09:45:36 CDT)
problem with namdstats.tcl sudipta sinha (Sun Jun 15 2008 - 01:51:11 CDT)
Electrostatic - PMEpot daniel aguayo (Fri Jun 13 2008 - 12:23:22 CDT)
- Re: Electrostatic - PMEpot Leonardo Trabuco (Fri Jun 13 2008 - 13:13:00 CDT)
  - Re: Electrostatic - PMEpot daniel aguayo (Mon Jun 16 2008 - 09:02:08 CDT)
About occupancy volume maps Ignacio Fernández Galván (Fri Jun 13 2008 - 05:40:17 CDT)
- Re: About occupancy volume maps John Stone (Thu Jun 19 2008 - 00:38:25 CDT)
  - Re: About occupancy volume maps Ignacio Fernández Galván (Thu Jun 19 2008 - 02:43:11 CDT)
    - Re: About occupancy volume maps Axel Kohlmeyer (Thu Jun 19 2008 - 05:20:24 CDT)
User defined charges with PMEpot Nicolas Sapay (Thu Jun 12 2008 - 18:24:57 CDT)
- Re: User defined charges with PMEpot Axel Kohlmeyer (Thu Jun 12 2008 - 22:24:15 CDT)
  - Re: User defined charges with PMEpot Nicolas (Thu Jun 12 2008 - 23:08:24 CDT)
    - Re: User defined charges with PMEpot Axel Kohlmeyer (Fri Jun 13 2008 - 07:34:42 CDT)
Re: vmd-l digest V1 #1086 Ibrahim Moustafa (Wed Jun 11 2008 - 11:27:48 CDT)
import QM single point calculation Tim Werner (Wed Jun 11 2008 - 04:27:02 CDT)
problem loading trajectory in VMD under windows XP Aaron.Oakley_at_csiro.au (Tue Jun 10 2008 - 18:41:24 CDT)
- Re: problem loading trajectory in VMD under windows XP Axel Kohlmeyer (Tue Jun 10 2008 - 20:21:24 CDT)
- Re: problem loading trajectory in VMD under windows XP John Stone (Wed Jun 11 2008 - 01:37:58 CDT)
Spring quality watches offer Estela Gibbs (Tue Jun 10 2008 - 18:50:16 CDT)
Image rendering using pov-ray Dong Xu (Mon Jun 09 2008 - 20:35:55 CDT)
- Re: Image rendering using pov-ray Axel Kohlmeyer (Mon Jun 09 2008 - 21:30:35 CDT)
- Re: Image rendering using pov-ray Axel Kohlmeyer (Mon Jun 09 2008 - 21:34:57 CDT)
  - Re: Image rendering using pov-ray Dong Xu (Thu Jun 12 2008 - 21:31:03 CDT)
psf generation of circular proteins Rabab Toubar (Sun Jun 08 2008 - 09:36:00 CDT)
- IED on MacOSX 10.3.9 Peter Jones (Tue Jun 10 2008 - 05:54:54 CDT)
  - Re: IED on MacOSX 10.3.9 Axel Kohlmeyer (Tue Jun 10 2008 - 07:03:30 CDT)
- Re: psf generation of circular proteins John Stone (Wed Jun 11 2008 - 10:18:02 CDT)
  - Re: psf generation of circular proteins Rabab Toubar (Wed Jun 11 2008 - 13:30:05 CDT)
    - Re: psf generation of circular proteins John Stone (Thu Jun 12 2008 - 00:22:46 CDT)
Dipole moment? Alexandre A. Vakhrouchev (Sat Jun 07 2008 - 07:21:55 CDT)
- Re: Dipole moment? Axel Kohlmeyer (Sat Jun 07 2008 - 12:47:19 CDT)
  - Re: Dipole moment? Alexandre A. Vakhrouchev (Sat Jun 07 2008 - 13:25:40 CDT)
  - Re: Dipole moment? Ignacio Fernández Galván (Tue Jul 15 2008 - 09:52:07 CDT)
Total list of Tcl features Alexandre A. Vakhrouchev (Sat Jun 07 2008 - 00:15:05 CDT)
- Re: Total list of Tcl features John Stone (Sat Jun 07 2008 - 00:35:26 CDT)
  - Re: Total list of Tcl features Alexandre A. Vakhrouchev (Sat Jun 07 2008 - 01:14:37 CDT)
- Re: Total list of Tcl features Axel Kohlmeyer (Sat Jun 07 2008 - 09:41:05 CDT)
  - Re: Total list of Tcl features Alexandre A. Vakhrouchev (Sat Jun 07 2008 - 10:31:31 CDT)
    - Re: Total list of Tcl features Axel Kohlmeyer (Sat Jun 07 2008 - 10:21:27 CDT)
Watches for him, her and you Penny Boyle (Fri Jun 06 2008 - 19:47:03 CDT)
Solvation Katherine Parra (Fri Jun 06 2008 - 08:56:31 CDT)
- Re: Solvation Axel Kohlmeyer (Fri Jun 06 2008 - 09:04:27 CDT)
Solvation of a molecule Katherine Parra (Thu Jun 05 2008 - 08:15:41 CDT)
speed of movie gurpreet singh (Thu Jun 05 2008 - 05:40:55 CDT)
- Re: speed of movie Mario Valle (Thu Jun 05 2008 - 07:01:28 CDT)
- Re: speed of movie Axel Kohlmeyer (Sun Jul 13 2008 - 15:49:02 CDT)
Long file paths in Mac OS 10.5.3 Kevin DeMarco (Wed Jun 04 2008 - 15:24:51 CDT)
- Re: Long file paths in Mac OS 10.5.3 John Stone (Wed Jun 04 2008 - 16:27:03 CDT)
  - Re: Long file paths in Mac OS 10.5.3 Kevin DeMarco (Wed Jun 04 2008 - 16:43:32 CDT)
    - Re: Long file paths in Mac OS 10.5.3 John Stone (Wed Jun 04 2008 - 16:52:10 CDT)
- Re: Long file paths in Mac OS 10.5.3 Axel Kohlmeyer (Wed Jun 04 2008 - 16:17:25 CDT)
  - Re: Long file paths in Mac OS 10.5.3 Kevin DeMarco (Wed Jun 04 2008 - 18:30:19 CDT)
psf file Katherine Parra (Tue Jun 03 2008 - 11:47:43 CDT)
- Re: psf file JC Gumbart (Tue Jun 03 2008 - 15:24:36 CDT)
Batch mode on Mac OS 10.5.3 Benjamin Hall (Tue Jun 03 2008 - 05:16:52 CDT)
- Re: Batch mode on Mac OS 10.5.3 John Stone (Tue Jun 03 2008 - 11:10:18 CDT)
- Re: Batch mode on Mac OS 10.5.3 Dan Wright (Tue Jun 03 2008 - 11:24:22 CDT)
  - Re: Batch mode on Mac OS 10.5.3 Benjamin Hall (Wed Jun 04 2008 - 08:26:23 CDT)
- Re: Batch mode on Mac OS 10.5.3 Robert Brunner (Tue Jun 03 2008 - 12:34:02 CDT)
Create atom selection from list of integers Claw Isthelaw (Mon Jun 02 2008 - 11:01:49 CDT)
- Re: Create atom selection from list of integers Axel Kohlmeyer (Mon Jun 02 2008 - 11:08:16 CDT)
- Re: Create atom selection from list of integers Leonardo Trabuco (Mon Jun 02 2008 - 11:15:58 CDT)
  - Re: Create atom selection from list of integers Leonardo Trabuco (Mon Jun 02 2008 - 11:51:09 CDT)
- Re: Create atom selection from list of integers Joaquim Rui Rodrigues (Mon Jun 02 2008 - 12:10:28 CDT)
  - RE: Create atom selection from list of integers Claw Isthelaw (Mon Jun 02 2008 - 13:10:12 CDT)
Postdoc position available... John Stone (Sat May 31 2008 - 01:06:59 CDT)
measure hbonds problem politr_at_huji.ac.il (Fri May 30 2008 - 10:59:28 CDT)
- Re: measure hbonds problem Peter Freddolino (Fri May 30 2008 - 15:00:52 CDT)
  - Re: measure hbonds problem politr_at_huji.ac.il (Sun Jun 01 2008 - 06:27:48 CDT)
hydrogen bonds politr_at_huji.ac.il (Fri May 30 2008 - 06:05:12 CDT)
silly rmsd script doesn' t work ... andrea spitaleri (Fri May 30 2008 - 07:17:16 CDT)
- Re: silly rmsd script doesn' t work ... Peter Freddolino (Fri May 30 2008 - 08:44:00 CDT)
- Re: silly rmsd script doesn' t work ... Axel Kohlmeyer (Fri May 30 2008 - 07:49:45 CDT)
  - Re: silly rmsd script doesn' t work ... andrea spitaleri (Fri May 30 2008 - 08:28:40 CDT)
preriodic box problem Matthieu Chavent (Fri May 30 2008 - 04:12:31 CDT)
- Re: preriodic box problem L. Michel Espinoza-Fonseca (Fri May 30 2008 - 05:20:24 CDT)
  - Re: preriodic box problem Matthieu Chavent (Fri May 30 2008 - 10:40:00 CDT)
    - Re: preriodic box problem Olaf Lenz (Sat May 31 2008 - 06:20:06 CDT)
Exceeded maximum number of bonds Demian Riccardi (Thu May 29 2008 - 13:18:09 CDT)
- Re: Exceeded maximum number of bonds Axel Kohlmeyer (Thu May 29 2008 - 13:54:24 CDT)
vmd_init Paul Schlesinger (Wed May 28 2008 - 18:25:38 CDT)
- Re: vmd_init John Stone (Fri Jun 20 2008 - 00:11:41 CDT)
Re: [lammps-users] MDAnalysis (slightly OT) Axel Kohlmeyer (Tue May 27 2008 - 12:54:41 CDT)
errors with using surf and MSMS representations Yinglong Miao (Tue May 27 2008 - 14:53:54 CDT)
- Re: errors with using surf and MSMS representations John Stone (Tue May 27 2008 - 15:12:35 CDT)
  - Re: errors with using surf and MSMS representations John Stone (Tue May 27 2008 - 16:13:41 CDT)
    - Re: errors with using surf and MSMS representations Yinglong Miao (Tue May 27 2008 - 17:11:54 CDT)
IMD per TCL Stephan Frickenhaus (Tue May 27 2008 - 02:06:34 CDT)
- Re: IMD per TCL Axel Kohlmeyer (Tue May 27 2008 - 04:39:51 CDT)
- Re: IMD per TCL John Stone (Fri Jun 20 2008 - 00:15:33 CDT)
Label on Movie Wei Huang (Mon May 26 2008 - 10:26:30 CDT)
- Re: Label on Movie Axel Kohlmeyer (Mon May 26 2008 - 12:02:08 CDT)
  - Re: Label on Movie Wei Huang (Mon May 26 2008 - 14:21:22 CDT)
    - Re: Label on Movie Axel Kohlmeyer (Mon May 26 2008 - 14:06:52 CDT)
mass weighted rms fit Dong Xu (Sun May 25 2008 - 11:14:47 CDT)
- Re: mass weighted rms fit Axel Kohlmeyer (Sun May 25 2008 - 11:20:56 CDT)
How to discard certain atoms politr_at_huji.ac.il (Sun May 25 2008 - 05:50:43 CDT)
- Re: How to discard certain atoms Axel Kohlmeyer (Sun May 25 2008 - 07:59:23 CDT)
Measure gofr with large DCD files (Possibly use bigdcd ???) Christopher Gillespie (Fri May 23 2008 - 18:43:22 CDT)
- Re: Measure gofr with large DCD files (Possibly use bigdcd ???) Axel Kohlmeyer (Fri May 23 2008 - 18:59:33 CDT)
Movies using Cygwin's ImageMagick? Gustavo Seabra (Thu May 22 2008 - 09:18:45 CDT)
- Re: Movies using Cygwin's ImageMagick? Axel Kohlmeyer (Thu May 22 2008 - 09:33:30 CDT)
Crystal water INPE (Ingrid Viveka Pettersson) (Thu May 22 2008 - 04:32:59 CDT)
- Re: Crystal water Axel Kohlmeyer (Thu May 22 2008 - 05:23:24 CDT)
scale trajectory coords Peter Jones (Wed May 21 2008 - 22:28:35 CDT)
- Re: scale trajectory coords Axel Kohlmeyer (Wed May 21 2008 - 22:58:01 CDT)
(no subject) paquotau_at_loria.fr (Wed May 21 2008 - 08:12:51 CDT)
- Re: your mail Axel Kohlmeyer (Wed May 21 2008 - 09:17:12 CDT)
Several molecules paquotau_at_loria.fr (Tue May 20 2008 - 10:17:18 CDT)
- Re: Several molecules John Stone (Tue May 20 2008 - 10:21:03 CDT)
Using NAMD Energy Plugin S.K. Ghosh (Tue May 20 2008 - 07:18:35 CDT)
- Re: Using NAMD Energy Plugin Peter Freddolino (Tue May 20 2008 - 08:12:50 CDT)
  - save NAMD plot as a picture S.K. Ghosh (Thu Jun 19 2008 - 14:00:30 CDT)
    - Re: save NAMD plot as a picture John Stone (Thu Jun 19 2008 - 23:51:06 CDT)
- Re: Using NAMD Energy Plugin Axel Kohlmeyer (Tue May 20 2008 - 07:42:39 CDT)
plot residues without hydrogen atoms ABEL Stephane 175950 (Tue May 20 2008 - 07:02:41 CDT)
- Re: plot residues without hydrogen atoms Axel Kohlmeyer (Tue May 20 2008 - 07:40:19 CDT)
- Re: plot residues without hydrogen atoms Peter Freddolino (Tue May 20 2008 - 08:13:32 CDT)
  - RE : plot residues without hydrogen atoms ABEL Stephane 175950 (Tue May 20 2008 - 11:11:46 CDT)
Re: [vmd_chcwaaa@yahoo.com.cn: about measure dihedral angle] Jan Saam (Fri May 16 2008 - 18:15:51 CDT)
Color of bond betwen atoms with different colors Alberto Torres (Fri May 16 2008 - 15:35:40 CDT)
- Re: Color of bond betwen atoms with different colors Axel Kohlmeyer (Fri May 16 2008 - 16:35:50 CDT)
Slow tcl/tk script for trajectory analysis Alberto Sergio Garay (Fri May 16 2008 - 14:34:40 CDT)
- Re: Slow tcl/tk script for trajectory analysis John Stone (Fri May 16 2008 - 14:45:49 CDT)
- Re: Slow tcl/tk script for trajectory analysis Axel Kohlmeyer (Fri May 16 2008 - 14:46:11 CDT)
- Re: Slow tcl/tk script for trajectory analysis Jian Zou (Fri May 16 2008 - 15:23:46 CDT)
Draw in a new layer problems Nuno Sousa Cerqueira (Fri May 16 2008 - 08:36:58 CDT)
- Re: Draw in a new layer problems Peter Freddolino (Fri May 16 2008 - 09:09:43 CDT)
- Re: Draw in a new layer problems Axel Kohlmeyer (Fri May 16 2008 - 10:48:12 CDT)
How to calculate the volume of a molecule using vmd? Khaled Barakat (Thu May 15 2008 - 22:17:36 CDT)
- Re: How to calculate the volume of a molecule using vmd? John Stone (Thu May 15 2008 - 23:39:45 CDT)
Truncated Octahedron for VMD and NAMD simulation Yinglong Miao (Thu May 15 2008 - 14:31:48 CDT)
- Re: namd-l: Truncated Octahedron for VMD and NAMD simulation George Madalin Giambasu (Thu May 15 2008 - 15:23:51 CDT)
  - Re: Re: namd-l: Truncated Octahedron for VMD and NAMD simulation Vlad Cojocaru (Fri May 16 2008 - 03:29:41 CDT)
    - Re: Re: namd-l: Truncated Octahedron for VMD and NAMD simulation Yinglong Miao (Fri May 16 2008 - 09:42:20 CDT)
    - Re: Re: namd-l: Truncated Octahedron for VMD and NAMDsimulation Bishop, Thomas C (Fri May 16 2008 - 13:39:16 CDT)
Info regarding residue based CG simulation anshudx_at_indiatimes.com (Thu May 15 2008 - 13:04:11 CDT)
Re: namd-l: Energy plot script Subramanian Vaitheeswaran (Thu May 15 2008 - 07:28:20 CDT)
- Re: namd-l: Energy plot script bo liu (Thu May 15 2008 - 13:00:23 CDT)
Energy plot script Alexandre A. Vakhrouchev (Wed May 14 2008 - 22:11:19 CDT)
Individual atoms trajectory Alexandre A. Vakhrouchev (Wed May 14 2008 - 00:34:38 CDT)
- Re: Individual atoms trajectory John Stone (Thu May 15 2008 - 23:42:40 CDT)
  - Re: Individual atoms trajectory Alexandre A. Vakhrouchev (Fri May 16 2008 - 01:08:22 CDT)
    - Re: Individual atoms trajectory John Stone (Fri May 16 2008 - 01:33:59 CDT)
    - Re: Individual atoms trajectory Alexandre A. Vakhrouchev (Fri May 16 2008 - 02:08:59 CDT)
membrane builder ffavela_at_fis.cinvestav.mx (Tue May 13 2008 - 17:30:57 CDT)
- Re: membrane builder Axel Kohlmeyer (Tue May 13 2008 - 17:31:47 CDT)
Bond lengths from PDB and PSF Andrew Huang (Mon May 12 2008 - 16:36:18 CDT)
- Re: Bond lengths from PDB and PSF Axel Kohlmeyer (Mon May 12 2008 - 17:32:55 CDT)
coloring according to charge of residues OZGE ENGIN (Mon May 12 2008 - 10:05:33 CDT)
- Re: coloring according to charge of residues Giovanni Bellesia (Mon May 12 2008 - 10:58:45 CDT)
'within' command in VMD Neelanjana Sengupta (Sun May 11 2008 - 02:04:57 CDT)
- Re: 'within' command in VMD Axel Kohlmeyer (Sun May 11 2008 - 03:35:53 CDT)
- Re: 'within' command in VMD John Stone (Sun May 11 2008 - 10:54:53 CDT)
  - Re: 'within' command in VMD Neelanjana Sengupta (Sun May 11 2008 - 12:35:35 CDT)
    - Re: 'within' command in VMD John Stone (Sun May 11 2008 - 13:12:48 CDT)
    - Re: 'within' command in VMD Axel Kohlmeyer (Sun May 11 2008 - 13:22:18 CDT)
Recompile VMD with larger index types Alexandre A. Vakhrouchev (Sat May 10 2008 - 07:36:43 CDT)
- Re: Recompile VMD with larger index types John Stone (Sat May 10 2008 - 10:24:43 CDT)
  - Re: Recompile VMD with larger index types Axel Kohlmeyer (Sat May 10 2008 - 10:19:36 CDT)
Charge State Confusion MIke S (Thu May 08 2008 - 22:17:33 CDT)
- Re: Charge State Confusion John Stone (Thu May 08 2008 - 22:55:36 CDT)
  - Re: Charge State Confusion MIke S (Fri May 09 2008 - 00:45:39 CDT)
about measure dihedral angle cong chen (Thu May 08 2008 - 20:53:08 CDT)
measure sasa gives different results on different platforms Jufang Shan (Wed May 07 2008 - 15:52:47 CDT)
- Re: measure sasa gives different results on different platforms John Stone (Wed May 07 2008 - 16:59:55 CDT)
  - Re: measure sasa gives different results on different platforms Jufang Shan (Wed May 07 2008 - 23:04:19 CDT)
bigdcd v2.0 testers needed... Axel Kohlmeyer (Wed May 07 2008 - 15:21:47 CDT)
running vmd as pbs job zhenlong li (Tue May 06 2008 - 14:40:44 CDT)
- Re: running vmd as pbs job John Stone (Fri May 09 2008 - 02:29:22 CDT)
  - Re: running vmd as pbs job zhenlong li (Fri May 09 2008 - 08:34:41 CDT)
Writepdb with Solvation Box Alejandro Ortega (Tue May 06 2008 - 12:50:23 CDT)
- Re: Writepdb with Solvation Box Axel Kohlmeyer (Tue May 06 2008 - 13:25:34 CDT)
NAMDENERGY: function of 'cutoff' parameter when -pme option is enabled Ghalib Bello (Mon May 05 2008 - 23:02:45 CDT)
- Re: namd-l: NAMDENERGY: function of 'cutoff' parameter when -pme option is enabled Peter Freddolino (Tue May 06 2008 - 00:37:54 CDT)
question related to rmsd snoze pa (Mon May 05 2008 - 15:03:07 CDT)
- Re: namd-l: question related to rmsd JC Gumbart (Mon May 05 2008 - 16:19:47 CDT)
Vmd too slow on Suse10.x cgji (Mon May 05 2008 - 08:20:47 CDT)
- Re: Vmd too slow on Suse10.x Olaf Lenz (Mon May 05 2008 - 09:01:51 CDT)
- Re: Vmd too slow on Suse10.x John Stone (Mon May 05 2008 - 09:42:31 CDT)
The discreet replica store Greta Bush (Mon May 05 2008 - 01:28:30 CDT)
about writepdb cong chen (Mon May 05 2008 - 00:08:53 CDT)
- RE: about writepdb JC Gumbart (Mon May 05 2008 - 00:18:00 CDT)
Get one of these awesome replicas Rolando Carlson (Sun May 04 2008 - 12:10:27 CDT)
Replica watches make great gifts Edwina Grove (Sun May 04 2008 - 01:24:11 CDT)
The affordable watch alternative Ariel Mitchell (Fri May 02 2008 - 20:35:12 CDT)
a common list problem Thomas C. Bishop (Fri May 02 2008 - 10:28:30 CDT)
- Re: a common list problem John Stone (Fri May 02 2008 - 10:39:04 CDT)
Get one of these awesome replicas Melanie Mcmahon (Fri May 02 2008 - 01:05:03 CDT)
Rendering electrostatic surface potentials using Tachyon Jason Winget (Thu May 01 2008 - 15:39:31 CDT)
- Re: Rendering electrostatic surface potentials using Tachyon John Stone (Thu May 01 2008 - 21:56:13 CDT)
- Re: Rendering electrostatic surface potentials using Tachyon JT (Thu Apr 09 2009 - 15:14:41 CDT)
  - Re: Re: Rendering electrostatic surface potentials using Tachyon John Stone (Fri Apr 10 2009 - 10:22:45 CDT)
One of a kind replicas Richard Stone (Thu May 01 2008 - 11:18:31 CDT)
Watches made to impress Clinton Sylvester (Thu May 01 2008 - 10:40:03 CDT)
Measuring fit exclusively in 1 plane Benjamin Hall (Thu May 01 2008 - 04:59:04 CDT)
- Re: Measuring fit exclusively in 1 plane John Stone (Thu May 01 2008 - 21:54:14 CDT)
Why get an original watch? Leticia Larkin (Wed Apr 30 2008 - 20:14:01 CDT)
Impressive Glashutte timepieces! Lorena Shipley (Wed Apr 30 2008 - 08:35:35 CDT)
Spring quality watches offer Bertie Earl (Tue Apr 29 2008 - 19:30:10 CDT)
creating psf from pgn S.K. Ghosh (Tue Apr 29 2008 - 13:42:45 CDT)
- Re: creating psf from pgn John Stone (Tue Apr 29 2008 - 16:09:24 CDT)
Beginner with cyclic peptide Gao, Fan, Ph.D. (Tue Apr 29 2008 - 11:25:34 CDT)
- Re: Beginner with cyclic peptide Peter Freddolino (Tue Apr 29 2008 - 11:44:04 CDT)
Rolex replica is a ultimate gift Jimmie Corona (Tue Apr 29 2008 - 08:25:38 CDT)
clarification to "problem using pbc wrap" politr_at_huji.ac.il (Tue Apr 29 2008 - 06:43:23 CDT)
problem using pbc wrap politr_at_huji.ac.il (Tue Apr 29 2008 - 05:52:09 CDT)
(no subject) politr_at_huji.ac.il (Tue Apr 29 2008 - 05:49:41 CDT)
- Re: problem using pbc wrap Axel Kohlmeyer (Tue Apr 29 2008 - 06:49:20 CDT)
Spring quality watches offer Bryce Vang (Mon Apr 28 2008 - 12:56:22 CDT)
Hot replica watches from 2008 Rudy Puckett (Sun Apr 27 2008 - 14:53:15 CDT)
Re: namd-l: How to play molecule trajectory with VMD? Regina Politi (Sun Apr 27 2008 - 07:15:22 CDT)
Replica watch is a perfect gift Christian Courtney (Sun Apr 27 2008 - 04:18:34 CDT)
Replica watch is a perfect gift Murray Dyer (Sat Apr 26 2008 - 17:18:11 CDT)
Can not enter text in VMD plugin window Dong Xu (Fri Apr 25 2008 - 21:21:16 CDT)
- Re: Can not enter text in VMD plugin window Axel Kohlmeyer (Fri Apr 25 2008 - 21:52:12 CDT)
- Re: Can not enter text in VMD plugin window John Stone (Fri Apr 25 2008 - 21:53:05 CDT)
  - Re: Can not enter text in VMD plugin window Dong Xu (Sat Apr 26 2008 - 00:10:04 CDT)
Eigen values of Moment of Intertia Tensor greddy1_at_umd.edu (Fri Apr 25 2008 - 15:12:19 CDT)
Eigen values of Moment of Intertia Tensor greddy1_at_umd.edu (Fri Apr 25 2008 - 10:19:52 CDT)
You can save 80% Arturo Fernandez (Fri Apr 25 2008 - 05:58:21 CDT)
Get one of these awesome replicas Jerry Kiser (Thu Apr 24 2008 - 18:45:18 CDT)
problem with "within" command of VMD politr_at_huji.ac.il (Thu Apr 24 2008 - 08:22:23 CDT)
- Re: problem with "within" command of VMD Axel Kohlmeyer (Thu Apr 24 2008 - 08:43:19 CDT)
viewing pca output Bala subramanian (Thu Apr 24 2008 - 08:09:43 CDT)
- Re: viewing pca output John Stone (Thu May 01 2008 - 22:38:31 CDT)
  - Re: viewing pca output Bala subramanian (Fri May 02 2008 - 06:16:00 CDT)
    - Re: viewing pca output John Stone (Fri May 02 2008 - 16:36:51 CDT)
Inexpensive Louis Vuitton bags Buford Granger (Thu Apr 24 2008 - 09:03:05 CDT)
resolution screen in Linux andrea spitaleri (Thu Apr 24 2008 - 07:33:24 CDT)
- Re: resolution screen in Linux Axel Kohlmeyer (Thu Apr 24 2008 - 08:15:59 CDT)
- Re: resolution screen in Linux John Stone (Thu Apr 24 2008 - 08:46:50 CDT)
  - Re: resolution screen in Linux andrea spitaleri (Mon Apr 28 2008 - 02:54:15 CDT)
how to identify DNA-protein interaction interface BERGY (Thu Apr 24 2008 - 05:42:53 CDT)
- Re: how to identify DNA-protein interaction interface Thomas C. Bishop (Thu Apr 24 2008 - 09:40:50 CDT)
problem while running VMD politr_at_huji.ac.il (Thu Apr 24 2008 - 03:31:22 CDT)
problem while running VMD Regina Politi (Thu Apr 24 2008 - 03:30:19 CDT)
- Re: problem while running VMD John Stone (Thu Apr 24 2008 - 09:20:17 CDT)
One of a kind replicas Erin Ziegler (Wed Apr 23 2008 - 21:53:24 CDT)
Rendering Labels with Tachyon Anthony Ivetac (Wed Apr 23 2008 - 18:18:33 CDT)
- Re: Rendering Labels with Tachyon John Stone (Wed Apr 23 2008 - 19:36:49 CDT)
  - Re: Rendering Labels with Tachyon Anthony Ivetac (Thu Apr 24 2008 - 11:58:52 CDT)
Get your watch now Helena Slater (Wed Apr 23 2008 - 12:17:13 CDT)
measure distance politr_at_huji.ac.il (Wed Apr 23 2008 - 09:02:41 CDT)
- Re: measure distance Axel Kohlmeyer (Wed Apr 23 2008 - 09:04:00 CDT)
- Re: measure distance Jian Zou (Wed Apr 23 2008 - 09:45:58 CDT)
memorry problem politr_at_huji.ac.il (Wed Apr 23 2008 - 06:48:53 CDT)
- Re: memorry problem Axel Kohlmeyer (Wed Apr 23 2008 - 06:58:42 CDT)
  - Re: memorry problem Axel Kohlmeyer (Fri May 02 2008 - 15:04:02 CDT)
bug in the g(r) evaluation? cipitaua_at_gmail.com (Tue Apr 22 2008 - 09:30:37 CDT)
- Re: bug in the g(r) evaluation? Axel Kohlmeyer (Tue Apr 22 2008 - 10:10:35 CDT)
  - Re: bug in the g(r) evaluation? cipitaua_at_gmail.com (Tue Apr 22 2008 - 11:06:14 CDT)
    - Re: bug in the g(r) evaluation? Axel Kohlmeyer (Tue Apr 22 2008 - 14:32:07 CDT)
    - Re: bug in the g(r) evaluation? cipitaua_at_gmail.com (Wed Apr 23 2008 - 07:50:12 CDT)
alignment problem. trying to align new lipid to bilayer, but lipid always has wrong direction? maria goranovic (Tue Apr 22 2008 - 07:02:42 CDT)
One of a kind replicas Jane Mayberry (Mon Apr 21 2008 - 07:16:11 CDT)
Tag Heuer replicas better than originals Errol Lusk (Sun Apr 20 2008 - 18:30:56 CDT)
Tag Heuer replicas better than originals Corine Brady (Sun Apr 20 2008 - 07:33:41 CDT)
Tag Heuer replicas better than originals Mona Gomes (Sat Apr 19 2008 - 17:17:44 CDT)
warnings during plugin build Cojocaru,Vlad (Sat Apr 19 2008 - 09:09:32 CDT)
- Re: warnings during plugin build Axel Kohlmeyer (Sat Apr 19 2008 - 09:21:04 CDT)
  - RE: warnings during plugin build Cojocaru,Vlad (Sat Apr 19 2008 - 13:34:22 CDT)
  - Re: warnings during plugin build John Stone (Sat Apr 19 2008 - 14:29:46 CDT)
- Re: warnings during plugin build John Stone (Sat Apr 19 2008 - 14:46:06 CDT)
  - RE: warnings during plugin build Cojocaru,Vlad (Sat Apr 19 2008 - 17:53:58 CDT)
Take a look at the latest replica watches Lillie Lyons (Sat Apr 19 2008 - 07:00:53 CDT)
Spring quality watches offer Weldon Sylvester (Fri Apr 18 2008 - 18:29:29 CDT)
RMSD between two structures without the same number of atoms Aurelie.DeLuca_at_sanofi-aventis.com (Fri Apr 18 2008 - 08:08:39 CDT)
- Re: RMSD between two structures without the same number of atoms Axel Kohlmeyer (Fri Apr 18 2008 - 09:20:29 CDT)
You can save 80% Annabelle Posey (Thu Apr 17 2008 - 17:58:17 CDT)
PPMTOMPEG Quality Anthony Ivetac (Thu Apr 17 2008 - 14:40:15 CDT)
- Re: PPMTOMPEG Quality John Stone (Thu Apr 17 2008 - 16:38:16 CDT)
- Re: PPMTOMPEG Quality Axel Kohlmeyer (Thu Apr 17 2008 - 16:23:34 CDT)
Compiled version for MacOSX with non-standard options Delalande (Thu Apr 17 2008 - 08:37:14 CDT)
- Re: Compiled version for MacOSX with non-standard options John Stone (Thu Apr 17 2008 - 13:15:46 CDT)
  - Re: Compiled version for MacOSX with non-standard options Marc Baaden (Fri Apr 18 2008 - 08:36:25 CDT)
Replica watch is a perfect gift Deanna Fleming (Thu Apr 17 2008 - 05:25:56 CDT)
measure hbonds between protein and water - problem with periodic boundary conditions Ana Vila Verde (Thu Apr 17 2008 - 02:54:08 CDT)
- Re: measure hbonds between protein and water - problem with periodic boundary conditions Olaf Lenz (Thu Apr 17 2008 - 04:32:34 CDT)
  - Re: measure hbonds between protein and water - problem with periodic boundary conditions Axel Kohlmeyer (Thu Apr 17 2008 - 04:52:29 CDT)
    - Re: measure hbonds between protein and water - problem with periodic boundary conditions Olaf Lenz (Thu Apr 17 2008 - 05:19:52 CDT)
    - Re: measure hbonds between protein and water - problem with periodic boundary conditions Ana Vila Verde (Thu Apr 17 2008 - 05:54:50 CDT)
atomselect cong chen (Wed Apr 16 2008 - 19:58:18 CDT)
- Re: atomselect Jian Zou (Thu Apr 17 2008 - 09:06:48 CDT)
- Re: atomselect Axel Kohlmeyer (Thu Apr 17 2008 - 11:07:27 CDT)
Trajectory title Alessandro Cembran (Wed Apr 16 2008 - 07:53:47 CDT)
- Re: Trajectory title Axel Kohlmeyer (Wed Apr 16 2008 - 11:06:05 CDT)
You and a Rolex watch Tisha Engle (Wed Apr 16 2008 - 05:16:24 CDT)
Timer in VMD Lili Peng (Tue Apr 15 2008 - 16:59:28 CDT)
- Re: Timer in VMD Axel Kohlmeyer (Tue Apr 15 2008 - 18:58:46 CDT)
  - Re: Timer in VMD Lili Peng (Tue Apr 15 2008 - 21:52:22 CDT)
You and a Rolex watch Althea Lake (Tue Apr 15 2008 - 17:12:00 CDT)
Example tutorial snoze pa (Mon Apr 14 2008 - 18:38:03 CDT)
catDCD Raul Araya (Mon Apr 14 2008 - 12:01:41 CDT)
- RE: catDCD Richard Swenson (Mon Apr 14 2008 - 13:28:19 CDT)
- Re: catDCD Axel Kohlmeyer (Mon Apr 14 2008 - 12:08:34 CDT)
Spring quality watches offer Grace Clay (Mon Apr 14 2008 - 11:47:27 CDT)
topology files L/D form Jorgen Simonsen (Mon Apr 14 2008 - 04:50:08 CDT)
- Re: topology files L/D form Peter Freddolino (Mon Apr 14 2008 - 10:26:40 CDT)
  - Re: topology files L/D form Jorgen Simonsen (Mon Apr 14 2008 - 12:55:11 CDT)
    - Re: topology files L/D form Peter Freddolino (Mon Apr 14 2008 - 13:13:10 CDT)
15% off on two watches Lora Burgos (Mon Apr 14 2008 - 00:35:59 CDT)
compilation with python 2.5 and file permissions from the CVS repository Cojocaru,Vlad (Sun Apr 13 2008 - 12:24:52 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository Axel Kohlmeyer (Sun Apr 13 2008 - 12:58:26 CDT)
  - RE: compilation with python 2.5 and file permissions from the CVS repository Cojocaru,Vlad (Sun Apr 13 2008 - 14:50:44 CDT)
Inexpensive Louis Vuitton bags Royce Rosa (Sat Apr 12 2008 - 18:57:58 CDT)
change residue name and write a trajectory file L. Michel Espinoza-Fonseca (Thu Apr 10 2008 - 17:02:13 CDT)
- Re: change residue name and write a trajectory file Axel Kohlmeyer (Thu Apr 10 2008 - 18:19:12 CDT)
Using namdenergy in batch mode to compute dihedral energies Irene Newhouse (Thu Apr 10 2008 - 15:15:36 CDT)
- Re: Using namdenergy in batch mode to compute dihedral energies Peter Freddolino (Thu Apr 10 2008 - 17:05:18 CDT)
  - RE: Using namdenergy in batch mode to compute dihedral energies Irene Newhouse (Thu Apr 10 2008 - 21:17:08 CDT)
Join tens of thousands of LUCKY winners today........ Mel Weston (Thu Apr 10 2008 - 05:48:03 CDT)
Play at the world's leading online casino..... Bobbie Horton (Thu Apr 10 2008 - 01:28:24 CDT)
The safest and most secure Online casino in the world....... Marian Clifton (Wed Apr 09 2008 - 18:55:11 CDT)
Visualization in 3-D using NVIDIA quaddro Himanshu Khandelia (Wed Apr 09 2008 - 05:27:18 CDT)
- Re: Visualization in 3-D using NVIDIA quaddro John Stone (Wed Apr 09 2008 - 10:28:10 CDT)
Play at the world's leading online casino..... Ned Roy (Wed Apr 09 2008 - 01:14:11 CDT)
Displaying nearest images using PBCTools Subramanian Vaitheeswaran (Tue Apr 08 2008 - 15:49:03 CDT)
- Re: Displaying nearest images using PBCTools Olaf Lenz (Wed Apr 09 2008 - 03:06:08 CDT)
some questions about the RDF plugin Raul Araya (Mon Apr 07 2008 - 15:23:32 CDT)
- Re: some questions about the RDF plugin Axel Kohlmeyer (Mon Apr 07 2008 - 15:32:29 CDT)
  - Re: some questions about the RDF plugin Axel Kohlmeyer (Mon Apr 07 2008 - 16:01:54 CDT)
How to circumvent: FATAL ERROR: Periodic cell has become too small for original patch grid! Maxim Paliy (Mon Apr 07 2008 - 12:36:24 CDT)
psfgen 999 waters resname X column Low Soo Mei (Mon Apr 07 2008 - 05:31:52 CDT)
- Re: psfgen 999 waters resname X column John Stone (Mon Apr 07 2008 - 11:54:54 CDT)
  - Re: psfgen 999 waters resname X column Low Soo Mei (Mon Apr 07 2008 - 21:02:37 CDT)
Insall Problem VMD Linux 1.8.6 Part II! Peter Hains (Sun Apr 06 2008 - 23:07:55 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! John Stone (Sun Apr 06 2008 - 23:23:31 CDT)
  - Re: Insall Problem VMD Linux 1.8.6 Part II! Peter Freddolino (Sun Apr 06 2008 - 23:31:25 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! Axel Kohlmeyer (Sun Apr 06 2008 - 23:50:58 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! John Stone (Sun Apr 06 2008 - 23:48:11 CDT)
Install problem VMD Linux 1.8.6 Peter Hains (Sun Apr 06 2008 - 19:19:15 CDT)
- Re: Install problem VMD Linux 1.8.6 John Stone (Sun Apr 06 2008 - 20:15:31 CDT)
- Re: Install problem VMD Linux 1.8.6 Axel Kohlmeyer (Sun Apr 06 2008 - 20:21:11 CDT)
About Tcl command zhjjvmd (Sat Apr 05 2008 - 20:58:15 CDT)
- Re: About Tcl command Axel Kohlmeyer (Sun Apr 06 2008 - 00:58:40 CDT)
  - Re: Re: About Tcl command zhjjvmd (Sun Apr 06 2008 - 01:17:54 CDT)
How to read specific DCD frames directly in Fortran? Yinglong Miao (Sat Apr 05 2008 - 13:21:53 CDT)
- Re: How to read specific DCD frames directly in Fortran? Peter Freddolino (Sat Apr 05 2008 - 13:38:39 CDT)
- Re: How to read specific DCD frames directly in Fortran? John Stone (Sat Apr 05 2008 - 13:43:21 CDT)
- Re: How to read specific DCD frames directly in Fortran? Axel Kohlmeyer (Sat Apr 05 2008 - 18:08:23 CDT)
  - Re: How to read specific DCD frames directly in Fortran? Leandro Martínez (Sun Apr 06 2008 - 02:25:45 CDT)
    - Re: How to read specific DCD frames directly in Fortran? Yinglong Miao (Sun Apr 06 2008 - 10:51:40 CDT)
how to render higher resolution figures for publication? Lixia Jin Day (Fri Apr 04 2008 - 16:27:04 CDT)
- Re: how to render higher resolution figures for publication? John Stone (Fri Apr 04 2008 - 16:36:05 CDT)
  - Re: how to render higher resolution figures for publication? Lixia Jin Day (Fri Apr 04 2008 - 17:42:08 CDT)
Topology file Alejandro Ortega (Fri Apr 04 2008 - 11:24:14 CDT)
- Re: Topology file Axel Kohlmeyer (Fri Apr 04 2008 - 11:52:27 CDT)
0ne of a kind repl1cas Sandy Anderson (Thu Apr 03 2008 - 08:19:31 CDT)
You can s4ve 80% Sherman Sherman (Wed Apr 02 2008 - 10:10:22 CDT)
Cannot perform RMSD analysis Maria Sanchez Farran (Wed Apr 02 2008 - 07:49:55 CDT)
- Re: Cannot perform RMSD analysis John Stone (Wed Apr 02 2008 - 23:53:41 CDT)
April promo on w4tches Randell Lund (Mon Mar 31 2008 - 22:03:54 CDT)
render Dongsheng Zhang (Mon Mar 31 2008 - 15:51:35 CDT)
- Re: render John Stone (Tue Apr 01 2008 - 14:14:12 CDT)
  - Re: render Dongsheng Zhang (Tue Apr 01 2008 - 14:22:17 CDT)
    - Re: render John Stone (Thu Apr 03 2008 - 00:24:30 CDT)
using cvs under Windows XP Ben Chern (Mon Mar 31 2008 - 08:31:31 CDT)
- Re: using cvs under Windows XP Axel Kohlmeyer (Mon Mar 31 2008 - 09:37:54 CDT)
  - Re: using cvs under Windows XP Ben Chern (Mon Mar 31 2008 - 10:21:11 CDT)
Compiling VMD under Windows XP Ben Chern (Mon Mar 31 2008 - 04:13:38 CDT)
- Re: Compiling VMD under Windows XP John Stone (Mon Mar 31 2008 - 10:29:59 CDT)
  - Re: Compiling VMD under Windows XP Ben Chern (Mon Mar 31 2008 - 21:39:41 CDT)
porcupine plot SWAPNA (Mon Mar 31 2008 - 01:06:36 CDT)
- Re: porcupine plot John Stone (Mon Mar 31 2008 - 01:22:18 CDT)
  - Re: porcupine plot Oliver Beckstein (Wed Apr 02 2008 - 16:46:40 CDT)
- Re: porcupine plot Axel Kohlmeyer (Mon Mar 31 2008 - 04:01:53 CDT)
- Re: porcupine plot Benjamin Hall (Wed Apr 02 2008 - 17:30:49 CDT)
  - Re: Re: porcupine plot John Stone (Wed Apr 02 2008 - 23:41:12 CDT)
    - Re: Re: porcupine plot Benjamin Hall (Thu Apr 03 2008 - 12:00:11 CDT)
NAMDenergy: how to override a FATAL ERROR Neelanjana Sengupta (Sun Mar 30 2008 - 14:50:29 CDT)
- Re: NAMDenergy: how to override a FATAL ERROR Peter Freddolino (Sun Mar 30 2008 - 15:02:58 CDT)
  - Re: NAMDenergy: how to override a FATAL ERROR Neelanjana Sengupta (Sun Mar 30 2008 - 15:51:45 CDT)
    - Re: NAMDenergy: how to override a FATAL ERROR Peter Freddolino (Sun Mar 30 2008 - 16:02:30 CDT)
  - Re: NAMDenergy: how to override a FATAL ERROR Peter Freddolino (Tue Apr 01 2008 - 10:55:05 CDT)
Problems with PDB file format in VMD cong chen (Thu Mar 27 2008 - 18:55:38 CDT)
- Re: Problems with PDB file format in VMD Axel Kohlmeyer (Thu Mar 27 2008 - 20:42:45 CDT)
Tcl 8.5.x in upcoming versions of VMD... John Stone (Thu Mar 27 2008 - 17:19:47 CDT)
- Re: Tcl 8.5.x in upcoming versions of VMD... Axel Kohlmeyer (Thu Mar 27 2008 - 17:32:20 CDT)
  - Re: Tcl 8.5.x in upcoming versions of VMD... John Stone (Thu Mar 27 2008 - 18:11:20 CDT)
    - Re: Tcl 8.5.x in upcoming versions of VMD... Axel Kohlmeyer (Thu Mar 27 2008 - 18:14:23 CDT)
Test VMD with CUDA support for Linux and MacOS X 10.5.2... John Stone (Thu Mar 27 2008 - 17:13:15 CDT)
Selection "within x of something" is not updated throughout DCD trajectory? Maxim Paliy (Thu Mar 27 2008 - 13:59:25 CDT)
- Re: Selection "within x of something" is not updated throughout DCD trajectory? John Stone (Thu Mar 27 2008 - 14:04:35 CDT)
How to see the original Origin (0,0,0, coordinate) of a system Utpal Sarkar (Thu Mar 27 2008 - 11:20:03 CDT)
- Re: How to see the original Origin (0,0,0, coordinate) of a system Axel Kohlmeyer (Thu Mar 27 2008 - 11:57:58 CDT)
- Re: How to see the original Origin (0,0,0, coordinate) of a system Adrian Kaats (Thu Mar 27 2008 - 15:56:52 CDT)
- Re: How to see the original Origin (0,0,0, coordinate) of a system John Stone (Thu Mar 27 2008 - 16:51:44 CDT)
Can VMD show the interactions between different structure part? Ben Chern (Wed Mar 26 2008 - 22:20:57 CDT)
- Re: Can VMD show the interactions between different structure part? Axel Kohlmeyer (Wed Mar 26 2008 - 23:19:40 CDT)
  - Re: Can VMD show the interactions between different structure part? Ben Chern (Thu Mar 27 2008 - 06:35:56 CDT)
    - Re: Can VMD show the interactions between different structure part? Axel Kohlmeyer (Thu Mar 27 2008 - 06:43:41 CDT)
    - Re: Can VMD show the interactions between different structure part? Ben Chern (Thu Mar 27 2008 - 20:26:13 CDT)
problem with pbc Matt Watkins (Wed Mar 26 2008 - 16:20:55 CDT)
- Re: problem with pbc Axel Kohlmeyer (Wed Mar 26 2008 - 16:38:07 CDT)
  - Re: problem with pbc Matt Watkins (Wed Mar 26 2008 - 17:07:58 CDT)
Can we get secondary structure from PDB files? Ben Chern (Wed Mar 26 2008 - 04:02:04 CDT)
- Re: Can we get secondary structure from PDB files? Axel Kohlmeyer (Wed Mar 26 2008 - 06:15:42 CDT)
  - Re: Can we get secondary structure from PDB files? Ben Chern (Wed Mar 26 2008 - 20:44:00 CDT)
    - Re: Can we get secondary structure from PDB files? John Stone (Wed Mar 26 2008 - 21:26:46 CDT)
    - Re: Can we get secondary structure from PDB files? Ben Chern (Wed Mar 26 2008 - 22:12:12 CDT)
time correlation function Krishnan, Marimuthu (Tue Mar 25 2008 - 22:44:40 CDT)
- Re: time correlation function Axel Kohlmeyer (Tue Mar 25 2008 - 22:56:27 CDT)
- Re: time correlation function David A. Case (Thu Mar 27 2008 - 16:35:11 CDT)
  - Re: time correlation function John Stone (Thu Mar 27 2008 - 17:08:08 CDT)
Test cong chen (Tue Mar 25 2008 - 18:39:50 CDT)
- Re: Test John Stone (Tue Mar 25 2008 - 21:59:05 CDT)
VMD tutorial for working with solid crystals Minhaj (Tue Mar 25 2008 - 03:33:19 CDT)
- Re: VMD tutorial for working with solid crystals Axel Kohlmeyer (Tue Mar 25 2008 - 13:38:06 CDT)
script to read dcd frame-at-a-time & write a selection Irene Newhouse (Mon Mar 24 2008 - 17:16:39 CDT)
- Re: script to read dcd frame-at-a-time & write a selection Axel Kohlmeyer (Mon Mar 24 2008 - 17:43:28 CDT)
  - RE: script to read dcd frame-at-a-time & write a selection Irene Newhouse (Mon Mar 24 2008 - 19:26:00 CDT)
Loading a PDB file with different atom counts in models Adrian Kaats (Fri Mar 21 2008 - 09:19:35 CDT)
- Re: Loading a PDB file with different atom counts in models John Stone (Mon Mar 24 2008 - 23:31:20 CDT)
  - Re: Loading a PDB file with different atom counts in models Adrian Kaats (Tue Mar 25 2008 - 07:41:38 CDT)
atoms with changing colors Simone Melchionna (Thu Mar 20 2008 - 16:50:50 CDT)
- Re: atoms with changing colors Axel Kohlmeyer (Thu Mar 20 2008 - 17:05:53 CDT)
- Re: atoms with changing colors John Stone (Thu Mar 20 2008 - 17:03:47 CDT)
atomselect protein Adrian Kaats (Thu Mar 20 2008 - 16:39:54 CDT)
- Re: atomselect protein John Stone (Thu Mar 20 2008 - 16:48:27 CDT)
old VMD post - RE: measuring distances in vmd tkon Simpson, Lisa M (Thu Mar 20 2008 - 12:38:36 CDT)
- Re: old VMD post - RE: measuring distances in vmd tkon L. Michel Espinoza-Fonseca (Thu Mar 20 2008 - 13:35:33 CDT)
  - Re: old VMD post - RE: measuring distances in vmd tkon L. Michel Espinoza-Fonseca (Thu Mar 20 2008 - 13:46:21 CDT)
GPU test machine Michael Di Domenico (Thu Mar 20 2008 - 11:04:59 CDT)
- Re: GPU test machine John Stone (Thu Mar 20 2008 - 11:25:09 CDT)
  - Re: GPU test machine Michael Di Domenico (Thu Mar 20 2008 - 15:29:41 CDT)
running ca-dist.tcl Simpson, Lisa M (Thu Mar 20 2008 - 08:57:47 CDT)
- Re: running ca-dist.tcl L. Michel Espinoza-Fonseca (Thu Mar 20 2008 - 10:38:50 CDT)
RMSD calc SENTHIL KUMAR (Thu Mar 20 2008 - 01:11:02 CDT)
- Re: RMSD calc Axel Kohlmeyer (Thu Mar 20 2008 - 05:37:31 CDT)
Build a VMD forum? Stanley, Yemin Shi (Wed Mar 19 2008 - 15:49:08 CDT)
- Re: Build a VMD forum? Axel Kohlmeyer (Wed Mar 19 2008 - 16:08:27 CDT)
  - Calculating the Tilt Angle of a non-helical peptide Arneh Babakhani (Wed Mar 19 2008 - 20:24:38 CDT)
Radial Density Jennifer Williams (Wed Mar 19 2008 - 11:12:56 CDT)
- Re: Radial Density Axel Kohlmeyer (Wed Mar 19 2008 - 11:48:49 CDT)
dipole Alessio Alexiadis (Wed Mar 19 2008 - 06:54:21 CDT)
- Re: dipole Axel Kohlmeyer (Wed Mar 19 2008 - 07:32:17 CDT)
Display bond breaking Stanley, Yemin Shi (Tue Mar 18 2008 - 22:17:50 CDT)
- Re: Display bond breaking Axel Kohlmeyer (Tue Mar 18 2008 - 22:25:27 CDT)
DLPOLY HISTORY FILE in VMD Utpal Sarkar (Tue Mar 18 2008 - 11:08:29 CDT)
- Re: DLPOLY HISTORY FILE in VMD Axel Kohlmeyer (Tue Mar 18 2008 - 11:23:31 CDT)
Re-create Figures in VMD Images and Movies Tutorial Dong Xu (Mon Mar 17 2008 - 16:17:57 CDT)
- Re: Re-create Figures in VMD Images and Movies Tutorial John Stone (Sun Mar 30 2008 - 15:51:16 CDT)
closewater.tcl Irene Newhouse (Mon Mar 17 2008 - 14:48:37 CDT)
- Re: closewater.tcl L. Michel Espinoza-Fonseca (Mon Mar 17 2008 - 15:41:14 CDT)
  - RE: closewater.tcl Irene Newhouse (Mon Mar 17 2008 - 15:50:03 CDT)
    - RE: closewater.tcl Axel Kohlmeyer (Mon Mar 17 2008 - 16:02:02 CDT)
    - RE: closewater.tcl Irene Newhouse (Mon Mar 17 2008 - 18:59:24 CDT)
GLSL lost Ignacio Fernández Galván (Mon Mar 17 2008 - 12:17:21 CDT)
- Re: GLSL lost Axel Kohlmeyer (Mon Mar 17 2008 - 13:59:35 CDT)
  - Re: GLSL lost Ignacio Fernández Galván (Tue Mar 18 2008 - 04:59:41 CDT)
different numbers of frames even though... Christopher Stiles (Fri Mar 14 2008 - 01:49:53 CDT)
- Re: different numbers of frames even though... Axel Kohlmeyer (Fri Mar 14 2008 - 09:49:00 CDT)
  - RE: different numbers of frames even though... Christopher Stiles (Fri Mar 14 2008 - 10:59:50 CDT)
    - RE: different numbers of frames even though... Axel Kohlmeyer (Fri Mar 14 2008 - 13:05:03 CDT)
ramaplot ramya narasimhan (Fri Mar 14 2008 - 00:46:30 CDT)
- Re: ramaplot Axel Kohlmeyer (Fri Mar 14 2008 - 09:37:41 CDT)
Does VMD support to draw a velocity field diagram? Fred (Rui FENG) (Thu Mar 13 2008 - 16:26:13 CDT)
- Re: Does VMD support to draw a velocity field diagram? Axel Kohlmeyer (Thu Mar 13 2008 - 18:03:54 CDT)
Diffusion Constant joy tehrani (Wed Mar 12 2008 - 17:44:52 CDT)
- Re: Diffusion Constant Axel Kohlmeyer (Tue Mar 18 2008 - 22:59:53 CDT)
  - Re: Diffusion Constant Massimo Lai (Wed Mar 19 2008 - 06:09:44 CDT)
    - Re: Diffusion Constant Axel Kohlmeyer (Wed Mar 19 2008 - 06:09:56 CDT)
Re: about paratool saam (Tue Mar 11 2008 - 11:56:45 CDT)
Paratools problem with Gaussian Output Nicolas Floquet (Tue Mar 11 2008 - 02:39:05 CDT)
- Re: Paratools problem with Gaussian Output Jan Saam (Tue Mar 11 2008 - 05:40:06 CDT)
Using namdenergy without cutoffs? poker_at_physics.usyd.edu.au (Tue Mar 11 2008 - 01:09:20 CDT)
- Re: Using namdenergy without cutoffs? Peter Freddolino (Tue Mar 11 2008 - 07:45:44 CDT)
  - Re: Using namdenergy without cutoffs? poker_at_physics.usyd.edu.au (Tue Mar 11 2008 - 20:05:46 CDT)
problem with gopython Carolyn Phillips (Mon Mar 10 2008 - 22:32:05 CDT)
- Re: problem with gopython John Stone (Tue Mar 11 2008 - 10:06:47 CDT)
snapshot not compatible with -dispdev text? Emmanuel Levy (Mon Mar 10 2008 - 17:08:02 CDT)
- Re: snapshot not compatible with -dispdev text? Axel Kohlmeyer (Mon Mar 10 2008 - 17:35:52 CDT)
  - Re: snapshot not compatible with -dispdev text? Emmanuel Levy (Mon Mar 10 2008 - 18:19:49 CDT)
- Re: snapshot not compatible with -dispdev text? John Stone (Mon Mar 10 2008 - 17:46:22 CDT)
Solvent accessible surface area calculation L. Michel Espinoza-Fonseca (Mon Mar 10 2008 - 14:41:08 CDT)
Automatically zoom so that the protein fill the display Emmanuel Levy (Mon Mar 10 2008 - 13:21:46 CDT)
- Re: Automatically zoom so that the protein fill the display Axel Kohlmeyer (Mon Mar 10 2008 - 13:50:50 CDT)
  - Re: Automatically zoom so that the protein fill the display Emmanuel Levy (Mon Mar 10 2008 - 14:28:30 CDT)
    - Re: Automatically zoom so that the protein fill the display John Stone (Mon Mar 10 2008 - 14:36:02 CDT)
    - Re: Automatically zoom so that the protein fill the display Emmanuel Levy (Mon Mar 10 2008 - 15:03:40 CDT)
  - Re: Automatically zoom so that the protein fill the display John Stone (Mon Mar 10 2008 - 14:17:27 CDT)
    - Re: Automatically zoom so that the protein fill the display Emmanuel Levy (Mon Mar 10 2008 - 14:30:51 CDT)
pbc join Dongsheng Zhang (Sun Mar 09 2008 - 22:44:32 CDT)
- Re: pbc join Axel Kohlmeyer (Sun Mar 09 2008 - 23:57:35 CDT)
- Re: pbc join Olaf Lenz (Mon Mar 10 2008 - 01:49:46 CDT)
radial density over one frame Christopher Stiles (Sun Mar 09 2008 - 14:55:51 CDT)
- Re: radial density over one frame Axel Kohlmeyer (Sun Mar 09 2008 - 15:49:17 CDT)
compile problem for VMD1.8.6: OpenGLRenderer.C Dan Strahs (Sat Mar 08 2008 - 20:17:23 CST)
- Re: compile problem for VMD1.8.6: OpenGLRenderer.C Axel Kohlmeyer (Sat Mar 08 2008 - 20:51:50 CST)
calculate volume Dong Xu (Fri Mar 07 2008 - 21:20:40 CST)
- Re: calculate volume John Stone (Fri Mar 07 2008 - 22:20:45 CST)
  - Re: calculate volume Dong Xu (Fri Mar 07 2008 - 22:46:28 CST)
    - Re: calculate volume John Stone (Sat Mar 08 2008 - 00:01:06 CST)
    - Re: calculate volume Dong Xu (Sat Mar 08 2008 - 11:09:36 CST)
- Re: calculate volume Axel Kohlmeyer (Sat Mar 08 2008 - 12:29:19 CST)
  - Re: calculate volume Dong Xu (Sat Mar 08 2008 - 17:28:39 CST)
    - Re: calculate volume John Stone (Sat Mar 08 2008 - 19:03:06 CST)
DCD file Alejandro Ortega (Fri Mar 07 2008 - 12:07:23 CST)
- Re: DCD file Yinglong Miao (Fri Mar 07 2008 - 14:43:37 CST)
how to make smooth movies ? maria goranovic (Fri Mar 07 2008 - 07:13:53 CST)
- Re: how to make smooth movies ? John Stone (Fri Mar 07 2008 - 10:52:15 CST)
- Re: how to make smooth movies ? Axel Kohlmeyer (Fri Mar 07 2008 - 10:40:59 CST)
Using RMSDTT in a script and aligning volume data Ignacio Fernández Galván (Fri Mar 07 2008 - 03:35:55 CST)
- Re: Using RMSDTT in a script and aligning volume data Axel Kohlmeyer (Fri Mar 07 2008 - 10:23:46 CST)
H2 bond distances calculation n displaying image SENTHIL KUMAR (Thu Mar 06 2008 - 22:07:18 CST)
- Re: H2 bond distances calculation n displaying image Axel Kohlmeyer (Fri Mar 07 2008 - 10:16:05 CST)
RMSD trajectory Tool joy tehrani (Thu Mar 06 2008 - 06:45:35 CST)
- Re: RMSD trajectory Tool Axel Kohlmeyer (Thu Mar 06 2008 - 07:48:05 CST)
VMD 3D stereo hardware Alba Colet Subirachs (Thu Mar 06 2008 - 03:16:25 CST)
- Re: VMD 3D stereo hardware John Stone (Thu Mar 06 2008 - 10:25:46 CST)
complete residues within Leandro Martínez (Thu Mar 06 2008 - 02:20:59 CST)
- Re: complete residues within jrui_at_ci.uc.pt (Thu Mar 06 2008 - 03:02:28 CST)
  - Re: complete residues within Leandro Martínez (Thu Mar 06 2008 - 03:06:48 CST)
- Re: complete residues within Olaf Lenz (Thu Mar 06 2008 - 03:28:08 CST)
- Re: complete residues within Alberto Perez (Thu Mar 06 2008 - 04:38:02 CST)
TCL/VMD problem Corenflos, Steven Charles (Wed Mar 05 2008 - 11:59:20 CST)
- Re: TCL/VMD problem John Stone (Wed Mar 05 2008 - 12:25:42 CST)
radial distribution function and number integrals Giovanni Bellesia (Wed Mar 05 2008 - 11:45:31 CST)
- Re: radial distribution function and number integrals Axel Kohlmeyer (Wed Mar 05 2008 - 12:45:36 CST)
  - Re: radial distribution function and number integrals Giovanni Bellesia (Wed Mar 05 2008 - 13:21:01 CST)
running vmd in parallel Michael Kreim (Wed Mar 05 2008 - 11:13:10 CST)
- Re: running vmd in parallel John Stone (Wed Mar 05 2008 - 12:31:35 CST)
- Re: running vmd in parallel Axel Kohlmeyer (Wed Mar 05 2008 - 12:37:02 CST)
What's the main reason of the structure or function of a protein? Fei Chen (Wed Mar 05 2008 - 07:53:18 CST)
- Re: What's the main reason of the structure or function of a protein? Andrew Dalke (Wed Mar 05 2008 - 16:32:42 CST)
  - Re: What's the main reason of the structure or function of a protein? Fei Chen (Wed Mar 05 2008 - 19:48:49 CST)
    - Re: What's the main reason of the structure or function of a protein? Andrew Dalke (Thu Mar 06 2008 - 00:25:03 CST)
about paratool laura (Wed Mar 05 2008 - 02:33:41 CST)
Visualizing trajectory with changing atoms Suman Chakrabarty (Tue Mar 04 2008 - 15:19:58 CST)
- Re: Visualizing trajectory with changing atoms John Stone (Tue Mar 04 2008 - 15:26:04 CST)
VMD languaje information Alba Colet Subirachs (Tue Mar 04 2008 - 10:24:09 CST)
- Re: VMD languaje information Axel Kohlmeyer (Tue Mar 04 2008 - 11:57:08 CST)
  - Re: VMD languaje information Andrew Dalke (Tue Mar 04 2008 - 14:44:16 CST)
    - Re: VMD languaje information L. Michel Espinoza-Fonseca (Tue Mar 04 2008 - 15:48:41 CST)
- Re: VMD languaje information John Stone (Tue Mar 04 2008 - 13:53:24 CST)
- Re: VMD languaje information L. Michel Espinoza-Fonseca (Tue Mar 04 2008 - 14:54:36 CST)
[carlos.simmerling@gmail.com: ACS awards] John Stone (Mon Mar 03 2008 - 20:11:56 CST)
VS: average area per lipid Bo Højen Justensen (Mon Mar 03 2008 - 15:10:09 CST)
average area per lipid Stephen Dutz (Mon Mar 03 2008 - 11:14:11 CST)
- RE: average area per lipid Stephen Dutz (Mon Mar 03 2008 - 16:06:44 CST)
  - SV: average area per lipid Bo Højen Justensen (Tue Mar 04 2008 - 02:33:11 CST)
missing basic tutorials for VMD scripting? massimo camarda (Sat Mar 01 2008 - 03:02:49 CST)
- Re: missing basic tutorials for VMD scripting? Axel Kohlmeyer (Sat Mar 01 2008 - 06:49:32 CST)
- Re: missing basic tutorials for VMD scripting? John Stone (Mon Mar 03 2008 - 10:57:10 CST)
unusual bond between the cysteine and arginine residue during the simulation OZGE ENGIN (Fri Feb 29 2008 - 13:30:01 CST)
- Re: unusual bond between the cysteine and arginine residue during the simulation John Stone (Fri Feb 29 2008 - 13:58:08 CST)
- Re: unusual bond between the cysteine and arginine residue during the simulation Axel Kohlmeyer (Fri Feb 29 2008 - 13:47:55 CST)
  - Re: Re: unusual bond between the cysteine and arginine residue during the simulation OZGE ENGIN (Fri Feb 29 2008 - 15:01:10 CST)
    - Re: Re: unusual bond between the cysteine and arginine residue during the simulation John Stone (Fri Feb 29 2008 - 15:06:49 CST)
no convergence in align Jorgen Simonsen (Fri Feb 29 2008 - 07:03:18 CST)
- Re: no convergence in align Axel Kohlmeyer (Fri Feb 29 2008 - 09:25:23 CST)
  - Re: no convergence in align John Stone (Fri Feb 29 2008 - 11:07:38 CST)
    - Re: no convergence in align Jorgen Simonsen (Fri Feb 29 2008 - 12:15:49 CST)
    - Re: no convergence in align John Stone (Fri Feb 29 2008 - 12:39:20 CST)
- Re: no convergence in align John Stone (Fri Feb 29 2008 - 10:05:34 CST)
Re: Cluster plugin and Gromacs g_cluster OZGE ENGIN (Wed Feb 27 2008 - 07:21:15 CST)
periodic images for trajectory Jennifer Williams (Wed Feb 27 2008 - 04:18:56 CST)
- Re: periodic images for trajectory Axel Kohlmeyer (Wed Feb 27 2008 - 05:07:04 CST)
- Re: periodic images for trajectory Olaf Lenz (Wed Feb 27 2008 - 04:59:30 CST)
Compute force between two atoms Chen Fei (Tue Feb 26 2008 - 20:28:22 CST)
- Re: Compute force between two atoms Axel Kohlmeyer (Tue Feb 26 2008 - 21:42:48 CST)
more on lammps and VMD coordinates Arienti, Marco UTRC (Tue Feb 26 2008 - 11:18:37 CST)
- Re: more on lammps and VMD coordinates Axel Kohlmeyer (Tue Feb 26 2008 - 12:08:13 CST)
control drawing method Myunggi Yi (Mon Feb 25 2008 - 13:26:33 CST)
- Re: control drawing method Axel Kohlmeyer (Mon Feb 25 2008 - 14:51:57 CST)
How to get rubber-like surface with Tachyon renderer Alexander Metz (Mon Feb 25 2008 - 09:37:02 CST)
- Re: How to get rubber-like surface with Tachyon renderer Axel Kohlmeyer (Mon Feb 25 2008 - 10:13:33 CST)
  - Re: How to get rubber-like surface with Tachyon renderer Axel Kohlmeyer (Mon Feb 25 2008 - 11:21:09 CST)
- Re: How to get rubber-like surface with Tachyon renderer John Stone (Mon Feb 25 2008 - 11:33:21 CST)
specify the bonds between the atoms massimo camarda (Mon Feb 25 2008 - 01:48:52 CST)
- classify and compute the forces between two atoms ChenFei (Mon Feb 25 2008 - 06:38:58 CST)
  - Re: classify and compute the forces between two atoms Axel Kohlmeyer (Mon Feb 25 2008 - 10:08:44 CST)
    - ´ð¸´: classify and compute the forces between two atoms ChenFei (Tue Feb 26 2008 - 01:10:29 CST)
- Re: specify the bonds between the atoms John Stone (Fri Feb 29 2008 - 14:04:44 CST)
measure binding site SASA Dong Xu (Sun Feb 24 2008 - 12:38:49 CST)
Changing a structure of macromolecule with VMD fouchni_at_uni-osnabrueck.de (Sun Feb 24 2008 - 08:38:44 CST)
- Re: Changing a structure of macromolecule with VMD Peter Freddolino (Sun Feb 24 2008 - 09:27:34 CST)
- Re: Changing a structure of macromolecule with VMD Axel Kohlmeyer (Sun Feb 24 2008 - 11:36:04 CST)
visualizing disulphide bonds OZGE ENGIN (Sun Feb 24 2008 - 04:31:18 CST)
- Re: visualizing disulphide bonds Axel Kohlmeyer (Sun Feb 24 2008 - 06:21:41 CST)
Ramachandran plot tcl script Anthony Samiotakis (Sat Feb 23 2008 - 15:54:50 CST)
- Re: Ramachandran plot tcl script Axel Kohlmeyer (Sat Feb 23 2008 - 17:17:38 CST)
vmd snapshots without display Thomas C. Bishop (Fri Feb 22 2008 - 10:59:50 CST)
- Re: vmd snapshots without display John Stone (Fri Feb 22 2008 - 11:33:36 CST)
- Re: vmd snapshots without display Axel Kohlmeyer (Fri Feb 22 2008 - 11:41:19 CST)
Residue replacement question] fouchni_at_uni-osnabrueck.de (Fri Feb 22 2008 - 04:20:04 CST)
- Re: Residue replacement question] Axel Kohlmeyer (Sat Feb 23 2008 - 17:29:35 CST)
movie generation without runtime frame show massimo camarda (Fri Feb 22 2008 - 04:15:58 CST)
- Re: movie generation without runtime frame show Axel Kohlmeyer (Fri Feb 22 2008 - 06:54:42 CST)
monitor helicity change Jufang Shan (Thu Feb 21 2008 - 19:06:14 CST)
- Re: monitor helicity change Axel Kohlmeyer (Thu Feb 21 2008 - 22:40:02 CST)
  - Re: monitor helicity change Jufang Shan (Fri Feb 22 2008 - 11:40:52 CST)
    - Re: Re: monitor helicity change OZGE ENGIN (Fri Feb 22 2008 - 01:58:26 CST)
    - Re: Re: monitor helicity change Jufang Shan (Fri Feb 22 2008 - 11:37:55 CST)
defining bonds Thomas C. Bishop (Thu Feb 21 2008 - 14:47:15 CST)
- Re: defining bonds Axel Kohlmeyer (Thu Feb 21 2008 - 15:17:50 CST)
VASP CHGCAR Wesley Smith (Thu Feb 21 2008 - 14:12:05 CST)
- Re: VASP CHGCAR Axel Kohlmeyer (Thu Feb 21 2008 - 15:35:07 CST)
  - Re: VASP CHGCAR Wesley Smith (Thu Feb 21 2008 - 17:10:28 CST)
couldn't fork child process: not enough memory jrui_at_ci.uc.pt (Thu Feb 21 2008 - 13:47:06 CST)
- Re: couldn't fork child process: not enough memory Axel Kohlmeyer (Thu Feb 21 2008 - 15:28:16 CST)
  - Re: couldn't fork child process: not enough memory jrui_at_ci.uc.pt (Fri Feb 22 2008 - 05:13:16 CST)
    - Re: couldn't fork child process: not enough memory Peter Freddolino (Fri Feb 22 2008 - 06:48:23 CST)
    - Re: couldn't fork child process: not enough memory jrui_at_ci.uc.pt (Fri Feb 22 2008 - 08:41:54 CST)
- Re: couldn't fork child process: not enough memory John Stone (Thu Feb 21 2008 - 15:39:30 CST)
couldn't open "c:/multiseq-406080740227.start.domain": invalid argument Maurice O'Connell (Thu Feb 21 2008 - 12:30:26 CST)
gromacs trajectory files maria goranovic (Thu Feb 21 2008 - 04:18:17 CST)
- Re: gromacs trajectory files Axel Kohlmeyer (Thu Feb 21 2008 - 06:58:52 CST)
Selection in VMD Graphical representation Pavan Ghatty (Wed Feb 20 2008 - 10:22:03 CST)
- Re: Selection in VMD Graphical representation Axel Kohlmeyer (Wed Feb 20 2008 - 12:05:29 CST)
  - Re: Selection in VMD Graphical representation John Stone (Wed Feb 20 2008 - 13:32:03 CST)
Residue replacement question fouchni_at_uni-osnabrueck.de (Wed Feb 20 2008 - 04:15:33 CST)
spacial distribution function L. Michel Espinoza-Fonseca (Tue Feb 19 2008 - 18:52:15 CST)
- Fwd: spacial distribution function L. Michel Espinoza-Fonseca (Tue Feb 19 2008 - 18:54:53 CST)
- Re: spacial distribution function L. Michel Espinoza-Fonseca (Tue Feb 19 2008 - 19:48:02 CST)
how to set molinfo from python Jorgen Simonsen (Tue Feb 19 2008 - 02:03:16 CST)
- Re: how to set molinfo from python Axel Kohlmeyer (Tue Feb 19 2008 - 10:49:17 CST)
tcl script memory problem - NOT in atomselect Johannes Müllegger (Mon Feb 18 2008 - 21:45:42 CST)
- Re: tcl script memory problem - NOT in atomselect Axel Kohlmeyer (Tue Feb 19 2008 - 07:35:20 CST)
  - Re: tcl script memory problem - NOT in atomselect Johannes Müllegger (Tue Feb 19 2008 - 11:19:04 CST)
change axes name massimo camarda (Mon Feb 18 2008 - 11:57:35 CST)
- Re: change axes name John Stone (Tue Feb 19 2008 - 10:59:23 CST)
VMD limitation for loading large trajectory file Dong Xu (Fri Feb 15 2008 - 16:48:45 CST)
- Re: VMD limitation for loading large trajectory file John Stone (Fri Feb 15 2008 - 17:03:15 CST)
- Re: VMD limitation for loading large trajectory file Axel Kohlmeyer (Fri Feb 15 2008 - 17:00:40 CST)
Unable to see VDW , CPK representations Arnab Chakrabarty (Fri Feb 15 2008 - 16:25:23 CST)
- Re: Unable to see VDW , CPK representations John Stone (Fri Feb 15 2008 - 16:42:15 CST)
- Re: Unable to see VDW , CPK representations Axel Kohlmeyer (Fri Feb 15 2008 - 16:51:34 CST)
  - Re: Unable to see VDW , CPK representations Arnab Chakrabarty (Sat Feb 16 2008 - 17:51:04 CST)
    - Re: Unable to see VDW , CPK representations John Stone (Thu Feb 21 2008 - 11:34:53 CST)
display of periodic DCD information Thomas C. Bishop (Thu Feb 14 2008 - 14:15:15 CST)
- Re: display of periodic DCD information Olaf Lenz (Thu Feb 14 2008 - 16:05:32 CST)
  - Re: display of periodic DCD information Olaf Lenz (Thu Feb 14 2008 - 16:08:46 CST)
  - Re: display of periodic DCD information/PBCTOOL Thomas C. Bishop (Fri Feb 15 2008 - 11:44:24 CST)
    - Re: display of periodic DCD information/PBCTOOL Axel Kohlmeyer (Fri Feb 15 2008 - 12:22:40 CST)
- Re: display of periodic DCD information John Stone (Thu Feb 14 2008 - 16:34:22 CST)
Volume data formats Ignacio Fernández Galván (Thu Feb 14 2008 - 11:58:40 CST)
- Re: Volume data formats John Stone (Thu Feb 14 2008 - 12:10:26 CST)
- Re: Volume data formats Wesley Smith (Thu Feb 14 2008 - 12:37:16 CST)
- Re: Volume data formats Axel Kohlmeyer (Thu Feb 14 2008 - 12:23:56 CST)
rmsd different from rmsd implemented in VMD Jorgen Simonsen (Wed Feb 13 2008 - 10:18:19 CST)
- RE: rmsd different from rmsd implemented in VMD JC Gumbart (Wed Feb 13 2008 - 10:58:13 CST)
- Re: rmsd different from rmsd implemented in VMD Thomas C. Bishop (Thu Feb 14 2008 - 08:19:08 CST)
PSFGEN::: ERROR: failed on end of segment Dibyadeep Paul (Wed Feb 13 2008 - 03:38:14 CST)
Improved VMD performance on MacOSX 10.5.2 Christoph Weber (Tue Feb 12 2008 - 16:51:14 CST)
- Re: Improved VMD performance on MacOSX 10.5.2 John Stone (Tue Feb 12 2008 - 18:26:09 CST)
FieldLines Mary Karpen (Tue Feb 12 2008 - 07:34:42 CST)
- Re: FieldLines Axel Kohlmeyer (Tue Feb 12 2008 - 09:53:36 CST)
- Re: FieldLines John Stone (Wed Feb 13 2008 - 14:34:04 CST)
variables from VMD to psfgen Thomas C. Bishop (Mon Feb 11 2008 - 17:28:12 CST)
- Re: variables from VMD to psfgen L. Michel Espinoza-Fonseca (Mon Feb 11 2008 - 18:22:49 CST)
measure SASA L. Michel Espinoza-Fonseca (Sun Feb 10 2008 - 17:48:12 CST)
namd energy plugin L. Michel Espinoza-Fonseca (Sun Feb 10 2008 - 15:44:04 CST)
- Re: namd energy plugin Peter Freddolino (Sun Feb 10 2008 - 15:55:50 CST)
  - Re: namd energy plugin L. Michel Espinoza-Fonseca (Sun Feb 10 2008 - 16:10:36 CST)
the script do not update the frame number for secondary structure analysis OZGE ENGIN (Sun Feb 10 2008 - 05:18:46 CST)
- Re: the script do not update the frame number for secondary structure analysis jrui_at_ci.uc.pt (Mon Feb 11 2008 - 03:10:25 CST)
  - Re: Re: the script do not update the frame number for secondary structure analysis OZGE ENGIN (Mon Feb 11 2008 - 04:01:15 CST)
the script do not update the frame for secondary structure analysis OZGE ENGIN (Sun Feb 10 2008 - 04:13:03 CST)
- Re: the script do not update the frame for secondary structure analysis Nuno Loureiro Ferreira (Mon Feb 11 2008 - 03:03:19 CST)
  - Re: the script do not update the frame for secondary structure analysis poker_at_physics.usyd.edu.au (Mon Feb 11 2008 - 18:51:32 CST)
ssrecalc output for the whole trajectory OZGE ENGIN (Sat Feb 09 2008 - 08:28:02 CST)
output of the ssrecalc command OZGE ENGIN (Fri Feb 08 2008 - 14:01:45 CST)
- Re: output of the ssrecalc command jrui_at_ci.uc.pt (Sat Feb 09 2008 - 04:50:46 CST)
  - Re: Re: output of the ssrecalc command OZGE ENGIN (Sat Feb 09 2008 - 06:39:27 CST)
installation problem vmd 1.8.6 on fedora 3 kinshuk_at_chem.iitb.ac.in (Fri Feb 08 2008 - 00:15:50 CST)
- Re: installation problem vmd 1.8.6 on fedora 3 John Stone (Fri Feb 08 2008 - 11:27:28 CST)
  - Re: installation problem vmd 1.8.6 on fedora 3 Bertrand P. S. Russell (Sat Feb 09 2008 - 05:22:24 CST)
    - Re: installation problem vmd 1.8.6 on fedora 3 Axel Kohlmeyer (Sat Feb 09 2008 - 07:57:27 CST)
heuristic bond computation Tony Sheh (Thu Feb 07 2008 - 21:58:15 CST)
- Re: heuristic bond computation Axel Kohlmeyer (Thu Feb 07 2008 - 22:16:18 CST)
- Re: heuristic bond computation John Stone (Thu Feb 07 2008 - 22:37:45 CST)
  - Re: heuristic bond computation Olaf Lenz (Fri Feb 08 2008 - 01:33:37 CST)
    - Re: heuristic bond computation Axel Kohlmeyer (Fri Feb 08 2008 - 08:03:31 CST)
SASA calculation (protein + small molecules) Manali Mehendale (Thu Feb 07 2008 - 14:45:37 CST)
- Re: SASA calculation (protein + small molecules) Dong Xu (Sun Feb 24 2008 - 20:42:44 CST)
  - Re: SASA calculation (protein + small molecules) John Stone (Fri Feb 29 2008 - 13:11:37 CST)
merge pdb Lucie Huynh (Wed Feb 06 2008 - 10:29:58 CST)
- Re: merge pdb Axel Kohlmeyer (Wed Feb 06 2008 - 10:41:43 CST)
vmd maxAtom C L Freeman (Wed Feb 06 2008 - 10:10:30 CST)
- Re: vmd maxAtom Axel Kohlmeyer (Wed Feb 06 2008 - 10:47:56 CST)
  - Re: vmd maxAtom C L Freeman (Thu Feb 07 2008 - 04:53:30 CST)
    - Re: vmd maxAtom Axel Kohlmeyer (Thu Feb 07 2008 - 05:58:14 CST)
help with animate read command Jim Pfaendtner (Tue Feb 05 2008 - 11:26:47 CST)
- Re: help with animate read command John Stone (Tue Feb 05 2008 - 13:48:02 CST)
  - Re: animate read command Jim Pfaendtner (Tue Feb 05 2008 - 13:55:29 CST)
    - Re: animate read command John Stone (Tue Feb 05 2008 - 14:16:00 CST)
namd help? Corenflos, Steven Charles (Tue Feb 05 2008 - 12:15:47 CST)
- Re: namd help? Axel Kohlmeyer (Tue Feb 05 2008 - 12:54:36 CST)
About Cluster Plug-in OZGE ENGIN (Tue Feb 05 2008 - 09:05:00 CST)
- Re: About Cluster Plug-in John Stone (Tue Feb 05 2008 - 09:45:23 CST)
Displaying Counter Alongside Animation Adrian Koh (Tue Feb 05 2008 - 00:20:36 CST)
- Re: Displaying Counter Alongside Animation Axel Kohlmeyer (Tue Feb 05 2008 - 03:23:44 CST)
- RE: Displaying Counter alongside animation Adrian Koh (Mon Feb 11 2008 - 03:08:44 CST)
VMD, NAMDenergy & AMBER parameters Irene Newhouse (Mon Feb 04 2008 - 17:23:37 CST)
- Re: VMD, NAMDenergy & AMBER parameters Peter Freddolino (Tue Feb 05 2008 - 06:51:37 CST)
  - RE: VMD, NAMDenergy & AMBER parameters Irene Newhouse (Tue Feb 05 2008 - 12:46:40 CST)
To create Tetramer Swarna Patra (Mon Feb 04 2008 - 16:42:52 CST)
- RE: To create Tetramer Irene Newhouse (Mon Feb 04 2008 - 17:56:41 CST)
- Re: To create Tetramer John Stone (Tue Feb 05 2008 - 09:55:43 CST)
Question about geometrical figures Felix Rodrigues Gulias (Fri Feb 01 2008 - 11:03:42 CST)
- Re: Question about geometrical figures Axel Kohlmeyer (Fri Feb 01 2008 - 11:28:35 CST)
question about 'measure bond' MW Van der Kamp, School of Chemistry (Fri Feb 01 2008 - 09:21:20 CST)
- Re: question about 'measure bond' Axel Kohlmeyer (Fri Feb 01 2008 - 09:46:30 CST)
Rdf from a specific point Robert Coridan (Fri Feb 01 2008 - 06:12:42 CST)
- Re: Rdf from a specific point Axel Kohlmeyer (Fri Feb 01 2008 - 08:55:39 CST)
  - Re: Rdf from a specific point Robert Coridan (Fri Feb 01 2008 - 11:48:19 CST)
    - Re: Rdf from a specific point Axel Kohlmeyer (Fri Feb 01 2008 - 11:48:12 CST)
animation of an atom diffusion inside a bulk crystal massimo camarda (Fri Feb 01 2008 - 02:27:59 CST)
- Re: animation of an atom diffusion inside a bulk crystal Axel Kohlmeyer (Fri Feb 01 2008 - 05:01:33 CST)
sausage view of NMR ensembles dimka (Thu Jan 31 2008 - 23:10:59 CST)
- Re: sausage view of NMR ensembles John Stone (Thu Jan 31 2008 - 23:31:36 CST)
Percentage Helicity calculation in VMD aneesh cna (Thu Jan 31 2008 - 22:54:53 CST)
- Re: Percentage Helicity calculation in VMD Axel Kohlmeyer (Thu Jan 31 2008 - 23:37:28 CST)
  - Re: Percentage Helicity calculation in VMD aneesh cna (Fri Feb 01 2008 - 03:18:53 CST)
    - Re: Percentage Helicity calculation in VMD Peter Freddolino (Sat Feb 02 2008 - 08:42:40 CST)
    - Re: Percentage Helicity calculation in VMD John Stone (Sat Feb 02 2008 - 15:30:18 CST)
problems with MDenergy Irene Newhouse (Wed Jan 30 2008 - 15:06:49 CST)
Mutate nucleotides Maurizio Olla (Tue Jan 29 2008 - 23:51:05 CST)
Sasa script in python returns "Runtime error" Per Jr. Greisen (Tue Jan 29 2008 - 09:53:59 CST)
- Re: Sasa script in python returns "Runtime error" Axel Kohlmeyer (Tue Jan 29 2008 - 11:19:17 CST)
  - Re: Sasa script in python returns "Runtime error" Axel Kohlmeyer (Wed Jan 30 2008 - 09:01:21 CST)
(no subject) mbyr8097_at_mail.usyd.edu.au (Mon Jan 28 2008 - 19:02:49 CST)
- Re: your mail Axel Kohlmeyer (Mon Jan 28 2008 - 19:36:38 CST)
'gopython' Tkinter and Numeric Python error brmorgan_at_clarku.edu (Mon Jan 28 2008 - 09:55:36 CST)
- Re: 'gopython' Tkinter and Numeric Python error John Stone (Wed Jan 30 2008 - 10:29:49 CST)
(no subject) Steve Seibold (Mon Jan 28 2008 - 08:39:37 CST)
- Re: Peter Freddolino (Mon Jan 28 2008 - 08:56:39 CST)
where is the "move" procedure in the toturial Justin JEONG (Sun Jan 27 2008 - 16:32:03 CST)
- Re: where is the "move" procedure in the toturial Axel Kohlmeyer (Mon Jan 28 2008 - 09:08:25 CST)
VMD 1.8.6, XTC format on Mac OS X 10.5.1 Tony Sheh (Sat Jan 26 2008 - 11:56:01 CST)
- Re: VMD 1.8.6, XTC format on Mac OS X 10.5.1 Axel Kohlmeyer (Sat Jan 26 2008 - 13:29:35 CST)
  - Re: VMD 1.8.6, XTC format on Mac OS X 10.5.1 Christoph Weber (Sat Jan 26 2008 - 16:59:17 CST)
re: script hangs when use full dcd file Irene Newhouse (Fri Jan 25 2008 - 14:14:53 CST)
- Re: re: script hangs when use full dcd file John Stone (Fri Jan 25 2008 - 14:32:42 CST)
  - RE: re: script hangs when use full dcd file Irene Newhouse (Fri Jan 25 2008 - 14:56:47 CST)
problem with timeline plugin aneesh cna (Fri Jan 25 2008 - 00:12:17 CST)
- Re: problem with timeline plugin John Stone (Fri Jan 25 2008 - 00:17:48 CST)
MSVC Projects Corrupt and Missing Wesley Smith (Thu Jan 24 2008 - 22:18:09 CST)
- Re: MSVC Projects Corrupt and Missing Axel Kohlmeyer (Thu Jan 24 2008 - 22:42:47 CST)
  - Re: MSVC Projects Corrupt and Missing Wesley Smith (Thu Jan 24 2008 - 22:53:58 CST)
- Re: MSVC Projects Corrupt and Missing John Stone (Thu Jan 24 2008 - 22:45:18 CST)
  - Re: MSVC Projects Corrupt and Missing Wesley Smith (Thu Jan 24 2008 - 22:56:03 CST)
Can VMD visualize forces? Yinglong Miao (Thu Jan 24 2008 - 17:16:14 CST)
- Re: Can VMD visualize forces? John Stone (Thu Jan 24 2008 - 18:01:20 CST)
  - Re: Can VMD visualize forces? Thomas C. Bishop (Fri Jan 25 2008 - 09:44:29 CST)
problems with a script Irene Newhouse (Thu Jan 24 2008 - 16:39:40 CST)
- Re: problems with a script John Stone (Fri Jan 25 2008 - 00:15:14 CST)
preserving atom index or hexadecimal residue numbers after writepdb Vlad Cojocaru (Thu Jan 24 2008 - 04:44:40 CST)
- Re: preserving atom index or hexadecimal residue numbers after writepdb John Stone (Fri Jan 25 2008 - 00:12:56 CST)
minimization command Sourmaidou, Damiani (Wed Jan 23 2008 - 12:35:49 CST)
proximity of residues Francesco Pietra (Wed Jan 23 2008 - 01:40:51 CST)
- Re: proximity of residues Axel Kohlmeyer (Wed Jan 23 2008 - 03:49:49 CST)
  - Re: proximity of residues L. Michel Espinoza-Fonseca (Wed Jan 23 2008 - 04:21:01 CST)
delatom "no segment..." Lucie Huynh (Tue Jan 22 2008 - 05:10:00 CST)
- Re: delatom "no segment..." Axel Kohlmeyer (Tue Jan 22 2008 - 05:49:32 CST)
- Question about autopsf Lucas Fernández Seivane (Tue Jan 22 2008 - 13:39:06 CST)
  - Re: Question about autopsf Peter Freddolino (Tue Jan 22 2008 - 14:26:25 CST)
    - Re: Question about autopsf Lucas Fernández Seivane (Tue Jan 22 2008 - 16:07:50 CST)
    - Re: Question about autopsf Peter Freddolino (Tue Jan 22 2008 - 20:00:40 CST)
Inconsistencies in NAMD simulations Chandra Ramananjara (Tue Jan 22 2008 - 02:49:53 CST)
local urea concentration L. Michel Espinoza-Fonseca (Mon Jan 21 2008 - 11:17:14 CST)
- Re: local urea concentration L. Michel Espinoza-Fonseca (Mon Jan 21 2008 - 12:05:32 CST)
SSE from the protein sequence Lu Lin (Mon Jan 21 2008 - 09:11:49 CST)
- Re: SSE from the protein sequence Axel Kohlmeyer (Mon Jan 21 2008 - 09:53:10 CST)
  - Re: SSE from the protein sequence Peter Freddolino (Mon Jan 21 2008 - 10:09:48 CST)
    - Re: SSE from the protein sequence L. Michel Espinoza-Fonseca (Mon Jan 21 2008 - 10:51:11 CST)
problem with sidechian representation gurpreet singh (Mon Jan 21 2008 - 00:02:37 CST)
- Re: problem with sidechian representation jrui_at_ci.uc.pt (Mon Jan 21 2008 - 04:28:00 CST)
VMD drawing Wesley Smith (Sun Jan 20 2008 - 15:51:06 CST)
- Re: VMD drawing John Stone (Sun Jan 20 2008 - 20:59:51 CST)
  - Re: VMD drawing Wesley Smith (Sun Jan 20 2008 - 21:08:27 CST)
Error in changing on screen options of VMD Monika Sharma (Fri Jan 18 2008 - 07:45:07 CST)
- Re: Error in changing on screen options of VMD John Stone (Sun Jan 20 2008 - 22:54:33 CST)
problem with time line plugin in VMD ABEL Stephane 175950 (Fri Jan 18 2008 - 03:36:30 CST)
- Re: problem with time line plugin in VMD John Stone (Sun Jan 20 2008 - 22:55:40 CST)
error in loading psf file generated from lammps data file. Dongsheng Zhang (Thu Jan 17 2008 - 16:23:27 CST)
- Re: error in loading psf file generated from lammps data file. John Stone (Sun Jan 20 2008 - 20:46:28 CST)
MSMS plugin for windows Lu Lin (Thu Jan 17 2008 - 08:35:55 CST)
- Re: MSMS plugin for windows L. Michel Espinoza-Fonseca (Thu Jan 17 2008 - 09:26:26 CST)
  - Re: MSMS plugin for windows Lu Lin (Thu Jan 17 2008 - 11:47:52 CST)
    - Re: MSMS plugin for windows John Stone (Thu Jan 17 2008 - 12:56:24 CST)
    - Re: MSMS plugin for windows Lu Lin (Fri Jan 18 2008 - 03:09:13 CST)
Could not locate 'dowser' (Program not found message box) Stanley, Yemin Shi (Thu Jan 17 2008 - 07:31:22 CST)
- Re: Could not locate 'dowser' (Program not found message box) John Stone (Thu Jan 17 2008 - 10:43:25 CST)
C NH1 C minimization error Sourmaidou, Damiani (Thu Jan 17 2008 - 06:43:18 CST)
RMSD with protein ligand Francesco Pietra (Thu Jan 17 2008 - 00:49:37 CST)
- Re: RMSD with protein ligand Luis Gracia (Thu Jan 17 2008 - 10:26:44 CST)
  - Re: RMSD with protein ligand Francesco Pietra (Thu Jan 17 2008 - 11:11:35 CST)
    - Re: RMSD with protein ligand Luis Gracia (Thu Jan 17 2008 - 14:45:04 CST)
visualizing a simple polymer chain via VMD Sergey Mkrtchyan (Wed Jan 16 2008 - 11:48:16 CST)
- Re: visualizing a simple polymer chain via VMD Axel Kohlmeyer (Wed Jan 16 2008 - 12:26:08 CST)
  - Re: visualizing a simple polymer chain via VMD Sergey Mkrtchyan (Wed Jan 16 2008 - 12:39:31 CST)
    - Re: visualizing a simple polymer chain via VMD Axel Kohlmeyer (Wed Jan 16 2008 - 12:58:17 CST)
    - Re: visualizing a simple polymer chain via VMD Sergey Mkrtchyan (Wed Jan 16 2008 - 13:53:09 CST)
  - Re: visualizing a simple polymer chain via VMD Sergey Mkrtchyan (Thu Jan 17 2008 - 16:31:07 CST)
- Re: visualizing a simple polymer chain via VMD Olaf Lenz (Thu Jan 17 2008 - 01:24:34 CST)
  - Re: visualizing a simple polymer chain via VMD Sergey Mkrtchyan (Thu Jan 17 2008 - 13:25:29 CST)
replace molecule? Lucie Huynh (Wed Jan 16 2008 - 03:09:39 CST)
- Re: replace molecule? Axel Kohlmeyer (Wed Jan 16 2008 - 11:02:32 CST)
problem rendering NewCartoon with tachyon MW Van der Kamp, School of Chemistry (Tue Jan 15 2008 - 03:03:27 CST)
- Re: problem rendering NewCartoon with tachyon John Stone (Tue Jan 15 2008 - 12:44:31 CST)
  - Re: problem rendering NewCartoon with tachyon MW Van der Kamp, School of Chemistry (Wed Jan 16 2008 - 03:09:04 CST)
How to calculate end-to-end distance in VMD? Lili Peng (Mon Jan 14 2008 - 16:37:33 CST)
- Re: How to calculate end-to-end distance in VMD? Peter Freddolino (Tue Jan 15 2008 - 10:30:10 CST)
how to load a molecule in pdb format and save in mol2 format in batch mode Sridhar Acharya (Mon Jan 14 2008 - 01:32:33 CST)
- Re: how to load a molecule in pdb format and save in mol2 format in batch mode Axel Kohlmeyer (Mon Jan 14 2008 - 03:39:58 CST)
Video Card for VMD, 2D or 3D Stanley, Yemin Shi (Fri Jan 11 2008 - 18:30:59 CST)
- Re: Video Card for VMD, 2D or 3D John Stone (Sat Jan 12 2008 - 00:11:53 CST)
Export VMD graphics to POV-Ray Igor Schapiro (Fri Jan 11 2008 - 08:22:13 CST)
- Re: Export VMD graphics to POV-Ray Axel Kohlmeyer (Fri Jan 11 2008 - 11:59:04 CST)
measure contacts script L. Michel Espinoza-Fonseca (Fri Jan 11 2008 - 05:57:10 CST)
- Re: measure contacts script John Stone (Sat Jan 12 2008 - 00:23:09 CST)
POV-Ray 3.6; VMD Movie Maker; Continuous Render (UNCLASSIFIED) Paul, Kristian (Cont, ARL/WMRD) (Thu Jan 10 2008 - 12:16:16 CST)
- Re: POV-Ray 3.6; VMD Movie Maker; Continuous Render (UNCLASSIFIED) Igor Schapiro (Fri Jan 11 2008 - 07:23:57 CST)
PBC Nazanin Samadi (Thu Jan 10 2008 - 07:19:20 CST)
- Re: PBC Olaf Lenz (Mon Jan 14 2008 - 03:51:10 CST)
problem with superimposing two proteins aneesh cna (Thu Jan 10 2008 - 05:33:21 CST)
- Re: problem with superimposing two proteins Elijah Roberts (Thu Jan 10 2008 - 17:09:37 CST)
- Re: problem with superimposing two proteins Dmitry Lupyan (Fri Jan 11 2008 - 15:26:38 CST)
Is there any way to diagonalize a 3x3 matrix in VMD,.......... Sergio (Wed Jan 09 2008 - 13:18:05 CST)
- Re: Is there any way to diagonalize a 3x3 matrix in VMD,.......... Axel Kohlmeyer (Wed Jan 09 2008 - 14:54:33 CST)
Re: Link atoms snoze pa (Wed Jan 09 2008 - 10:23:31 CST)
- Re: Link atoms John Stone (Wed Jan 09 2008 - 22:51:46 CST)
  - Re: Link atoms snoze pa (Thu Jan 10 2008 - 10:45:28 CST)
connectivity problem rams rams (Wed Jan 09 2008 - 08:57:48 CST)
- Re: connectivity problem Axel Kohlmeyer (Wed Jan 09 2008 - 10:09:35 CST)
Link atoms snoze pa (Tue Jan 08 2008 - 18:10:11 CST)
NAMDEnergy problem Lixia Jin Day (Tue Jan 08 2008 - 14:30:29 CST)
- Re: NAMDEnergy problem Peter Freddolino (Tue Jan 08 2008 - 14:52:46 CST)
How to choose part of the volume data for isosurface visualization? Yinglong Miao (Tue Jan 08 2008 - 10:41:02 CST)
- Re: How to choose part of the volume data for isosurface visualization? Axel Kohlmeyer (Tue Jan 08 2008 - 11:37:29 CST)
VMD intallation Satyan Sharma (Mon Jan 07 2008 - 12:52:39 CST)
- Re: VMD intallation John Stone (Mon Jan 07 2008 - 15:33:25 CST)
Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 Brian Bennion (Mon Jan 07 2008 - 10:58:36 CST)
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 John Stone (Tue Jan 08 2008 - 14:09:56 CST)
X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 Guanglei Cui (Mon Jan 07 2008 - 08:35:14 CST)
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 John Stone (Tue Jan 08 2008 - 14:10:41 CST)
  - Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 Guanglei Cui (Tue Jan 08 2008 - 14:40:43 CST)
Phantom Omni Haptic Device Martin Held (Sun Jan 06 2008 - 15:00:47 CST)
- Re: Phantom Omni Haptic Device John Stone (Mon Jan 07 2008 - 01:49:31 CST)
Cluster analysis Francesco Pietra (Sun Jan 06 2008 - 04:27:19 CST)
- Re: Cluster analysis John Stone (Mon Jan 07 2008 - 01:59:40 CST)
  - Re: Cluster analysis Francesco Pietra (Mon Jan 07 2008 - 04:35:30 CST)
VMD-L membership pruning, more anti-spam measures.. John Stone (Sat Jan 05 2008 - 00:26:40 CST)
vmd error message snoze pa (Fri Jan 04 2008 - 12:59:00 CST)
- Re: vmd error message John Stone (Fri Jan 04 2008 - 13:01:37 CST)
VMD-L post spam blocking, rescued messages from the last 30 days... John Stone (Fri Jan 04 2008 - 12:33:38 CST)
- (UNCLASSIFIED) Paul, Kristian (Cont, ARL/WMRD) (Fri Jan 04 2008 - 13:22:28 CST)
  - Re: (UNCLASSIFIED) John Stone (Fri Jan 04 2008 - 13:29:49 CST)
VMD movie from XYZ coordinate if file has two type of atoms Anil Kumar (Sun Dec 09 2007 - 22:12:58 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms John Stone (Fri Jan 04 2008 - 12:38:08 CST)
resolving side chain clashes jayant_jacques (Thu Dec 13 2007 - 14:05:10 CST)
namd-l: Creating topology for carbon nanotube / any new structure prateeksha s (Tue Dec 18 2007 - 23:10:42 CST)
VMD on Linux Suse SCIPIONI Roberto (Wed Dec 19 2007 - 01:21:21 CST)
- VMD on Linux Suse SCIPIONI Roberto (Wed Dec 19 2007 - 01:26:44 CST)
  - Re: VMD on Linux Suse John Stone (Wed Dec 19 2007 - 01:34:42 CST)
- Re: VMD on Linux Suse John Stone (Fri Jan 04 2008 - 12:35:27 CST)
replication of bilayer Chanda.Jnanojjal_at_edam.uhp-nancy.fr (Wed Dec 26 2007 - 04:08:00 CST)
- Re: replication of bilayer John Stone (Fri Jan 04 2008 - 12:42:10 CST)
- RE: replication of bilayer Richard Swenson (Fri Jan 04 2008 - 17:07:16 CST)
installation on suse linux 10.3 s lal badshah (Wed Dec 26 2007 - 23:28:27 CST)
- Re: installation on suse linux 10.3 John Stone (Fri Jan 04 2008 - 12:39:02 CST)
Hydrogens in vmd snoze pa (Thu Jan 03 2008 - 14:08:31 CST)
- Re: Hydrogens in vmd Peter Freddolino (Thu Jan 03 2008 - 14:25:05 CST)
  - Re: Hydrogens in vmd L. Michel Espinoza-Fonseca (Thu Jan 03 2008 - 15:17:54 CST)
- Re: Hydrogens in vmd John Stone (Thu Jan 03 2008 - 14:26:16 CST)
  - Re: Hydrogens in vmd snoze pa (Thu Jan 03 2008 - 15:30:40 CST)
Question about Gromacs box size in VMD..... Sergio Garay (Thu Jan 03 2008 - 07:27:37 CST)
- Re: Question about Gromacs box size in VMD..... Axel Kohlmeyer (Thu Jan 03 2008 - 08:24:07 CST)
- Re: Question about Gromacs box size in VMD..... Olaf Lenz (Thu Jan 03 2008 - 08:38:47 CST)
freevr tool transformation Ahmed Nawar (Thu Jan 03 2008 - 00:28:31 CST)
- Re: freevr tool transformation John Stone (Thu Jan 03 2008 - 01:12:44 CST)
select atoms between molecules Sampo Karkola (Wed Jan 02 2008 - 06:13:39 CST)
- Re: select atoms between molecules Axel Kohlmeyer (Wed Jan 02 2008 - 11:46:13 CST)
  - Re: select atoms between molecules Karol Kaszuba (Wed Jan 02 2008 - 15:47:34 CST)
- Re: select atoms between molecules Karol Kaszuba (Wed Jan 02 2008 - 13:10:04 CST)
Selecting water molecules within 5 ang in a trajectory( generated by amber). naga raju (Wed Dec 26 2007 - 01:01:50 CST)
- Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). Thomas Evangelidis (Wed Dec 26 2007 - 09:49:31 CST)
  - Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). Axel Kohlmeyer (Wed Dec 26 2007 - 14:12:05 CST)
  - Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). naga raju (Sat Dec 29 2007 - 00:02:12 CST)
saltbr plugging problem: too many open files Amaury Pupo Meriño (Fri Dec 21 2007 - 09:31:07 CST)
- Re: saltbr plugging problem: too many open files Leonardo Trabuco (Fri Dec 21 2007 - 14:35:16 CST)
Viewing molden grid files Ignacio Fernández Galván (Fri Dec 21 2007 - 03:14:46 CST)
- Re: Viewing molden grid files John Stone (Fri Jan 04 2008 - 13:06:22 CST)
parameter tool tutorial snoze pa (Thu Dec 20 2007 - 17:15:15 CST)
- Re: parameter tool tutorial Jan Saam (Thu Dec 20 2007 - 17:50:00 CST)
vmd QMtool snoze pa (Thu Dec 20 2007 - 16:53:34 CST)
- Re: vmd QMtool Jan Saam (Thu Dec 20 2007 - 17:18:10 CST)
measure hbonds Narender Singh Maan (Mon Dec 17 2007 - 14:52:39 CST)
- Re: measure hbonds poker_at_physics.usyd.edu.au (Mon Dec 17 2007 - 19:03:50 CST)
Increasing MAXATOMBONDS? Oliver Beckstein (Mon Dec 17 2007 - 13:37:42 CST)
- Re: Increasing MAXATOMBONDS? John Stone (Tue Dec 18 2007 - 12:56:55 CST)
  - Re: Increasing MAXATOMBONDS? Oliver Beckstein (Tue Dec 18 2007 - 16:05:02 CST)
OpenSuSE 10.3: ppmtompeg and MovieMaker plugin Dow Hurst DPHURST (Fri Dec 14 2007 - 12:14:46 CST)
display bonds Dongsheng Zhang (Fri Dec 14 2007 - 08:52:24 CST)
- Re: display bonds John Stone (Wed Dec 19 2007 - 14:02:49 CST)
add Mg2+ Lixia Jin Day (Thu Dec 13 2007 - 11:19:06 CST)
- Re: add Mg2+ John Stone (Wed Dec 19 2007 - 14:09:30 CST)
  - Re: add Mg2+ Lixia Jin Day (Wed Dec 19 2007 - 15:27:04 CST)
calculation of alpha helical content L. Michel Espinoza-Fonseca (Tue Dec 11 2007 - 10:29:24 CST)
- Re: calculation of alpha helical content Peter Freddolino (Tue Dec 11 2007 - 10:39:05 CST)
  - Re: calculation of alpha helical content L. Michel Espinoza-Fonseca (Tue Dec 11 2007 - 11:18:14 CST)
    - Re: calculation of alpha helical content Peter Freddolino (Tue Dec 11 2007 - 12:05:04 CST)
VMD movie from XYZ coordinate if file has two type of atoms] Anil Kumar (Tue Dec 11 2007 - 04:20:07 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms] Eduard Schreiner (Tue Dec 11 2007 - 07:49:44 CST)
  - Re: VMD movie from XYZ coordinate if file has two type of atoms] Anil Kumar (Tue Dec 11 2007 - 21:00:58 CST)
    - Re: VMD movie from XYZ coordinate if file has two type of atoms] Axel Kohlmeyer (Tue Dec 11 2007 - 21:50:14 CST)
    - Re: VMD movie from XYZ coordinate if file has two type of atoms] Anil Kumar (Wed Dec 12 2007 - 01:48:06 CST)
VMD movie from XYZ coordinate if file has two type of atoms Anil Kumar (Mon Dec 10 2007 - 22:43:49 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms Eduard Schreiner (Tue Dec 11 2007 - 02:36:07 CST)
Re: helical construction Harish Lnu (Mon Dec 10 2007 - 13:16:39 CST)
- Re: helical construction Harish Lnu (Mon Dec 10 2007 - 15:31:31 CST)
helical construction Harish Lnu (Mon Dec 10 2007 - 10:58:16 CST)
- Re: helical construction Sanghyun Park (Mon Dec 10 2007 - 13:05:40 CST)
- Re: helical construction Axel Kohlmeyer (Mon Dec 10 2007 - 15:26:30 CST)
delatom usage - no such segment? Stephen M. Dutz (Sun Dec 09 2007 - 19:05:37 CST)
- Re: delatom usage - no such segment? Jim Phillips (Mon Dec 17 2007 - 11:50:12 CST)
problem with the new cartoon representation mode OZGE ENGIN (Sat Dec 08 2007 - 13:42:12 CST)
- Re: problem with the new cartoon representation mode Axel Kohlmeyer (Sat Dec 08 2007 - 14:37:00 CST)
  - Re: Re: problem with the new cartoon representation mode OZGE ENGIN (Sat Dec 08 2007 - 15:36:37 CST)
    - Re: Re: problem with the new cartoon representation mode Axel Kohlmeyer (Sat Dec 08 2007 - 16:08:22 CST)
    - Re: Re: Re: problem with the new cartoon representation mode OZGE ENGIN (Sat Dec 08 2007 - 16:53:51 CST)
how to transform the coordinate of the atom using vmd Shulin Zhuang (Fri Dec 07 2007 - 14:01:51 CST)
- Re: how to transform the coordinate of the atom using vmd John Stone (Fri Dec 07 2007 - 15:02:21 CST)
Finding the length of multiple small molecules Manali Mehendale (Fri Dec 07 2007 - 13:15:59 CST)
- Re: Finding the length of multiple small molecules Axel Kohlmeyer (Fri Dec 07 2007 - 14:19:47 CST)
  - Re: Finding the length of multiple small molecules Manali Mehendale (Sat Dec 08 2007 - 15:09:47 CST)
    - Re: Finding the length of multiple small molecules Axel Kohlmeyer (Sat Dec 08 2007 - 16:03:07 CST)
drawing trajectory of a molecule L. Michel Espinoza-Fonseca (Fri Dec 07 2007 - 08:30:04 CST)
- Re: drawing trajectory of a molecule Axel Kohlmeyer (Fri Dec 07 2007 - 09:20:28 CST)
  - Re: drawing trajectory of a molecule L. Michel Espinoza-Fonseca (Fri Dec 07 2007 - 09:29:56 CST)
  - Re: drawing trajectory of a molecule L. Michel Espinoza-Fonseca (Fri Dec 07 2007 - 09:40:51 CST)
Making movies in VMD Lili Peng (Wed Dec 05 2007 - 18:32:44 CST)
- Re: Making movies in VMD Axel Kohlmeyer (Wed Dec 05 2007 - 19:16:40 CST)
  - Re: Making movies in VMD Lili Peng (Wed Dec 05 2007 - 19:27:32 CST)
    - Re: Making movies in VMD Axel Kohlmeyer (Wed Dec 05 2007 - 19:45:54 CST)
    - Re: Making movies in VMD Lili Peng (Wed Dec 05 2007 - 19:59:48 CST)
- Re: Making movies in VMD John Stone (Thu Dec 06 2007 - 12:34:37 CST)
  - RE: Making movies in VMD (UNCLASSIFIED) Balu, Radhakrishnan (Cont, ARL/WMRD) (Thu Dec 06 2007 - 15:28:03 CST)
    - Re: Making movies in VMD (UNCLASSIFIED) John Stone (Thu Dec 06 2007 - 16:11:00 CST)
Rainbow color scheme for VolumeSlice / Volume Xavier Cartoixa Soler (Tue Dec 04 2007 - 05:41:36 CST)
- Re: Rainbow color scheme for VolumeSlice / Volume John Stone (Tue Dec 04 2007 - 18:03:05 CST)
Fwd: Re: Paratool in VMD Syed Tarique Moin (Tue Dec 04 2007 - 05:18:08 CST)
FreeVR wand Ahmed Nawar (Tue Dec 04 2007 - 03:42:13 CST)
- Re: FreeVR wand John Stone (Tue Dec 04 2007 - 18:00:55 CST)
applying forces on a protein in VMD Peter Schellenberg (Tue Dec 04 2007 - 02:05:58 CST)
- Re: applying forces on a protein in VMD John Stone (Wed Dec 05 2007 - 00:58:14 CST)
Membrane POPC Francesco Pietra (Sat Dec 01 2007 - 17:07:50 CST)
- Render Snapshot from the Tcl console (jpg gif format) Arneh Babakhani (Sun Dec 02 2007 - 15:02:52 CST)
  - Re: Render Snapshot from the Tcl console (jpg gif format) L. Michel Espinoza-Fonseca (Sun Dec 02 2007 - 17:58:31 CST)
  - Re: Render Snapshot from the Tcl console (jpg gif format) John Stone (Sun Dec 02 2007 - 19:53:20 CST)
    - Re: Render Snapshot from the Tcl console (jpg gif format) Arneh Babakhani (Sun Dec 02 2007 - 20:45:38 CST)
Multiseq Wendy González (Fri Nov 30 2007 - 15:57:18 CST)
- Re: Multiseq John Stone (Sun Dec 02 2007 - 22:57:53 CST)
  - QM_plugin_force_constants Karol Kaszuba (Mon Dec 03 2007 - 06:41:24 CST)
  - Re: Multiseq Wendy González (Mon Dec 03 2007 - 07:11:24 CST)
psfgen delatom usage Stephen M. Dutz (Fri Nov 30 2007 - 15:36:18 CST)
Timeline viewer Neelanjana Sengupta (Fri Nov 30 2007 - 09:50:33 CST)
- Re: Timeline viewer Axel Kohlmeyer (Fri Nov 30 2007 - 15:31:56 CST)
  - Re: Timeline viewer Neelanjana Sengupta (Fri Nov 30 2007 - 19:29:49 CST)
How to display Chain name in Labels TRINH Minh Hieu (Fri Nov 30 2007 - 07:33:57 CST)
- Re: How to display Chain name in Labels John Stone (Thu Dec 06 2007 - 23:53:32 CST)
Command to change background to gradient TRINH Minh hieu (Fri Nov 30 2007 - 04:55:27 CST)
- Re: Command to change background to gradient Axel Kohlmeyer (Fri Nov 30 2007 - 06:15:44 CST)
SpaceNavigator Carsten Olbrich (Thu Nov 29 2007 - 11:23:01 CST)
- Re: SpaceNavigator John Stone (Thu Nov 29 2007 - 12:16:55 CST)
  - Re: SpaceNavigator Carsten Olbrich (Fri Nov 30 2007 - 10:16:46 CST)
- Re: SpaceNavigator John Stone (Wed Jun 11 2008 - 02:53:39 CDT)
Water within the minmax of protein Pavan Ghatty (Thu Nov 29 2007 - 09:17:51 CST)
- Re: Water within the minmax of protein John Stone (Thu Nov 29 2007 - 10:30:54 CST)
  - Re: Water within the minmax of protein Thomas Evangelidis (Thu Nov 29 2007 - 18:50:42 CST)
    - Re: Water within the minmax of protein Pavan Ghatty (Thu Nov 29 2007 - 21:08:06 CST)
    - Re: Water within the minmax of protein Thomas Evangelidis (Fri Nov 30 2007 - 09:14:11 CST)
problem with saving changed coordinates in a new state TaoJin (Wed Nov 28 2007 - 23:14:11 CST)
- Re: problem with saving changed coordinates in a new state Eduard Schreiner (Thu Nov 29 2007 - 02:24:56 CST)
Intersurf and interface residues Vincent Wolowski (Tue Nov 27 2007 - 13:34:40 CST)
- Re: Intersurf and interface residues John Stone (Tue Nov 27 2007 - 13:53:24 CST)
  - Re: Intersurf and interface residues Vincent Wolowski (Thu Nov 29 2007 - 03:30:37 CST)
    - Re: Intersurf and interface residues Axel Kohlmeyer (Thu Nov 29 2007 - 04:08:08 CST)
(UNCLASSIFIED) Balu, Radhakrishnan (Cont, ARL/WMRD) (Tue Nov 27 2007 - 09:18:18 CST)
gaussinan_log_file_error_can't use empty string as operand of "/" Karol Kaszuba (Tue Nov 27 2007 - 03:28:04 CST)
Paratools Syed Tarique Moin (Tue Nov 27 2007 - 03:06:27 CST)
(no subject) Syed Tarique Moin (Mon Nov 26 2007 - 06:25:08 CST)
difference for solvating a protein in long box suing or not using Molecule Dimensions Shulin Zhuang (Sun Nov 25 2007 - 16:43:40 CST)
Delete overlapping residues Francesco Pietra (Sat Nov 24 2007 - 10:50:32 CST)
- Re: Delete overlapping residues Axel Kohlmeyer (Sat Nov 24 2007 - 17:30:22 CST)
Hydrophobicity plots in VMD aneesh cna (Sat Nov 24 2007 - 00:33:38 CST)
- Re: Hydrophobicity plots in VMD Peter Freddolino (Sat Nov 24 2007 - 08:36:20 CST)
  - Re: Hydrophobicity plots in VMD aneesh cna (Sat Nov 24 2007 - 22:50:51 CST)
- Re: Hydrophobicity plots in VMD Avell Diroll (Tue Nov 27 2007 - 03:22:21 CST)
cave Ahmed Nawar (Thu Nov 22 2007 - 06:09:24 CST)
- Re: cave John Stone (Thu Nov 22 2007 - 10:21:30 CST)
  - RE: cave Ahmed Nawar (Sun Nov 25 2007 - 09:06:37 CST)
solvate crashes Irene Newhouse (Thu Nov 22 2007 - 04:02:33 CST)
- Re: solvate crashes L. Michel Espinoza-Fonseca (Thu Nov 22 2007 - 05:45:12 CST)
  - RE: solvate crashes Irene Newhouse (Thu Nov 22 2007 - 14:25:46 CST)
problem with loading trajectories in timline plugin aneesh cna (Thu Nov 22 2007 - 00:24:00 CST)
- Re: problem with loading trajectories in timline plugin John Stone (Thu Nov 22 2007 - 00:35:09 CST)
  - Re: problem with loading trajectories in timline plugin Rogan Carr (Sun Nov 25 2007 - 16:01:54 CST)
Re: analysing big trajectories (fwd) John Stone (Tue Nov 20 2007 - 17:30:59 CST)
- Re: analysing big trajectories (fwd) L. Michel Espinoza-Fonseca (Tue Nov 20 2007 - 18:03:25 CST)
  - Re: analysing big trajectories (fwd) John Stone (Tue Nov 20 2007 - 18:32:23 CST)
    - Re: analysing big trajectories (fwd) L. Michel Espinoza-Fonseca (Tue Nov 20 2007 - 18:39:03 CST)
    - Re: analysing big trajectories (fwd) Oliver Beckstein (Wed Nov 21 2007 - 19:05:14 CST)
Trying to get VMD to run locally while logged into a remote machine Daniel Beaman (Tue Nov 20 2007 - 16:04:57 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine John Stone (Tue Nov 20 2007 - 17:24:36 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine Axel Kohlmeyer (Wed Nov 21 2007 - 16:35:50 CST)
  - Re: Trying to get VMD to run locally while logged into a remote machine Daniel Beaman (Mon Nov 26 2007 - 17:27:48 CST)
analysing big trajectories Oliver Beckstein (Tue Nov 20 2007 - 14:28:45 CST)
- Re: analysing big trajectories John Stone (Tue Nov 20 2007 - 14:41:35 CST)
  - Re: analysing big trajectories John Stone (Tue Nov 20 2007 - 16:26:34 CST)
  - Re: analysing big trajectories Thomas Evangelidis (Tue Nov 20 2007 - 18:09:26 CST)
    - Re: analysing big trajectories Oliver Beckstein (Wed Nov 21 2007 - 19:13:32 CST)
Potential map animation, help! Cesar Millan (Tue Nov 20 2007 - 12:40:59 CST)
- Re: Potential map animation, help! John Stone (Tue Nov 20 2007 - 13:05:25 CST)
Calculate density Jianhui Tian (Mon Nov 19 2007 - 15:21:20 CST)
- Re: Calculate density Axel Kohlmeyer (Wed Nov 21 2007 - 14:20:15 CST)
vmd 1.8.6 doesn't run on Fedora Core 7 EMT64 Pascale Geysermans (Fri Nov 16 2007 - 09:37:50 CST)
- Re: vmd 1.8.6 doesn't run on Fedora Core 7 EMT64 Axel Kohlmeyer (Fri Nov 16 2007 - 23:56:37 CST)
re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found James.Beavis_at_csiro.au (Wed Nov 14 2007 - 19:28:02 CST)
- Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found Axel Kohlmeyer (Wed Nov 14 2007 - 20:34:06 CST)
combine.tcl membrane plugin Francesco Pietra (Wed Nov 14 2007 - 12:05:12 CST)
- Re: combine.tcl membrane plugin Axel Kohlmeyer (Wed Nov 14 2007 - 20:40:06 CST)
  - Re: combine.tcl membrane plugin Francesco Pietra (Thu Nov 15 2007 - 03:15:33 CST)
OpenGL Display Christopher Stiles (Tue Nov 13 2007 - 23:33:32 CST)
- Re: OpenGL Display Axel Kohlmeyer (Wed Nov 14 2007 - 04:09:40 CST)
  - RE: OpenGL Display Christopher Stiles (Wed Nov 14 2007 - 07:14:17 CST)
    - RE: OpenGL Display Axel Kohlmeyer (Wed Nov 14 2007 - 23:53:07 CST)
installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found James.Beavis_at_csiro.au (Tue Nov 13 2007 - 21:47:43 CST)
- Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found Axel Kohlmeyer (Tue Nov 13 2007 - 23:50:04 CST)
Dynamic bonds and H2 molecules. David Schall (Tue Nov 13 2007 - 11:17:30 CST)
- Re: Dynamic bonds and H2 molecules. Axel Kohlmeyer (Wed Nov 14 2007 - 04:07:00 CST)
stride binaries for windows XP OS aneesh cna (Mon Nov 12 2007 - 23:21:34 CST)
- Re: stride binaries for windows XP OS Axel Kohlmeyer (Tue Nov 13 2007 - 02:27:33 CST)
- Re: stride binaries for windows XP OS John Stone (Tue Nov 13 2007 - 10:18:59 CST)
problem with colouring the surface with electroststic potential aneesh cna (Mon Nov 12 2007 - 23:15:25 CST)
- Re: problem with colouring the surface with electroststic potential Axel Kohlmeyer (Tue Nov 13 2007 - 02:15:54 CST)
  - Re: problem with colouring the surface with electroststic potential John Stone (Wed Nov 14 2007 - 11:19:27 CST)
- Re: problem with colouring the surface with electroststic potential John Stone (Tue Nov 13 2007 - 10:09:17 CST)
problems with atomselect: missing selection Philipp Schön (Mon Nov 12 2007 - 05:23:32 CST)
- Re: problems with atomselect: missing selection Axel Kohlmeyer (Mon Nov 12 2007 - 06:38:01 CST)
POPS topology file lucie huynh (Mon Nov 12 2007 - 03:55:04 CST)
Generatin PSF for alkanes Santanu Chatterjee (Sat Nov 10 2007 - 22:38:55 CST)
- Re: Generatin PSF for alkanes Axel Kohlmeyer (Sun Nov 11 2007 - 00:54:50 CST)
- Re: Generatin PSF for alkanes Peter Freddolino (Sun Nov 11 2007 - 11:02:52 CST)
merging two pdb files Dibyadeep Paul (Thu Nov 08 2007 - 06:06:19 CST)
- Re: merging two pdb files Axel Kohlmeyer (Thu Nov 08 2007 - 06:39:05 CST)
  - Re: merging two pdb files Dibyadeep Paul (Thu Nov 08 2007 - 08:24:18 CST)
    - Re: merging two pdb files Axel Kohlmeyer (Thu Nov 08 2007 - 21:55:17 CST)
    - RE: merging two pdb files Richard Swenson (Fri Nov 09 2007 - 09:20:55 CST)
  - Re: merging two pdb files Francesco Pietra (Thu Nov 08 2007 - 11:48:23 CST)
    - Re: merging two pdb files Axel Kohlmeyer (Thu Nov 08 2007 - 21:50:10 CST)
molfile reader plugin woes Olaf Lenz (Thu Nov 08 2007 - 02:31:42 CST)
- Re: molfile reader plugin woes John Stone (Thu Nov 08 2007 - 07:24:35 CST)
- Re: molfile reader plugin woes Axel Kohlmeyer (Thu Nov 08 2007 - 06:44:28 CST)
VMD/NAMD at SC2007 John Stone (Wed Nov 07 2007 - 21:41:57 CST)
question about ionization Anatoliy (Wed Nov 07 2007 - 12:10:12 CST)
- Re: question about ionization John Stone (Wed Nov 07 2007 - 20:17:54 CST)
Out of office until Nov. 16 John Stone (Wed Nov 07 2007 - 11:57:55 CST)
merge pbd psf files (update) Alessio Alexiadis (Wed Nov 07 2007 - 07:47:48 CST)
combine together two PBD/PSF files Alessio Alexiadis (Wed Nov 07 2007 - 07:38:42 CST)
- Re: combine together two PBD/PSF files Dr. Luis Rosales Leon (Wed Nov 07 2007 - 18:50:50 CST)
vmd command delay jiwu liu (Mon Nov 05 2007 - 16:55:50 CST)
- Re: vmd command delay John Stone (Mon Nov 05 2007 - 17:31:24 CST)
  - Re: vmd command delay jiwu liu (Tue Nov 06 2007 - 20:02:27 CST)
    - Re: vmd command delay John Stone (Wed Nov 21 2007 - 13:26:48 CST)
    - Re: vmd command delay Oliver Beckstein (Wed Nov 21 2007 - 20:27:41 CST)
Download vmd for 64-bit Intel Itanium FyD (Mon Nov 05 2007 - 15:00:36 CST)
- Re: Download vmd for 64-bit Intel Itanium John Stone (Mon Nov 05 2007 - 16:55:20 CST)
question about water sphere script Anatoliy (Mon Nov 05 2007 - 11:21:54 CST)
Alignment Zhaochuan Shen (Thu Nov 01 2007 - 16:52:12 CDT)
- Re: Alignment John Stone (Sat Nov 03 2007 - 23:30:57 CDT)
  - Re: Alignment John Stone (Sun Nov 04 2007 - 13:53:06 CST)
    - changing dihedral angles in molefacture Samuel Coulbourn Flores (Mon Nov 05 2007 - 02:42:48 CST)
    - Re: changing dihedral angles in molefacture Peter Freddolino (Mon Nov 05 2007 - 07:11:28 CST)
  - Re: Alignment Zhaochuan Shen (Mon Nov 05 2007 - 11:41:52 CST)
problem with protein RMSD calculation due to incomplete wrapping of both peptide chains Maria Bagonis (Thu Nov 01 2007 - 16:11:04 CDT)
- Re: problem with protein RMSD calculation due to incomplete wrapping of both peptide chains John Stone (Thu Nov 01 2007 - 17:39:14 CDT)
  - Re: problem with protein RMSD calculation due to incomplete wrapping of both peptide chains Maria Bagonis (Mon Nov 05 2007 - 18:23:08 CST)
cloning a molecule dimka (Thu Nov 01 2007 - 13:46:44 CDT)
- Re: cloning a molecule John Stone (Fri Nov 02 2007 - 14:22:26 CDT)
  - Re: cloning a molecule Axel Kohlmeyer (Mon Nov 05 2007 - 00:35:27 CST)
  - Re: cloning a molecule Thomas C. Bishop (Mon Nov 05 2007 - 21:27:01 CST)
TMD in NAMD: cannot reach target lily jin (Thu Nov 01 2007 - 13:13:23 CDT)
vmd ubuntu crash jacopo.sgrignani_at_unifi.it (Thu Nov 01 2007 - 11:45:04 CDT)
- Re: vmd ubuntu crash John Stone (Thu Nov 01 2007 - 12:32:57 CDT)
aligning protein based on one helix of protein maria goranovic (Wed Oct 31 2007 - 08:48:29 CDT)
- Re: aligning protein based on one helix of protein maria goranovic (Wed Oct 31 2007 - 13:14:12 CDT)
  - Re: aligning protein based on one helix of protein John Stone (Wed Oct 31 2007 - 17:25:50 CDT)
    - easy way to adjust dihedral angles? Samuel Flores (Thu Nov 01 2007 - 13:58:13 CDT)
    - Re: easy way to adjust dihedral angles? Peter Freddolino (Fri Nov 02 2007 - 14:29:14 CDT)
CMYK Adrian Roitberg (Tue Oct 30 2007 - 16:08:37 CDT)
- Re: CMYK John Stone (Tue Oct 30 2007 - 17:49:30 CDT)
  - Re: CMYK Ignacio Fernández Galván (Wed Oct 31 2007 - 06:28:02 CDT)
Re: namd-l: NAMDEnergy lily jin (Tue Oct 30 2007 - 12:34:43 CDT)
NAMDEnergy lily jin (Tue Oct 30 2007 - 12:00:57 CDT)
- Re: namd-l: NAMDEnergy Peter Freddolino (Tue Oct 30 2007 - 12:20:16 CDT)
Re: rna topology and parameters for rna Per Jr. Greisen (Sun Oct 28 2007 - 04:56:03 CDT)
- Re: rna topology and parameters for rna Samuel Flores (Mon Oct 29 2007 - 01:14:01 CDT)
  - Re: rna topology and parameters for rna Per Jr. Greisen (Mon Oct 29 2007 - 01:55:01 CDT)
  - RE: rna topology and parameters for rna Brittany Morgan (Mon Oct 29 2007 - 08:20:16 CDT)
how to display dcd file written with catdcd using an index file Irene Newhouse (Fri Oct 26 2007 - 14:08:44 CDT)
- Re: how to display dcd file written with catdcd using an index file John Stone (Fri Oct 26 2007 - 15:50:55 CDT)
  - Force field atom types FyD (Sun Oct 28 2007 - 05:23:11 CDT)
    - Re: Force field atom types Peter Freddolino (Sun Oct 28 2007 - 10:25:28 CDT)
  - RE: how to display dcd file written with catdcd using an index file Irene Newhouse (Tue Oct 30 2007 - 13:30:26 CDT)
periodic box manipulation Vlad Cojocaru (Fri Oct 26 2007 - 07:39:58 CDT)
- Re: periodic box manipulation (solution) Vlad Cojocaru (Fri Oct 26 2007 - 09:04:03 CDT)
installation of APBS plug-in in VMD 1.8.6 Lhee, SangMoon (Thu Oct 25 2007 - 21:14:47 CDT)
- Re: installation of APBS plug-in in VMD 1.8.6 John Stone (Thu Oct 25 2007 - 21:29:12 CDT)
Writing in NAMD binary format in VMD from TCl/Tk console? poker_at_physics.usyd.edu.au (Tue Oct 23 2007 - 20:33:05 CDT)
- Re: Writing in NAMD binary format in VMD from TCl/Tk console? John Stone (Wed Oct 24 2007 - 17:24:52 CDT)
superposition of two complex according to the same inhibitor Emilia Wu (Mon Oct 22 2007 - 21:42:59 CDT)
- Re: superposition of two complex according to the same inhibitor Eduard Schreiner (Tue Oct 23 2007 - 01:05:26 CDT)
FW: VMD & OpenGL GLX Extension Meij, Henk (Mon Oct 22 2007 - 14:55:42 CDT)
- Re: FW: VMD & OpenGL GLX Extension John Stone (Wed Oct 24 2007 - 17:36:21 CDT)
status of psfgen support for CHARMM psf format Dow Hurst DPHURST (Mon Oct 22 2007 - 09:37:30 CDT)
- Re: status of psfgen support for CHARMM psf format John Stone (Tue Oct 30 2007 - 22:57:31 CDT)
Color by Volume on an Intel 945GM Jeffry D Madura (Sat Oct 20 2007 - 14:42:07 CDT)
- Re: Color by Volume on an Intel 945GM Axel Kohlmeyer (Sat Oct 20 2007 - 15:44:39 CDT)
  - RE: Color by Volume on an Intel 945GM Jeffry D Madura (Sat Oct 20 2007 - 16:22:42 CDT)
    - Re: Color by Volume on an Intel 945GM John Stone (Mon Oct 22 2007 - 10:34:50 CDT)
how to remove chain id ? Sanghyun Park (Fri Oct 19 2007 - 21:57:10 CDT)
- Re: how to remove chain id ? Axel Kohlmeyer (Sat Oct 20 2007 - 08:33:05 CDT)
  - Re: how to remove chain id ? Sanghyun Park (Sat Oct 20 2007 - 11:42:45 CDT)
    - Re: how to remove chain id ? Axel Kohlmeyer (Sat Oct 20 2007 - 14:00:02 CDT)
    - Re: how to remove chain id ? Sanghyun Park (Sat Oct 20 2007 - 14:39:03 CDT)
Extracting IR spectra from trajectories Cesar Luis Avila (Fri Oct 19 2007 - 10:08:45 CDT)
- Re: Extracting IR spectra from trajectories Axel Kohlmeyer (Fri Oct 19 2007 - 15:30:50 CDT)
Problem with bigdcd Vishal Kopardé (Fri Oct 19 2007 - 09:03:24 CDT)
- Re: Problem with bigdcd John Stone (Fri Oct 19 2007 - 11:01:24 CDT)
  - Re: Problem with bigdcd Vishal Kopardé (Fri Oct 19 2007 - 11:16:25 CDT)
- Re: Problem with bigdcd Himanshu Khandelia (Fri Oct 19 2007 - 12:25:56 CDT)
APBS dx colors depend on order of molec files loaded??? Chari, Ravi (Thu Oct 18 2007 - 14:52:48 CDT)
- Re: APBS dx colors depend on order of molec files loaded??? John Stone (Thu Oct 18 2007 - 15:08:21 CDT)
RE: multiple attempts before vmd starts up ZT Yew (Thu Oct 18 2007 - 07:03:23 CDT)
multiple attempts before vmd starts up ZT Yew (Wed Oct 17 2007 - 20:25:55 CDT)
- Re: multiple attempts before vmd starts up John Stone (Wed Oct 17 2007 - 20:34:41 CDT)
  - Re: multiple attempts before vmd starts up Boris Steipe (Thu Oct 18 2007 - 00:07:55 CDT)
    - Re: multiple attempts before vmd starts up klsale (Thu Oct 18 2007 - 13:35:36 CDT)
    - Re: multiple attempts before vmd starts up Boris Steipe (Thu Oct 18 2007 - 13:47:21 CDT)
(no subject) ZT Yew (Wed Oct 17 2007 - 18:26:24 CDT)
Exelent quality watch Landon Beaver (Wed Oct 17 2007 - 17:56:35 CDT)
H- bond emra Heshmati (Wed Oct 17 2007 - 12:16:47 CDT)
Is catdcd running on Windows? Philipp Schön (Wed Oct 17 2007 - 03:45:54 CDT)
- Re: Is catdcd running on Windows? Axel Kohlmeyer (Wed Oct 17 2007 - 06:34:45 CDT)
- Re: Is catdcd running on Windows? John Stone (Wed Oct 17 2007 - 21:15:39 CDT)
Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu ZT Yew (Tue Oct 16 2007 - 10:13:22 CDT)
- Re: Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu John Stone (Tue Oct 16 2007 - 10:19:21 CDT)
  - RE: Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu ZT Yew (Tue Oct 16 2007 - 10:55:34 CDT)
Error with stride Per Jr. Greisen (Tue Oct 16 2007 - 09:01:21 CDT)
- Re: Error with stride John Stone (Tue Oct 16 2007 - 09:27:10 CDT)
bonds across periodic boundaries Barry Bickmore (Tue Oct 16 2007 - 08:53:09 CDT)
- Re: bonds across periodic boundaries John Stone (Tue Oct 16 2007 - 09:22:46 CDT)
Strange behaviour of MSMS Ezequiel Quintana Morales (Tue Oct 16 2007 - 07:33:07 CDT)
- Re: Strange behaviour of MSMS John Stone (Tue Oct 16 2007 - 09:20:37 CDT)
Re: residue selection (water molecule within 5 ang. to protein in simulation) kinshuk_at_chem.iitb.ac.in (Mon Oct 15 2007 - 23:54:21 CDT)
- Re: residue selection (water molecule within 5 ang. to protein in simulation) John Stone (Tue Oct 16 2007 - 10:57:29 CDT)
Problems Opening Large .dx File Corenflos, Steven Charles (Mon Oct 15 2007 - 11:30:04 CDT)
- Re: Problems Opening Large .dx File John Stone (Mon Oct 15 2007 - 15:26:55 CDT)
- Re: Problems Opening Large .dx File Axel Kohlmeyer (Mon Oct 15 2007 - 15:56:28 CDT)
  - RE: Problems Opening Large .dx File Corenflos, Steven Charles (Wed Oct 17 2007 - 17:09:54 CDT)
    - Re: Problems Opening Large .dx File John Stone (Wed Oct 17 2007 - 17:28:37 CDT)
Generating parameter file for Cl2- Per Jr. Greisen (Mon Oct 15 2007 - 10:39:36 CDT)
- Re: Generating parameter file for Cl2- John Stone (Mon Oct 15 2007 - 15:22:08 CDT)
setting unit cell dimensions bbickmore_at_comcast.net (Sun Oct 14 2007 - 23:07:50 CDT)
- Re: setting unit cell dimensions Olaf Lenz (Mon Oct 15 2007 - 02:43:47 CDT)
- Re: setting unit cell dimensions Axel Kohlmeyer (Mon Oct 15 2007 - 03:54:49 CDT)
combine.tcl error Francesco Pietra (Sun Oct 14 2007 - 03:23:23 CDT)
- Re: combine.tcl error John Stone (Wed Oct 17 2007 - 22:11:59 CDT)
residue selection (water molecule within 5 ang. to protein in simulation) kinshuk_at_chem.iitb.ac.in (Sun Oct 14 2007 - 02:21:32 CDT)
- Re: residue selection (water molecule within 5 ang. to protein in simulation) Neelanjana Sengupta (Sun Oct 14 2007 - 08:05:40 CDT)
Small molecules Amit (Fri Oct 12 2007 - 18:02:51 CDT)
- Re: Small molecules L. Michel Espinoza-Fonseca (Fri Oct 12 2007 - 18:44:00 CDT)
  - Re: Small molecules Peter Freddolino (Sat Oct 13 2007 - 17:25:13 CDT)
- Re: Small molecules Jay Shore (Sun Oct 14 2007 - 22:42:42 CDT)
residue selection Giovanni Bellesia (Fri Oct 12 2007 - 14:19:32 CDT)
- Re: residue selection Peter Freddolino (Fri Oct 12 2007 - 14:24:18 CDT)
  - Re: residue selection Giovanni Bellesia (Fri Oct 12 2007 - 14:28:29 CDT)
    - Re: residue selection Peter Freddolino (Fri Oct 12 2007 - 14:27:49 CDT)
VMD access using XWIN32 or X-Deep Deepangi Pandit (Fri Oct 12 2007 - 13:20:01 CDT)
- Re: VMD access using XWIN32 or X-Deep Axel Kohlmeyer (Fri Oct 12 2007 - 14:08:30 CDT)
- Re: VMD access using XWIN32 or X-Deep John Stone (Fri Oct 12 2007 - 15:34:12 CDT)
  - Re: VMD access using XWIN32 or X-Deep Mario Valle (Fri Oct 12 2007 - 22:50:54 CDT)
Fixing the View in a Movie carlos_at_avalon.umaryland.edu (Fri Oct 12 2007 - 11:44:45 CDT)
- Re: Fixing the View in a Movie John Stone (Fri Oct 12 2007 - 16:14:14 CDT)
VMD access using XWIN32 or X-Deep Deepangi Pandit (Fri Oct 12 2007 - 11:35:52 CDT)
RMSD Trajectory Tool Zhaochuan Shen (Wed Oct 10 2007 - 13:09:22 CDT)
- Re: RMSD Trajectory Tool John Stone (Wed Oct 17 2007 - 21:56:39 CDT)
Re: namd-l: Molecule drifts and high average RMSD per residue Peter Freddolino (Tue Oct 09 2007 - 09:45:23 CDT)
- Re: Re: namd-l: Molecule drifts and high average RMSD per residue Peter Freddolino (Tue Oct 09 2007 - 09:51:07 CDT)
- Re: namd-l: Molecule drifts and high average RMSD per residue Peter Freddolino (Tue Oct 09 2007 - 09:58:06 CDT)
Rotate a box with pcb Matteo Guglielmi (Tue Oct 09 2007 - 07:02:34 CDT)
- Re: Rotate a box with pcb John Stone (Wed Oct 17 2007 - 22:24:58 CDT)
  - Re: Rotate a box with pcb Jan Saam (Thu Oct 18 2007 - 01:14:31 CDT)
    - Re: Rotate a box with pcb Matteo Guglielmi (Thu Oct 18 2007 - 14:07:16 CDT)
Re: You are right. That's the problem. Axel Kohlmeyer (Mon Oct 08 2007 - 12:10:07 CDT)
Normal VMD crashed when pdb load but Debug mode works weilin Zhang (Mon Oct 08 2007 - 09:45:50 CDT)
- Re: Normal VMD crashed when pdb load but Debug mode works John Stone (Mon Oct 08 2007 - 11:48:43 CDT)
- Re: Normal VMD crashed when pdb load but Debug mode works Axel Kohlmeyer (Mon Oct 08 2007 - 11:41:09 CDT)
the representation of within 10 angstrom of a specific point Emilia Wu (Sun Oct 07 2007 - 22:01:08 CDT)
- Re: the representation of within 10 angstrom of a specific point Axel Kohlmeyer (Sun Oct 07 2007 - 23:48:36 CDT)
Cube Files - proportion of the electron density Jay Shore (Sun Oct 07 2007 - 15:50:40 CDT)
- Re: Cube Files - proportion of the electron density Axel Kohlmeyer (Sun Oct 07 2007 - 18:14:00 CDT)
  - Re: Cube Files - proportion of the electron density Jay Shore (Tue Oct 09 2007 - 14:10:35 CDT)
    - Re: Cube Files - proportion of the electron density John Stone (Tue Oct 09 2007 - 14:38:06 CDT)
    - Re: Cube Files - proportion of the electron density Axel Kohlmeyer (Tue Oct 09 2007 - 16:40:25 CDT)
NAMDENERGY analysis Narender Singh Maan (Thu Oct 04 2007 - 13:34:16 CDT)
- Re: NAMDENERGY analysis Peter Freddolino (Thu Oct 04 2007 - 14:18:05 CDT)
  - Re: NAMDENERGY analysis Peter Freddolino (Thu Oct 04 2007 - 14:28:18 CDT)
- Re: NAMDENERGY analysis Axel Kohlmeyer (Thu Oct 04 2007 - 15:34:32 CDT)
How to put metal ion into my protein Shulin Zhuang (Wed Oct 03 2007 - 22:29:40 CDT)
no transparency on newest iMacs Christoph Weber (Wed Oct 03 2007 - 19:05:21 CDT)
- Re: no transparency on newest iMacs John Stone (Wed Oct 03 2007 - 19:12:40 CDT)
  - Re: no transparency on newest iMacs Christoph Weber (Thu Oct 04 2007 - 15:56:56 CDT)
    - Re: no transparency on newest iMacs John Stone (Fri Oct 05 2007 - 01:35:41 CDT)
Re: Installation and running on VMD on Debian Testing System Brian Bennion (Wed Oct 03 2007 - 09:51:54 CDT)
- Re: Installation and running on VMD on Debian Testing System Lorenzo Isella (Wed Oct 03 2007 - 17:50:04 CDT)
creating nonstandard solvent lucie huynh (Wed Oct 03 2007 - 07:53:21 CDT)
- Re: creating nonstandard solvent Peter Freddolino (Wed Oct 03 2007 - 08:23:07 CDT)
- Re: creating nonstandard solvent Leandro Martínez (Wed Oct 03 2007 - 08:35:19 CDT)
  - Re: creating nonstandard solvent Nicolas Belloy (Fri Oct 05 2007 - 09:16:30 CDT)
    - Re: creating nonstandard solvent Peter Freddolino (Fri Oct 05 2007 - 10:01:12 CDT)
  - Setting number of water molecules for the given box dimension jestin mandumpal (Thu Oct 18 2007 - 22:01:57 CDT)
- Re: creating nonstandard solvent Peter Freddolino (Wed Oct 03 2007 - 08:19:30 CDT)
Installation and running on VMD on Debian Testing System Lorenzo Isella (Wed Oct 03 2007 - 07:48:08 CDT)
- Re: Installation and running on VMD on Debian Testing System Dan Wright (Wed Oct 03 2007 - 12:05:38 CDT)
- Re: Installation and running on VMD on Debian Testing System Axel Kohlmeyer (Wed Oct 03 2007 - 12:42:25 CDT)
time step Alessio Alexiadis (Wed Oct 03 2007 - 07:44:13 CDT)
- Re: time step John Stone (Thu Oct 04 2007 - 23:39:34 CDT)
  - Re: time step nmichaud_at_jhu.edu (Fri Oct 05 2007 - 07:23:38 CDT)
hbonds (how to count) Alessio Alexiadis (Wed Oct 03 2007 - 03:28:52 CDT)
- Re: hbonds (how to count) Axel Kohlmeyer (Wed Oct 03 2007 - 06:29:53 CDT)
namdenergy problem Narender Singh Maan (Tue Oct 02 2007 - 14:53:47 CDT)
- Re: namdenergy problem Peter Freddolino (Tue Oct 02 2007 - 18:14:14 CDT)
  - Re: namdenergy problem Peter Freddolino (Tue Oct 02 2007 - 18:55:14 CDT)
query regarding membrane building kalyan chaitanya (Sat Sep 29 2007 - 09:41:14 CDT)
- Re: query regarding membrane building L. Michel Espinoza-Fonseca (Sat Sep 29 2007 - 14:05:01 CDT)
  - Re: query regarding membrane building kalyan chaitanya (Sat Sep 29 2007 - 22:58:45 CDT)
util Peter Freddolino (Fri Sep 28 2007 - 16:39:56 CDT)
- Re: util Peter Freddolino (Fri Sep 28 2007 - 16:46:40 CDT)
Storing multiple values in the user field Bob Johnson (Fri Sep 28 2007 - 16:15:05 CDT)
- Re: Storing multiple values in the user field John Stone (Fri Sep 28 2007 - 16:25:34 CDT)
  - Re: Storing multiple values in the user field John Stone (Fri Sep 28 2007 - 17:12:51 CDT)
- Re: Storing multiple values in the user field Axel Kohlmeyer (Fri Sep 28 2007 - 16:17:09 CDT)
video memory and volumetric data Jim Fonseca (Fri Sep 28 2007 - 15:15:02 CDT)
- Re: video memory and volumetric data John Stone (Fri Sep 28 2007 - 16:19:41 CDT)
behavior of "mol addfile first/last" with non-integer frame numbers Axel Kohlmeyer (Thu Sep 27 2007 - 19:35:40 CDT)
- Re: behavior of "mol addfile first/last" with non-integer frame numbers John Stone (Fri Sep 28 2007 - 13:37:49 CDT)
Charlie Buy your loved one Hermes Dick Medrano (Thu Sep 27 2007 - 20:39:34 CDT)
vmd files between linux and windows Sampo Karkola (Thu Sep 27 2007 - 07:52:16 CDT)
- Re: vmd files between linux and windows John Stone (Thu Sep 27 2007 - 10:19:30 CDT)
  - Re: vmd files between linux and windows Sampo Karkola (Mon Oct 01 2007 - 01:51:11 CDT)
atom index number Naser, Md Abu (Thu Sep 27 2007 - 01:28:29 CDT)
- Re: atom index number Axel Kohlmeyer (Thu Sep 27 2007 - 02:42:42 CDT)
How can I get .xyzr file or .xyzrn file? ChenFei (Wed Sep 26 2007 - 02:27:51 CDT)
- Re: How can I get .xyzr file or .xyzrn file? John Stone (Wed Sep 26 2007 - 16:38:04 CDT)
topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp Dhiraj Srivastava (Tue Sep 25 2007 - 19:00:30 CDT)
- Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp Dhiraj Srivastava (Tue Sep 25 2007 - 19:33:14 CDT)
  - Re: Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp Peter Freddolino (Tue Sep 25 2007 - 21:05:12 CDT)
- Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp L. Michel Espinoza-Fonseca (Tue Sep 25 2007 - 19:33:46 CDT)
RE: Can't execvp vmd_SOLARISX86 Austin Small (Tue Sep 25 2007 - 16:14:16 CDT)
MultiSeq on the windows vista OS Lhee, SangMoon (Mon Sep 24 2007 - 13:30:25 CDT)
- Re: MultiSeq on the windows vista OS Alexandr Isayev (Mon Sep 24 2007 - 14:25:00 CDT)
Can't execvp vmd_SOLARISX86 Austin Small (Sun Sep 23 2007 - 23:42:50 CDT)
- Re: Can't execvp vmd_SOLARISX86 John Stone (Sun Sep 23 2007 - 21:49:23 CDT)
residue selection: conflict between resid and residue Nicolas Sapay (Fri Sep 21 2007 - 13:22:45 CDT)
- Re: residue selection: conflict between resid and residue Axel Kohlmeyer (Fri Sep 21 2007 - 13:15:29 CDT)
  - Re: residue selection: conflict between resid and residue Nicolas Sapay (Fri Sep 21 2007 - 15:14:23 CDT)
Create a PSF Andrea.Cristiani_at_pharm.unige.ch (Fri Sep 21 2007 - 04:16:37 CDT)
- Re: Create a PSF Èùìáò Åõáããåëéäçò (Fri Sep 21 2007 - 06:12:49 CDT)
  - Re: Create a PSF Peter Freddolino (Fri Sep 21 2007 - 07:27:34 CDT)
- Re: Create a PSF Peter Freddolino (Fri Sep 21 2007 - 06:57:23 CDT)
output of distances between atoms or coordinates INPE (Ingrid Viveka Pettersson) (Thu Sep 20 2007 - 08:27:39 CDT)
- Re: output of distances between atoms or coordinates Axel Kohlmeyer (Thu Sep 20 2007 - 10:20:08 CDT)
Problem generating PSF file for decalanine...any help? Santanu Chatterjee (Wed Sep 19 2007 - 18:24:38 CDT)
Problem generating PSF file for decalanine...any help? Santanu Chatterjee (Wed Sep 19 2007 - 18:20:58 CDT)
sidechain correlated motions L. Michel Espinoza-Fonseca (Wed Sep 19 2007 - 17:18:04 CDT)
- Re: sidechain correlated motions Axel Kohlmeyer (Thu Sep 20 2007 - 09:42:59 CDT)
  - Re: sidechain correlated motions L. Michel Espinoza-Fonseca (Fri Sep 21 2007 - 10:41:21 CDT)
smooting structure Myunggi Yi (Wed Sep 19 2007 - 11:38:23 CDT)
- Re: smooting structure John Stone (Wed Sep 19 2007 - 11:57:16 CDT)
  - Re: smooting structure Myunggi Yi (Wed Sep 19 2007 - 12:59:12 CDT)
Residue highlighting in MD Traj M kutty (Wed Sep 19 2007 - 03:15:09 CDT)
- Re: Residue highlighting in MD Traj Nuno Loureiro Ferreira (Wed Sep 19 2007 - 05:05:01 CDT)
  - Re: Residue highlighting in MD Traj Nuno Loureiro Ferreira (Fri Sep 28 2007 - 03:45:32 CDT)
passive stereo projection using a Mac Jeff Hoch (Tue Sep 18 2007 - 12:18:15 CDT)
change the representation of certain atoms which pass a geometric criterion during a movie maria goranovic (Tue Sep 18 2007 - 08:21:45 CDT)
- Re: change the representation of certain atoms which pass a geometric criterion during a movie Axel Kohlmeyer (Tue Sep 18 2007 - 08:34:29 CDT)
  - Time series for SASA calculation: PARMINDER MANKOO (Wed Sep 26 2007 - 13:40:12 CDT)
    - Re: Time series for SASA calculation: Axel Kohlmeyer (Wed Sep 26 2007 - 20:01:35 CDT)
Re: osx startup script John Stone (Mon Sep 17 2007 - 15:34:55 CDT)
problem with timeline plugin aneesh cna (Mon Sep 17 2007 - 05:33:29 CDT)
problems with ADP vanadate Daniel Kennedy (Sun Sep 16 2007 - 11:12:09 CDT)
VMD text mode version Myunggi Yi (Fri Sep 14 2007 - 10:10:58 CDT)
- Re: VMD text mode version Axel Kohlmeyer (Fri Sep 14 2007 - 10:09:50 CDT)
"truncate_trajectory" a new plugin Èùìáò Åõáããåëéäçò (Fri Sep 14 2007 - 10:01:23 CDT)
Questions abt VMD plugins Audrey Salazar (Fri Sep 14 2007 - 08:59:48 CDT)
- Re: Questions abt VMD plugins Axel Kohlmeyer (Fri Sep 14 2007 - 10:06:06 CDT)
secondary structure colors in timeline plugin cristiana.carellialinovi_at_rm.unicatt.it (Fri Sep 14 2007 - 07:51:31 CDT)
- Re: secondary structure colors in timeline plugin Axel Kohlmeyer (Fri Sep 14 2007 - 07:46:50 CDT)
Generating water transparency around a protein Jeffry D Madura (Fri Sep 14 2007 - 06:31:14 CDT)
- Re: Generating water transparency around a protein Peter Freddolino (Fri Sep 14 2007 - 07:18:45 CDT)
VMD on Playstation 3 Jeffry D Madura (Fri Sep 14 2007 - 06:30:58 CDT)
- Re: VMD on Playstation 3 Axel Kohlmeyer (Fri Sep 14 2007 - 07:39:16 CDT)
secondary structure colors in timeline plugin cristiana.carellialinovi_at_rm.unicatt.it (Fri Sep 14 2007 - 06:24:30 CDT)
Problems with a multiple orbital cube file Dr. Seth Olsen (Fri Sep 14 2007 - 01:49:38 CDT)
- Re: Problems with a multiple orbital cube file Axel Kohlmeyer (Fri Sep 14 2007 - 07:32:14 CDT)
VMD Images and Movies Tutorial: Working With Trajectories Roland Schmucki (Thu Sep 13 2007 - 03:32:05 CDT)
- Re: VMD Images and Movies Tutorial: Working With Trajectories Axel Kohlmeyer (Thu Sep 13 2007 - 09:04:08 CDT)
Re: program finishes before bigdcd is executed completely Èùìáò Åõáããåëéäçò (Tue Sep 11 2007 - 13:56:32 CDT)
- Re: program finishes before bigdcd is executed completely Leonardo Trabuco (Tue Sep 11 2007 - 14:51:11 CDT)
  - Re: program finishes before bigdcd is executed completely Èùìáò Åõáããåëéäçò (Tue Sep 11 2007 - 17:26:12 CDT)
program finishes before bigdcd is ececuted completely Èùìáò Åõáããåëéäçò (Mon Sep 10 2007 - 14:57:11 CDT)
- Re: program finishes before bigdcd is ececuted completely Leonardo Trabuco (Mon Sep 10 2007 - 16:50:39 CDT)
  - Re: program finishes before bigdcd is ececuted completely Èùìáò Åõáããåëéäçò (Tue Sep 11 2007 - 06:19:53 CDT)
    - Re: program finishes before bigdcd is ececuted completely Leonardo Trabuco (Tue Sep 11 2007 - 08:22:11 CDT)
    - Re: program finishes before bigdcd is ececuted completely Èùìáò Åõáããåëéäçò (Tue Sep 11 2007 - 10:07:23 CDT)
polymer molecule orientation parameter Catherine Tweedie (Mon Sep 10 2007 - 13:45:11 CDT)
changing the tilt angle of a peptide embedded in a membrane L. Michel Espinoza-Fonseca (Mon Sep 10 2007 - 13:08:38 CDT)
changing the tile angle of a peptide embedded in a membrane L. Michel Espinoza-Fonseca (Mon Sep 10 2007 - 12:57:13 CDT)
- Re: changing the tile angle of a peptide embedded in a membrane John Stone (Mon Sep 10 2007 - 13:09:39 CDT)
- Re: changing the tile angle of a peptide embedded in a membrane L. Michel Espinoza-Fonseca (Mon Sep 10 2007 - 13:05:36 CDT)
problem regarding timeline aneesh cna (Mon Sep 10 2007 - 10:54:01 CDT)
Re: namd-l: STRIDE Algorithm L. Michel Espinoza-Fonseca (Mon Sep 10 2007 - 10:43:56 CDT)
GLSL rendering mode is NOT available Roland Schmucki (Mon Sep 10 2007 - 07:04:48 CDT)
- Re: GLSL rendering mode is NOT available Axel Kohlmeyer (Mon Sep 10 2007 - 09:28:37 CDT)
- Re: GLSL rendering mode is NOT available John Stone (Mon Sep 10 2007 - 10:32:37 CDT)
Further angle question jo hanna (Sat Sep 08 2007 - 09:16:15 CDT)
- Re: Further angle question Axel Kohlmeyer (Sat Sep 08 2007 - 20:37:28 CDT)
vmdbasename: Undefined variable Austin Small (Sat Sep 08 2007 - 12:13:41 CDT)
- Re: vmdbasename: Undefined variable Axel Kohlmeyer (Sat Sep 08 2007 - 20:39:56 CDT)
- Re: vmdbasename: Undefined variable John Stone (Sat Sep 08 2007 - 22:24:02 CDT)
Computing angles jo hanna (Fri Sep 07 2007 - 17:18:33 CDT)
- Re: Computing angles Axel Kohlmeyer (Fri Sep 07 2007 - 17:27:26 CDT)
Fwd: peptide builder L. Michel Espinoza-Fonseca (Fri Sep 07 2007 - 11:35:39 CDT)
- Re: Fwd: peptide builder Peter Freddolino (Fri Sep 07 2007 - 11:36:45 CDT)
is it possible to skip frame when using bigdcd maria goranovic (Fri Sep 07 2007 - 03:47:05 CDT)
- Re: is it possible to skip frame when using bigdcd Axel Kohlmeyer (Fri Sep 07 2007 - 07:56:23 CDT)
- Re: is it possible to skip frame when using bigdcd John Stone (Fri Sep 07 2007 - 12:38:26 CDT)
  - Re: is it possible to skip frame when using bigdcd maria goranovic (Mon Sep 10 2007 - 04:17:44 CDT)
Averaging volmaps Cesar Luis Avila (Thu Sep 06 2007 - 10:11:36 CDT)
the console window is automatically closed without any error messages Hu Zhonghan (Thu Sep 06 2007 - 10:05:15 CDT)
- Re: the console window is automatically closed without any error messages John Stone (Thu Sep 06 2007 - 10:52:49 CDT)
  - Re: the console window is automatically closed without any error messages Hu Zhonghan (Thu Sep 06 2007 - 12:31:54 CDT)
    - Re: the console window is automatically closed without any error messages John Stone (Thu Sep 06 2007 - 12:36:44 CDT)
    - Re: the console window is automatically closed without any error messages Axel Kohlmeyer (Thu Sep 06 2007 - 12:50:08 CDT)
PMEpot + bigDCD ? Cesar Luis Avila (Wed Sep 05 2007 - 15:08:00 CDT)
Solvate package brmorgan_at_clarku.edu (Wed Sep 05 2007 - 13:02:03 CDT)
- Re: Solvate package Axel Kohlmeyer (Wed Sep 05 2007 - 14:05:45 CDT)
Rebuilding lipid from headgroup coordinates only using psfgen, some atoms put on origin maria goranovic (Wed Sep 05 2007 - 11:05:12 CDT)
- Re: Rebuilding lipid from headgroup coordinates only using psfgen, some atoms put on origin Jim Phillips (Sat Sep 08 2007 - 21:56:51 CDT)
advanced python console Gianluca Santarossa (Tue Sep 04 2007 - 09:17:45 CDT)
- Re: advanced python console Axel Kohlmeyer (Tue Sep 04 2007 - 09:18:34 CDT)
regular expression in Tcl Èùìáò Åõáããåëéäçò (Tue Sep 04 2007 - 06:13:56 CDT)
- Re: regular expression in Tcl Axel Kohlmeyer (Tue Sep 04 2007 - 09:12:58 CDT)
Your Zoc0r 0rder #46390 Vito Ashley (Tue Sep 04 2007 - 03:20:14 CDT)
Stylish repl1ca w4tches from famous brands Susan Langston (Tue Sep 04 2007 - 03:16:35 CDT)
Delightsome Cart1er w4tches at Prest1ge Repl1cas Carson Cope (Fri Aug 31 2007 - 13:58:34 CDT)
Your Val1um 0rder #799563 Eliza Wray (Fri Aug 31 2007 - 10:02:23 CDT)
How to solvate a protein in a large water sphere Shulin Zhuang (Fri Aug 31 2007 - 03:44:50 CDT)
- Re: How to solvate a protein in a large water sphere Peter Freddolino (Fri Aug 31 2007 - 08:16:08 CDT)
Problem with saving coordinate bo baker (Thu Aug 30 2007 - 22:44:57 CDT)
- Re: Problem with saving coordinate Axel Kohlmeyer (Fri Aug 31 2007 - 00:17:25 CDT)
  - Re: Problem with saving coordinate bo baker (Fri Aug 31 2007 - 01:55:26 CDT)
solvation Francesco Pietra (Thu Aug 30 2007 - 15:05:59 CDT)
RE: VMD analysis using NAMD plot Richard Swenson (Wed Aug 29 2007 - 10:42:59 CDT)
VMD analysis using NAMD plot Philipp Schön (Wed Aug 29 2007 - 05:47:01 CDT)
- Re: VMD analysis using NAMD plot John Stone (Wed Aug 29 2007 - 11:03:24 CDT)
- RE: VMD analysis using NAMD plot Richard Swenson (Wed Aug 29 2007 - 10:40:28 CDT)
dcd file error dimka (Tue Aug 28 2007 - 17:50:52 CDT)
- Re: dcd file error John Stone (Wed Aug 29 2007 - 00:08:39 CDT)
numbonds Eduard Schreiner (Tue Aug 28 2007 - 10:54:20 CDT)
- Re: numbonds Axel Kohlmeyer (Tue Aug 28 2007 - 12:05:46 CDT)
Delightful repl1ca w4tches at Prest1ge Repl1cas Kenton Webster (Tue Aug 28 2007 - 09:33:17 CDT)
Re: Your Pharm4cy 0rder #530152 Susanna Crowe (Tue Aug 28 2007 - 05:22:21 CDT)
TIP5P jestin mandumpal (Sun Aug 26 2007 - 23:41:03 CDT)
coordinates with get command Nuno Loureiro Ferreira (Sat Aug 25 2007 - 18:10:02 CDT)
- Re: coordinates with get command John Stone (Sat Aug 25 2007 - 23:04:51 CDT)
  - Re: coordinates with get command Nuno Loureiro Ferreira (Sat Aug 25 2007 - 23:27:28 CDT)
Prest1ge Repl1cas ravishing repl1ca w4tches for you Liliana Dawson (Sat Aug 25 2007 - 12:24:44 CDT)
No prescr1ption? No problem! Buford Greene (Sat Aug 25 2007 - 09:27:00 CDT)
changing the order of atom selections / alignment issue Jim Pfaendtner (Fri Aug 24 2007 - 17:58:51 CDT)
- Re: changing the order of atom selections / alignment issue Leonardo Trabuco (Sat Aug 25 2007 - 01:31:45 CDT)
  - Re: changing the order of atom selections / alignment issue Jim Pfaendtner (Mon Aug 27 2007 - 10:58:31 CDT)
    - Re: changing the order of atom selections / alignment issue Leonardo Trabuco (Mon Aug 27 2007 - 11:07:47 CDT)
vmd-1.8.6 fails with python-2.5 Jeffrey Gardner (Fri Aug 24 2007 - 17:20:51 CDT)
measure imprp - input order of atoms Johannes Müllegger (Fri Aug 24 2007 - 14:51:00 CDT)
- Re: measure imprp - input order of atoms Jan Saam (Mon Aug 27 2007 - 03:30:41 CDT)
atomselection in order Myunggi Yi (Thu Aug 23 2007 - 22:19:35 CDT)
- Re: atomselection in order Leonardo Trabuco (Thu Aug 23 2007 - 23:24:09 CDT)
  - Re: atomselection in order Thomas C. Bishop (Mon Aug 27 2007 - 09:34:15 CDT)
    - Re: atomselection in order John Stone (Mon Aug 27 2007 - 14:57:12 CDT)
  - Re: atomselection in order Myunggi Yi (Tue Aug 28 2007 - 08:29:03 CDT)
Aggregation analysis zhenlong li (Thu Aug 23 2007 - 10:07:49 CDT)
- Re: Aggregation analysis John Stone (Wed Aug 29 2007 - 00:21:48 CDT)
Selection within VMD Mark Zottola (Wed Aug 22 2007 - 14:28:53 CDT)
- Re: Selection within VMD John Stone (Wed Aug 22 2007 - 15:04:15 CDT)
- Re: Selection within VMD Olaf Lenz (Wed Aug 22 2007 - 15:36:09 CDT)
- Re: Selection within VMD Axel Kohlmeyer (Wed Aug 22 2007 - 14:12:59 CDT)
Re: FYI: 1.8.6 runs full GLSL on AMD64 John Stone (Wed Aug 22 2007 - 13:40:37 CDT)
- Re: FYI: 1.8.6 runs full GLSL on AMD64 John Stone (Wed Aug 22 2007 - 22:55:06 CDT)
automating graphic representations Jim Pfaendtner (Wed Aug 22 2007 - 13:37:41 CDT)
- Re: automating graphic representations John Stone (Wed Aug 22 2007 - 13:44:19 CDT)
- Re: automating graphic representations Axel Kohlmeyer (Wed Aug 22 2007 - 13:33:03 CDT)
  - Re: automating graphic representations Jim Pfaendtner (Fri Aug 24 2007 - 13:55:00 CDT)
    - Re: automating graphic representations Axel Kohlmeyer (Fri Aug 24 2007 - 13:08:44 CDT)
W4tches from simple to luxurious at Prest1ge Repl1cas Douglas Dahl (Wed Aug 22 2007 - 13:49:57 CDT)
The only med1cation for we1ght l0ss that does work Mayra Underwood (Wed Aug 22 2007 - 13:03:07 CDT)
VMD w/ amber parm7, segnames/chains etc... Thomas C. Bishop (Wed Aug 22 2007 - 09:30:57 CDT)
- Re: VMD w/ amber parm7, segnames/chains etc... John Stone (Wed Aug 22 2007 - 13:54:14 CDT)
Selecting the N-closest Waters J T (Tue Aug 21 2007 - 12:40:19 CDT)
- Re: Selecting the N-closest Waters Nuno Loureiro Ferreira (Tue Aug 21 2007 - 15:55:13 CDT)
  - Re: Selecting the N-closest Waters J T (Tue Aug 21 2007 - 16:10:03 CDT)
- Re: Selecting the N-closest Waters Claw Isthelaw (Mon Jun 02 2008 - 13:25:51 CDT)
How to load packages from tcllib into VMD Cesar Luis Avila (Mon Aug 20 2007 - 14:59:49 CDT)
- Re: How to load packages from tcllib into VMD Axel Kohlmeyer (Mon Aug 20 2007 - 18:43:53 CDT)
  - Re: How to load packages from tcllib into VMD Cesar Luis Avila (Mon Aug 20 2007 - 17:22:53 CDT)
    - Re: How to load packages from tcllib into VMD Axel Kohlmeyer (Tue Aug 21 2007 - 08:13:00 CDT)
VMD crashes during the execution of a computational intensive TCL script Èùìáò Åõáããåëéäçò (Mon Aug 20 2007 - 16:25:33 CDT)
- Re: VMD crashes during the execution of a computational intensive TCL script John Stone (Mon Aug 20 2007 - 16:41:17 CDT)
residue missed by psfgen Daniel Kennedy (Mon Aug 20 2007 - 12:09:05 CDT)
- Re: residue missed by psfgen Peter Freddolino (Mon Aug 20 2007 - 16:48:00 CDT)
No prescr1ption? No problem! Ferdinand Benton (Sun Aug 19 2007 - 10:50:20 CDT)
Luxurious costume repl1ca w4tches at lowest prices Marvin Allen (Sun Aug 19 2007 - 08:30:41 CDT)
Need help sleeping? Read this! Kendra Baker (Thu Aug 16 2007 - 20:39:47 CDT)
Prest1ge Repl1cas your source for high-quality w4tches Lula Miner (Thu Aug 16 2007 - 19:21:55 CDT)
NAMD energy plugin Cesar Luis Avila (Wed Aug 15 2007 - 08:22:59 CDT)
- Re: NAMD energy plugin Peter Freddolino (Wed Aug 15 2007 - 11:50:55 CDT)
  - Re: NAMD energy plugin Cesar Luis Avila (Wed Aug 15 2007 - 11:15:17 CDT)
Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) maria goranovic (Wed Aug 15 2007 - 04:09:32 CDT)
- Re: Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) Axel Kohlmeyer (Wed Aug 15 2007 - 10:47:46 CDT)
- Re: Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) Gordon Wells (Mon Aug 20 2007 - 04:49:51 CDT)
Installing VMD to work with MSMS Audrey Salazar (Tue Aug 14 2007 - 11:07:38 CDT)
- Re: Installing VMD to work with MSMS Axel Kohlmeyer (Tue Aug 14 2007 - 11:31:49 CDT)
- Re: Installing VMD to work with MSMS John Stone (Tue Aug 14 2007 - 12:23:16 CDT)
- Re: Installing VMD to work with MSMS Audrey Salazar (Tue Aug 14 2007 - 13:42:35 CDT)
Archived Spam in the VMD-L Mailing List Audrey Salazar (Tue Aug 14 2007 - 10:00:30 CDT)
- Re: Archived Spam in the VMD-L Mailing List John Stone (Tue Aug 14 2007 - 10:07:37 CDT)
  - Re: Archived Spam in the VMD-L Mailing List John Stone (Tue Aug 14 2007 - 10:13:27 CDT)
Increasing use of RAM even if I put unset/delete for selections! Due to use of arrays? Philipp Schön (Tue Aug 14 2007 - 05:28:13 CDT)
- Re: Increasing use of RAM even if I put unset/delete for selections! Due to use of arrays? John Stone (Tue Aug 14 2007 - 12:14:38 CDT)
printing timeline window with axes hodak_at_chips.ncsu.edu (Mon Aug 13 2007 - 22:07:27 CDT)
- Re: printing timeline window with axes John Stone (Tue Aug 14 2007 - 14:50:19 CDT)
Re: help with badwater script Jim Pfaendtner (Mon Aug 13 2007 - 18:38:12 CDT)
- Re: Re: help with badwater script Axel Kohlmeyer (Mon Aug 13 2007 - 19:08:30 CDT)
  - Re: Re: help with badwater script Jim Pfaendtner (Tue Aug 14 2007 - 15:29:12 CDT)
new machine problems. Fred Moore (Mon Aug 13 2007 - 17:58:46 CDT)
- Re: new machine problems. John Stone (Tue Aug 14 2007 - 14:49:09 CDT)
create psf and dcd from pdb Èùìáò Åõáããåëéäçò (Mon Aug 13 2007 - 16:26:27 CDT)
- Re: create psf and dcd from pdb Peter Freddolino (Mon Aug 13 2007 - 17:35:01 CDT)
  - Re: create psf and dcd from pdb Èùìáò Åõáããåëéäçò (Tue Aug 14 2007 - 10:25:15 CDT)
    - Re: create psf and dcd from pdb Peter Freddolino (Tue Aug 14 2007 - 10:56:07 CDT)
problem regarding stride aneesh cna (Mon Aug 13 2007 - 05:31:32 CDT)
problem regarding stride aneesh cna (Mon Aug 13 2007 - 00:58:09 CDT)
- Re: problem regarding stride Axel Kohlmeyer (Mon Aug 13 2007 - 11:06:48 CDT)
VMD plugin error src/webpdbplugin.c AustinSmall_at_comcast.net (Sun Aug 12 2007 - 18:08:17 CDT)
- Re: VMD plugin error src/webpdbplugin.c Axel Kohlmeyer (Sun Aug 12 2007 - 18:06:37 CDT)
chime vs vmd Francesco Pietra (Sun Aug 12 2007 - 11:11:05 CDT)
- Re: chime vs vmd John Stone (Mon Aug 13 2007 - 11:49:24 CDT)
- Re: chime vs vmd Peter Schellenberg (Tue Aug 14 2007 - 05:37:55 CDT)
RE: plotting on Mac Claw Isthelaw (Sat Aug 11 2007 - 19:53:35 CDT)
Reference for SASA Patrick Redmill (Sat Aug 11 2007 - 17:48:03 CDT)
- Re: Reference for SASA John Stone (Tue Aug 14 2007 - 15:38:20 CDT)
Re: gmake invalid option --c install AustinSmall_at_comcast.net (Sat Aug 11 2007 - 12:52:32 CDT)
- Re: gmake invalid option --c install Axel Kohlmeyer (Sat Aug 11 2007 - 13:46:01 CDT)
gmake invalid option --c install AustinSmall_at_comcast.net (Sat Aug 11 2007 - 10:47:45 CDT)
- Re: gmake invalid option --c install Axel Kohlmeyer (Sat Aug 11 2007 - 11:38:48 CDT)
RE: bilayer thickness in simulation of POPC membranes Cojocaru,Vlad (Sat Aug 11 2007 - 10:08:28 CDT)
- RE: bilayer thickness in simulation of POPC membranes Axel Kohlmeyer (Sat Aug 11 2007 - 11:33:51 CDT)
  - RE: bilayer thickness in simulation of POPC membranes Cojocaru,Vlad (Sun Aug 12 2007 - 02:54:44 CDT)
    - Re: bilayer thickness in simulation of POPC membranes Olaf Lenz (Sun Aug 12 2007 - 04:00:41 CDT)
  - Running a vmd tcl script in the background Arneh Babakhani (Mon Aug 13 2007 - 19:05:20 CDT)
    - Re: Running a vmd tcl script in the background Axel Kohlmeyer (Mon Aug 13 2007 - 19:11:53 CDT)
Adjusting R/S configuration Francesco Pietra (Sat Aug 11 2007 - 02:21:47 CDT)
- Re: Adjusting R/S configuration Peter Freddolino (Sat Aug 11 2007 - 08:43:09 CDT)
problem regarding stride gurpreet singh (Sat Aug 11 2007 - 01:44:25 CDT)
- Re: problem regarding stride Axel Kohlmeyer (Sat Aug 11 2007 - 12:51:55 CDT)
povray problem: degenerate cylinder revisited Robin L Hayes (Fri Aug 10 2007 - 17:22:37 CDT)
- Re: povray problem: degenerate cylinder revisited John Stone (Tue Aug 14 2007 - 15:42:08 CDT)
Color a protein based on a property Naresh (Fri Aug 10 2007 - 14:13:42 CDT)
- Re: Color a protein based on a property John Stone (Fri Aug 10 2007 - 15:09:49 CDT)
dcd reading routines nmichaud_at_jhu.edu (Fri Aug 10 2007 - 13:12:15 CDT)
- Re: dcd reading routines John Stone (Fri Aug 10 2007 - 13:15:37 CDT)
bilayer thickness in simulation of POPC membranes Vlad Cojocaru (Fri Aug 10 2007 - 10:56:41 CDT)
- Re: namd-l: bilayer thickness in simulation of POPC membranes maria goranovic (Mon Aug 13 2007 - 07:55:48 CDT)
  - Re: Re: namd-l: bilayer thickness in simulation of POPC membranes maria goranovic (Mon Aug 13 2007 - 09:16:09 CDT)
how to make user input during runtime of a tcl program using TkConsole? Philipp Schön (Fri Aug 10 2007 - 10:14:46 CDT)
- Re: how to make user input during runtime of a tcl program using TkConsole? John Stone (Fri Aug 10 2007 - 10:25:55 CDT)
  - Re: how to make user input during runtime of a tcl program using TkConsole? Axel Kohlmeyer (Fri Aug 10 2007 - 10:20:47 CDT)
mutate residue xzhao_at_uiuc.edu (Thu Aug 09 2007 - 21:02:15 CDT)
- Re: mutate residue Peter Freddolino (Thu Aug 09 2007 - 21:29:10 CDT)
What does Stride need to draw SS? Jim Pfaendtner (Thu Aug 09 2007 - 16:49:58 CDT)
- Re: What does Stride need to draw SS? John Stone (Thu Aug 09 2007 - 17:36:23 CDT)
package require Tcl 8.5 => ::tcl::mathfunc:: Philipp Schön (Thu Aug 09 2007 - 10:56:09 CDT)
- Re: package require Tcl 8.5 => ::tcl::mathfunc:: John Stone (Thu Aug 09 2007 - 11:01:09 CDT)
  - Re: package require Tcl 8.5 => ::tcl::mathfunc:: John Stone (Thu Aug 09 2007 - 11:04:00 CDT)
radial density Christopher Stiles (Thu Aug 09 2007 - 09:11:55 CDT)
- Re: radial density Olaf Lenz (Thu Aug 09 2007 - 10:19:22 CDT)
- Re: radial density Axel Kohlmeyer (Thu Aug 09 2007 - 09:23:39 CDT)
Monte Carlo conformational search Daniel Kennedy (Wed Aug 08 2007 - 11:23:54 CDT)
- Re: Monte Carlo conformational search L. Michel Espinoza-Fonseca (Thu Aug 09 2007 - 07:58:19 CDT)
Writing MolFile plugin for CIF Ondrej Sramek (Wed Aug 08 2007 - 06:12:03 CDT)
- Re: Writing MolFile plugin for CIF Axel Kohlmeyer (Wed Aug 08 2007 - 09:40:14 CDT)
- Re: Writing MolFile plugin for CIF John Stone (Wed Aug 08 2007 - 12:24:57 CDT)
VMD acts too slow Roland Schmucki (Tue Aug 07 2007 - 20:38:49 CDT)
- Re: VMD acts too slow John Stone (Tue Aug 07 2007 - 21:03:37 CDT)
CNT Analysis Christopher Stiles (Tue Aug 07 2007 - 08:41:31 CDT)
- Re: CNT Analysis Axel Kohlmeyer (Tue Aug 07 2007 - 08:54:06 CDT)
  - RE: CNT Analysis Christopher Stiles (Tue Aug 07 2007 - 10:12:13 CDT)
a problem with installation (to generate the Makefile ) Panichakorn Jaiyong (Mon Aug 06 2007 - 23:52:26 CDT)
- Re: a problem with installation (to generate the Makefile ) John Stone (Mon Aug 06 2007 - 23:56:38 CDT)
- Re: a problem with installation (to generate the Makefile ) Axel Kohlmeyer (Tue Aug 07 2007 - 08:15:36 CDT)
VMD plugins error AustinSmall_at_comcast.net (Mon Aug 06 2007 - 22:18:52 CDT)
- Re: VMD plugins error John Stone (Mon Aug 06 2007 - 23:59:51 CDT)
within and exwithin macro Èùìáò Åõáããåëéäçò (Mon Aug 06 2007 - 16:52:34 CDT)
- Re: within and exwithin macro John Stone (Tue Aug 07 2007 - 00:06:53 CDT)
  - Re: within and exwithin macro Èùìáò Åõáããåëéäçò (Tue Aug 07 2007 - 08:34:14 CDT)
    - Re: within and exwithin macro Axel Kohlmeyer (Tue Aug 07 2007 - 08:46:49 CDT)
    - Re: within and exwithin macro nmichaud_at_jhu.edu (Tue Aug 07 2007 - 11:54:20 CDT)
  - Re: within and exwithin macro Axel Kohlmeyer (Tue Aug 07 2007 - 08:26:18 CDT)
    - Re: within and exwithin macro Èùìáò Åõáããåëéäçò (Tue Aug 07 2007 - 15:52:50 CDT)
    - Re: within and exwithin macro Axel Kohlmeyer (Tue Aug 07 2007 - 15:18:02 CDT)
Automatic PSF Builder Help Audrey Salazar (Mon Aug 06 2007 - 11:16:12 CDT)
- Re: Automatic PSF Builder Help Peter Freddolino (Mon Aug 06 2007 - 11:46:46 CDT)
  - Re: Automatic PSF Builder Help Peter Freddolino (Mon Aug 06 2007 - 12:45:09 CDT)
    - Re: Automatic PSF Builder Help Audrey Salazar (Mon Aug 06 2007 - 14:27:52 CDT)
    - Re: Automatic PSF Builder Help Peter Freddolino (Mon Aug 06 2007 - 15:59:17 CDT)
  - Re: Automatic PSF Builder Help Audrey Salazar (Mon Aug 06 2007 - 14:47:08 CDT)
- Re: Automatic PSF Builder Help Axel Kohlmeyer (Mon Aug 06 2007 - 11:29:16 CDT)
Loading files into already-running version of VMD from command prompt Victor Albert (Sat Aug 04 2007 - 16:04:16 CDT)
- Re: Loading files into already-running version of VMD from command prompt Axel Kohlmeyer (Sat Aug 04 2007 - 16:04:31 CDT)
chloroform box Francesco Pietra (Sat Aug 04 2007 - 00:52:20 CDT)
- Re: chloroform box Peter Freddolino (Sat Aug 04 2007 - 08:00:48 CDT)
  - Re: chloroform box Francesco Pietra (Sat Aug 04 2007 - 09:08:41 CDT)
Corrupt cpmd-vmd.pdf File? rossi_at_york.cuny.edu (Fri Aug 03 2007 - 05:46:07 CDT)
- Re: Corrupt cpmd-vmd.pdf File? Axel Kohlmeyer (Thu Aug 09 2007 - 16:39:02 CDT)
  - Re: Corrupt cpmd-vmd.pdf File? rossi_at_york.cuny.edu (Mon Aug 20 2007 - 20:03:02 CDT)
Corrupt cpmd-vmd.pdf File? rossi_at_york.cuny.edu (Fri Aug 03 2007 - 05:42:54 CDT)
How to calculate the C alpha RMSD from NAMD trajectory Shulin Zhuang (Fri Aug 03 2007 - 02:31:22 CDT)
- Re: namd-l: How to calculate the C alpha RMSD from NAMD trajectory L. Michel Espinoza-Fonseca (Fri Aug 03 2007 - 02:59:02 CDT)
- Re: How to calculate the C alpha RMSD from NAMD trajectory John Stone (Fri Aug 03 2007 - 10:58:13 CDT)
save state fails Vlad Cojocaru (Thu Aug 02 2007 - 10:09:12 CDT)
- save state fails Vlad Cojocaru (Thu Aug 02 2007 - 10:20:03 CDT)
- Re: save state fails Axel Kohlmeyer (Thu Aug 02 2007 - 10:40:25 CDT)
  - RE: save state fails Cojocaru,Vlad (Thu Aug 02 2007 - 13:41:29 CDT)
eigen values Myunggi Yi (Wed Aug 01 2007 - 14:36:00 CDT)
- Re: eigen values Axel Kohlmeyer (Thu Aug 02 2007 - 11:51:00 CDT)
- electrostatic energy emra Heshmati (Wed Aug 15 2007 - 08:20:16 CDT)
  - Re: electrostatic energy Peter Freddolino (Wed Aug 15 2007 - 09:07:39 CDT)
ViewMaster and rendering Paula Marcela Petrone (Wed Aug 01 2007 - 10:00:34 CDT)
- Re: ViewMaster and rendering Justin Gullingsrud (Thu Aug 02 2007 - 19:13:55 CDT)
question about measure contacts Rachel (Tue Jul 31 2007 - 08:42:57 CDT)
- Re: question about measure contacts Rachel (Thu Aug 02 2007 - 12:31:33 CDT)
  - Re: question about measure contacts Justin Gullingsrud (Thu Aug 02 2007 - 15:16:01 CDT)
coloring selected chains and residues karan uppal (Mon Jul 30 2007 - 18:58:05 CDT)
- Re: coloring selected chains and residues Axel Kohlmeyer (Mon Jul 30 2007 - 19:00:55 CDT)
Problems to load Gaussian .log file in Paratool Alexandre Suman de Araujo (Mon Jul 30 2007 - 13:05:56 CDT)
- Re: Problems to load Gaussian .log file in Paratool Jan Saam (Tue Jul 31 2007 - 11:05:34 CDT)
Tachyon doesn't take into account ColorID Henry Yuen (Mon Jul 30 2007 - 12:54:13 CDT)
- Re: Tachyon doesn't take into account ColorID John Stone (Mon Jul 30 2007 - 14:32:22 CDT)
- Re: Tachyon doesn't take into account ColorID Axel Kohlmeyer (Mon Jul 30 2007 - 14:17:13 CDT)
adding urea to a protein-water system L. Michel Espinoza-Fonseca (Mon Jul 30 2007 - 05:05:46 CDT)
PBC problem in gofr sfrickenhaus (Mon Jul 30 2007 - 04:53:40 CDT)
- Re: PBC problem in gofr Axel Kohlmeyer (Mon Jul 30 2007 - 08:57:10 CDT)
RE: problem with rmsd-fullthrottle Irene Newhouse (Sat Jul 28 2007 - 15:02:54 CDT)
can't add packages karan uppal (Sat Jul 28 2007 - 12:59:37 CDT)
- Re: can't add packages Axel Kohlmeyer (Sat Jul 28 2007 - 17:32:46 CDT)
orientation of hexahedrons parallelepipeds unit cells relative to x,y axes Èùìáò Åõáããåëéäçò (Sat Jul 28 2007 - 09:03:23 CDT)
- Re: orientation of hexahedrons parallelepipeds unit cells relative to x,y axes Axel Kohlmeyer (Sat Jul 28 2007 - 17:24:08 CDT)
problem with rmsd-fullthrottle Irene Newhouse (Fri Jul 27 2007 - 15:16:54 CDT)
- RE: problem with rmsd-fullthrottle JC Gumbart (Sat Jul 28 2007 - 15:36:02 CDT)
Wrap only whole molecules zhenlong li (Fri Jul 27 2007 - 13:00:54 CDT)
- Re: Wrap only whole molecules Axel Kohlmeyer (Fri Jul 27 2007 - 13:26:06 CDT)
- Re: Wrap only whole molecules Jim Phillips (Fri Jul 27 2007 - 16:48:26 CDT)
dssp in vmd (II) pascal.baillod_at_epfl.ch (Fri Jul 27 2007 - 05:04:54 CDT)
- Re: dssp in vmd (II) John Stone (Fri Jul 27 2007 - 12:42:49 CDT)
RE: puzzling psfgen problem with deleted atoms coming back Irene Newhouse (Thu Jul 26 2007 - 17:40:01 CDT)
- Deleting bonds based on length Arneh Babakhani (Thu Jul 26 2007 - 23:41:11 CDT)
  - Re: Deleting bonds based on length Olaf Lenz (Fri Jul 27 2007 - 01:28:09 CDT)
    - Re: Deleting bonds based on length Arneh Babakhani (Fri Jul 27 2007 - 07:58:41 CDT)
- VMD-L moderation fully automatic from now on.... John Stone (Mon Jul 30 2007 - 14:46:47 CDT)
RE: residue_rmsd.tcl Irene Newhouse (Thu Jul 26 2007 - 16:17:46 CDT)
- Re: residue_rmsd.tcl John Stone (Thu Jul 26 2007 - 16:20:50 CDT)
- RE: residue_rmsd.tcl Irene Newhouse (Thu Jul 26 2007 - 16:29:55 CDT)
installation errors with src/hesstrans_wrap.C AustinSmall_at_comcast.net (Thu Jul 26 2007 - 16:16:39 CDT)
- Re: installation errors with src/hesstrans_wrap.C John Stone (Thu Jul 26 2007 - 16:23:47 CDT)
puzzling psfgen problem with deleted atoms coming back Irene Newhouse (Fri Jul 13 2007 - 16:47:05 CDT)
(no subject) AustinSmall_at_comcast.net (Thu Jul 26 2007 - 16:06:23 CDT)
badwater script - help Jim Pfaendtner (Thu Jul 26 2007 - 15:18:48 CDT)
- Re: badwater script - help John Stone (Thu Jul 26 2007 - 16:28:08 CDT)
residue_rmsd.tcl Irene Newhouse (Thu Jul 26 2007 - 12:37:51 CDT)
- Re: residue_rmsd.tcl John Stone (Thu Jul 26 2007 - 12:42:11 CDT)
python and C++ extensions karan uppal (Thu Jul 26 2007 - 11:19:06 CDT)
- Re: python and C++ extensions John Stone (Thu Jul 26 2007 - 16:40:47 CDT)
- Re: python and C++ extensions Jim Phillips (Fri Jul 27 2007 - 16:56:00 CDT)
deposition simulation from lammps Kathleen Barron (Thu Jul 26 2007 - 11:04:33 CDT)
- Re: deposition simulation from lammps Axel Kohlmeyer (Thu Jul 26 2007 - 12:53:39 CDT)
Rotation matrix translatin vector vmd Hazai Eszter (Thu Jul 26 2007 - 05:37:23 CDT)
- Re: Rotation matrix translatin vector vmd Peter Freddolino (Thu Jul 26 2007 - 07:26:09 CDT)
nonstandard solvate + cyclic peptides in explicit DMSO box + gofr sfrickenhaus (Thu Jul 26 2007 - 04:45:13 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr Peter Freddolino (Thu Jul 26 2007 - 07:41:24 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr John Stone (Thu Jul 26 2007 - 11:33:52 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr Axel Kohlmeyer (Thu Jul 26 2007 - 11:48:08 CDT)
Boundry Dimensions for Solvation Vijaya Brahma (Thu Jul 26 2007 - 04:25:03 CDT)
- Re: Boundry Dimensions for Solvation Axel Kohlmeyer (Thu Jul 26 2007 - 11:41:04 CDT)
Re: ntermolecular atomselection Nuno Loureiro Ferreira (Thu Jul 26 2007 - 03:23:25 CDT)
ntermolecular atomselection Robert Wohlhueter (Thu Jul 26 2007 - 00:27:38 CDT)
- Re: ntermolecular atomselection Axel Kohlmeyer (Thu Jul 26 2007 - 11:35:46 CDT)
Boundry Dimensions for Solvation Vijaya Brahma (Wed Jul 25 2007 - 23:56:13 CDT)
vmd multiple residue snoze pa (Wed Jul 25 2007 - 14:42:05 CDT)
- Re: vmd multiple residue snoze pa (Wed Jul 25 2007 - 16:29:16 CDT)
  - Re: vmd multiple residue snoze pa (Wed Jul 25 2007 - 16:37:24 CDT)
vmd residue position snoze pa (Wed Jul 25 2007 - 14:29:51 CDT)
- Re: vmd residue position snoze pa (Wed Jul 25 2007 - 14:54:16 CDT)
- Re: vmd residue position John Stone (Thu Jul 26 2007 - 11:29:58 CDT)
  - Re: vmd residue position Peter Freddolino (Thu Jul 26 2007 - 14:38:42 CDT)
how to run VMD on IBM machines Rachel (Wed Jul 25 2007 - 11:11:34 CDT)
- Re: how to run VMD on IBM machines Axel Kohlmeyer (Wed Jul 25 2007 - 11:04:02 CDT)
  - Re: how to run VMD on IBM machines John Stone (Wed Jul 25 2007 - 13:02:32 CDT)
how to wrap trajectory into truncated octahedral box Rachel (Wed Jul 25 2007 - 10:51:54 CDT)
- Re: how to wrap trajectory into truncated octahedral box Olaf Lenz (Wed Jul 25 2007 - 12:39:39 CDT)
  - Re: how to wrap trajectory into truncated octahedral box sally cii (Thu Jul 26 2007 - 07:03:51 CDT)
    - Re: how to wrap trajectory into truncated octahedral box Olaf Lenz (Thu Jul 26 2007 - 09:20:03 CDT)
    - Re: how to wrap trajectory into truncated octahedral box Axel Kohlmeyer (Thu Jul 26 2007 - 11:50:43 CDT)
- Re: how to wrap trajectory into truncated octahedral box David A. Case (Mon Jul 30 2007 - 11:30:15 CDT)
Calculating volumetric data for a molecule Cesar Luis Avila (Tue Jul 24 2007 - 17:30:43 CDT)
- Re: Calculating volumetric data for a molecule John Stone (Tue Jul 24 2007 - 23:10:06 CDT)
NAMDEnergy virginia miguel (Tue Jul 24 2007 - 13:18:37 CDT)
- Re: NAMDEnergy Peter Freddolino (Tue Jul 24 2007 - 13:26:29 CDT)
frame number input in tcl and direct mol graph display update (II) pascal.baillod_at_epfl.ch (Tue Jul 24 2007 - 09:36:35 CDT)
- Re: frame number input in tcl and direct mol graph display update (II) John Stone (Thu Jul 26 2007 - 16:25:21 CDT)
  - Re: frame number input in tcl and direct mol graph display update (II) pascal.baillod_at_epfl.ch (Fri Jul 27 2007 - 04:56:24 CDT)
    - Re: frame number input in tcl and direct mol graph display update (II) John Stone (Fri Jul 27 2007 - 12:40:35 CDT)
    - Re: frame number input in tcl and direct mol graph display update (II) Axel Kohlmeyer (Fri Jul 27 2007 - 13:56:05 CDT)
how to select atoms according to b-factor Rachel (Mon Jul 23 2007 - 07:37:05 CDT)
- Re: how to select atoms according to b-factor Peter Freddolino (Mon Jul 23 2007 - 09:17:30 CDT)
saltbr# vs. frames hori koshii (Mon Jul 23 2007 - 06:50:10 CDT)
- Re: saltbr# vs. frames Leonardo Trabuco (Mon Jul 23 2007 - 10:28:01 CDT)
  - Re: saltbr# vs. frames Leonardo Trabuco (Mon Jul 23 2007 - 10:32:46 CDT)
Autopsf snoze pa (Fri Jul 20 2007 - 12:42:18 CDT)
- Re: Autopsf Peter Freddolino (Fri Jul 20 2007 - 13:59:56 CDT)
Parameter snoze pa (Fri Jul 20 2007 - 12:03:12 CDT)
- Re: namd-l: Parameter Leonardo Trabuco (Fri Jul 20 2007 - 13:21:40 CDT)
  - Re: namd-l: Parameter snoze pa (Fri Jul 20 2007 - 14:49:18 CDT)
what's the unit for color scale data range? Insight II (Thu Jul 19 2007 - 15:09:17 CDT)
- Re: what's the unit for color scale data range? Leonardo Trabuco (Thu Jul 19 2007 - 15:35:27 CDT)
  - Reading a pdbqt file (generated from AutoDock) Arneh Babakhani (Thu Jul 19 2007 - 18:01:01 CDT)
- Re: what's the unit for color scale data range? John Stone (Fri Jul 20 2007 - 11:23:46 CDT)
Writing out .dcd for discontinous frames Neelanjana Sengupta (Thu Jul 19 2007 - 00:09:36 CDT)
- Re: Writing out .dcd for discontinous frames Nuno Loureiro Ferreira (Thu Jul 19 2007 - 03:47:18 CDT)
- Re: Writing out .dcd for discontinous frames Axel Kohlmeyer (Thu Jul 19 2007 - 06:14:19 CDT)
Setting modstyle volumeslice options via tk console Cesar Luis Avila (Wed Jul 18 2007 - 15:16:20 CDT)
- Re: Setting modstyle volumeslice options via tk console Axel Kohlmeyer (Wed Jul 18 2007 - 16:27:47 CDT)
Re: Making a selection from another selection Arneh Babakhani (Tue Jul 17 2007 - 20:35:19 CDT)
water sphere? Daniel Kennedy (Tue Jul 17 2007 - 16:40:57 CDT)
- Making a selection from another selection Arneh Babakhani (Tue Jul 17 2007 - 20:02:49 CDT)
  - Re: Making a selection from another selection Peter Freddolino (Tue Jul 17 2007 - 20:14:40 CDT)
Regarding APBS calculation in VMD naga raju (Tue Jul 17 2007 - 07:39:06 CDT)
- Re: Regarding APBS calculation in VMD Axel Kohlmeyer (Tue Jul 17 2007 - 07:43:04 CDT)
TkCon problem luca.dallaglio2_at_studio.unibo.it (Mon Jul 16 2007 - 02:15:29 CDT)
- Re: TkCon problem John Stone (Mon Jul 16 2007 - 15:39:23 CDT)
atoms deleted in patch try to come back Irene Newhouse (Sun Jul 15 2007 - 01:01:48 CDT)
- RE: atoms deleted in patch try to come back JC Gumbart (Sun Jul 15 2007 - 02:02:18 CDT)
Language definitions - \usepackage{listings} Nuno Loureiro Ferreira (Sat Jul 14 2007 - 10:47:57 CDT)
- Re: Language definitions - \usepackage{listings} John Stone (Mon Jul 16 2007 - 11:58:29 CDT)
  - Re: Language definitions - \usepackage{listings} Nuno Loureiro Ferreira (Mon Jul 16 2007 - 12:19:59 CDT)
  - Re: Language definitions - \usepackage{listings} Nuno Loureiro Ferreira (Tue Jul 17 2007 - 07:35:17 CDT)
    - Re: Language definitions - \usepackage{listings} Axel Kohlmeyer (Tue Jul 17 2007 - 07:11:54 CDT)
    - Re: Language definitions - \usepackage{listings} Nuno Loureiro Ferreira (Tue Jul 17 2007 - 10:26:20 CDT)
RDF calculations Fred Moore (Fri Jul 13 2007 - 15:16:40 CDT)
- Re: RDF calculations Axel Kohlmeyer (Fri Jul 13 2007 - 17:38:35 CDT)
how to save a list in a file sally cii (Fri Jul 13 2007 - 12:02:02 CDT)
- Re: how to save a list in a file Axel Kohlmeyer (Fri Jul 13 2007 - 13:04:16 CDT)
- Re: how to save a list in a file Nuno Loureiro Ferreira (Sat Jul 14 2007 - 11:49:29 CDT)
  - Re: how to save a list in a file sally cii (Mon Jul 16 2007 - 07:12:14 CDT)
Problem with namdstats.tcl in TkCon luca.dallaglio2_at_studio.unibo.it (Fri Jul 13 2007 - 03:12:03 CDT)
electron density map is shifted? Gunnar Schroeder (Thu Jul 12 2007 - 19:14:01 CDT)
- Re: electron density map is shifted? John Stone (Thu Jul 12 2007 - 22:28:21 CDT)
  - Re: electron density map is shifted? John Stone (Thu Aug 09 2007 - 14:57:55 CDT)
Electron microscopy surface with VMD? Emmanuel Levy (Thu Jul 12 2007 - 16:37:18 CDT)
- Re: Electron microscopy surface with VMD? John Stone (Thu Jul 12 2007 - 16:57:22 CDT)
error - with unknown atom type +CA shyamala (Thu Jul 12 2007 - 13:02:04 CDT)
- Re: error - with unknown atom type +CA Peter Freddolino (Thu Jul 12 2007 - 21:56:32 CDT)
frame number input in tcl and direct mol graph display update pascal.baillod_at_epfl.ch (Thu Jul 12 2007 - 09:35:45 CDT)
- Re: frame number input in tcl and direct mol graph display update Axel Kohlmeyer (Thu Jul 12 2007 - 10:03:43 CDT)
exporting xyz file Bhaskar Jyoti Borah (Thu Jul 12 2007 - 01:38:58 CDT)
- Re: exporting xyz file Axel Kohlmeyer (Thu Jul 12 2007 - 09:58:32 CDT)
  - Re: exporting xyz file Bhaskar Jyoti Borah (Thu Jul 12 2007 - 11:19:25 CDT)
    - Re: exporting xyz file Axel Kohlmeyer (Thu Jul 12 2007 - 10:37:40 CDT)
shifting of the origin Bhaskar Jyoti Borah (Tue Jul 10 2007 - 23:49:15 CDT)
- Re: shifting of the origin Axel Kohlmeyer (Wed Jul 11 2007 - 09:22:41 CDT)
  - Re: shifting of the origin Bhaskar Jyoti Borah (Wed Jul 11 2007 - 11:24:15 CDT)
displaying velocity from dlpoly history Stern, Julie (Tue Jul 10 2007 - 14:52:37 CDT)
- Re: displaying velocity from dlpoly history Peter Freddolino (Tue Jul 10 2007 - 15:22:13 CDT)
- Re: displaying velocity from dlpoly history Axel Kohlmeyer (Tue Jul 10 2007 - 15:07:16 CDT)
atomselect sally cii (Tue Jul 10 2007 - 03:03:23 CDT)
- Re: atomselect Olaf Lenz (Tue Jul 10 2007 - 03:52:46 CDT)
  - Re: atomselect sally cii (Tue Jul 10 2007 - 05:41:42 CDT)
- Re: atomselect Eduard Schreiner (Tue Jul 10 2007 - 09:23:23 CDT)
RE: some principles for building a topology file? Irene Newhouse (Mon Jul 09 2007 - 22:45:09 CDT)
some principles for building a topology file? Irene Newhouse (Mon Jul 09 2007 - 15:27:01 CDT)
- Re: some principles for building a topology file? Peter Freddolino (Mon Jul 09 2007 - 21:14:31 CDT)
Using multiple CPUS SeongJun Heo (Mon Jul 09 2007 - 14:20:14 CDT)
- Re: Using multiple CPUS Axel Kohlmeyer (Mon Jul 09 2007 - 14:12:00 CDT)
  - Re: Using multiple CPUS John Stone (Tue Jul 10 2007 - 20:26:32 CDT)
need help Bhaskar Jyoti Borah (Mon Jul 09 2007 - 05:25:50 CDT)
- Re: need help Axel Kohlmeyer (Mon Jul 09 2007 - 09:25:03 CDT)
  - Re: need help Bhaskar Jyoti Borah (Tue Jul 10 2007 - 01:19:58 CDT)
CAVE & Vmd Christian Wohlschlager (Fri Jul 06 2007 - 02:06:54 CDT)
- Re: CAVE & Vmd John Stone (Tue Jul 17 2007 - 11:46:13 CDT)
  - Antw: Re: CAVE & Vmd Christian Wohlschlager (Wed Jul 25 2007 - 08:21:27 CDT)
    - Re: Antw: Re: CAVE & Vmd John Stone (Thu Jul 26 2007 - 16:06:00 CDT)
    - Re: Antw: Re: CAVE & Vmd Christian Wohlschlager (Fri Jul 27 2007 - 01:45:45 CDT)
RMSD of different molecules hori koshii (Thu Jul 05 2007 - 20:50:56 CDT)
- Re: RMSD of different molecules Peter Freddolino (Fri Jul 06 2007 - 01:50:49 CDT)
  - Re: RMSD of different molecules Leonardo Trabuco (Fri Jul 06 2007 - 10:10:10 CDT)
command line dcd to trr? hori koshii (Thu Jul 05 2007 - 20:46:14 CDT)
- Re: command line dcd to trr? Axel Kohlmeyer (Fri Jul 06 2007 - 08:26:37 CDT)
calculation limit of gofr? Philipp Schön (Thu Jul 05 2007 - 10:16:00 CDT)
- Re: calculation limit of gofr? Axel Kohlmeyer (Thu Jul 05 2007 - 09:47:43 CDT)
Video card query Ignacio Fernández Galván (Thu Jul 05 2007 - 02:34:12 CDT)
- Re: Video card query Axel Kohlmeyer (Thu Jul 05 2007 - 09:42:37 CDT)
  - Re: Video card query Peter Freddolino (Thu Jul 05 2007 - 12:41:59 CDT)
Broken tube drawing method? Claw Isthelaw (Thu Jul 05 2007 - 00:17:37 CDT)
- Re: Broken tube drawing method? Axel Kohlmeyer (Thu Jul 05 2007 - 09:24:39 CDT)
VRPN, phantom and VMD... Dr. Luis Rosales Leon (Wed Jul 04 2007 - 17:12:38 CDT)
- Re: VRPN, phantom and VMD... John Stone (Mon Jul 16 2007 - 16:11:10 CDT)
vmd crashes on startup Arnab Mukherjee (Wed Jul 04 2007 - 16:11:36 CDT)
- Re: vmd crashes on startup Axel Kohlmeyer (Wed Jul 04 2007 - 15:55:33 CDT)
How to display boundary crossing bonds? Zhimin Xiong (Tue Jul 03 2007 - 23:58:00 CDT)
- Re: How to display boundary crossing bonds? Axel Kohlmeyer (Wed Jul 04 2007 - 11:51:57 CDT)
ACE and NH2 ÁèáíÜóéïò Óôáõñáêïýäçò (Tue Jul 03 2007 - 16:37:43 CDT)
- Re: ACE and NH2 Peter Freddolino (Tue Jul 03 2007 - 16:46:26 CDT)
developing plugins to vmd in python shourabh rawat (Tue Jul 03 2007 - 01:12:22 CDT)
- Re: developing plugins to vmd in python Axel Kohlmeyer (Tue Jul 03 2007 - 09:25:33 CDT)
Display bond between fragment and protein residue Mackay Steffensen (Mon Jul 02 2007 - 12:24:47 CDT)
VTF file Jakob Petersen (Sun Jul 01 2007 - 13:56:58 CDT)
- Re: VTF file Olaf Lenz (Mon Jul 02 2007 - 02:53:38 CDT)
Fwd: atom serial number Francesco Pietra (Sun Jul 01 2007 - 02:59:07 CDT)
atom serial number Francesco Pietra (Sun Jul 01 2007 - 02:33:20 CDT)
- Re: atom serial number Peter Freddolino (Sun Jul 01 2007 - 13:40:52 CDT)
RMSF calculation question: Parminder Mankoo (Sat Jun 30 2007 - 19:09:18 CDT)
- Re: RMSF calculation question: Leonardo Trabuco (Sat Jun 30 2007 - 20:14:56 CDT)
  - Re: RMSF calculation question: Parminder Mankoo (Sat Jun 30 2007 - 22:06:43 CDT)
trouble saving the state of two proteins Charlotte J Siska (Fri Jun 29 2007 - 12:45:27 CDT)
- Re: trouble saving the state of two proteins Peter Freddolino (Fri Jun 29 2007 - 12:48:33 CDT)
  - Re: trouble saving the state of two proteins Peter Freddolino (Fri Jun 29 2007 - 15:31:51 CDT)
how to calculate hydrogen bond? lily jin (Fri Jun 29 2007 - 12:21:54 CDT)
- Re: how to calculate hydrogen bond? Axel Kohlmeyer (Sun Jul 01 2007 - 21:34:56 CDT)
Hydrogen and Water Molecules. Yu Liu (Wed Jun 27 2007 - 11:13:40 CDT)
Away until July 12, self-help encouraged! John Stone (Thu Jun 28 2007 - 17:22:36 CDT)
vmd and amber Francesco Pietra (Thu Jun 28 2007 - 16:08:37 CDT)
- Re: vmd and amber Axel Kohlmeyer (Thu Jun 28 2007 - 16:14:49 CDT)
get charge lily jin (Thu Jun 28 2007 - 12:56:46 CDT)
- Re: get charge John Stone (Thu Jun 28 2007 - 13:07:51 CDT)
- Re: get charge Axel Kohlmeyer (Thu Jun 28 2007 - 12:27:43 CDT)
generate surface figure Zhenwei Lu (Thu Jun 28 2007 - 11:54:31 CDT)
- Re: generate surface figure Axel Kohlmeyer (Thu Jun 28 2007 - 12:25:30 CDT)
glycerol box amit dong (Thu Jun 28 2007 - 11:14:12 CDT)
- Re: glycerol box Peter Freddolino (Thu Jun 28 2007 - 12:00:13 CDT)
Amber patches for Auto PSF generator Bob Johnson (Wed Jun 27 2007 - 11:55:44 CDT)
- Re: Amber patches for Auto PSF generator Peter Freddolino (Wed Jun 27 2007 - 12:04:09 CDT)
error while generating a tetramer using transformation matrix Ruchi Sachdeva (Wed Jun 27 2007 - 01:15:28 CDT)
- Re: error while generating a tetramer using transformation matrix Himanshu Khandelia (Wed Jun 27 2007 - 04:00:50 CDT)
angle between protein domains: PARMINDER MANKOO (Tue Jun 26 2007 - 15:46:02 CDT)
help on making stereo diagram Zhenwei Lu (Tue Jun 26 2007 - 15:25:59 CDT)
- Re: help on making stereo diagram John Stone (Tue Jun 26 2007 - 15:46:56 CDT)
parallel capabilities Jana Black (Tue Jun 26 2007 - 14:27:38 CDT)
- Re: parallel capabilities John Stone (Tue Jun 26 2007 - 14:56:29 CDT)
  - Re: parallel capabilities Axel Kohlmeyer (Tue Jun 26 2007 - 16:24:22 CDT)
    - Re: parallel capabilities John Stone (Tue Jun 26 2007 - 18:06:07 CDT)
- Re: parallel capabilities L. Michel Espinoza-Fonseca (Tue Jun 26 2007 - 15:16:58 CDT)
- Re: parallel capabilities Axel Kohlmeyer (Tue Jun 26 2007 - 14:14:27 CDT)
question about ligand volmap Rachel (Tue Jun 26 2007 - 10:56:34 CDT)
- Re: question about ligand volmap Jordi Cohen (Wed Jun 27 2007 - 11:29:31 CDT)
redefining macros vs. update of selections Axel Kohlmeyer (Mon Jun 25 2007 - 19:28:53 CDT)
- Re: redefining macros vs. update of selections John Stone (Tue Jun 26 2007 - 14:52:31 CDT)
! Obtain degrees from Prestigious non-accredite dUniversities 1(484)993-7152 Marty (Sat Jun 23 2007 - 01:45:28 CDT)
Using VMD just to plot some coordinates from a mathematical/geometrical model Arneh Babakhani (Fri Jun 22 2007 - 17:51:35 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model John Stone (Fri Jun 22 2007 - 17:51:59 CDT)
  - Re: Using VMD just to plot some coordinates from a mathematical/geometrical model Arneh Babakhani (Fri Jun 22 2007 - 20:04:40 CDT)
Loading up PDB files in absolute coordinates Arneh Babakhani (Fri Jun 22 2007 - 13:10:06 CDT)
- Re: Loading up PDB files in absolute coordinates John Stone (Fri Jun 22 2007 - 13:24:30 CDT)
  - Re: Loading up PDB files in absolute coordinates Arneh Babakhani (Fri Jun 22 2007 - 13:50:59 CDT)
Text/Labels on ray tracing external renderer Petrica GASCA (Fri Jun 22 2007 - 09:28:57 CDT)
- Re: Text/Labels on ray tracing external renderer John Stone (Fri Jun 22 2007 - 13:03:41 CDT)
  - Re: Text/Labels on ray tracing external renderer Axel Kohlmeyer (Fri Jun 22 2007 - 14:26:00 CDT)
Rotate dx map Cesar Luis Avila (Thu Jun 21 2007 - 10:03:50 CDT)
- Re: Rotate dx map John Stone (Fri Jun 22 2007 - 17:25:56 CDT)
center scaling and rotation Tim Meyer (Thu Jun 21 2007 - 09:35:40 CDT)
- Re: center scaling and rotation John Stone (Fri Jun 22 2007 - 17:25:01 CDT)
Changing Beta values for each frame of a trajectory.. Arun Krishnan (Wed Jun 20 2007 - 22:08:17 CDT)
- Re: Changing Beta values for each frame of a trajectory.. John Stone (Wed Jun 20 2007 - 22:50:19 CDT)
  - Re: Changing Beta values for each frame of a trajectory.. Arun Krishnan (Wed Jun 20 2007 - 23:39:21 CDT)
volmap commands Lutz Maibaum (Wed Jun 20 2007 - 20:35:15 CDT)
- Re: volmap commands Jordi Cohen (Wed Jun 20 2007 - 21:56:08 CDT)
  - Re: volmap commands Lutz Maibaum (Wed Jun 20 2007 - 23:19:01 CDT)
Fw: namd-l-outgoing2@halifax.ks.uiuc.edu lily jin (Wed Jun 20 2007 - 15:25:56 CDT)
Mail System Error - Returned Mail The Post Office (Wed Jun 20 2007 - 12:17:09 CDT)
Re: atomselection Luis Rosales (Wed Jun 20 2007 - 10:14:56 CDT)
atomselection Kevser Göçmen Topal (Wed Jun 20 2007 - 02:27:50 CDT)
Box dimensions Jennie Thomas (Tue Jun 19 2007 - 17:59:53 CDT)
- Re: Box dimensions John Stone (Tue Jun 19 2007 - 18:03:34 CDT)
  - Re: Box dimensions Jennie Thomas (Tue Jun 19 2007 - 18:28:12 CDT)
    - Re: Box dimensions John Stone (Wed Jun 20 2007 - 10:55:34 CDT)
- Script to rendering ANISOU records in VMD Aaron Oakley (Tue Jun 19 2007 - 21:22:51 CDT)
  - Re: Script to rendering ANISOU records in VMD Axel Kohlmeyer (Tue Jun 19 2007 - 22:08:55 CDT)
atomsel: writepdb failed for vmd 1.8.6 Margaret S. Cheung (Tue Jun 19 2007 - 16:16:24 CDT)
- Re: atomsel: writepdb failed for vmd 1.8.6 John Stone (Tue Jun 19 2007 - 17:21:01 CDT)
adding residue at start or end Zhenwei Lu (Tue Jun 19 2007 - 10:58:30 CDT)
- Re: adding residue at start or end Peter Freddolino (Tue Jun 19 2007 - 12:41:10 CDT)
VMD for PPC64 SLES9? Mike Hanby (Tue Jun 19 2007 - 10:19:26 CDT)
- Re: VMD for PPC64 SLES9? John Stone (Tue Jun 19 2007 - 10:49:49 CDT)
  - RE: VMD for PPC64 SLES9? Mike Hanby (Tue Jun 19 2007 - 11:53:44 CDT)
Tracking bond length changes in a simulation Adilah Hussien (Tue Jun 19 2007 - 04:33:22 CDT)
- Re: Tracking bond length changes in a simulation John Stone (Tue Jun 19 2007 - 10:53:00 CDT)
VMD 1.8.6 Not Responding! Vijaya Brahma (Sun Jun 17 2007 - 23:59:06 CDT)
- Re: VMD 1.8.6 Not Responding! Axel Kohlmeyer (Mon Jun 18 2007 - 09:49:47 CDT)
- Re: VMD 1.8.6 Not Responding! John Stone (Mon Jun 18 2007 - 16:04:51 CDT)
  - VMD 1.8.6 Not Responding! Vijaya Brahma (Wed Jun 20 2007 - 23:31:27 CDT)
Solvate 1.2 problem option -ion luca.dallaglio2_at_studio.unibo.it (Thu Jun 14 2007 - 07:02:39 CDT)
- Re: Solvate 1.2 problem option -ion John Stone (Fri Jun 15 2007 - 16:12:51 CDT)
atom position update for reference atom list Philipp Schoen1 (Wed Jun 13 2007 - 08:28:30 CDT)
- Re: atom position update for reference atom list John Stone (Mon Jun 18 2007 - 16:43:13 CDT)
superposition lily jin (Tue Jun 12 2007 - 12:05:20 CDT)
- Re: superposition John Stone (Tue Jun 12 2007 - 15:30:23 CDT)
PME plugin Cesar Luis Avila (Tue Jun 12 2007 - 11:18:47 CDT)
- Re: PME plugin Cesar Luis Avila (Tue Jun 12 2007 - 11:22:26 CDT)
  - Re: Re: PME plugin John Stone (Tue Jun 12 2007 - 16:48:54 CDT)
PSFGEN:buiding an uncharged protein luca.dallaglio2_at_studio.unibo.it (Tue Jun 12 2007 - 02:55:14 CDT)
Paratool Add/Edit Internal Coordinates window Francesco Pietra (Tue Jun 12 2007 - 00:29:05 CDT)
Question about rendering across multiple frames Prashanth Athri (Mon Jun 11 2007 - 13:51:29 CDT)
- Re: Question about rendering across multiple frames John Stone (Mon Jun 11 2007 - 15:33:26 CDT)
Re: Paratool Window Jan Saam (Mon Jun 11 2007 - 14:22:00 CDT)
- Re: Paratool Window L. Michel Espinoza-Fonseca (Mon Jun 11 2007 - 14:52:14 CDT)
  - Paratool Reference (was Re: Paratool Window) Jan Saam (Fri Jun 15 2007 - 11:11:10 CDT)
script for atom collisions Kailee (Mon Jun 11 2007 - 12:10:30 CDT)
- Re: script for atom collisions John Stone (Mon Jun 11 2007 - 15:35:55 CDT)
  - Re: script for atom collisions Kailee (Tue Jun 12 2007 - 08:58:36 CDT)
    - Re: script for atom collisions John Stone (Wed Jun 13 2007 - 03:01:10 CDT)
    - Re: script for atom collisions Kailee (Fri Jun 15 2007 - 12:21:13 CDT)
Paratool Window Vivek Sharma (Mon Jun 11 2007 - 08:48:07 CDT)
Nearest neighbor selection Richard Swenson (Mon Jun 11 2007 - 10:23:57 CDT)
- Re: Nearest neighbor selection John Stone (Tue Jun 12 2007 - 10:36:02 CDT)
  - Re: Nearest neighbor selection Richard Swenson (Tue Jun 12 2007 - 15:23:31 CDT)
vmd visualization and CMAP run problem Moumita Maiti (Mon Jun 11 2007 - 00:52:23 CDT)
- Re: vmd visualization and CMAP run problem John Stone (Wed Jun 13 2007 - 03:04:49 CDT)
  - Re: vmd visualization and CMAP run problem Moumita Maiti (Wed Jun 13 2007 - 04:05:25 CDT)
    - Re: vmd visualization and CMAP run problem John Stone (Mon Jun 18 2007 - 16:47:26 CDT)
    - Re: vmd visualization and CMAP run problem John Stone (Mon Jun 18 2007 - 16:59:19 CDT)
use animatepdbs.tcl to include APBS potential maps Cesar Millan (Sat Jun 09 2007 - 22:48:02 CDT)
- Re: use animatepdbs.tcl to include APBS potential maps Axel Kohlmeyer (Sun Jun 10 2007 - 15:00:58 CDT)
  - Re: use animatepdbs.tcl to include APBS potential maps Cesar Millan (Sun Jun 10 2007 - 22:09:27 CDT)
    - Re: use animatepdbs.tcl to include APBS potential maps Axel Kohlmeyer (Mon Jun 11 2007 - 11:22:01 CDT)
rmsd calculation for RNA Moumita Maiti (Fri Jun 08 2007 - 11:48:58 CDT)
Help with Tcl script Manali Mehendale (Fri Jun 08 2007 - 11:09:56 CDT)
- Re: Help with Tcl script John Stone (Wed Jun 13 2007 - 03:23:27 CDT)
- Re: Help with Tcl script Jan Saam (Wed Jun 13 2007 - 04:00:03 CDT)
Simple TCL/Tk question Pavan Ghatty (Fri Jun 08 2007 - 11:04:10 CDT)
- Re: Simple TCL/Tk question Peter Freddolino (Fri Jun 08 2007 - 11:37:06 CDT)
- Re: Simple TCL/Tk question Robert Brunner (Fri Jun 08 2007 - 14:55:20 CDT)
problem when drawing a cylinder Zhimin Xiong (Fri Jun 08 2007 - 03:27:28 CDT)
- Re: problem when drawing a cylinder Olaf Lenz (Fri Jun 08 2007 - 04:01:40 CDT)
Python Module Harry Bullen (Thu Jun 07 2007 - 13:00:41 CDT)
- Re: Python Module Axel Kohlmeyer (Thu Jun 07 2007 - 17:50:14 CDT)
  - Re: Python Module Justin Gullingsrud (Fri Jun 08 2007 - 09:43:50 CDT)
    - Re: Python Module John Stone (Fri Jun 08 2007 - 10:38:01 CDT)
    - Re: Python Module Harry Bullen (Fri Jun 08 2007 - 11:03:39 CDT)
  - Re: Python Module Harry Bullen (Fri Jun 08 2007 - 08:40:36 CDT)
    - Re: Python Module Axel Kohlmeyer (Fri Jun 08 2007 - 08:35:04 CDT)
RENDER ISSUES Claire Zerafa (Thu Jun 07 2007 - 08:48:17 CDT)
- RE: RENDER ISSUES JC Gumbart (Thu Jun 07 2007 - 09:07:34 CDT)
rendering problems Claire Zerafa (Thu Jun 07 2007 - 09:37:13 CDT)
traj not visualized but pdb is visualized Lambert van Eijck (Thu Jun 07 2007 - 04:44:49 CDT)
- Re: traj not visualized but pdb is visualized Axel Kohlmeyer (Thu Jun 07 2007 - 08:29:33 CDT)
  - Re: traj not visualized but pdb is visualized Lambert van Eijck (Thu Jun 07 2007 - 09:55:57 CDT)
.xyz file, namelist index too large error Erkan Tuzel (Wed Jun 06 2007 - 19:39:48 CDT)
- Re: .xyz file, namelist index too large error Axel Kohlmeyer (Wed Jun 06 2007 - 19:00:56 CDT)
- Re: .xyz file, namelist index too large error John Stone (Thu Jun 07 2007 - 11:11:43 CDT)
how to visualize Charmm generated files ThuZar Lwin (Wed Jun 06 2007 - 16:38:54 CDT)
- Re: how to visualize Charmm generated files Alessandro Cembran (Wed Jun 06 2007 - 18:15:41 CDT)
release memory in TCL lily jin (Wed Jun 06 2007 - 14:44:13 CDT)
- Re: release memory in TCL Axel Kohlmeyer (Wed Jun 06 2007 - 16:35:17 CDT)
  - Re: release memory in TCL lily jin (Thu Jun 07 2007 - 11:46:11 CDT)
- Re: release memory in TCL Jerome Henin (Wed Jun 06 2007 - 17:47:26 CDT)
changing certain dihedral angles while keeping rest of molecule fixed Himanshu Khandelia (Wed Jun 06 2007 - 04:37:01 CDT)
- Re: changing certain dihedral angles while keeping rest of molecule fixed Peter Freddolino (Wed Jun 06 2007 - 09:24:18 CDT)
  - Re: changing certain dihedral angles while keeping rest of molecule fixed Himanshu Khandelia (Wed Jun 06 2007 - 10:02:54 CDT)
    - Re: changing certain dihedral angles while keeping rest of molecule fixed Peter Freddolino (Wed Jun 06 2007 - 10:41:54 CDT)
Duplicate VMD-L emails... John Stone (Tue Jun 05 2007 - 13:11:26 CDT)
Fwd: vmd installation Linux Debian i386 Francesco Pietra (Tue Jun 05 2007 - 12:55:05 CDT)
- Re: Fwd: vmd installation Linux Debian i386 John Stone (Tue Jun 05 2007 - 13:02:26 CDT)
  - Re: Fwd: vmd installation Linux Debian i386 Francesco Pietra (Tue Jun 05 2007 - 17:47:06 CDT)
What is the influence of PBC on measure bond? Philipp Schoen1 (Tue Jun 05 2007 - 09:30:03 CDT)
- Re: What is the influence of PBC on measure bond? John Stone (Tue Jun 05 2007 - 10:12:00 CDT)
VMD-Main window doesn't load after change in .vmdrc Grant Schauer (Mon Jun 04 2007 - 20:22:55 CDT)
- Re: VMD-Main window doesn't load after change in .vmdrc John Stone (Mon Jun 04 2007 - 20:59:37 CDT)
  - Re: VMD-Main window doesn't load after change in .vmdrc Grant Schauer (Mon Jun 04 2007 - 22:20:30 CDT)
- Re: VMD-Main window doesn't load after change in .vmdrc Axel Kohlmeyer (Mon Jun 04 2007 - 20:12:25 CDT)
list in TCL lily jin (Mon Jun 04 2007 - 18:47:16 CDT)
- Re: list in TCL John Stone (Mon Jun 04 2007 - 19:36:42 CDT)
- Re: list in TCL Giovanni Bellesia (Mon Jun 04 2007 - 19:39:37 CDT)
- Re: list in TCL JC Gumbart (Mon Jun 04 2007 - 19:41:42 CDT)
- Re: list in TCL Cesar Luis Avila (Mon Jun 04 2007 - 20:07:33 CDT)
labeling for movie title xiaoqin huang (Mon Jun 04 2007 - 13:21:54 CDT)
- Re: labeling for movie title John Stone (Mon Jun 04 2007 - 16:04:21 CDT)
removing water molecules Atila Iamarino (Mon Jun 04 2007 - 13:21:33 CDT)
- Re: removing water molecules John Stone (Mon Jun 04 2007 - 15:31:53 CDT)
load state and alignments Stern, Julie (Mon Jun 04 2007 - 10:56:36 CDT)
- Re: load state and alignments John Stone (Mon Jun 04 2007 - 14:41:21 CDT)
Distance measurement via measure bond Philipp Schoen1 (Mon Jun 04 2007 - 10:32:02 CDT)
- Re: Distance measurement via measure bond Axel Kohlmeyer (Mon Jun 04 2007 - 10:26:18 CDT)
- Re: Distance measurement via measure bond John Stone (Mon Jun 04 2007 - 14:36:31 CDT)
parameters file of POPC SMAHANE CHALABI (Mon Jun 04 2007 - 09:22:30 CDT)
- Re: parameters file of POPC Axel Kohlmeyer (Mon Jun 04 2007 - 09:17:02 CDT)
Installing VMD 1.8.6 Philipp Schoen1 (Mon Jun 04 2007 - 07:54:24 CDT)
- Re: Installing VMD 1.8.6 Olaf Lenz (Mon Jun 04 2007 - 08:54:21 CDT)
- Re: Installing VMD 1.8.6 Axel Kohlmeyer (Mon Jun 04 2007 - 08:03:30 CDT)
- Re: Installing VMD 1.8.6 John Stone (Mon Jun 04 2007 - 13:09:42 CDT)
  - Re: Installing VMD 1.8.6 Francesco Pietra (Mon Jun 04 2007 - 16:14:29 CDT)
Atom names, RES-IDS...!!! Raul Araya (Fri Jun 01 2007 - 23:55:33 CDT)
- Re: Atom names, RES-IDS...!!! JC Gumbart (Mon Jun 04 2007 - 18:18:45 CDT)
Re: CCL: show ruler in VMD John Stone (Fri Jun 01 2007 - 14:11:07 CDT)
self-coeeficient diffusion nicolas.floquet_at_univ-reims.fr (Fri Jun 01 2007 - 07:41:27 CDT)
Using VolMap tool for charge density visualization Bob Johnson (Fri Jun 01 2007 - 09:59:47 CDT)
Order Parameter Script for changing bilayer normal Richard Swenson (Fri Jun 01 2007 - 09:21:07 CDT)
Using regular expressions on tcl atomselection Cesar Luis Avila (Thu May 31 2007 - 17:45:32 CDT)
- Re: Using regular expressions on tcl atomselection Leonardo Trabuco (Thu May 31 2007 - 18:01:55 CDT)
- Re: Using regular expressions on tcl atomselection Axel Kohlmeyer (Thu May 31 2007 - 17:17:25 CDT)
Electron density profile Cesar Luis Avila (Thu May 31 2007 - 11:30:29 CDT)
lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) Richard Swenson (Wed May 30 2007 - 14:15:13 CDT)
- Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) Axel Kohlmeyer (Wed May 30 2007 - 14:14:08 CDT)
  - Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) Cesar Luis Avila (Wed May 30 2007 - 20:36:09 CDT)
- Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) Cesar Luis Avila (Wed Jun 06 2007 - 10:55:19 CDT)
  - Mac OSX TK console issues Marc Baaden (Fri Jun 15 2007 - 09:21:51 CDT)
    - Re: Mac OSX TK console issues Brian Kidd (Fri Jun 15 2007 - 14:57:16 CDT)
    - Re: Mac OSX TK console issues John Stone (Fri Jun 15 2007 - 15:42:52 CDT)
pqr files---- Raul Araya (Tue May 29 2007 - 16:46:49 CDT)
- Re: pqr files---- Axel Kohlmeyer (Tue May 29 2007 - 18:49:38 CDT)
overlay Alison Grinthal (Tue May 29 2007 - 15:58:18 CDT)
- Re: overlay Peter Freddolino (Tue May 29 2007 - 16:20:56 CDT)
  - Re: overlay Marcos Sotomayor (Thu May 31 2007 - 01:29:50 CDT)
- plotting on Mac Alison Grinthal (Fri Aug 10 2007 - 14:50:11 CDT)
  - Re: plotting on Mac John Stone (Fri Aug 10 2007 - 15:11:43 CDT)
Reading in a MOL2 file Mark Zottola (Tue May 29 2007 - 11:31:44 CDT)
- Re: Reading in a MOL2 file Peter Freddolino (Tue May 29 2007 - 12:16:16 CDT)
- Color Scale Data Range Weiqiang Wang (Tue May 29 2007 - 17:08:16 CDT)
  - Re: Color Scale Data Range Weiqiang Wang (Tue May 29 2007 - 17:46:31 CDT)
colomb map in volmap tool Raul Araya (Mon May 28 2007 - 17:03:10 CDT)
- Re: colomb map in volmap tool John Stone (Mon May 28 2007 - 17:17:23 CDT)
overlay Alison Grinthal (Mon May 28 2007 - 06:45:38 CDT)
ligand parametrization Karol Kaszuba (Mon May 28 2007 - 10:57:05 CDT)
- Re: ligand parametrization John Stone (Mon May 28 2007 - 16:12:02 CDT)
  - PSF_and_PDB_file_of_LIGAND Karol Kaszuba (Fri Jun 01 2007 - 05:29:53 CDT)
    - Re: PSF_and_PDB_file_of_LIGAND Peter Freddolino (Fri Jun 01 2007 - 11:00:26 CDT)
- Re: ligand parametrization Jan Saam (Mon May 28 2007 - 18:51:57 CDT)
Problem with bondsrecalc Philippe Roche (Mon May 28 2007 - 11:29:47 CDT)
Problem with bondsrecalc Philippe Roche (Mon May 28 2007 - 11:33:07 CDT)
- Re: Problem with bondsrecalc Axel Kohlmeyer (Mon May 28 2007 - 13:17:22 CDT)
  - Re: Problem with bondsrecalc John Stone (Mon May 28 2007 - 15:38:50 CDT)
RE: Installation Error Involving TLC Claw Isthelaw (Sun May 27 2007 - 22:37:30 CDT)
- Re: Installation Error Involving TLC John Stone (Mon May 28 2007 - 15:35:26 CDT)
  - Re: Installation Error Involving TLC Axel Kohlmeyer (Mon May 28 2007 - 15:36:40 CDT)
help on trajectory density map Kailee (Sun May 27 2007 - 12:54:12 CDT)
- Re: help on trajectory density map Axel Kohlmeyer (Mon May 28 2007 - 10:40:12 CDT)
- Re: help on trajectory density map John Stone (Mon May 28 2007 - 15:34:23 CDT)
  - Re: help on trajectory density map Kailee (Tue May 29 2007 - 07:43:46 CDT)
    - Re: help on trajectory density map John Stone (Tue May 29 2007 - 10:07:15 CDT)
tkconsole and intel macs Dan Gordon (Sun May 27 2007 - 20:32:11 CDT)
- Re: tkconsole and intel macs Dan Gordon (Tue May 29 2007 - 19:21:03 CDT)
Fwd: Linux installation issue Francesco Pietra (Sat May 26 2007 - 09:57:40 CDT)
- Re: Fwd: Linux installation issue Axel Kohlmeyer (Sat May 26 2007 - 15:41:24 CDT)
  - Re: Fwd: Linux installation issue Francesco Pietra (Sun May 27 2007 - 02:44:32 CDT)
    - Re: Fwd: Linux installation issue Axel Kohlmeyer (Tue Jun 05 2007 - 10:00:17 CDT)
Fwd: Linux installation issue Francesco Pietra (Sat May 26 2007 - 09:47:51 CDT)
- Re: Fwd: Linux installation issue Axel Kohlmeyer (Sat May 26 2007 - 15:36:40 CDT)
Linux installation issue Francesco Pietra (Sat May 26 2007 - 09:38:53 CDT)
- Re: Linux installation issue Axel Kohlmeyer (Sat May 26 2007 - 15:32:59 CDT)
problem with installing VMD on a LINUX cluster Yinglong Miao (Fri May 25 2007 - 16:59:11 CDT)
- Re: problem with installing VMD on a LINUX cluster Axel Kohlmeyer (Fri May 25 2007 - 17:00:20 CDT)
  - Re: problem with installing VMD on a LINUX cluster John Stone (Wed May 30 2007 - 16:34:37 CDT)
- Re: problem with installing VMD on a LINUX cluster John Stone (Mon May 28 2007 - 15:43:50 CDT)
  - RE: problem with installing VMD on a LINUX cluster Yinglong Miao (Mon May 28 2007 - 22:54:54 CDT)
Installation Error Involving TLC Jana Black (Fri May 25 2007 - 13:44:00 CDT)
- Re: Installation Error Involving TLC Peter Freddolino (Fri May 25 2007 - 14:02:32 CDT)
- Re: Installation Error Involving TLC Axel Kohlmeyer (Fri May 25 2007 - 13:23:11 CDT)
travelling... John Stone (Fri May 25 2007 - 11:00:52 CDT)
selecting complete residues within perticular distance. naga raju (Fri May 25 2007 - 02:33:28 CDT)
- Re: selecting complete residues within perticular distance. Cesar Luis Avila (Sun May 27 2007 - 16:06:29 CDT)
  - Re: selecting complete residues within perticular distance. Peter Freddolino (Sun May 27 2007 - 18:09:46 CDT)
    - Re: selecting complete residues within perticular distance. Cesar Luis Avila (Mon May 28 2007 - 14:04:32 CDT)
    - Re: selecting complete residues within perticular distance. Peter Freddolino (Mon May 28 2007 - 15:58:26 CDT)
(no subject) Lechuga, Javier (Fri May 25 2007 - 08:10:27 CDT)
- Re: Axel Kohlmeyer (Fri May 25 2007 - 11:00:48 CDT)
regarding selecting complete residues within a distance naga raju (Fri May 25 2007 - 04:43:49 CDT)
- Re: regarding selecting complete residues within a distance Eduard Schreiner (Fri May 25 2007 - 07:41:48 CDT)
fortran/tcl Luca Bellucci (Fri May 25 2007 - 03:13:54 CDT)
- Re: fortran/tcl Axel Kohlmeyer (Fri May 25 2007 - 10:55:50 CDT)
non-standard residue Stern, Julie (Thu May 24 2007 - 21:15:31 CDT)
- Re: non-standard residue Nathan C. Rockwell (Fri May 25 2007 - 11:20:57 CDT)
- Re: non-standard residue John Stone (Mon May 28 2007 - 15:50:41 CDT)
How to use remote GLSL rendering capabilities? Cesar Luis Avila (Thu May 24 2007 - 18:02:43 CDT)
- Re: How to use remote GLSL rendering capabilities? Axel Kohlmeyer (Thu May 24 2007 - 17:38:36 CDT)
  - Re: How to use remote GLSL rendering capabilities? Cesar Luis Avila (Sun May 27 2007 - 16:05:03 CDT)
VMD installation Francesco Pietra (Thu May 24 2007 - 16:04:29 CDT)
- Re: VMD installation Axel Kohlmeyer (Thu May 24 2007 - 16:13:53 CDT)
Adjusting perspective Cesar Luis Avila (Thu May 24 2007 - 11:33:40 CDT)
- Re: Adjusting perspective John Stone (Mon May 28 2007 - 15:57:51 CDT)
Displaying the periodic box ... Stéphane Téletchéa (Thu May 24 2007 - 09:54:25 CDT)
- Re: Displaying the periodic box ... Axel Kohlmeyer (Thu May 24 2007 - 09:19:44 CDT)
- Re: Displaying the periodic box ... Alexandr Isayev (Thu May 24 2007 - 10:59:08 CDT)
- Re: Displaying the periodic box ... Eduard Schreiner (Thu May 24 2007 - 12:39:40 CDT)
paratool/gaff Francesco Pietra (Thu May 24 2007 - 01:14:37 CDT)
- Re: paratool/gaff Jan Saam (Thu May 24 2007 - 02:26:44 CDT)
  - Re: paratool/gaff Francesco Pietra (Thu May 24 2007 - 02:48:06 CDT)
  - Re: paratool/gaff Francesco Pietra (Wed Jun 06 2007 - 10:07:13 CDT)
questions about developing a plugin Yinglong Miao (Wed May 23 2007 - 15:21:11 CDT)
- Re: questions about developing a plugin Axel Kohlmeyer (Wed May 23 2007 - 16:19:17 CDT)
  - Re: questions about developing a plugin Peter Freddolino (Wed May 23 2007 - 19:18:48 CDT)
  - Re: questions about developing a plugin Yinglong Miao (Wed May 23 2007 - 22:20:39 CDT)
Automatic loading of mol2 files FyD (Wed May 23 2007 - 10:42:17 CDT)
- Re: Automatic loading of mol2 files Peter Freddolino (Wed May 23 2007 - 10:52:12 CDT)
About paratool Francesco Pietra (Wed May 23 2007 - 09:38:40 CDT)
calculating b-factors from trajectories gozorows_at_uci.edu (Tue May 22 2007 - 17:53:27 CDT)
- Re: calculating b-factors from trajectories Leandro Martínez (Tue May 22 2007 - 20:57:01 CDT)
- Re: calculating b-factors from trajectories Brian Bennion (Wed May 23 2007 - 10:34:57 CDT)
  - Re: calculating b-factors from trajectories gozorows_at_uci.edu (Wed May 23 2007 - 14:00:53 CDT)
    - Move labels Arneh Babakhani (Wed May 23 2007 - 16:21:33 CDT)
    - Re: Move labels Himanshu Khandelia (Thu May 24 2007 - 06:19:25 CDT)
Customized radii Manali Joshi (Tue May 22 2007 - 13:04:27 CDT)
- Re: Customized radii Axel Kohlmeyer (Tue May 22 2007 - 12:56:58 CDT)
RE: Automatically shutting down VMD after NAMD terminates IMD connection Claw Isthelaw (Sun May 20 2007 - 16:20:30 CDT)
vmd movies in powerpoint Richard Casey (Sun May 20 2007 - 06:01:02 CDT)
- RE: vmd movies in powerpoint Syma Khalid (Sun May 20 2007 - 06:22:04 CDT)
- Re: vmd movies in powerpoint Axel Kohlmeyer (Sun May 20 2007 - 12:23:32 CDT)
Automatically shutting down VMD after NAMD terminates IMD connection Claw Isthelaw (Sat May 19 2007 - 13:23:42 CDT)
- Re: Automatically shutting down VMD after NAMD terminates IMD connection John Stone (Sun May 20 2007 - 13:13:04 CDT)
volmap command and masks Marc Baaden (Fri May 18 2007 - 17:01:20 CDT)
- Re: volmap command and masks John Stone (Sun May 20 2007 - 13:16:38 CDT)
  - atomselection question Brian Kidd (Tue May 22 2007 - 18:55:55 CDT)
    - Re: atomselection question Peter Freddolino (Tue May 22 2007 - 19:29:53 CDT)
Re: custom db in Multiseq John Eargle (Fri May 18 2007 - 11:32:51 CDT)
- Re: custom db in Multiseq Armen Nalian (Fri May 18 2007 - 12:29:41 CDT)
  - Re: custom db in Multiseq Elijah Roberts (Tue May 22 2007 - 16:01:53 CDT)
- Re: custom db in Multiseq John Eargle (Fri May 18 2007 - 14:02:09 CDT)
help on writing a tcl script Kailee (Fri May 18 2007 - 10:57:58 CDT)
- Re: help on writing a tcl script Axel Kohlmeyer (Fri May 18 2007 - 11:22:27 CDT)
  - Re: help on writing a tcl script Axel Kohlmeyer (Sat May 19 2007 - 12:28:29 CDT)
Need help about hbond and saltbridge s104fendy (Fri May 18 2007 - 03:07:05 CDT)
- Re: Need help about hbond and saltbridge Leonardo Trabuco (Sat May 19 2007 - 17:14:18 CDT)
the error of the plugin QMTool in read gaussian output file mashaojienuaa (Fri May 18 2007 - 01:08:09 CDT)
- Re: the error of the plugin QMTool in read gaussian output file John Stone (Fri May 18 2007 - 16:56:20 CDT)
custom db in Multiseq Armen Nalian (Thu May 17 2007 - 18:48:01 CDT)
Questions on VMD Mark Zottola (Thu May 17 2007 - 16:44:10 CDT)
- Re: Questions on VMD Axel Kohlmeyer (Thu May 17 2007 - 16:32:05 CDT)
  - Re: Questions on VMD Kramer Campen (Thu May 17 2007 - 17:45:28 CDT)
inserting protein into membrane baxy (Thu May 17 2007 - 08:39:58 CDT)
- Re: inserting protein into membrane John Stone (Fri May 18 2007 - 16:21:10 CDT)
unreadable prmtop's and reference memory error? Stern, Julie (Thu May 17 2007 - 11:47:04 CDT)
- Re: unreadable prmtop's and reference memory error? John Stone (Thu May 17 2007 - 12:21:26 CDT)
(no subject) Lechuga, Javier (Thu May 17 2007 - 09:40:07 CDT)
- Re: Peter Freddolino (Thu May 17 2007 - 11:21:41 CDT)
Tachyon renderer zsinkala_at_mtsu.edu (Wed May 16 2007 - 23:03:14 CDT)
- Re: Tachyon renderer Alexandr Isayev (Wed May 16 2007 - 23:40:54 CDT)
how to make a movie using Principal Component Analysis gadde suneetha (Wed May 16 2007 - 20:02:48 CDT)
- Re: how to make a movie using Principal Component Analysis Axel Kohlmeyer (Wed May 16 2007 - 20:16:00 CDT)
NOC 3.0 is released chenmengen (Wed May 16 2007 - 14:01:37 CDT)
question about making movies Kailee (Wed May 16 2007 - 11:49:50 CDT)
- Re: question about making movies Axel Kohlmeyer (Wed May 16 2007 - 13:39:13 CDT)
- Re: question about making movies John Stone (Wed May 16 2007 - 14:44:17 CDT)
  - labeling for movie title xiaoqin huang (Mon Jun 04 2007 - 11:43:13 CDT)
absolute C.O.M motion calculation script: help hl332_at_drexel.edu (Wed May 16 2007 - 11:06:45 CDT)
- Re: absolute C.O.M motion calculation script: help John Stone (Fri May 18 2007 - 16:54:42 CDT)
How to add two parallel confinement wall Zhimin Xiong (Wed May 16 2007 - 04:27:04 CDT)
- Re: How to add two parallel confinement wall Peter Freddolino (Wed May 16 2007 - 07:34:31 CDT)
  - Re: How to add two parallel confinement wall Zhimin Xiong (Thu May 17 2007 - 09:41:48 CDT)
help for modification into a small tcl script hl332_at_drexel.edu (Tue May 15 2007 - 10:32:17 CDT)
how to use measure hbonds to calculate occupancy of all hbonds in simulation? lnubiofox (Tue May 15 2007 - 09:21:33 CDT)
- Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? Dong Luo (Tue May 15 2007 - 18:27:01 CDT)
  - Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? lnubiofox (Wed May 16 2007 - 09:57:51 CDT)
  - Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? Dong Luo (Wed May 16 2007 - 11:44:01 CDT)
a gas box SMAHANE CHALABI (Tue May 15 2007 - 06:10:05 CDT)
- Re: a gas box Axel Kohlmeyer (Tue May 15 2007 - 08:22:16 CDT)
RNA Adrian Roitberg (Mon May 14 2007 - 14:25:03 CDT)
- Re: RNA George Madalin Giambasu (Mon May 14 2007 - 15:40:29 CDT)
AutoIMD on vmd 1.8.6 IRIX.... Luis Rosales (Fri May 11 2007 - 19:48:16 CDT)
- Re: AutoIMD on vmd 1.8.6 IRIX.... John Stone (Mon May 14 2007 - 12:52:34 CDT)
how to caculate the hydrogen bonds occupancy? lnubiofox (Sun May 13 2007 - 09:38:37 CDT)
- Re: how to caculate the hydrogen bonds occupancy? Axel Kohlmeyer (Sun May 13 2007 - 14:46:04 CDT)
An remark on PoV output Szymon Zietkiewicz (Sat May 12 2007 - 06:45:01 CDT)
- Re: An remark on PoV output John Stone (Mon May 14 2007 - 12:57:26 CDT)
  - Re: An remark on PoV output dstrahs_at_pace.edu (Mon May 14 2007 - 17:52:17 CDT)
Fast routines for distance evaluations using PBC. Arturas Ziemys (Fri May 11 2007 - 11:52:49 CDT)
- Re: Fast routines for distance evaluations using PBC. John Stone (Fri May 11 2007 - 13:15:27 CDT)
  - Re: Fast routines for distance evaluations using PBC. John Stone (Fri May 11 2007 - 13:46:39 CDT)
show atom number in xyz file Petrica GASCA (Fri May 11 2007 - 06:49:10 CDT)
- Re: show atom number in xyz file John Stone (Fri May 11 2007 - 11:06:17 CDT)
  - Re: show atom number in xyz file Petrica GASCA (Tue May 22 2007 - 04:32:36 CDT)
    - Re: show atom number in xyz file Axel Kohlmeyer (Tue May 22 2007 - 07:33:34 CDT)
    - Re: show atom number in xyz file JC Gumbart (Tue May 22 2007 - 11:59:35 CDT)
  - Re: show atom number in xyz file Petrica GASCA (Wed Jun 06 2007 - 10:24:47 CDT)
    - Re: show atom number in xyz file John Stone (Wed Jun 13 2007 - 02:52:12 CDT)
files for air SMAHANE CHALABI (Fri May 11 2007 - 04:01:27 CDT)
- Re: files for air Axel Kohlmeyer (Fri May 11 2007 - 07:46:23 CDT)
RMSD fitting for molecules adsorbed to surfaces Bob Johnson (Thu May 10 2007 - 16:12:09 CDT)
a air box SMAHANE CHALABI (Thu May 10 2007 - 08:38:15 CDT)
- Re: a air box Axel Kohlmeyer (Thu May 10 2007 - 09:22:45 CDT)
- Re: a air box Peter Freddolino (Thu May 10 2007 - 10:25:46 CDT)
Consider fluctuating volume for density Philipp Schoen1 (Thu May 10 2007 - 05:16:57 CDT)
- Re: Consider fluctuating volume for density Axel Kohlmeyer (Thu May 10 2007 - 09:45:04 CDT)
Fwd: vmd first installation Francesco Pietra (Wed May 09 2007 - 16:59:08 CDT)
- Re: Fwd: vmd first installation Axel Kohlmeyer (Wed May 09 2007 - 16:41:10 CDT)
  - Re: Fwd: vmd first installation Francesco Pietra (Fri May 11 2007 - 02:50:29 CDT)
Problem loading pdb file on VMD ren (Wed May 09 2007 - 02:10:48 CDT)
- Re: Problem loading pdb file on VMD John Stone (Wed May 09 2007 - 02:48:42 CDT)
  - Re: Problem loading pdb file on VMD Mario Valle (Wed May 09 2007 - 03:52:33 CDT)
    - Re: Problem loading pdb file on VMD Axel Kohlmeyer (Wed May 09 2007 - 07:38:54 CDT)
  - Re: Problem loading pdb file on VMD ren (Wed May 09 2007 - 04:46:42 CDT)
- Re: Problem loading pdb file on VMD Axel Kohlmeyer (Wed May 09 2007 - 07:37:56 CDT)
pbcunwrap, DL_POLY v 3 Joshua D. Moore (Wed May 09 2007 - 01:37:14 CDT)
- Re: pbcunwrap, DL_POLY v 3 Axel Kohlmeyer (Wed May 09 2007 - 07:42:23 CDT)
- Re: pbcunwrap, DL_POLY v 3 Olaf Lenz (Wed May 09 2007 - 08:52:55 CDT)
  - Re: pbcunwrap, DL_POLY v 3 Joshua D. Moore (Wed May 09 2007 - 11:27:29 CDT)
    - Re: pbcunwrap, DL_POLY v 3 Olaf Lenz (Wed May 09 2007 - 23:50:34 CDT)
vmd first installation Francesco Pietra (Wed May 09 2007 - 01:24:48 CDT)
drawing a membrane dimka (Tue May 08 2007 - 15:10:03 CDT)
- Re: drawing a membrane John Stone (Tue May 08 2007 - 16:34:02 CDT)
SASA measurements Michael S. Marlow (Tue May 08 2007 - 11:17:12 CDT)
- Re: SASA measurements John Stone (Tue May 08 2007 - 14:00:49 CDT)
installing MSMS on OS X 10.4.9 (Intel) Ralph Jimenez (Mon May 07 2007 - 21:37:38 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) John Stone (Mon May 07 2007 - 21:44:39 CDT)
  - Re: installing MSMS on OS X 10.4.9 (Intel) Ralph Jimenez (Tue May 08 2007 - 12:12:33 CDT)
autoPSF with a POPC membrane Stephen M. Dutz (Mon May 07 2007 - 19:37:25 CDT)
- Re: autoPSF with a POPC membrane Peter Freddolino (Mon May 07 2007 - 20:40:47 CDT)
  - Re: autoPSF with a POPC membrane Peter Freddolino (Tue May 08 2007 - 18:19:12 CDT)
color by frame? andrea spitaleri (Mon May 07 2007 - 04:58:40 CDT)
- Re: color by frame? Axel Kohlmeyer (Mon May 07 2007 - 08:47:16 CDT)
  - Re: color by frame? John Stone (Mon May 07 2007 - 10:09:23 CDT)
problem using bigdcd.tcl script does not run beyond the first frame no error reported Himanshu Khandelia (Mon May 07 2007 - 04:42:10 CDT)
- Re: problem using bigdcd.tcl script does not run beyond the first frame no error reported Axel Kohlmeyer (Mon May 07 2007 - 08:36:50 CDT)
  - Re: problem using bigdcd.tcl script does not run beyond the first frame no error reported Himanshu Khandelia (Mon May 07 2007 - 10:25:56 CDT)
How to align a protein normal to lipid bilayer nur avneet (Sun May 06 2007 - 23:29:45 CDT)
- Re: How to align a protein normal to lipid bilayer John Stone (Sun May 06 2007 - 23:49:40 CDT)
measure hbonds lanhua (Fri May 04 2007 - 20:57:35 CDT)
nonbond interaction energy lanhua (Fri May 04 2007 - 12:14:55 CDT)
- Re: nonbond interaction energy Peter Freddolino (Fri May 04 2007 - 13:23:48 CDT)
How to align a protein normal to lipid bilayer nur avneet (Fri May 04 2007 - 06:33:55 CDT)
- Re: How to align a protein normal to lipid bilayer Axel Kohlmeyer (Fri May 04 2007 - 08:53:30 CDT)
- Re: How to align a protein normal to lipid bilayer Stéphane Téletchéa (Mon May 07 2007 - 03:44:36 CDT)
Contribution of selected atoms to surface Brian Smith (Fri May 04 2007 - 03:12:57 CDT)
- Re: Contribution of selected atoms to surface Peter Freddolino (Fri May 04 2007 - 10:13:41 CDT)
Reading additional atom properties Lutz Maibaum (Thu May 03 2007 - 20:07:12 CDT)
- Re: Reading additional atom properties John Stone (Tue May 15 2007 - 13:12:34 CDT)
  - Re: Reading additional atom properties Lutz Maibaum (Tue May 15 2007 - 20:46:25 CDT)
Re: loop in loop - found it lily jin (Thu May 03 2007 - 18:49:47 CDT)
loop in loop lily jin (Thu May 03 2007 - 18:41:04 CDT)
(no subject) lanhua (Thu May 03 2007 - 16:30:24 CDT)
- Re: Axel Kohlmeyer (Thu May 03 2007 - 17:00:48 CDT)
vmd-1:how to merge two proteins (receptor & ligand) kong.winter (Thu May 03 2007 - 16:06:20 CDT)
- Re: vmd-1:how to merge two proteins (receptor & ligand) Axel Kohlmeyer (Thu May 03 2007 - 16:01:46 CDT)
measure Hbond lily jin (Thu May 03 2007 - 14:06:19 CDT)
- Re: measure Hbond Peter Freddolino (Thu May 03 2007 - 14:10:21 CDT)
dumb movie maker question Nichols A. Romero (Thu May 03 2007 - 10:32:26 CDT)
- Re: dumb movie maker question Axel Kohlmeyer (Thu May 03 2007 - 10:16:10 CDT)
a water box containing only the absorbent heads of SMAHANE CHALABI (Thu May 03 2007 - 03:11:45 CDT)
- Re: a water box containing only the absorbent heads of Axel Kohlmeyer (Thu May 03 2007 - 07:44:05 CDT)
rms fitting problem Myunggi Yi (Wed May 02 2007 - 16:34:04 CDT)
- Re: rms fitting problem Peter Freddolino (Wed May 02 2007 - 20:21:47 CDT)
vmd 1.8.6 on MacOS X, with python support, anyone? Jan Rychter (Mon Apr 30 2007 - 05:39:33 CDT)
- Re: vmd 1.8.6 on MacOS X, with python support, anyone? John Stone (Tue May 01 2007 - 12:35:50 CDT)
  - Re: vmd 1.8.6 on MacOS X, with python support, anyone? Jan Rychter (Tue May 01 2007 - 14:29:46 CDT)
    - JMV Samuel Flores (Sat May 12 2007 - 19:31:09 CDT)
    - Re: JMV John Stone (Mon May 14 2007 - 12:51:15 CDT)
Visualization and reading problems Marcelo Puiatti (Fri Apr 27 2007 - 18:12:44 CDT)
- Re: Visualization and reading problems Axel Kohlmeyer (Sun Apr 29 2007 - 13:41:54 CDT)
increase light under depth cueing Vlad Cojocaru (Sat Apr 28 2007 - 17:46:59 CDT)
- Re: increase light under depth cueing Axel Kohlmeyer (Sat Apr 28 2007 - 17:45:36 CDT)
  - Re: increase light under depth cueing Olaf Lenz (Sun Apr 29 2007 - 03:31:34 CDT)
    - Re: increase light under depth cueing Axel Kohlmeyer (Sun Apr 29 2007 - 12:43:19 CDT)
    - RE: increase light under depth cueing Cojocaru,Vlad (Sun Apr 29 2007 - 15:12:54 CDT)
Problem with periodic condition Jianhui Tian (Fri Apr 27 2007 - 13:33:26 CDT)
- Re: Problem with periodic condition Axel Kohlmeyer (Fri Apr 27 2007 - 14:42:33 CDT)
- Re: Problem with periodic condition Olaf Lenz (Sat Apr 28 2007 - 13:27:51 CDT)
  - Re: Problem with periodic condition Charles Cleveland (Sat Apr 28 2007 - 16:02:55 CDT)
    - Re: Problem with periodic condition Olaf Lenz (Sat Apr 28 2007 - 17:14:20 CDT)
    - Re: Problem with periodic condition Axel Kohlmeyer (Sat Apr 28 2007 - 16:15:06 CDT)
  - Re: Problem with periodic condition Jianhui Tian (Mon Apr 30 2007 - 15:57:30 CDT)
    - Re: Problem with periodic condition Axel Kohlmeyer (Mon Apr 30 2007 - 15:47:12 CDT)
Dynamic 'Determine file type' list in main menu !?! Rob (Fri Apr 27 2007 - 01:14:37 CDT)
- Re: Dynamic 'Determine file type' list in main menu !?! Axel Kohlmeyer (Fri Apr 27 2007 - 09:02:09 CDT)
- Re: Dynamic 'Determine file type' list in main menu !?! John Stone (Tue May 01 2007 - 12:38:46 CDT)
vmd problem: session ended Hugh Ferrel Bowen (Thu Apr 26 2007 - 08:46:01 CDT)
- Re: vmd problem: session ended John Stone (Tue May 01 2007 - 12:50:19 CDT)
DOWSER: child process exited abnormally Robert Selwyne (Thu Apr 26 2007 - 06:57:03 CDT)
- Re: DOWSER: child process exited abnormally Leonardo Trabuco (Thu Apr 26 2007 - 11:27:53 CDT)
Fixed number of solvatation water Andrea Cristiani (Wed Apr 25 2007 - 04:56:41 CDT)
GLSL rendering problems (??) Nichols A. Romero (Tue Apr 24 2007 - 15:40:57 CDT)
- Re: GLSL rendering problems (??) John Stone (Tue Apr 24 2007 - 15:52:30 CDT)
  - Re: GLSL rendering problems (??) Nichols A. Romero (Tue Apr 24 2007 - 16:00:20 CDT)
One Year written repl1ca w4tches warranty Kari Maher (Tue Apr 24 2007 - 15:10:17 CDT)
Re: Your Val1um 0rder #63504 Donnie Skinner (Tue Apr 24 2007 - 13:01:46 CDT)
H-bonds amit dong (Tue Apr 24 2007 - 10:58:13 CDT)
- Re: H-bonds Axel Kohlmeyer (Tue Apr 24 2007 - 11:28:31 CDT)
how to reset a timed out connection Amarda Shehu (Tue Apr 24 2007 - 09:23:44 CDT)
- Re: how to reset a timed out connection John Stone (Tue Apr 24 2007 - 11:27:22 CDT)
  - Re: how to reset a timed out connection John Stone (Tue Apr 24 2007 - 13:44:13 CDT)
    - Re: how to reset a timed out connection Amarda Shehu (Tue Apr 24 2007 - 13:55:24 CDT)
    - Re: how to reset a timed out connection John Stone (Tue Apr 24 2007 - 14:57:41 CDT)
selecting atoms Nichols A. Romero (Tue Apr 24 2007 - 09:55:36 CDT)
- Re: selecting atoms Peter Freddolino (Tue Apr 24 2007 - 10:10:41 CDT)
Variable number of atoms in xyz file Ignacio Fernández Galván (Tue Apr 24 2007 - 02:58:20 CDT)
- Re: Variable number of atoms in xyz file Peter Freddolino (Tue Apr 24 2007 - 10:04:40 CDT)
- Re: Variable number of atoms in xyz file Axel Kohlmeyer (Tue Apr 24 2007 - 09:21:45 CDT)
Cheap 3D Glasses Gustavo Seabra (Mon Apr 23 2007 - 18:07:07 CDT)
- Re: Cheap 3D Glasses John Stone (Tue Apr 24 2007 - 14:26:11 CDT)
Your Pharm4cy 0rder #2299650 Mary Rudd (Mon Apr 23 2007 - 17:50:29 CDT)
W4tches from simple to luxurious at Prest1ge Repl1cas Dominique Compton (Mon Apr 23 2007 - 17:51:51 CDT)
About openning a file to write in callback function preeda (Mon Apr 23 2007 - 12:07:59 CDT)
- Re: About openning a file to write in callback function Axel Kohlmeyer (Mon Apr 23 2007 - 14:00:35 CDT)
tcl code atomselect problem in analysis Jianhui Tian (Mon Apr 23 2007 - 09:24:48 CDT)
- Re: tcl code atomselect problem in analysis Peter Freddolino (Mon Apr 23 2007 - 10:10:20 CDT)
  - Re: tcl code atomselect problem in analysis Jianhui Tian (Mon Apr 23 2007 - 10:32:12 CDT)
    - Re: tcl code atomselect problem in analysis Peter Freddolino (Mon Apr 23 2007 - 10:57:10 CDT)
- Re: tcl code atomselect problem in analysis John Stone (Mon Apr 23 2007 - 11:12:07 CDT)
Your Pharm4cy 0rder #3747312 Andres Bynum (Sat Apr 21 2007 - 19:50:21 CDT)
Misunderstanding about SASA Patrick Redmill (Sat Apr 21 2007 - 10:14:19 CDT)
- Re: Misunderstanding about SASA Axel Kohlmeyer (Sat Apr 21 2007 - 17:31:53 CDT)
Reliable w4tches for everyone at Prest1ge Repl1cas Michele Garrett (Sat Apr 21 2007 - 10:20:56 CDT)
Your V1agra 0rder #18671 Willie Bray (Sat Apr 21 2007 - 02:54:52 CDT)
Famous repl1ca w4tches r0lex Cartier Bvlgari Shari Chin (Fri Apr 20 2007 - 23:08:24 CDT)
Re: Your Val1um 0rder #6578980 Owen Lindsay (Fri Apr 20 2007 - 22:11:49 CDT)
How to visualize phi maps calculated with delphi V. 4 Cesar Luis Avila (Fri Apr 20 2007 - 18:36:48 CDT)
- Re: How to visualize phi maps calculated with delphi V. 4 John Stone (Fri Apr 20 2007 - 21:07:01 CDT)
  - Re: How to visualize phi maps calculated with delphi V. 4 Cesar Avila (Sat Apr 21 2007 - 20:05:42 CDT)
  - Re: How to visualize phi maps calculated with delphi V. 4 John Stone (Mon Apr 23 2007 - 14:55:59 CDT)
process and plot matrix data Vlad Cojocaru (Fri Apr 20 2007 - 04:28:12 CDT)
- Re: process and plot matrix data John Stone (Fri Apr 20 2007 - 14:47:44 CDT)
Announcement: QM/MM Workshop Axel Kohlmeyer (Thu Apr 19 2007 - 09:14:50 CDT)
tcl variable withing variable name Vlad Cojocaru (Thu Apr 19 2007 - 07:58:27 CDT)
- Re: tcl variable withing variable name Axel Kohlmeyer (Thu Apr 19 2007 - 08:30:34 CDT)
  - Re: tcl variable withing variable name Vlad Cojocaru (Thu Apr 19 2007 - 11:13:21 CDT)
- Re: tcl variable withing variable name Peter Freddolino (Thu Apr 19 2007 - 09:38:53 CDT)
- RE: tcl variable withing variable name Ana Celia Araujo Vila Verde (Thu Apr 19 2007 - 10:29:43 CDT)
How to get the whole H2O molecule in a domain? Philipp Schoen1 (Wed Apr 18 2007 - 11:55:03 CDT)
- Re: How to get the whole H2O molecule in a domain? Peter Freddolino (Wed Apr 18 2007 - 12:07:52 CDT)
  - Re: How to get the whole H2O molecule in a domain? Peter Freddolino (Wed Apr 18 2007 - 12:10:13 CDT)
secondary_struct script alexandra.marques_at_fc.up.pt (Wed Apr 18 2007 - 11:28:43 CDT)
- Re: secondary_struct script John Stone (Wed Apr 18 2007 - 12:48:36 CDT)
vmd can't start up after being installed in linux lanhua (Tue Apr 17 2007 - 23:22:13 CDT)
- Re: vmd can't start up after being installed in linux John Stone (Tue Apr 17 2007 - 22:50:39 CDT)
- Re: vmd can't start up after being installed in linux Axel Kohlmeyer (Tue Apr 17 2007 - 22:01:27 CDT)
- Re: vmd can't start up after being installed in linux Cesar Luis Avila (Wed Apr 18 2007 - 10:54:40 CDT)
  - Re: vmd can't start up after being installed in linux John Stone (Wed Apr 18 2007 - 11:03:04 CDT)
    - Re: vmd can't start up after being installed in linux Cesar Luis Avila (Wed Apr 18 2007 - 13:23:21 CDT)
    - Re: vmd can't start up after being installed in linux John Stone (Wed Apr 18 2007 - 16:14:32 CDT)
hexagonal box dimka (Tue Apr 17 2007 - 12:11:09 CDT)
assignment of "measure contacts" output to tcl variables Vlad Cojocaru (Tue Apr 17 2007 - 07:25:19 CDT)
- Re: assignment of "measure contacts" output to tcl variables Vlad Cojocaru (Tue Apr 17 2007 - 09:50:49 CDT)
RE: "which files to make a spatial grid?" => Bug for list command? Philipp Schoen1 (Tue Apr 17 2007 - 07:03:46 CDT)
- Re: RE: "which files to make a spatial grid?" => Bug for list command? Axel Kohlmeyer (Tue Apr 17 2007 - 07:25:11 CDT)
- Re: RE: "which files to make a spatial grid?" => Bug for list command? John Stone (Tue Apr 17 2007 - 13:11:52 CDT)
Strange characters using writemol2 (vmd 1.8.5) Cesar Luis Avila (Mon Apr 16 2007 - 18:32:28 CDT)
- Re: Strange characters using writemol2 (vmd 1.8.5) John Stone (Mon Apr 16 2007 - 18:39:17 CDT)
  - Re: Strange characters using writemol2 (vmd 1.8.5) Cesar Luis Avila (Mon Apr 16 2007 - 20:06:58 CDT)
Tinker trajectory file Esther Brugger (Mon Apr 16 2007 - 16:47:00 CDT)
- Re: Tinker trajectory file John Stone (Mon Apr 16 2007 - 18:27:52 CDT)
  - How can i obtain a force and trajectory data of a PHANTOM in IMD simulation preeda (Tue Apr 17 2007 - 09:44:30 CDT)
how to solvate a molecule with cubic periodic boundary box? Margaret S. Cheung (Mon Apr 16 2007 - 15:46:48 CDT)
- Re: how to solvate a molecule with cubic periodic boundary box? Leonardo Trabuco (Mon Apr 16 2007 - 16:56:15 CDT)
Saving mol2 file Atila Iamarino (Mon Apr 16 2007 - 12:36:00 CDT)
- Re: Saving mol2 file Peter Freddolino (Mon Apr 16 2007 - 12:48:18 CDT)
  - Re: Saving mol2 file Atila Iamarino (Wed Apr 18 2007 - 10:50:57 CDT)
    - Re: Saving mol2 file Peter Freddolino (Wed Apr 18 2007 - 11:00:26 CDT)
hbond questions Miguel Ferreira (Mon Apr 16 2007 - 10:10:03 CDT)
VMD for Windows 64bits Lechuga, Javier (Mon Apr 16 2007 - 10:11:34 CDT)
- Re: VMD for Windows 64bits John Stone (Mon Apr 16 2007 - 11:01:48 CDT)
which files to make a spatial grid? Philipp Schoen1 (Mon Apr 16 2007 - 07:39:44 CDT)
- Re: which files to make a spatial grid? Axel Kohlmeyer (Mon Apr 16 2007 - 19:46:08 CDT)
writing coordinates of a selection only Myunggi Yi (Sun Apr 15 2007 - 20:51:19 CDT)
- Re: writing coordinates of a selection only Axel Kohlmeyer (Mon Apr 16 2007 - 18:42:26 CDT)
Release of the R.E.D.-III tools FyD (Sun Apr 15 2007 - 05:22:35 CDT)
Where is the memory leakage? Guo Zhi (Sun Apr 15 2007 - 00:54:48 CDT)
- Re: Where is the memory leakage? John Stone (Sun Apr 15 2007 - 01:14:52 CDT)
  - Re: Where is the memory leakage? Guo Zhi (Sun Apr 15 2007 - 01:45:32 CDT)
winvmd error during calculation lanhua (Fri Apr 13 2007 - 23:17:54 CDT)
- Re: winvmd error during calculation John Stone (Sat Apr 14 2007 - 00:50:21 CDT)
- Re: winvmd error during calculation Axel Kohlmeyer (Sat Apr 14 2007 - 09:10:39 CDT)
GLSL rendering in VMD 1.8.6 Luis Rosales (Fri Apr 13 2007 - 20:18:23 CDT)
- Re: GLSL rendering in VMD 1.8.6 John Stone (Fri Apr 13 2007 - 22:09:35 CDT)
  - Re: GLSL rendering in VMD 1.8.6 Luis Rosales (Mon Apr 16 2007 - 17:40:35 CDT)
    - Re: GLSL rendering in VMD 1.8.6 John Stone (Tue Apr 17 2007 - 14:43:58 CDT)
.xyz to .dcd using catdcd Ekta Khurana (Fri Apr 13 2007 - 16:08:51 CDT)
- Re: .xyz to .dcd using catdcd Peter Freddolino (Fri Apr 13 2007 - 21:26:57 CDT)
  - Re: .xyz to .dcd using catdcd Ekta Khurana (Mon Apr 16 2007 - 14:34:47 CDT)
contact map (over all frames) amit dong (Fri Apr 13 2007 - 15:53:24 CDT)
- Re: contact map (over all frames) Peter Freddolino (Fri Apr 13 2007 - 21:25:24 CDT)
compile a plugin source code dbg (Fri Apr 13 2007 - 06:29:59 CDT)
VMD installation dbg (Fri Apr 13 2007 - 01:09:54 CDT)
- Re: VMD installation John Stone (Fri Apr 13 2007 - 10:38:45 CDT)
- Re: VMD installation Axel Kohlmeyer (Fri Apr 13 2007 - 09:40:07 CDT)
- Re: VMD installation George Madalin Giambasu (Fri Apr 13 2007 - 11:39:50 CDT)
sasa Myunggi Yi (Wed Apr 11 2007 - 21:42:25 CDT)
- Re: sasa Myunggi Yi (Thu Apr 12 2007 - 10:02:14 CDT)
  - Re: sasa John Stone (Thu Apr 12 2007 - 15:08:32 CDT)
  - Re: sasa John Stone (Tue Apr 17 2007 - 13:15:22 CDT)
mismatch between phi and pdb files Michael Widmann (Tue Apr 10 2007 - 03:07:52 CDT)
- Re: mismatch between phi and pdb files John Stone (Tue Apr 10 2007 - 08:34:19 CDT)
If I want to modify measure.C, what should I do? lanhua (Mon Apr 09 2007 - 15:59:18 CDT)
- Re: If I want to modify measure.C, what should I do? John Stone (Mon Apr 09 2007 - 16:52:50 CDT)
I'm sorry ... please ignore the junk !! Vlad Cojocaru (Mon Apr 09 2007 - 05:50:54 CDT)
Vlad has Tagged you! :) Vlad Cojocaru (Mon Apr 09 2007 - 05:06:39 CDT)
VMD 1.8.6 GLSL problem daniel aguayo (Mon Apr 09 2007 - 01:08:04 CDT)
- Re: VMD 1.8.6 GLSL problem John Stone (Mon Apr 09 2007 - 01:15:44 CDT)
  - Re: VMD 1.8.6 GLSL problem daniel aguayo (Tue Apr 10 2007 - 01:21:34 CDT)
1.8.6 install for Windows OpenGL (Microsoft Windows 2000/XP/Vista (32-bit) using OpenGL) Charles Cleveland (Sun Apr 08 2007 - 08:05:00 CDT)
- Re: 1.8.6 install for Windows OpenGL (Microsoft Windows 2000/XP/Vista (32-bit) using OpenGL) John Stone (Sun Apr 08 2007 - 11:26:33 CDT)
Announce: VMD 1.8.6 Released! John Stone (Sun Apr 08 2007 - 00:51:52 CDT)
GLSL rendering problems Nichols A. Romero (Thu Apr 05 2007 - 14:41:22 CDT)
- Re: GLSL rendering problems John Stone (Thu Apr 05 2007 - 14:55:13 CDT)
  - Re: GLSL rendering problems Nichols A. Romero (Thu Apr 05 2007 - 15:07:14 CDT)
    - Re: GLSL rendering problems John Stone (Thu Apr 05 2007 - 15:34:03 CDT)
Problem with Reading Binary ccp4 File Generated by CHARMM rossi_at_york.cuny.edu (Thu Apr 05 2007 - 11:32:02 CDT)
- Re: Problem with Reading Binary ccp4 File Generated by CHARMM John Stone (Thu Apr 05 2007 - 12:22:23 CDT)
  - Re: Problem with Reading Binary ccp4 File Generated by CHARMM Leonardo Trabuco (Thu Apr 05 2007 - 14:55:07 CDT)
    - Re: Problem with Reading Binary ccp4 File Generated by CHARMM rossi_at_york.cuny.edu (Thu Apr 05 2007 - 18:56:08 CDT)
how to connect chains using psfgen Philipp Schoen1 (Wed Apr 04 2007 - 09:49:10 CDT)
- Re: how to connect chains using psfgen Peter Freddolino (Wed Apr 04 2007 - 11:20:30 CDT)
using Grace instead of Multiplot Vlad Cojocaru (Wed Apr 04 2007 - 05:04:36 CDT)
- Re: using Grace instead of Multiplot John Stone (Wed Apr 04 2007 - 12:13:45 CDT)
surface max_density error Jim Fonseca (Tue Apr 03 2007 - 11:25:49 CDT)
- Re: surface max_density error John Stone (Tue Apr 03 2007 - 12:31:16 CDT)
  - Re: surface max_density error Jim Fonseca (Tue Apr 03 2007 - 15:38:41 CDT)
problem using NAMD trajectory in charmm 32-bit, 64-bit etc. (yes, I posted this on charmm lists too) namd vmd (Tue Apr 03 2007 - 07:49:45 CDT)
- Re: problem using NAMD trajectory in charmm 32-bit, 64-bit etc. (yes, I posted this on charmm lists too) Axel Kohlmeyer (Tue Apr 03 2007 - 09:20:25 CDT)
VMD for Win32 API based PC CAVE Michal Husak (Mon Apr 02 2007 - 08:00:34 CDT)
- Re: VMD for Win32 API based PC CAVE Martijn Kragtwijk (Mon Apr 02 2007 - 10:56:26 CDT)
  - Re: VMD for Win32 API based PC CAVE John Stone (Mon Apr 02 2007 - 11:57:45 CDT)
- Re: VMD for Win32 API based PC CAVE John Stone (Mon Apr 02 2007 - 11:55:34 CDT)
How do I overlap that specific nucletide between a protein and RNA? zhangh1_at_umbc.edu (Sat Mar 31 2007 - 08:43:07 CDT)
- Re: How do I overlap that specific nucletide between a protein and RNA? John Stone (Sun Apr 01 2007 - 23:07:46 CDT)
problem during movie making gadde suneetha (Fri Mar 30 2007 - 07:44:48 CDT)
Can anyone help me out with this script Jianhui Tian (Fri Mar 30 2007 - 14:49:45 CDT)
- Re: Can anyone help me out with this script John Stone (Sat Mar 31 2007 - 00:05:17 CDT)
  - Re: Can anyone help me out with this script Jianhui Tian (Sat Mar 31 2007 - 19:50:43 CDT)
    - Re: Can anyone help me out with this script John Stone (Sun Apr 01 2007 - 23:03:24 CDT)
'SURF' representation problem hl332_at_drexel.edu (Thu Mar 29 2007 - 16:04:02 CDT)
- Re: 'SURF' representation problem John Stone (Thu Mar 29 2007 - 16:10:43 CDT)
  - Re: 'SURF' representation problem hl332_at_drexel.edu (Thu Mar 29 2007 - 18:09:43 CDT)
python pro.align() Per Jr. Greisen (Thu Mar 29 2007 - 12:27:21 CDT)
- Re: python pro.align() John Stone (Thu Mar 29 2007 - 16:22:23 CDT)
dcd header information missing Nichols A. Romero (Thu Mar 29 2007 - 10:21:31 CDT)
- Re: dcd header information missing John Stone (Thu Mar 29 2007 - 11:03:17 CDT)
  - Re: dcd header information missing Nichols A. Romero (Sat Mar 31 2007 - 18:11:30 CDT)
Moving volume data with molecule Avell Diroll (Thu Mar 29 2007 - 10:05:40 CDT)
- Re: Moving volume data with molecule John Stone (Thu Mar 29 2007 - 11:31:05 CDT)
  - Re: Moving volume data with molecule Avell Diroll (Thu Mar 29 2007 - 11:59:01 CDT)
how to view the dynamics in power point presentation gadde suneetha (Thu Mar 29 2007 - 06:25:29 CDT)
- Re: how to view the dynamics in power point presentation John Stone (Thu Mar 29 2007 - 11:43:52 CDT)
assigning variable names using a for loop namd vmd (Thu Mar 29 2007 - 03:21:45 CDT)
- Re: assigning variable names using a for loop Olaf Lenz (Thu Mar 29 2007 - 04:38:08 CDT)
doubts in movie making using vmd. gadde suneetha (Wed Mar 28 2007 - 19:05:05 CDT)
- Re: doubts in movie making using vmd. Axel Kohlmeyer (Wed Mar 28 2007 - 21:47:12 CDT)
  - Re: doubts in movie making using vmd. John Stone (Wed Mar 28 2007 - 21:52:17 CDT)
New VMD 1.8.6b15 installer for Windows XP x64... John Stone (Wed Mar 28 2007 - 18:17:29 CDT)
[vmd-l] Graduate assistanship in Bioinformatics at NCSA Gloria Rendon (Wed Mar 28 2007 - 17:45:25 CDT)
ion 'channel axis' Adrian Kaats (Wed Mar 28 2007 - 15:55:17 CDT)
Re: GAMESS plugin bus error Ralph Jimenez (Wed Mar 28 2007 - 15:11:17 CDT)
How to make a movie in VMD using principle component analysis gadde suneetha (Wed Mar 28 2007 - 07:42:56 CDT)
- Re: How to make a movie in VMD using principle component analysis John Stone (Wed Mar 28 2007 - 14:43:14 CDT)
write trajectory of selected atoms namd vmd (Wed Mar 28 2007 - 09:51:28 CDT)
- Re: write trajectory of selected atoms Peter Freddolino (Wed Mar 28 2007 - 10:03:01 CDT)
  - Re: write trajectory of selected atoms Peter Freddolino (Wed Mar 28 2007 - 10:04:03 CDT)
Plugin Issue James Keener (Wed Mar 28 2007 - 09:45:18 CDT)
- Re: Plugin Issue John Stone (Wed Mar 28 2007 - 11:13:06 CDT)
  - Re: Plugin Issue John Stone (Sat Mar 31 2007 - 00:19:20 CDT)
- Re: Plugin Issue Luis Gracia (Wed Mar 28 2007 - 13:14:40 CDT)
FW: rdf using gui syma (Tue Mar 27 2007 - 16:49:06 CDT)
rdf using gui syma (Tue Mar 27 2007 - 16:18:57 CDT)
- Re: rdf using gui Axel Kohlmeyer (Tue Mar 27 2007 - 16:44:09 CDT)
  - vmd in ubuntu on mac mini Syma Khalid (Sat Dec 29 2007 - 13:48:45 CST)
    - Re: vmd in ubuntu on mac mini John Stone (Fri Jan 04 2008 - 12:40:13 CST)
dynamic bonding Zheng Hu (Tue Mar 27 2007 - 14:21:02 CDT)
- Re: dynamic bonding John Stone (Tue Mar 27 2007 - 15:39:26 CDT)
- Re: dynamic bonding Axel Kohlmeyer (Tue Mar 27 2007 - 15:48:22 CDT)
representation selection funnies Fred Moore (Tue Mar 27 2007 - 14:06:21 CDT)
- Re: representation selection funnies John Stone (Tue Mar 27 2007 - 14:25:01 CDT)
  - Re: representation selection funnies John Stone (Wed Mar 28 2007 - 22:25:26 CDT)
problem creating psf lucie huynh (Tue Mar 27 2007 - 09:54:08 CDT)
- Re: problem creating psf John Stone (Tue Mar 27 2007 - 10:34:31 CDT)
  - Re: problem creating psf lucie huynh (Wed Mar 28 2007 - 03:59:47 CDT)
    - Re: problem creating psf John Stone (Wed Mar 28 2007 - 22:27:50 CDT)
    - Re: problem creating psf lucie huynh (Thu Mar 29 2007 - 03:24:01 CDT)
- Re: problem creating psf Peter Freddolino (Tue Mar 27 2007 - 10:45:00 CDT)
hbond calculation alexandra.marques_at_fc.up.pt (Mon Mar 26 2007 - 15:49:19 CDT)
- Re: hbond calculation Peter Freddolino (Mon Mar 26 2007 - 16:00:10 CDT)
PBCTools Plugin Zheng Hu (Mon Mar 26 2007 - 15:14:50 CDT)
- Re: PBCTools Plugin John Stone (Mon Mar 26 2007 - 15:56:23 CDT)
mol load and mol addfile Jianhui Tian (Mon Mar 26 2007 - 15:43:20 CDT)
- Re: mol load and mol addfile Axel Kohlmeyer (Mon Mar 26 2007 - 16:33:51 CDT)
hbond analysis jacopo.sgrignani_at_unifi.it (Sat Mar 24 2007 - 11:03:24 CDT)
- Re: hbond analysis John Stone (Sat Mar 24 2007 - 11:13:25 CDT)
can't read pdb file Mary Lowe (Fri Mar 23 2007 - 21:40:18 CDT)
- Re: can't read pdb file John Stone (Sat Mar 24 2007 - 00:52:55 CDT)
  - Re: can't read pdb file Mary Lowe (Sun Mar 25 2007 - 08:26:31 CDT)
windows version of VMD Zheng Hu (Fri Mar 23 2007 - 16:35:29 CDT)
- Re: windows version of VMD John Stone (Fri Mar 23 2007 - 17:17:31 CDT)
  - Re: windows version of VMD zsinkala_at_mtsu.edu (Mon Mar 26 2007 - 07:21:19 CDT)
    - Re: windows version of VMD John Stone (Mon Mar 26 2007 - 11:57:37 CDT)
- Re: windows version of VMD Zheng Hu (Sat Mar 24 2007 - 16:39:43 CDT)
  - Re: Re: windows version of VMD John Stone (Sat Mar 24 2007 - 17:06:09 CDT)
- Re: windows version of VMD Zheng Hu (Sat Mar 24 2007 - 17:03:27 CDT)
  - Re: Re: windows version of VMD John Stone (Sat Mar 24 2007 - 17:11:33 CDT)
- Re: windows version of VMD Zheng Hu (Sun Mar 25 2007 - 15:19:48 CDT)
  - Re: Re: windows version of VMD Axel Kohlmeyer (Sun Mar 25 2007 - 16:46:41 CDT)
- Re: windows version of VMD Zheng Hu (Mon Apr 09 2007 - 00:20:11 CDT)
  - Re: Re: windows version of VMD John Stone (Mon Apr 09 2007 - 01:01:35 CDT)
hbond jacopo.sgrignani_at_unifi.it (Fri Mar 23 2007 - 13:29:57 CDT)
- Re: hbond John Stone (Fri Mar 23 2007 - 14:08:04 CDT)
script to visualize NMR constrains? Marcela Madrid (Fri Mar 23 2007 - 13:45:46 CDT)
- Re: script to visualize NMR constrains? John Stone (Fri Mar 23 2007 - 14:06:02 CDT)
coloring names Fred Moore (Fri Mar 23 2007 - 13:24:37 CDT)
- Re: coloring names John Stone (Fri Mar 23 2007 - 14:01:05 CDT)
Draw a circle Abi Ghanem josephine (Fri Mar 23 2007 - 09:47:12 CDT)
- Re: Draw a circle John Stone (Fri Mar 23 2007 - 10:25:36 CDT)
visualizing NMR constrains Marcela Madrid (Thu Mar 22 2007 - 17:14:37 CDT)
- Re: visualizing NMR constrains John Stone (Thu Mar 22 2007 - 21:06:20 CDT)
- Re: visualizing NMR constrains Nuno Loureiro Ferreira (Fri Mar 23 2007 - 09:29:41 CDT)
colors Luc Moulinier (Thu Mar 22 2007 - 03:55:26 CDT)
- Re: colors John Stone (Thu Mar 22 2007 - 10:00:06 CDT)
How to superimpose trajectories Kailee (Wed Mar 21 2007 - 09:14:33 CDT)
- Re: How to superimpose trajectories John Stone (Wed Mar 21 2007 - 15:26:20 CDT)
  - Re: How to superimpose trajectories John Stone (Wed Mar 21 2007 - 15:33:56 CDT)
    - Re: How to superimpose trajectories Kailee (Thu Mar 22 2007 - 10:04:44 CDT)
    - Re: How to superimpose trajectories John Stone (Thu Mar 22 2007 - 10:46:08 CDT)
Replica exchange molecular dynamics (REMD) Arindam Ganguly (Tue Mar 20 2007 - 21:22:15 CDT)
- Re: Replica exchange molecular dynamics (REMD) Peter Freddolino (Tue Mar 20 2007 - 22:02:58 CDT)
graphic update Myunggi Yi (Tue Mar 20 2007 - 20:09:06 CDT)
- Re: graphic update John Stone (Tue Mar 20 2007 - 20:40:09 CDT)
  - Re: graphic update Myunggi Yi (Tue Mar 20 2007 - 20:43:59 CDT)
    - Re: graphic update Myunggi Yi (Tue Mar 20 2007 - 22:08:32 CDT)
    - Re: graphic update John Stone (Tue Mar 20 2007 - 22:33:34 CDT)
Any way to output contact map data Guo Zhi (Tue Mar 20 2007 - 09:18:03 CDT)
- Re: Any way to output contact map data John Stone (Wed Mar 21 2007 - 01:42:15 CDT)
  - Re: Any way to output contact map data Guo Zhi (Wed Mar 21 2007 - 03:32:37 CDT)
  - Re: Any way to output contact map data Luis Gracia (Wed Mar 21 2007 - 11:12:32 CDT)
calculating distance between center of geometry/mass of methyl hydrogens for all residue pairs Zu Thur Yew (Mon Mar 19 2007 - 18:48:41 CDT)
Scripting problem with h-bond listing Sanjeev (Sun Mar 18 2007 - 01:30:53 CDT)
- Re: Scripting problem with h-bond listing John Stone (Sun Mar 18 2007 - 01:54:15 CDT)
  - Re: Re: Scripting problem with h-bond listing Sanjeev (Sun Mar 18 2007 - 14:16:42 CDT)
    - Re: Re: Scripting problem with h-bond listing Axel Kohlmeyer (Sun Mar 18 2007 - 15:03:09 CDT)
    - Re: Re: Re: Scripting problem with h-bond listing Sanjeev (Mon Mar 19 2007 - 04:36:05 CDT)
question about gofr lanhua (Sat Mar 17 2007 - 14:30:31 CDT)
- Re: question about gofr Axel Kohlmeyer (Sat Mar 17 2007 - 15:48:44 CDT)
Question about overlaying structures Kara Di Giorgio (Thu Mar 15 2007 - 21:16:26 CDT)
- Re: Question about overlaying structures John Stone (Thu Mar 15 2007 - 22:16:12 CDT)
  - Need helps about connecting phantom with VMD through VRPN preeda (Mon Mar 19 2007 - 09:30:43 CDT)
    - Re: Need helps about connecting phantom with VMD through VRPN John Stone (Mon Mar 19 2007 - 10:08:54 CDT)
  - Re: Question about overlaying structures Kara Di Giorgio (Tue Mar 27 2007 - 12:30:06 CDT)
    - Re: Question about overlaying structures John Stone (Tue Mar 27 2007 - 13:06:33 CDT)
OmpF biological unit Adrian Kaats (Thu Mar 15 2007 - 18:58:17 CDT)
- Re: OmpF biological unit John Stone (Mon Mar 19 2007 - 11:29:09 CDT)
export Ramachandran datas Jianhui Tian (Thu Mar 15 2007 - 16:16:21 CDT)
- Re: export Ramachandran datas John Stone (Thu Mar 15 2007 - 16:23:28 CDT)
  - Re: export Ramachandran datas Jianhui Tian (Thu Mar 15 2007 - 17:11:27 CDT)
Scripts to unwrap PBC from REMD trajectory Bob Johnson (Thu Mar 15 2007 - 16:08:50 CDT)
- Re: Scripts to unwrap PBC from REMD trajectory Olaf Lenz (Fri Mar 16 2007 - 02:52:57 CDT)
- Re: Scripts to unwrap PBC from REMD trajectory Olaf Lenz (Fri Mar 16 2007 - 03:57:59 CDT)
  - Re: Scripts to unwrap PBC from REMD trajectory Bob Johnson (Fri Mar 16 2007 - 09:05:18 CDT)
AutoPSF lily jin (Thu Mar 15 2007 - 15:23:32 CDT)
- Re: AutoPSF Peter Freddolino (Thu Mar 15 2007 - 15:29:05 CDT)
Average structure Per Jr. Greisen (Thu Mar 15 2007 - 14:14:20 CDT)
- Re: Average structure Peter Freddolino (Thu Mar 15 2007 - 14:39:21 CDT)
manually creating frames for VMD yalini.pathy_at_yale.edu (Wed Mar 14 2007 - 17:11:58 CDT)
- Re: manually creating frames for VMD Peter Freddolino (Wed Mar 14 2007 - 20:46:49 CDT)
Measuring specific distances over a trajectory Patrick Wintrode (Wed Mar 14 2007 - 16:06:30 CDT)
- Re: Measuring specific distances over a trajectory John Stone (Wed Mar 14 2007 - 16:56:18 CDT)
molecule orientation in saved state Subramanian Vaitheeswaran (Wed Mar 14 2007 - 12:21:53 CDT)
- Re: molecule orientation in saved state John Stone (Thu Mar 15 2007 - 13:40:07 CDT)
how to set atom index Guo Zhi (Wed Mar 14 2007 - 10:33:57 CDT)
- Re: how to set atom index John Stone (Thu Mar 15 2007 - 13:20:12 CDT)
  - Re: how to set atom index Guo Zhi (Thu Mar 15 2007 - 19:51:04 CDT)
VMD 1.8.6b binaries for win32? Jacob Poehlsgaard (Wed Mar 14 2007 - 10:14:45 CDT)
- Re: VMD 1.8.6b binaries for win32? John Stone (Wed Mar 14 2007 - 17:08:48 CDT)
  - Re: VMD 1.8.6b binaries for win32? John Stone (Thu Mar 15 2007 - 18:48:14 CDT)
Calculate End-End distance for DCD Jianhui Tian (Tue Mar 13 2007 - 15:17:00 CDT)
- RE: Calculate End-End distance for DCD Ana Celia Araujo Vila Verde (Tue Mar 13 2007 - 16:17:48 CDT)
Problems running APBS Per Jr. Greisen (Tue Mar 13 2007 - 13:32:04 CDT)
- Re: Problems running APBS John Stone (Tue Mar 13 2007 - 13:44:45 CDT)
  - Re: Problems running APBS John Stone (Tue Mar 13 2007 - 14:32:22 CDT)
NAMD Energy - Hexagonal Cell Alessandro Cembran (Mon Mar 12 2007 - 18:10:14 CDT)
- Re: NAMD Energy - Hexagonal Cell John Stone (Thu Mar 15 2007 - 14:03:48 CDT)
ed and vmd Nadine Utz (Abt. Koslowski) (Mon Mar 12 2007 - 12:58:49 CDT)
- Re: ed and vmd John Stone (Mon Mar 12 2007 - 17:23:24 CDT)
vmd on core 2 duo matteus.lindgren_at_chem.umu.se (Mon Mar 12 2007 - 03:26:30 CDT)
- Re: vmd on core 2 duo John Stone (Mon Mar 12 2007 - 09:21:47 CDT)
How to specify the orientation of the molecule zhangh1_at_umbc.edu (Sun Mar 11 2007 - 19:39:45 CDT)
- Re: How to specify the orientation of the molecule John Stone (Mon Mar 12 2007 - 20:44:34 CDT)
  - Re: How to specify the orientation of the molecule zhangh1_at_umbc.edu (Tue Mar 13 2007 - 10:23:37 CDT)
Movie Maker: How to specify use of trajectory in the movie script file Shatadal Ghosh (Sat Mar 10 2007 - 01:43:42 CST)
- Re: Movie Maker: How to specify use of trajectory in the movie script file John Stone (Mon Mar 12 2007 - 20:56:51 CDT)
VolumeSlices Pawel Wielgus (Fri Mar 09 2007 - 09:27:17 CST)
- Re: VolumeSlices John Stone (Fri Mar 09 2007 - 09:42:39 CST)
  - Re: VolumeSlices Pawel Wielgus (Fri Mar 09 2007 - 09:54:26 CST)
- Re: VolumeSlices Pawel Wielgus (Tue Mar 13 2007 - 08:07:38 CDT)
  - Re: Re: VolumeSlices John Stone (Tue Mar 13 2007 - 10:21:19 CDT)
VMD_orient pkmukher (Thu Mar 08 2007 - 21:36:49 CST)
- Re: VMD_orient John Stone (Fri Mar 23 2007 - 14:30:22 CDT)
Memory problems with Multiseq Marcelo Puiatti (Thu Mar 08 2007 - 17:21:27 CST)
- Re: Memory problems with Multiseq John Stone (Thu Mar 08 2007 - 17:38:50 CST)
VMD Rex Palmer (Thu Mar 08 2007 - 05:29:14 CST)
- Re: VMD John Stone (Sun Mar 11 2007 - 18:49:02 CDT)
OpenGL problem Rene Salmon (Tue Mar 06 2007 - 16:03:19 CST)
- Re: OpenGL problem John Stone (Tue Mar 06 2007 - 16:17:15 CST)
DCD for windows lily jin (Tue Mar 06 2007 - 15:25:40 CST)
- Re: DCD for windows John Stone (Tue Mar 06 2007 - 16:20:27 CST)
  - Re: DCD for windows John Stone (Mon Mar 12 2007 - 01:15:22 CDT)
- Re: namd-l: DCD for windows Gianluca Interlandi (Tue Mar 06 2007 - 17:32:09 CST)
Locating channel using hole Subramanian Vaitheeswaran (Tue Mar 06 2007 - 12:11:23 CST)
- Re: Locating channel using hole John Stone (Tue Mar 06 2007 - 12:43:42 CST)
  - Re: Locating channel using hole daniel aguayo (Tue Mar 06 2007 - 14:28:24 CST)
  - Re: Locating channel using hole John Stone (Wed Mar 07 2007 - 13:26:41 CST)
unusual residue type problem.. hl332_at_drexel.edu (Tue Mar 06 2007 - 11:38:08 CST)
- Re: unusual residue type problem.. John Stone (Tue Mar 06 2007 - 12:52:25 CST)
  - Re: unusual residue type problem.. hl332_at_drexel.edu (Tue Mar 06 2007 - 14:24:17 CST)
    - Re: unusual residue type problem.. John Stone (Wed Mar 07 2007 - 13:34:35 CST)
Re: Where to find cholesterol ester in PDB format Peter Engelhardt (Tue Mar 06 2007 - 03:56:26 CST)
Configuration file Rita Cassia (Tue Mar 06 2007 - 06:37:47 CST)
- Re: Configuration file John Stone (Tue Mar 06 2007 - 10:02:47 CST)
BPS Meeting @ Baltimore bora erdemli (Mon Mar 05 2007 - 19:16:40 CST)
- Re: BPS Meeting @ Baltimore Peter Freddolino (Thu Mar 08 2007 - 07:07:25 CST)
  - Re: BPS Meeting @ Baltimore L. Michel Espinoza-Fonseca (Thu Mar 08 2007 - 09:40:16 CST)
read the pdb file using VMD Esther Brugger (Mon Mar 05 2007 - 17:00:36 CST)
- Re: read the pdb file using VMD Axel Kohlmeyer (Tue Mar 06 2007 - 01:30:16 CST)
  - Re: read the pdb file using VMD Avell Diroll (Wed Mar 07 2007 - 17:39:38 CST)
vmd core dump on IRIX Rene Salmon (Mon Mar 05 2007 - 16:16:01 CST)
- Re: vmd core dump on IRIX John Stone (Mon Mar 05 2007 - 16:30:10 CST)
- Re: vmd core dump on IRIX Rene Salmon (Tue Mar 06 2007 - 10:18:18 CST)
reading charmm files Grazia Daminelli (Mon Mar 05 2007 - 07:48:22 CST)
- Re: reading charmm files Axel Kohlmeyer (Mon Mar 05 2007 - 08:27:12 CST)
- Re: reading charmm files George Madalin Giambasu (Mon Mar 05 2007 - 08:57:11 CST)
  - Re: reading charmm files Axel Kohlmeyer (Mon Mar 05 2007 - 11:56:34 CST)
New Molecule (or Load Data) resets viewpoint of Display. Why? Rob (Sun Mar 04 2007 - 21:27:14 CST)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? Axel Kohlmeyer (Mon Mar 05 2007 - 05:24:25 CST)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? John Stone (Mon Mar 05 2007 - 17:06:29 CST)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? Rob (Tue Mar 06 2007 - 03:28:56 CST)
  - Re: Re: New Molecule (or Load Data) resets viewpoint of Display. Why? John Stone (Wed Mar 07 2007 - 16:41:04 CST)
E-D stereo glasses aneamtu_at_iasi.mednet.ro (Sat Mar 03 2007 - 04:44:51 CST)
- Re: E-D stereo glasses John Stone (Sat Mar 03 2007 - 14:09:22 CST)
Compiling VMD from source on SDSC Datastar (AIX 5.2) Philip Blood (Fri Mar 02 2007 - 17:09:25 CST)
- Re: Compiling VMD from source on SDSC Datastar (AIX 5.2) John Stone (Fri Mar 02 2007 - 17:15:22 CST)
  - Re: Compiling VMD from source on SDSC Datastar (AIX 5.2) Philip Blood (Fri Mar 02 2007 - 18:14:23 CST)
vmd/gaussian cubes Adrian Roitberg (Fri Mar 02 2007 - 10:11:08 CST)
- Re: vmd/gaussian cubes Axel Kohlmeyer (Fri Mar 02 2007 - 11:48:20 CST)
Calculating dipole moment of protein Per Jr. Greisen (Fri Mar 02 2007 - 06:26:23 CST)
- Re: Calculating dipole moment of protein Axel Kohlmeyer (Fri Mar 02 2007 - 07:41:25 CST)
Updating atomselection from frame to frame Jawahar Neelankatan (Fri Mar 02 2007 - 06:19:38 CST)
- Re: Updating atomselection from frame to frame Cesar Luis Avila (Fri Mar 02 2007 - 07:32:01 CST)
  - Re: Updating atomselection from frame to frame Axel Kohlmeyer (Fri Mar 02 2007 - 08:27:07 CST)
    - Re: Updating atomselection from frame to frame Cesar Luis Avila (Fri Mar 02 2007 - 08:59:48 CST)
- Re: Updating atomselection from frame to frame Axel Kohlmeyer (Fri Mar 02 2007 - 07:32:00 CST)
  - Re: Atomselection in NAMDENERGY Jawahar Neelankatan (Fri Mar 02 2007 - 08:09:27 CST)
    - Re: Atomselection in NAMDENERGY Axel Kohlmeyer (Fri Mar 02 2007 - 08:31:54 CST)
Colouring Atoms according to the centro-symmetric parameter Epiphaniou, Nicholas (Thu Mar 01 2007 - 12:59:00 CST)
- Re: Colouring Atoms according to the centro-symmetric parameter Axel Kohlmeyer (Thu Mar 01 2007 - 13:45:36 CST)
Transform pdb files in psf files using VMD Inês Sousa (Thu Mar 01 2007 - 04:35:44 CST)
- Re: Transform pdb files in psf files using VMD Peter Freddolino (Thu Mar 01 2007 - 09:27:28 CST)
- Re: Transform pdb files in psf files using VMD Peter Freddolino (Thu Mar 01 2007 - 15:05:51 CST)
convert tcl to python Per Jr. Greisen (Thu Mar 01 2007 - 05:54:18 CST)
- Re: convert tcl to python Peter Freddolino (Thu Mar 01 2007 - 09:28:55 CST)
calculation of free energy between lipid membrane and protein Shulin Zhuang (Thu Mar 01 2007 - 00:17:25 CST)
- Re: calculation of free energy between lipid membrane and protein Shulin Zhuang (Thu Mar 01 2007 - 01:11:10 CST)
  - Re: calculation of free energy between lipid membrane and protein Axel Kohlmeyer (Thu Mar 01 2007 - 11:40:00 CST)
Delete Volume Maps via Script Bob Johnson (Wed Feb 28 2007 - 18:36:43 CST)
- Re: Delete Volume Maps via Script John Stone (Tue Mar 06 2007 - 14:47:07 CST)
morph christopher (Wed Feb 28 2007 - 16:18:48 CST)
- Re: morph John Stone (Wed Mar 07 2007 - 16:43:29 CST)
count variable number of molecules Alexandr Isayev (Wed Feb 28 2007 - 14:23:11 CST)
- Re: count variable number of molecules John Stone (Wed Mar 07 2007 - 16:45:56 CST)
multiple dx frames Jim Fonseca (Wed Feb 28 2007 - 13:49:12 CST)
- Re: multiple dx frames Leonardo Trabuco (Wed Feb 28 2007 - 14:16:32 CST)
- Re: multiple dx frames Axel Kohlmeyer (Wed Feb 28 2007 - 14:42:34 CST)
  - Re: multiple dx frames Leonardo Trabuco (Wed Feb 28 2007 - 14:51:16 CST)
Calculate VolMap for every frame by a script Bob Johnson (Tue Feb 27 2007 - 16:21:12 CST)
- Re: Calculate VolMap for every frame by a script Axel Kohlmeyer (Tue Feb 27 2007 - 17:25:16 CST)
VMD open GL Display problem Ayþe Özlem Sezerman (Tue Feb 27 2007 - 06:52:19 CST)
- Re: VMD open GL Display problem L. Michel Espinoza-Fonseca (Tue Feb 27 2007 - 10:06:26 CST)
  - Re: VMD open GL Display problem christopher (Tue Feb 27 2007 - 10:52:51 CST)
    - Re: VMD open GL Display problem John Stone (Tue Feb 27 2007 - 11:20:36 CST)
    - Re: VMD open GL Display problem Axel Kohlmeyer (Tue Feb 27 2007 - 11:43:12 CST)
Cave and usr keys defined in tcl Christian Wohlschlager (Tue Feb 27 2007 - 05:46:38 CST)
- Re: Cave and usr keys defined in tcl John Stone (Wed Feb 28 2007 - 00:00:22 CST)
rmsf calculations bora erdemli (Tue Feb 27 2007 - 01:42:25 CST)
- Re: rmsf calculations L. Michel Espinoza-Fonseca (Tue Feb 27 2007 - 05:51:47 CST)
bug report in VMD 1.8.5 Nichols A. Romero (Mon Feb 26 2007 - 16:24:53 CST)
- Re: bug report in VMD 1.8.5 Nichols A. Romero (Mon Feb 26 2007 - 16:28:41 CST)
  - Re: Re: bug report in VMD 1.8.5 John Stone (Mon Feb 26 2007 - 16:41:14 CST)
  - Re: Re: bug report in VMD 1.8.5 Axel Kohlmeyer (Mon Feb 26 2007 - 17:26:38 CST)
- Re: bug report in VMD 1.8.5 Jerome Henin (Mon Feb 26 2007 - 19:32:29 CST)
lipid headgroup analysis syma (Mon Feb 26 2007 - 04:38:35 CST)
Tracing VMD variables Olaf Lenz (Mon Feb 26 2007 - 08:10:03 CST)
- Re: Tracing VMD variables John Stone (Tue Feb 27 2007 - 13:31:21 CST)
  - Re: Tracing VMD variables Olaf Lenz (Wed Feb 28 2007 - 00:30:35 CST)
IC from paratool Grazia Daminelli (Mon Feb 26 2007 - 02:35:27 CST)
- Re: IC from paratool Jan Saam (Fri Mar 02 2007 - 12:41:59 CST)
Question about RDF of VMD Jianhui Tian (Sat Feb 24 2007 - 20:33:13 CST)
- Re: Question about RDF of VMD Axel Kohlmeyer (Sat Feb 24 2007 - 21:25:14 CST)
"get {x y z}" returns single value Ivan Degtyarenko (Fri Feb 23 2007 - 10:18:16 CST)
- Re: "get {x y z}" returns single value Axel Kohlmeyer (Fri Feb 23 2007 - 11:10:04 CST)
- Re: "get {x y z}" returns single value Olaf Lenz (Fri Feb 23 2007 - 11:16:30 CST)
transparent background in vmd Omololu (Fri Feb 23 2007 - 10:11:24 CST)
- Re: transparent background in vmd Axel Kohlmeyer (Fri Feb 23 2007 - 10:49:56 CST)
Number of Frames in VMD Rita Cassia (Fri Feb 23 2007 - 07:48:39 CST)
- Re: Number of Frames in VMD Axel Kohlmeyer (Fri Feb 23 2007 - 09:05:15 CST)
Same pdb file, different image Hai-Jun Su (Thu Feb 22 2007 - 22:11:27 CST)
- Re: Same pdb file, different image Leonardo Trabuco (Thu Feb 22 2007 - 23:44:37 CST)
- Re: Same pdb file, different image hamdi (Fri Feb 23 2007 - 03:02:57 CST)
cube file: coordinates rotated Yaser Khan (Wed Feb 21 2007 - 20:05:32 CST)
- Re: cube file: coordinates rotated Axel Kohlmeyer (Thu Feb 22 2007 - 09:07:28 CST)
(no subject) Stephen M. Dutz (Wed Feb 21 2007 - 15:40:45 CST)
Nanopore simulation subhasish chatterjee (Tue Feb 20 2007 - 21:58:54 CST)
- Re: namd-l: Nanopore simulation Mark Abraham (Tue Feb 20 2007 - 22:14:46 CST)
  - Re: Re: namd-l: Nanopore simulation subhasish chatterjee (Tue Feb 20 2007 - 23:54:32 CST)
  - Re: Re: namd-l: Nanopore simulation subhasish chatterjee (Wed Feb 21 2007 - 00:00:07 CST)
    - Re: Re: namd-l: Nanopore simulation Axel Kohlmeyer (Wed Feb 21 2007 - 12:06:08 CST)
    - Re: Re: namd-l: Nanopore simulation subhasish chatterjee (Wed Feb 21 2007 - 22:58:18 CST)
superimposing two structures and getting the coordinates bertrand russell (Tue Feb 20 2007 - 11:52:03 CST)
- Re: superimposing two structures and getting the coordinates Cesar Luis Avila (Tue Feb 20 2007 - 12:43:52 CST)
  - Re: superimposing two structures and getting the coordinates John Stone (Tue Feb 20 2007 - 12:56:53 CST)
    - Re: superimposing two structures and getting the coordinates Brian Bennion (Tue Feb 20 2007 - 14:44:17 CST)
    - Re: superimposing two structures and getting the coordinates Cesar Luis Avila (Tue Feb 20 2007 - 14:52:36 CST)
Isosurface rendering Avell Diroll (Tue Feb 20 2007 - 08:52:35 CST)
- Re: Isosurface rendering John Stone (Tue Feb 20 2007 - 10:44:36 CST)
  - Re: Isosurface rendering John Stone (Tue Feb 20 2007 - 12:53:21 CST)
Fwd: generating COORDINATE FILES PREETA DATTA (Tue Feb 20 2007 - 07:22:53 CST)
generating PREETA DATTA (Tue Feb 20 2007 - 07:19:13 CST)
- Re: generating Axel Kohlmeyer (Tue Feb 20 2007 - 09:05:44 CST)
  - Re: generating PREETA DATTA (Tue Feb 20 2007 - 14:30:11 CST)
    - Re: generating Axel Kohlmeyer (Tue Feb 20 2007 - 14:45:27 CST)
a question about paratool Javaria Ahmad (Tue Feb 20 2007 - 06:35:52 CST)
- Re: a question about paratool Jan Saam (Thu Feb 22 2007 - 18:43:57 CST)
syntax error in com file Javaria Ahmad (Tue Feb 20 2007 - 06:15:49 CST)
PC-gamess Per Jr. Greisen (Tue Feb 20 2007 - 05:02:45 CST)
- Re: PC-gamess Ran Friedman (Tue Feb 20 2007 - 08:33:27 CST)
  - Re: PC-gamess Ran Friedman (Tue Feb 20 2007 - 11:24:32 CST)
- Re: PC-gamess John Stone (Tue Feb 20 2007 - 10:55:57 CST)
Anyone have cyclic structures I can use for testing? John Stone (Tue Feb 20 2007 - 01:28:29 CST)
- generating COORDINATE FILES PREETA DATTA (Tue Feb 20 2007 - 05:48:41 CST)
Files closing/Memory issues in VMD Alexander Balaeff (Mon Feb 19 2007 - 14:03:54 CST)
- Re: Files closing/Memory issues in VMD John Stone (Mon Feb 19 2007 - 17:30:16 CST)
Research Position Openings Mike Smith (Sun Feb 18 2007 - 03:45:19 CST)
hbonds problem alexandra.marques_at_fc.up.pt (Sat Feb 17 2007 - 17:52:45 CST)
- Re: hbonds problem JC Gumbart (Sat Feb 17 2007 - 19:57:17 CST)
Strange MOL2 export Mario Valle (Sat Feb 17 2007 - 12:21:42 CST)
- Re: Strange MOL2 export Peter Freddolino (Sat Feb 17 2007 - 15:36:45 CST)
  - Re: Strange MOL2 export Mario Valle (Mon Feb 19 2007 - 09:12:33 CST)
    - Re: Strange MOL2 export Peter Freddolino (Mon Feb 19 2007 - 09:55:24 CST)
Small annoyance with tachion Mario Valle (Sat Feb 17 2007 - 11:34:46 CST)
- Re: Small annoyance with tachion John Stone (Sat Feb 17 2007 - 12:22:25 CST)
- Re: Small annoyance with tachion John Stone (Sun Feb 18 2007 - 20:45:22 CST)
- Re: Small annoyance with tachion John Stone (Wed Feb 21 2007 - 17:27:18 CST)
  - Re: Small annoyance with tachion Mario Valle (Mon Feb 26 2007 - 22:19:28 CST)
  - Re: Small annoyance with tachion Mario Valle (Tue Feb 27 2007 - 03:30:35 CST)
stereo view Osmany Guirola Cruz (Fri Feb 16 2007 - 14:06:43 CST)
- Re: stereo view John Stone (Fri Feb 16 2007 - 17:53:08 CST)
building bilayer with DOPC or other lipids PREETA DATTA (Fri Feb 16 2007 - 04:29:41 CST)
Measure atoms volume on VMD Cesar Luis Avila (Thu Feb 15 2007 - 15:27:53 CST)
- Re: Measure atoms volume on VMD John Stone (Thu Feb 15 2007 - 23:02:17 CST)
3D grid data to 2D contour? Ivan Degtyarenko (Thu Feb 15 2007 - 15:04:05 CST)
- Re: 3D grid data to 2D contour? John Stone (Tue Feb 20 2007 - 02:04:57 CST)
problem with autopsf L. Michel Espinoza-Fonseca (Thu Feb 15 2007 - 07:44:18 CST)
- Re: problem with autopsf Peter Freddolino (Thu Feb 15 2007 - 08:11:49 CST)
  - Re: problem with autopsf L. Michel Espinoza-Fonseca (Thu Feb 15 2007 - 08:16:06 CST)
    - Re: problem with autopsf Peter Freddolino (Thu Feb 15 2007 - 08:20:20 CST)
TCl question: preventing STDOUT namd vmd (Thu Feb 15 2007 - 05:59:50 CST)
- Re: TCl question: preventing STDOUT Axel Kohlmeyer (Thu Feb 15 2007 - 06:37:36 CST)
aligning one molecule s.schweizer_at_dkfz-heidelberg.de (Wed Feb 14 2007 - 08:47:41 CST)
- Re: aligning one molecule Himanshu Khandelia (Wed Feb 14 2007 - 17:30:18 CST)
Bug in the tcl script greddy1_at_umd.edu (Tue Feb 13 2007 - 13:18:58 CST)
- Re: Bug in the tcl script John Stone (Thu Feb 15 2007 - 22:44:32 CST)
GL window offset problem christopher (Mon Feb 12 2007 - 15:09:55 CST)
- Re: GL window offset problem John Stone (Thu Feb 15 2007 - 13:05:37 CST)
average structure dimka (Mon Feb 12 2007 - 13:42:33 CST)
- Re: average structure Eduard Schreiner (Tue Feb 13 2007 - 06:52:21 CST)
aligning molecules with different number of atoms namd vmd (Mon Feb 12 2007 - 11:53:49 CST)
- Re: aligning molecules with different number of atoms JC Gumbart (Mon Feb 12 2007 - 11:58:12 CST)
  - Re: aligning molecules with different number of atoms John Stone (Mon Feb 12 2007 - 12:01:58 CST)
  - Re: aligning molecules with different number of atoms Leandro Martínez (Mon Feb 12 2007 - 12:39:29 CST)
- Re: aligning molecules with different number of atoms Leonardo Trabuco (Mon Feb 12 2007 - 12:05:28 CST)
ionize (big, big, big system!) L. Michel Espinoza-Fonseca (Mon Feb 12 2007 - 10:58:32 CST)
- Re: ionize (big, big, big system!) Peter Freddolino (Mon Feb 12 2007 - 11:07:50 CST)
  - Re: ionize (big, big, big system!) L. Michel Espinoza-Fonseca (Mon Feb 12 2007 - 11:19:57 CST)
atomselection: number of residues namd vmd (Sun Feb 11 2007 - 06:35:17 CST)
- Re: atomselection: number of residues Leonardo Trabuco (Sun Feb 11 2007 - 11:59:23 CST)
  - Re: atomselection: number of residues Peter Freddolino (Sun Feb 11 2007 - 12:11:09 CST)
  - RE: atomselection: number of residues JC Gumbart (Sun Feb 11 2007 - 12:16:11 CST)
- Re: atomselection: number of residues Axel Kohlmeyer (Sun Feb 11 2007 - 13:41:08 CST)
hot keys & save state Yaser Khan (Sun Feb 11 2007 - 03:01:40 CST)
- Re: hot keys & save state Axel Kohlmeyer (Sun Feb 11 2007 - 13:06:08 CST)
VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem Pietro Amodeo (Sat Feb 10 2007 - 05:59:42 CST)
- Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem John Stone (Sat Feb 10 2007 - 23:58:18 CST)
  - Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem Pietro Amodeo (Sun Feb 11 2007 - 06:22:46 CST)
- Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem Axel Kohlmeyer (Sun Feb 11 2007 - 12:51:06 CST)
Bug in the Tcl script greddy1_at_umd.edu (Fri Feb 09 2007 - 19:51:24 CST)
load in multiple files once Hai-Jun Su (Fri Feb 09 2007 - 15:53:18 CST)
- Re: load in multiple files once Axel Kohlmeyer (Fri Feb 09 2007 - 16:30:00 CST)
question about rotations Adrian Roitberg (Fri Feb 09 2007 - 08:33:34 CST)
- Re: question about rotations John Stone (Fri Feb 09 2007 - 18:02:33 CST)
Changing the display window size in a script Ignacio Fernández Galván (Fri Feb 09 2007 - 02:37:02 CST)
- Re: Changing the display window size in a script John Stone (Fri Feb 09 2007 - 03:06:28 CST)
How to save the snapshot of my protein? bertrand russell (Fri Feb 09 2007 - 01:24:54 CST)
- Re: How to save the snapshot of my protein? John Stone (Fri Feb 09 2007 - 02:59:19 CST)
  - Re: How to save the snapshot of my protein? bertrand russell (Fri Feb 09 2007 - 03:58:53 CST)
  - Re: How to save the snapshot of my protein? Kateryna Miroshnychenko (Fri Feb 09 2007 - 09:21:23 CST)
Assigning Color Codes for stress/force in .xyz trajectory files Adrian Koh (Fri Feb 09 2007 - 00:08:26 CST)
- Re: Assigning Color Codes for stress/force in .xyz trajectory files John Stone (Fri Feb 09 2007 - 02:56:59 CST)
- Re: Assigning Color Codes for stress/force in .xyz trajectory files Peter Freddolino (Fri Feb 09 2007 - 07:57:09 CST)
  - Re: Assigning Color Codes for stress/force in .xyz trajectory files Peter Freddolino (Fri Feb 09 2007 - 10:48:49 CST)
Making interactive 3-D PDF files using VMD 1.8.6 beta 7 John Stone (Thu Feb 08 2007 - 18:11:53 CST)
H-Bond in VMD Esther Brugger (Thu Feb 08 2007 - 10:48:38 CST)
viewpoint Levin, Andrew Michael (Thu Feb 08 2007 - 09:17:48 CST)
- Re: viewpoint John Stone (Thu Feb 08 2007 - 12:54:27 CST)
viewpoint Levin, Andrew Michael (Thu Feb 08 2007 - 09:19:16 CST)
viewpoint Levin, Andrew Michael (Thu Feb 08 2007 - 09:18:01 CST)
- Saving work in VMD--this seems ridiculously difficult! wolfinbm_at_uci.edu (Thu Feb 08 2007 - 16:09:52 CST)
surface area emra Heshmati (Wed Feb 07 2007 - 22:40:56 CST)
- Re: surface area Lubos Vrbka (Thu Feb 08 2007 - 06:16:59 CST)
stride failed Tsu-Fan Cheng (Wed Feb 07 2007 - 15:23:08 CST)
- Re: stride failed John Stone (Fri Feb 09 2007 - 02:24:12 CST)
file "top_all22_prot.inp" Hai-Jun Su (Tue Feb 06 2007 - 20:26:53 CST)
- Re: file "top_all22_prot.inp" Axel Kohlmeyer (Wed Feb 07 2007 - 09:49:39 CST)
H-Bond display in VMD Esther Brugger (Tue Feb 06 2007 - 12:41:47 CST)
- Re: H-Bond display in VMD John Stone (Thu Feb 08 2007 - 12:37:03 CST)
splitting segments namd vmd (Tue Feb 06 2007 - 11:06:15 CST)
- Re: splitting segments Peter Freddolino (Tue Feb 06 2007 - 11:12:11 CST)
Re: about CHARMM electrostatic potential ivana adamovic (Mon Feb 05 2007 - 14:44:51 CST)
- Re: about CHARMM electrostatic potential John Stone (Mon Feb 05 2007 - 14:47:51 CST)
  - Re: about CHARMM electrostatic potential ivana adamovic (Mon Feb 05 2007 - 14:54:15 CST)
indented atomselect variables namd vmd (Mon Feb 05 2007 - 14:30:48 CST)
- Re: indented atomselect variables John Stone (Mon Feb 05 2007 - 14:45:44 CST)
too large an area/lipid in POPE bilayers using membrane plugin Himanshu Khandelia (Mon Feb 05 2007 - 11:50:04 CST)
- Re: namd-l: too large an area/lipid in POPE bilayers using membrane plugin Richard Law (Mon Feb 05 2007 - 12:49:07 CST)
  - Re: Re: namd-l: too large an area/lipid in POPE bilayers using membrane plugin John Stone (Mon Feb 05 2007 - 14:52:48 CST)
rendering time bars or other vmd added graphics with povray Vlad Cojocaru (Mon Feb 05 2007 - 10:58:48 CST)
- Re: rendering time bars or other vmd added graphics with povray Alexandr Isayev (Mon Feb 05 2007 - 11:23:12 CST)
  - Re: rendering time bars or other vmd added graphics with povray Vlad Cojocaru (Mon Feb 05 2007 - 11:31:50 CST)
about CHARMM electrostaic potential ivana adamovic (Mon Feb 05 2007 - 09:46:47 CST)
- Re: about CHARMM electrostaic potential John Stone (Mon Feb 05 2007 - 11:03:04 CST)
  - Re: about CHARMM electrostaic potential ivana adamovic (Mon Feb 05 2007 - 11:56:35 CST)
volume slices Jim Fonseca (Sun Feb 04 2007 - 14:32:11 CST)
- Re: volume slices John Stone (Sun Feb 04 2007 - 15:09:52 CST)
  - Saving mutli-molecule structures in VMD (e.g., for building membranes) wolfinbm_at_uci.edu (Sun Feb 04 2007 - 22:20:41 CST)
    - Re: Saving mutli-molecule structures in VMD (e.g., for building membranes) Cesar Luis Avila (Mon Feb 05 2007 - 09:11:38 CST)
    - Re: Saving mutli-molecule structures in VMD (e.g., for building membranes) Axel Kohlmeyer (Mon Feb 05 2007 - 12:09:15 CST)
cartoon problems (encore) christopher (Sat Feb 03 2007 - 15:29:56 CST)
- Re: cartoon problems (encore) John Stone (Sat Feb 03 2007 - 15:39:17 CST)
Units for Measure Dipole Kim Gunnerson (Fri Feb 02 2007 - 16:51:16 CST)
- Re: Units for Measure Dipole Axel Kohlmeyer (Fri Feb 02 2007 - 18:28:15 CST)
  - Re: Units for Measure Dipole John Stone (Mon Feb 05 2007 - 10:32:40 CST)
Atomselect on several molecules Veronika Brazdova (Fri Feb 02 2007 - 10:04:22 CST)
- Re: Atomselect on several molecules Axel Kohlmeyer (Fri Feb 02 2007 - 11:19:06 CST)
  - Re: Atomselect on several molecules Veronika Brazdova (Fri Feb 02 2007 - 12:57:25 CST)
    - Re: Atomselect on several molecules Axel Kohlmeyer (Fri Feb 02 2007 - 13:36:13 CST)
    - Re: Atomselect on several molecules Veronika Brazdova (Mon Feb 05 2007 - 10:11:23 CST)
Using "membrane package" with different lipid molecules Lechuga, Javier (Fri Feb 02 2007 - 09:18:06 CST)
- Re: Using "membrane package" with different lipid molecules Peter Freddolino (Fri Feb 02 2007 - 09:37:01 CST)
creating gif animation with povray Vlad Cojocaru (Fri Feb 02 2007 - 04:09:12 CST)
- Re: creating gif animation with povray John Stone (Sat Feb 03 2007 - 00:54:16 CST)
  - Re: creating gif animation with povray Vlad Cojocaru (Mon Feb 05 2007 - 03:48:54 CST)
    - Re: creating gif animation with povray John Stone (Mon Feb 05 2007 - 09:56:28 CST)
VMD performance on Vista Christoph Weber (Thu Feb 01 2007 - 16:23:58 CST)
- Re: VMD performance on Vista John Stone (Thu Feb 01 2007 - 17:10:47 CST)
sending arguments to tcl _at_huji.ac.il (Thu Feb 01 2007 - 13:39:20 CST)
- Re: sending arguments to tcl John Stone (Thu Feb 01 2007 - 14:56:00 CST)
- Re: sending arguments to tcl Axel Kohlmeyer (Thu Feb 01 2007 - 15:55:30 CST)
- Re: sending arguments to tcl John Stone (Thu Feb 01 2007 - 16:53:24 CST)
  - Re: sending arguments to tcl _at_huji.ac.il (Sun Feb 04 2007 - 02:21:02 CST)
addition on CHARMM electrostatic pot. ivana adamovic (Thu Feb 01 2007 - 13:42:08 CST)
- Re: addition on CHARMM electrostatic pot. John Stone (Thu Feb 01 2007 - 17:27:36 CST)
- Re: addition on CHARMM electrostatic pot. ivana adamovic (Fri Feb 02 2007 - 09:11:44 CST)
CHARMM electrostatic potential ivana adamovic (Thu Feb 01 2007 - 13:17:21 CST)
CHARMM electrostatic potential ivana adamovic (Thu Feb 01 2007 - 08:28:20 CST)
- Re: CHARMM electrostatic potential John Stone (Thu Feb 01 2007 - 11:16:38 CST)
  - Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' Arneh Babakhani (Fri Feb 02 2007 - 16:16:04 CST)
VMD error messages on intel iMac Craig C. Martens (Wed Jan 31 2007 - 23:32:32 CST)
- Re: VMD error messages on intel iMac John Stone (Thu Feb 01 2007 - 16:02:46 CST)

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