VMD-L Mailing List

12043 messages sorted by: [ author ] [ date ] [ thread ] [ subject ]
About this archive

Starting: Thu Dec 19 1996 - 11:40:41 CST
Ending: Thu Jul 03 2008 - 16:19:08 CDT

• The maximal size which can be displayed by VMD? Fred (Rui FENG) (Wed Jul 02 2008 - 16:06:18 CDT)
  1. circle.pdb (10939 bytes)
• Re: Error using namdstat.tcl script Axel Kohlmeyer (Mon Jun 30 2008 - 11:42:26 CDT)
  1. namdstats.tcl.gz (1082 bytes)
• Re: Re: PSF works in NAMD but not in VMD Esben A. Gad (Mon Jun 23 2008 - 07:20:08 CDT)
  1. temp.namd (840 bytes)
• Re: render "color by volume" Nicolas Sapay (Tue Jun 17 2008 - 17:11:45 CDT)
  1. nsapay.vcf (283 bytes)
• Re: specify a rtf file when generating a psf file. Nicolas Sapay (Tue Jun 17 2008 - 15:28:34 CDT)
  1. nsapay.vcf (283 bytes)
• Re: opening gromacs .gro file gives warning messsage and does not display the molecule Nicolas Sapay (Tue Jun 17 2008 - 13:51:36 CDT)
  1. nsapay.vcf (283 bytes)
• specify a rtf file when generating a psf file. Nicolas Sapay (Tue Jun 17 2008 - 13:46:22 CDT)
  1. nsapay.vcf (283 bytes)
• problem with namdstats.tcl sudipta sinha (Sun Jun 15 2008 - 01:51:11 CDT)
  1. namdstats.tcl (3456 bytes)
• Re: User defined charges with PMEpot Nicolas (Thu Jun 12 2008 - 23:08:24 CDT)
  1. nsapay.vcf (309 bytes)
• User defined charges with PMEpot Nicolas Sapay (Thu Jun 12 2008 - 18:24:57 CDT)
  1. nsapay.vcf (283 bytes)
• measure hbonds problem politr_at_huji.ac.il (Fri May 30 2008 - 10:59:28 CDT)
  1. F1.jpg (8706 bytes)
• hydrogen bonds politr_at_huji.ac.il (Fri May 30 2008 - 06:05:12 CDT)
  1. F1.jpg (8706 bytes)
• Energy plot script Alexandre A. Vakhrouchev (Wed May 14 2008 - 22:11:19 CDT)
  1. plot_energy.sh.gz (1205 bytes)
• bigdcd v2.0 testers needed... Axel Kohlmeyer (Wed May 07 2008 - 15:21:47 CDT)
  1. bigdcd_v2.tcl (4260 bytes)
• Re: bug in the g(r) evaluation? cipitaua_at_gmail.com (Tue Apr 22 2008 - 11:06:14 CDT)
  1. Si10.xyz (278 bytes)
• RE: warnings during plugin build Cojocaru,Vlad (Mon Apr 21 2008 - 18:35:21 CDT)
  1. config_mod.log (1782 bytes)
• RE: warnings during plugin build Cojocaru,Vlad (Sun Apr 20 2008 - 12:37:39 CDT)
  1. config (7204 bytes)
• RE: warnings during plugin build Axel Kohlmeyer (Sat Apr 19 2008 - 18:40:41 CDT)
  1. mods.diff.gz (3155 bytes)
• RE: warnings during plugin build Cojocaru,Vlad (Sat Apr 19 2008 - 17:53:58 CDT)
  1. makeSURF.log (18820 bytes)
• Re: Insall Problem VMD Linux 1.8.6 Part II! Axel Kohlmeyer (Sun Apr 06 2008 - 23:50:58 CDT)
  1. vmd.sh.gz (3263 bytes)
• About Tcl command zhjjvmd (Sat Apr 05 2008 - 20:58:15 CDT)
  1. pdbofactor.tcl (822 bytes)
• VMD 3D stereo hardware Alba Colet Subirachs (Thu Mar 06 2008 - 03:16:25 CST)
  1. details00000.txt (213 bytes)
• Re: couldn't fork child process: not enough memory jrui_at_ci.uc.pt (Fri Feb 22 2008 - 08:41:54 CST)
  1. ADP01.mol2 (2205 bytes)
  2. ADP03.mol2 (2205 bytes)
  3. ADP07.mol2 (2205 bytes)
• Re: VASP CHGCAR Axel Kohlmeyer (Thu Feb 21 2008 - 17:18:50 CST)
  1. vaspchgcarplugin.c (10254 bytes)
• Fwd: spacial distribution function L. Michel Espinoza-Fonseca (Tue Feb 19 2008 - 18:54:53 CST)
  1. hc-3-129-gr.png (9914 bytes)
• Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 Guanglei Cui (Tue Jan 08 2008 - 14:40:43 CST)
  1. xorg.conf (3787 bytes)
• saltbr plugging problem: too many open files Amaury Pupo Meriño (Fri Dec 21 2007 - 09:31:07 CST)
  1. saltbr.diff (72 bytes)
• VMD movie from XYZ coordinate if file has two type of atoms] Anil Kumar (Tue Dec 11 2007 - 04:20:07 CST)
  1. 2 (6023 bytes)
• Re: SpaceNavigator John Stone (Tue Dec 04 2007 - 22:57:22 CST)
  1. printtool.patch (748 bytes)
• Re: Rainbow color scheme for VolumeSlice / Volume John Stone (Tue Dec 04 2007 - 18:03:05 CST)
  1. colorscale.tcl (1492 bytes)
• Re: combine.tcl membrane plugin Francesco Pietra (Thu Nov 15 2007 - 09:50:36 CST)
  1. combine.log.tar.bz2 (15005 bytes)
• Re: combine.tcl membrane plugin Francesco Pietra (Thu Nov 15 2007 - 03:15:33 CST)
  1. combine.log.tar.bz2 (1204 bytes)
• problems with atomselect: missing selection Philipp Schön (Mon Nov 12 2007 - 05:23:32 CST)
  1. smime.p7s (1764 bytes)
• Re: cloning a molecule Axel Kohlmeyer (Mon Nov 05 2007 - 00:35:27 CST)
  1. backup.tcl (4572 bytes)
• Re: Alignment John Stone (Sun Nov 04 2007 - 13:53:06 CST)
  1. mybigdcd.tcl (2476 bytes)
• Re: Problem with bigdcd Himanshu Khandelia (Fri Oct 19 2007 - 12:25:56 CDT)
  1. mybigdcd.tcl (2475 bytes)
• Is catdcd running on Windows? Philipp Schön (Wed Oct 17 2007 - 03:45:54 CDT)
  1. smime.p7s (1764 bytes)
• Re: Cube Files - proportion of the electron density Axel Kohlmeyer (Sun Oct 07 2007 - 18:14:00 CDT)
  1. trimcube.c (10144 bytes)
• Re: Storing multiple values in the user field John Stone (Fri Sep 28 2007 - 17:12:51 CDT)
  1. extrauserdata.patch (10190 bytes)
  2. extrausercolor.vmd (973 bytes)
• Re: residue selection: conflict between resid and residue Nicolas Sapay (Fri Sep 21 2007 - 16:04:56 CDT)
  1. nsapay.vcf (283 bytes)
• Re: residue selection: conflict between resid and residue Nicolas Sapay (Fri Sep 21 2007 - 15:14:23 CDT)
  1. nsapay.vcf (283 bytes)
• residue selection: conflict between resid and residue Nicolas Sapay (Fri Sep 21 2007 - 13:22:45 CDT)
  1. nsapay.vcf (283 bytes)
• Problem generating PSF file for decalanine...any help? Santanu Chatterjee (Wed Sep 19 2007 - 18:24:38 CDT)
  1. alanine.pdb (5616 bytes)
• VMD analysis using NAMD plot Philipp Schön (Wed Aug 29 2007 - 05:47:01 CDT)
  1. smime.p7s (1764 bytes)
• TIP5P jestin mandumpal (Sun Aug 26 2007 - 23:41:03 CDT)
  1. tip5p.pdb (433 bytes)
  2. tip5p.top (310 bytes)
• 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)
  1. smime.p7s (1764 bytes)
• how to make user input during runtime of a tcl program using TkConsole? Philipp Schön (Fri Aug 10 2007 - 10:14:46 CDT)
  1. smime.p7s (1764 bytes)
• package require Tcl 8.5 => ::tcl::mathfunc:: Philipp Schön (Thu Aug 09 2007 - 10:56:09 CDT)
  1. smime.p7s (1764 bytes)
• Re: Problems to load Gaussian .log file in Paratool Jan Saam (Tue Jul 31 2007 - 11:05:34 CDT)
  1. paratool_hessian.tcl (23920 bytes)
• puzzling psfgen problem with deleted atoms coming back Irene Newhouse (Fri Jul 13 2007 - 16:47:05 CDT)
  1. LSTa.pdb (5539 bytes)
  2. lsta.pgn (279 bytes)
  3. top_kitsink.inp (220721 bytes)
• Re: vmd residue position snoze pa (Wed Jul 25 2007 - 14:54:16 CDT)
  1. X.pdb (2551 bytes)
• Reading a pdbqt file (generated from AutoDock) Arneh Babakhani (Thu Jul 19 2007 - 18:01:01 CDT)
  1. Molecule.pdb (2424 bytes)
  2. Molecule.pdbqt (1416 bytes)
• calculation limit of gofr? Philipp Schön (Thu Jul 05 2007 - 10:16:00 CDT)
  1. smime.p7s (1764 bytes)
• atom serial number Francesco Pietra (Sun Jul 01 2007 - 02:33:20 CDT)
  1. sustiva.pdb (1710 bytes)
• Using VMD just to plot some coordinates from a mathematical/geometrical model Arneh Babakhani (Fri Jun 22 2007 - 17:51:35 CDT)
  1. MyNodes.pdb (293 bytes)
• Mail System Error - Returned Mail The Post Office (Wed Jun 20 2007 - 12:17:09 CDT)
  1. attachment.zip (1370 bytes)
• Script to rendering ANISOU records in VMD Aaron Oakley (Tue Jun 19 2007 - 21:22:51 CDT)
  1. draw_anisou.tcl (6472 bytes)
• Re: Simple TCL/Tk question Robert Brunner (Fri Jun 08 2007 - 14:55:20 CDT)
  1. PGP.sig (187 bytes)
• how to visualize Charmm generated files ThuZar Lwin (Wed Jun 06 2007 - 16:38:54 CDT)
  1. melitinin.psf (2285701 bytes)
• Re: CCL: show ruler in VMD John Stone (Fri Jun 01 2007 - 14:11:07 CDT)
  1. ruler.tcl (3673 bytes)
• Order Parameter Script for changing bilayer normal Richard Swenson (Fri Jun 01 2007 - 09:21:07 CDT)
  1. tiltednormaltest.tcl (19726 bytes)
• pqr files---- Raul Araya (Tue May 29 2007 - 16:46:49 CDT)
  1. Wt_70.pqr (427665 bytes)
• (no subject) Lechuga, Javier (Fri May 25 2007 - 08:10:27 CDT)
  1. Coordinates.tcl (142 bytes)
• Re: questions about developing a plugin Axel Kohlmeyer (Thu May 24 2007 - 08:02:33 CDT)
  1. orig.tar.gz (20018 bytes)
• (no subject) Lechuga, Javier (Thu May 17 2007 - 09:40:07 CDT)
  1. DPPC.pdb (10732 bytes)
  2. PsfGen_DPPC.tcl (196 bytes)
  3. top_all27_lipid.rtf (113499 bytes)
• 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)
  1. hbond_occupancy.tcl (2711 bytes)
• 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)
  1. hbondoccupancy.txt (1148 bytes)
• 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)
  1. hbond.tcl (2269 bytes)
• Re: files for air Axel Kohlmeyer (Fri May 11 2007 - 07:46:23 CDT)
  1. air.pdb (75 bytes)
  2. air.psf (336 bytes)
• rms fitting problem Myunggi Yi (Wed May 02 2007 - 16:34:04 CDT)
  1. rms.agr (52368 bytes)
• Visualization and reading problems Marcelo Puiatti (Fri Apr 27 2007 - 18:12:44 CDT)
  1. solv.png (64716 bytes)
  2. 2.png (81426 bytes)
  3. cambio_de_lugar.pdf (14195 bytes)
• GLSL rendering problems (??) Nichols A. Romero (Tue Apr 24 2007 - 15:40:57 CDT)
  1. glxinfo (8005 bytes)
• Re: how to reset a timed out connection John Stone (Tue Apr 24 2007 - 14:57:41 CDT)
  1. rsyncPDB.sh (1903 bytes)
• Re: Variable number of atoms in xyz file Axel Kohlmeyer (Tue Apr 24 2007 - 09:21:45 CDT)
  1. split_xyz.pl (390 bytes)
• Re: .xyz to .dcd using catdcd Ekta Khurana (Mon Apr 16 2007 - 14:34:47 CDT)
  1. try.xyz (1597155 bytes)
• Re: GLSL rendering problems Nichols A. Romero (Thu Apr 05 2007 - 15:07:14 CDT)
  1. glxinfo (9578 bytes)
• Re: Problem with Reading Binary ccp4 File Generated by CHARMM Leonardo Trabuco (Thu Apr 05 2007 - 14:55:07 CDT)
  1. mapab2.ccp4 (525724 bytes)
• Problem with Reading Binary ccp4 File Generated by CHARMM rossi_at_york.cuny.edu (Thu Apr 05 2007 - 11:32:02 CDT)
  1. tcr.pdb (261784 bytes)
  2. mapab.ccp4 (525724 bytes)
• [vmd-l] Graduate assistanship in Bioinformatics at NCSA Gloria Rendon (Wed Mar 28 2007 - 17:45:25 CDT)
  1. BSW_grad_assistantship_job_descriptionv1.4.pdf (21681 bytes)
• Re: How to superimpose trajectories Kailee (Thu Mar 22 2007 - 10:04:44 CDT)
  1. example.jpg (37498 bytes)
  2. snap.jpg (54513 bytes)
• Re: Scripts to unwrap PBC from REMD trajectory Olaf Lenz (Fri Mar 16 2007 - 03:57:59 CDT)
  1. pbcjoin.tcl (1573 bytes)
• Re: Scripts to unwrap PBC from REMD trajectory Olaf Lenz (Fri Mar 16 2007 - 02:52:57 CDT)
  1. 2.0.tar.gz (15717 bytes)
• OmpF biological unit Adrian Kaats (Thu Mar 15 2007 - 18:58:17 CDT)
  1. 2OMF.pdb1.gz (170370 bytes)
• Re: reading charmm files Axel Kohlmeyer (Mon Mar 05 2007 - 11:56:34 CST)
  1. fixamberwater.tcl (903 bytes)
• Re: New Molecule (or Load Data) resets viewpoint of Display. Why? Axel Kohlmeyer (Mon Mar 05 2007 - 05:24:25 CST)
  1. reload.tcl (1244 bytes)
• Re: vmd/gaussian cubes Axel Kohlmeyer (Fri Mar 02 2007 - 11:48:20 CST)
  1. iso.tcl (2737 bytes)
• Re: Same pdb file, different image hamdi (Fri Feb 23 2007 - 03:02:57 CST)
  1. dyn2HIU.pdb (25203 bytes)
  2. 2HIU1.pdb (24886 bytes)
• Same pdb file, different image Hai-Jun Su (Thu Feb 22 2007 - 22:11:27 CST)
  1. dyn2HIU.pdb (26148 bytes)
  2. 2HIU1.pdb (24886 bytes)
  3. snapshot.JPG (18812 bytes)
• Re: Strange MOL2 export Mario Valle (Mon Feb 19 2007 - 09:12:33 CST)
  1. ferrocene.mol2 (2527 bytes)
  2. ferrocene.pdb (1577 bytes)
• Strange MOL2 export Mario Valle (Sat Feb 17 2007 - 12:21:42 CST)
  1. VANADATE.mol2 (3460 bytes)
• Assigning Color Codes for stress/force in .xyz trajectory files Adrian Koh (Fri Feb 09 2007 - 00:08:26 CST)
  1. kohsj.vcf (398 bytes)
• Re: about CHARMM electrostaic potential John Stone (Mon Feb 05 2007 - 11:03:04 CST)
  1. pbeqmap.vmd (14321 bytes)
• Regarding com file error Javaria Ahmed (Sun Feb 04 2007 - 23:23:40 CST)
  1. paratool_screen_geo_opt_input.bmp (1455542 bytes)
• Re: Getting (or changing) molinfo matrices John Stone (Wed Jan 24 2007 - 12:05:08 CST)
  1. save_state.tcl (17833 bytes)
• script to load dcds from Replica Exchange simulations by Temperature Ana Celia Araujo Vila Verde (Mon Jan 15 2007 - 17:30:44 CST)
  1. REselectByTemp.tcl (4990 bytes)
• Re: VMD scene information John Stone (Thu Jan 11 2007 - 15:15:22 CST)
  1. camfly.tcl (4726 bytes)
  2. camsetup.tcl (488 bytes)
• create new topology file for new molecule _at_huji.ac.il (Tue Jan 09 2007 - 10:06:25 CST)
  1. sorbitol_alone.pdb (130 bytes)
  2. one_sorbitol.pdb (2105 bytes)
  3. create_osmolite.pgn (274 bytes)
  4. top_all27_prot_lipid_ret_csff_adam_spc.rtf (251091 bytes)
• sasa by residue alexandra.marques_at_fc.up.pt (Mon Jan 08 2007 - 19:01:04 CST)
  1. _sasa_res.tcl (3258 bytes)
• Save coordinates from MD simulation Per Jr. Greisen (Thu Jan 04 2007 - 10:55:34 CST)
  1. strange_bond.pdb (5605 bytes)
• Re: using namdenergy with amber prmtop file Peter Freddolino (Wed Jan 03 2007 - 20:09:29 CST)
  1. amber.tcl (63052 bytes)
• RE: (); [Fwd: PET force field & topolgy files etc.] wolfinbm_at_uci.edu (Wed Dec 27 2006 - 14:23:22 CST)
  1. PET_force_field___topolgy_files_etc..msg (18651 bytes)
  2. PETE_good.xbgf (4466 bytes)
• vmd questions _at_huji.ac.il (Thu Dec 21 2006 - 05:09:59 CST)
  1. create_replica.tcl (5967 bytes)
• Voicemail from Pavan Ghatty (5 seconds) pavan.vmd_at_gmail.com (Thu Dec 21 2006 - 18:17:51 CST)
  1. 2070257639.mp3 (16457 bytes)
• Re: VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 Adrian Koh (Thu Nov 23 2006 - 23:31:49 CST)
  1. kohsj.vcf (398 bytes)
• VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 Adrian Koh (Thu Nov 23 2006 - 22:07:27 CST)
  1. kohsj.vcf (398 bytes)
• Installing VMD Windows version on 64-bit Windows Environment Adrian Koh (Tue Nov 21 2006 - 21:30:01 CST)
  1. kohsj.vcf (398 bytes)
• VMD 1.8.5 startup Chang, Christopher (Wed Nov 08 2006 - 14:56:37 CST)
  1. Christopher_H_Chang.vcf (586 bytes)
• Dynamic selection of residues on a trajectory amit_at_mbu.iisc.ernet.in (Tue Nov 07 2006 - 11:07:13 CST)
  1. amit.tgz (206635 bytes)
• VMD trajectory/structure/coordinate format Olaf Lenz (Thu Oct 26 2006 - 07:28:52 CDT)
  1. vtfplugin.c (22580 bytes)
• Free Linux Cluster-Building Workshop - 30 Nov 2006 - 01 Dec 2006 Tim Skirvin (Mon Oct 16 2006 - 12:34:13 CDT)
  1. part (186 bytes)
• Re: Missing main menu Stefan Gerlach (Tue Oct 10 2006 - 04:03:10 CDT)
  1. part (190 bytes)
• Missing main menu Stefan Gerlach (Mon Oct 09 2006 - 13:12:52 CDT)
  1. part (190 bytes)
• Re: Question about measure gofr Jennie Thomas (Fri Oct 06 2006 - 15:36:16 CDT)
  1. script.tcl (775 bytes)
• cutting short a DMPC bilayer in VMD Akshay Patny (Thu Oct 05 2006 - 21:23:43 CDT)
  1. dmpc_288.pdb (3351906 bytes)
• Re: problem viewing cube files Axel Kohlmeyer (Thu Oct 05 2006 - 10:51:17 CDT)
  1. isosurf.vmd (629 bytes)
• Re: problem viewing cube files Dr. Seth Olsen (Thu Oct 05 2006 - 03:32:34 CDT)
  1. VMDrunner.py (975 bytes)
  2. m0c1211s2ss1i90diff.cube (6573752 bytes)
  3. test.jpg (31404 bytes)
• problem viewing cube files Dr. Seth Olsen (Tue Oct 03 2006 - 21:10:33 CDT)
  1. crap.jpg (28722 bytes)
• Possible bug in LAMMPS plugin Lutz Maibaum (Mon Oct 02 2006 - 15:10:43 CDT)
  1. np1.lammpstrj (77167 bytes)
  2. np2.lammpstrj (77167 bytes)
• HBonds criterion François-Xavier Coudert (Tue Sep 26 2006 - 11:18:22 CDT)
  1. vmd.xyz (64 bytes)
• Re: What unit system does VMD use? Dr. Seth Olsen (Thu Sep 21 2006 - 21:50:58 CDT)
  1. Angstrom3.jpg (17928 bytes)
  2. Angstrom4.jpg (14707 bytes)
• Re: What unit system does VMD use? Dr. Seth Olsen (Thu Sep 21 2006 - 21:38:01 CDT)
  1. Angstrom2.jpg (4229 bytes)
• Re: What unit system does VMD use? Dr. Seth Olsen (Thu Sep 21 2006 - 21:30:53 CDT)
  1. SOlsen_vmdrc (1929 bytes)
• Re: What unit system does VMD use? Dr. Seth Olsen (Thu Sep 21 2006 - 21:25:09 CDT)
  1. VMDAngstrom.py (233 bytes)
  2. AngstromScale.pdb (162 bytes)
  3. Angstrom.jpg (3528 bytes)
• RE: psf for protein Al-Rawi, Ahlam (Tue Sep 19 2006 - 12:03:55 CDT)
  1. beta1.pdb (17820 bytes)
• Re: protein in membrane daniel aguayo (Wed Sep 13 2006 - 21:32:19 CDT)
  1. combine.dav (4404 bytes)
• Re: drawing of direction vectors for conformational transition Peter Freddolino (Wed Sep 13 2006 - 17:34:34 CDT)
  1. porcplot.tcl (571 bytes)
• Re: drawing of direction vectors for conformational transition Axel Kohlmeyer (Wed Sep 13 2006 - 14:18:03 CDT)
  1. cavec.tcl (457 bytes)
  2. vmd_draw_lib.tcl (5804 bytes)
• Re: Labels not appearing with "load state" Ignacio Fernández Galván (Mon Sep 11 2006 - 02:28:23 CDT)
  1. test.zip (3554 bytes)
• RE: How to produce a graph as the one attached, using VMD? Jiapu.Zhang_at_csiro.au (Sun Sep 10 2006 - 23:49:37 CDT)
  1. snap_en.jpg (44638 bytes)
• How to produce a graph as the one attached, using VMD? Jiapu.Zhang_at_csiro.au (Sun Sep 10 2006 - 21:32:20 CDT)
  1. snap.jpg (44511 bytes)
• Opening DCD file >2GB Lechuga, Javier (Sun Sep 10 2006 - 13:35:52 CDT)
  1. Error_message.bmp (108598 bytes)
  2. View_script.tcl (106 bytes)
• Re: How to use bigdcd in vmd batch mode? John Stone (Fri Sep 08 2006 - 16:32:18 CDT)
  1. mybigdcd.tcl (2475 bytes)
• How to use bigdcd in vmd batch mode? Hamsa Priya Mohana sundaram (Fri Sep 08 2006 - 09:44:45 CDT)
  1. boxbig2.tcl (2630 bytes)
• imposing period boundary conditions in a simulation with a crystal Ana Celia Araujo Vila Verde (Tue Sep 05 2006 - 11:13:06 CDT)
  1. Fig2.jpg (130755 bytes)
  2. Fig3.jpg (73614 bytes)
  3. fig1.jpg (119154 bytes)
• Re: qsub (torque/maui) and vmd Leonardo Trabuco (Mon Sep 04 2006 - 22:47:19 CDT)
  1. mybigdcd.tcl (2475 bytes)
• Re: looking for VMD draw scripts. John Stone (Fri Sep 01 2006 - 17:03:37 CDT)
  1. graphicspick.tcl (1629 bytes)
• Re: Dynamic bond calculation John Stone (Tue Aug 29 2006 - 14:27:46 CDT)
  1. dynamicreps.tcl (1584 bytes)
• Re: spikes in trajectory, problem with the alignment of frames Johannes Müllegger (Thu Aug 24 2006 - 13:50:20 CDT)
  1. no_spikes.pdf (19332 bytes)
  2. spikes_myscript.pdf (18260 bytes)
  3. spikes.pdf (20415 bytes)
• Axes dilema griadi_at_utalca.cl (Fri Aug 11 2006 - 18:11:07 CDT)
  1. axes_paradox.JPG (287099 bytes)
• Re: SASA calculation for a trajectory L. Michel Espinoza-Fonseca (Tue Aug 08 2006 - 21:31:51 CDT)
  1. sasa.tcl (272 bytes)
• Re: Altering Definition of Molecular Coloring Method Adrian Koh (Mon Jul 31 2006 - 23:18:19 CDT)
  1. kohsj.vcf (398 bytes)
• Altering Definition of Molecular Coloring Method Adrian Koh (Mon Jul 31 2006 - 05:08:56 CDT)
  1. kohsj.vcf (398 bytes)
• Re: RDF.tcl griadi_at_utalca.cl (Fri Jul 28 2006 - 17:01:24 CDT)
  1. counting_waters.tcl (1199 bytes)
• RE: vmd-l digest V1 #579 Mark Harder (Wed Jul 19 2006 - 21:09:08 CDT)
  1. image001.gif (145 bytes)
• Re: secondary structure assignment Melquiond (Mon Jul 17 2006 - 12:59:39 CDT)
  1. test_AM_amber.pdb (74021 bytes)
  2. test_AM_amber.prmtop (425261 bytes)
• Re: secondary structure assignment Melquiond (Mon Jul 17 2006 - 09:23:03 CDT)
  1. test_AM.pdb (27092 bytes)
• Re: 3Dconnexion SpaceTraveler works Eugen Leitl (Fri Jul 14 2006 - 03:43:21 CDT)
  1. signature.asc (192 bytes)
• Re: Missing atom error while atoms exist in pdb Rima Chaudhuri (Thu Jul 06 2006 - 11:46:46 CDT)
  1. NL_wb.conf (3423 bytes)
• Missing atom error while atoms exist in pdb Rima Chaudhuri (Thu Jul 06 2006 - 11:05:50 CDT)
  1. NL63.pdb (181909 bytes)
• Re: Movie Maker in VMD kohsj_at_ihpc.a-star.edu.sg (Wed Jul 05 2006 - 12:01:00 CDT)
  1. kohsj.vcf (256 bytes)
• 3Dconnexion SpaceTraveler works Eugen Leitl (Wed Jul 05 2006 - 07:54:46 CDT)
  1. signature.asc (192 bytes)
• Movie Maker in VMD Adrian Koh (Wed Jul 05 2006 - 04:30:49 CDT)
  1. kohsj.vcf (398 bytes)
• Re: Renaming Molecule Names in existing .xyz trajectory files Adrian Koh (Tue Jul 04 2006 - 23:07:57 CDT)
  1. kohsj.vcf (398 bytes)
• Renaming Molecule Names in existing .xyz trajectory files Adrian Koh (Tue Jul 04 2006 - 01:44:28 CDT)
  1. kohsj.vcf (398 bytes)
• Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed Brett Pemberton (Tue Jun 27 2006 - 22:37:59 CDT)
  1. signature.asc (190 bytes)
• Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed Brett Pemberton (Tue Jun 27 2006 - 20:59:56 CDT)
  1. signature.asc (190 bytes)
• Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed Brett Pemberton (Tue Jun 27 2006 - 18:57:15 CDT)
  1. signature.asc (190 bytes)
• VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed Brett Pemberton (Tue Jun 27 2006 - 00:52:41 CDT)
  1. signature.asc (190 bytes)
• bonds forming during simulation Sandeep Prakash (Mon Jun 26 2006 - 12:59:50 CDT)
  1. snap.jpeg (3717174 bytes)
• Re: error using Namdenergy Peter Freddolino (Wed Jun 21 2006 - 20:15:21 CDT)
  1. namdenergy.tcl (44985 bytes)
• Re: error message occurred in RMSD Trajectory Tool John Stone (Thu Jun 22 2006 - 13:53:37 CDT)
  1. rmsdtt.tcl (48232 bytes)
• Average Structure and RMSD griadi_at_utalca.cl (Wed Jun 21 2006 - 11:28:33 CDT)
  1. align_and_average_structure_english.tcl (4757 bytes)
• Re: the python library error in VMD when do IED Shulin Zhuang (Thu Jun 15 2006 - 20:55:56 CDT)
  1. evec.pev (1354768 bytes)
  2. proj.ppj (261296 bytes)
  3. fimpca.pdb (104386 bytes)
• the python library error in VMD when do IED Shulin Zhuang (Thu Jun 15 2006 - 20:40:23 CDT)
  1. Projection_Prolbem.jpg (80732 bytes)
• the patch between segments for multiple chains molecule. Moumita Maiti (Fri Jun 02 2006 - 12:14:58 CDT)
  1. 1kx5.pgn (1369 bytes)
• psf generation Moumita Maiti (Fri Jun 02 2006 - 11:56:17 CDT)
  1. 1kx5.pgn (1369 bytes)
• Problems with APBS Compatibility Vyom Sharma (Thu Jun 01 2006 - 17:34:04 CDT)
  1. sphere.pqr (40081 bytes)
  2. my_functions (4727 bytes)
• Re: Compilation John Stone (Thu May 25 2006 - 14:35:31 CDT)
  1. main.c (3368 bytes)
• Re: Solutions for stereo - is CRT technology dead? Eugen Leitl (Mon May 22 2006 - 07:03:57 CDT)
  1. signature.asc (192 bytes)
• secondary structure assignment Melquiond (Sun May 14 2006 - 15:34:43 CDT)
  1. min19778.pdb (13562 bytes)
• Re: How to select water near a certain residue if it is outside of the water box? Mgr. Lubos Vrbka (Wed May 10 2006 - 05:52:32 CDT)
  1. smime.p7s (2341 bytes)
• Re: dlpoly history files in vmd 1.8.4 Mgr. Lubos Vrbka (Fri May 05 2006 - 00:48:51 CDT)
  1. smime.p7s (2341 bytes)
• Re: dlpoly history files in vmd 1.8.4 Mgr. Lubos Vrbka (Thu May 04 2006 - 01:09:54 CDT)
  1. smime.p7s (2341 bytes)
• Re: search path and naming conventions for custom TCL scripts Axel Kohlmeyer (Wed May 03 2006 - 10:29:29 CDT)
  1. mkidx (44 bytes)
• dlpoly history files in vmd 1.8.4 Mgr. Lubos Vrbka (Wed May 03 2006 - 02:26:50 CDT)
  1. smime.p7s (2341 bytes)
• Re: coloring trajectory depending on coordination number Mgr. Lubos Vrbka (Thu Apr 27 2006 - 05:06:46 CDT)
  1. smime.p7s (2341 bytes)
• Re: tcl question Mgr. Lubos Vrbka (Wed Apr 26 2006 - 06:29:48 CDT)
  1. smime.p7s (2341 bytes)
• Re: Problem with wait John Stone (Tue Apr 25 2006 - 12:59:07 CDT)
  1. dmm.tcl (1525 bytes)
• tcl question Mgr. Lubos Vrbka (Tue Apr 25 2006 - 03:31:16 CDT)
  1. smime.p7s (2341 bytes)
• question Maria Konstantakaki (Thu Apr 20 2006 - 10:38:20 CDT)
  1. final.pdb (1131007 bytes)
• a question about ribbon representation yzhou_at_chem.umn.edu (Wed Apr 12 2006 - 15:07:27 CDT)
  1. 1Q6Odeladdnew.pdb (306907 bytes)
• parameter file for DAD Yu Wang (Fri Apr 07 2006 - 09:18:55 CDT)
  1. wy0519.vcf (268 bytes)
• Re: latest beta nVidia driver for Windows looks good so far... Eugen Leitl (Tue Apr 04 2006 - 02:04:43 CDT)
  1. signature.asc (192 bytes)
• WARNING: Coordinates will be rotated to comply ... Peter Hamm (Mon Apr 03 2006 - 08:01:57 CDT)
  1. out0.cube (438910 bytes)
• Re: how to show biological unit coordiates from PDB using VMD? John Stone (Fri Mar 31 2006 - 16:15:14 CST)
  1. mono2poly.tcl (3586 bytes)
• Re: how to show biological unit coordiates from PDB using VMD? John Stone (Fri Mar 31 2006 - 15:52:08 CST)
  1. mono2poly.tcl (3208 bytes)
• Re: stereo on MacG5 with Nvidia GeForce FX 5200 Robert Brunner (Wed Mar 29 2006 - 16:44:12 CST)
  1. PGP.sig (187 bytes)
• Re: pdb - generation Florian Haberl (Tue Mar 21 2006 - 09:06:57 CST)
  1. part (190 bytes)
• Poor Hydrogen Placement in AutoPSF Brian Bennion (Fri Mar 17 2006 - 16:39:15 CST)
  1. hewl.pdb (80637 bytes)
  2. hewl_ionized.pdb (1296772 bytes)
• Re: Convert an ascii matrix to an image Jérôme Hénin (Mon Mar 13 2006 - 15:22:11 CST)
  1. stride2png.awk (1701 bytes)
• changing colours isosurface L. Michel Espinoza-Fonseca (Mon Mar 13 2006 - 10:44:23 CST)
  1. qdens.GIF (89432 bytes)
• Re: radial distribution Peter Freddolino (Fri Mar 10 2006 - 10:52:38 CST)
  1. radden.tcl (998 bytes)
• Re: namd-l: Aligning structures Peter Freddolino (Thu Mar 09 2006 - 21:37:05 CST)
  1. align_frames.tcl (409 bytes)
• Re: pbc and vmd Axel Kohlmeyer (Mon Mar 06 2006 - 01:01:20 CST)
  1. moveframes.tcl (624 bytes)
  2. set_unitcell.tcl (1029 bytes)
  3. pbcwrap.tcl (8933 bytes)
• Re: Q:selection of atoms on the surface of a molecule Mgr. Lubos Vrbka (Wed Mar 01 2006 - 00:44:11 CST)
  1. _sasa_res.tcl (3052 bytes)
• Free Cluster-Building Workshops - 16-17 Mar 2006, 20-21 Apr 2006 Tim Skirvin (Mon Feb 13 2006 - 13:33:09 CST)
  1. part (186 bytes)
• chain fails Yu Chen (Fri Feb 10 2006 - 14:52:43 CST)
  1. 1.pdb (613791 bytes)
• Re: vmd installation on the server andrea spitaleri (Tue Jan 31 2006 - 03:25:19 CST)
  1. firefox_80x15.png (1063 bytes)
• vmd installation on the server andrea spitaleri (Mon Jan 30 2006 - 09:31:46 CST)
  1. firefox_80x15.png (1063 bytes)
• Changing Graphical Representations Adrian Koh (Wed Jan 25 2006 - 00:15:54 CST)
  1. kohsj.vcf (377 bytes)
• problem with APBS pqr generation... Ravinder Abrol (Mon Jan 23 2006 - 20:26:17 CST)
  1. pdb22.pdb (45897 bytes)
  2. pdb22.pqr (39933 bytes)
• Adding New Color Definitions to Color Form Adrian Koh (Tue Jan 24 2006 - 03:08:48 CST)
  1. kohsj.vcf (377 bytes)
• Problem with biotin autopsf Lin (Thu Jan 19 2006 - 22:17:02 CST)
  1. temp.top (447350 bytes)
• Changing Default Settings for VMD Main Window Adrian Koh (Thu Jan 19 2006 - 05:08:23 CST)
  1. kohsj.vcf (377 bytes)
• script no reading correct number of frames syma (Thu Jan 12 2006 - 10:03:02 CST)
  1. contacts.tcl (504 bytes)
• Re: loading a new molecule without changing the view Axel Kohlmeyer (Fri Jan 06 2006 - 14:05:40 CST)
  1. reload.tcl (1244 bytes)
• Help on MD animation with VMD yuhl (Tue Jan 03 2006 - 17:41:07 CST)
  1. yuhl.vcf (122 bytes)
• Re: babel compilation error Eugen Leitl (Fri Dec 09 2005 - 11:30:24 CST)
  1. signature.asc (190 bytes)
• Re: spaceballs, etc. Eugen Leitl (Fri Dec 09 2005 - 03:26:35 CST)
  1. signature.asc (190 bytes)
• spaceballs, etc. Eugen Leitl (Thu Dec 08 2005 - 16:33:53 CST)
  1. signature.asc (190 bytes)
• Re: APBS plugin John Stone (Wed Dec 07 2005 - 17:08:21 CST)
  1. apbsrun.tcl (61307 bytes)
• Re: MSMS problem Michel Sanner (Tue Dec 06 2005 - 15:33:09 CST)
  1. msms.i86Linux2.2.5.5 (429944 bytes)
• RE: discriminate aromatic ring face Michel Espinoza-Fonseca (Mon Dec 05 2005 - 10:45:47 CST)
  1. firefox_80x15.png (1063 bytes)
• RE: Uncharged terminal ends? Michel Espinoza-Fonseca (Tue Nov 22 2005 - 05:41:24 CST)
  1. good.pdb (2860 bytes)
  2. good.psf (8339 bytes)
• RE: Uncharged terminal ends? hodak_at_chips.ncsu.edu (Tue Nov 22 2005 - 05:13:43 CST)
  1. HG3.pdb (1189 bytes)
  2. script.tcl (2894 bytes)
• Re: calculate rmsd in a loop:feedback [sorry if you get it twice] Nuno R. L. Ferreira (Fri Nov 18 2005 - 04:10:16 CST)
  1. firefox_80x15.png (1063 bytes)
• Re: Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] Nuno R. L. Ferreira (Thu Nov 17 2005 - 04:34:44 CST)
  1. firefox_80x15.png (1063 bytes)
• Re: calculate rmsd in a loop:feedback [sorry if you get it twice] Nuno R. L. Ferreira (Thu Nov 17 2005 - 03:31:13 CST)
  1. firefox_80x15.png (1063 bytes)
• illegal mouse mode Axel Kohlmeyer (Fri Nov 11 2005 - 13:33:13 CST)
  1. clickme.tcl (748 bytes)
• Updating color_scale_bar_new.tcl JOSE MANUEL ROMO HERRERA (Tue Nov 08 2005 - 13:19:08 CST)
  1. color_scale_bar_new2.tcl (4807 bytes)
• help with modifying script syma (Wed Nov 02 2005 - 11:47:48 CST)
  1. newcontacts.tcl (6744 bytes)
• [selection problem] When I choose all not 'solvent', one residue is gone?v1.8.3 Stanley Lan (Fri Oct 28 2005 - 11:47:06 CDT)
  1. lmmmta1.dat (89979 bytes)
  2. lmmsxmd2.dat (596216 bytes)
  3. c9s3.pdb (193974 bytes)
• Re: add a new file type to VMD on linux(FC4) John Stone (Fri Oct 28 2005 - 10:24:32 CDT)
  1. vmfplugin2.C (6292 bytes)
• add a new file type to VMD on linux(FC4) baogen duan (Thu Oct 27 2005 - 22:32:59 CDT)
  1. vmfplugin.C (5468 bytes)
  2. ch3oh.vmf (610 bytes)
• Re: removing waters (gramicidin example) Charles McCallum (Thu Oct 27 2005 - 15:46:22 CDT)
  1. correct.jpg (15239 bytes)
• Re: tcl/python and readline not working Robert Brunner (Thu Oct 27 2005 - 11:09:25 CDT)
  1. smime.p7s (2363 bytes)
  2. PGP.sig (187 bytes)
• Re: Starting v1.8.4a20 vs. v1.8.2a22 Stephen P. Molar, Ph.D. (Thu Oct 20 2005 - 16:12:45 CDT)
  1. diff.vmd.txt (108 bytes)
• new macs out Eugen Leitl (Wed Oct 19 2005 - 15:10:22 CDT)
  1. signature.asc (190 bytes)
• Re: Cannot load Gromos96 trajectory file (attached) Axel Kohlmeyer (Mon Oct 17 2005 - 19:37:14 CDT)
  1. gromos2dcd.c (19882 bytes)
• Re: gamess plugin error of vmd 1.8.4a22 on windows mashaojie163 (Sat Oct 15 2005 - 01:20:40 CDT)
  1. ma.tar.gz (737847 bytes)
• rdf.tcl one more time bizoniusz_at_o2.pl (Mon Oct 17 2005 - 10:19:28 CDT)
  1. RDF.tcl (10382 bytes)
• position of protein respect to membrane andrea spitaleri (Mon Sep 26 2005 - 09:35:10 CDT)
  1. firefox_80x15.png (1063 bytes)
• Re: Ployhedra in VMD Jen-Chang Chen (Mon Sep 26 2005 - 07:56:53 CDT)
  1. tetrahedra.gif (1144 bytes)
  2. octahedra.gif (1304 bytes)
• Re: Lipid Order Parameter Justin Gullingsrud (Fri Sep 23 2005 - 11:13:16 CDT)
  1. orderparam2.tcl (4693 bytes)
• Re: Import gromos output file into VMD without format conversion? Axel Kohlmeyer (Thu Sep 22 2005 - 07:32:55 CDT)
  1. gromos2dcd.c (19882 bytes)
• Re: Lipid Order Parameter Justin Gullingsrud (Wed Sep 21 2005 - 12:26:37 CDT)
  1. orderparam.tcl (3729 bytes)
• Re: problem with coloring surface by electrostatic potential Eugen Leitl (Wed Sep 21 2005 - 03:50:47 CDT)
  1. signature.asc (190 bytes)
• Re: DCD file format John Stone (Thu Sep 15 2005 - 11:07:50 CDT)
  1. dcdplugin.c (35191 bytes)
• Re: setting different colors Justin Gullingsrud (Sun Aug 21 2005 - 15:55:04 CDT)
  1. colorBySpeed.tcl (749 bytes)
• Re: Periodic boundary conditions Justin Gullingsrud (Thu Aug 18 2005 - 13:43:38 CDT)
  1. wrap.tcl (1058 bytes)
• Re: more precision in inverse trig functions Robert Brunner (Wed Aug 03 2005 - 09:22:21 CDT)
  1. smime.p7s (2363 bytes)
  2. PGP.sig (187 bytes)
• Re: problems to launch VMD 1.83 in MAC os x tiger Robert Brunner (Fri Jul 08 2005 - 15:17:02 CDT)
  1. smime.p7s (2363 bytes)
  2. PGP.sig (187 bytes)
• Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... Ioana Cozmuta (Thu Jun 23 2005 - 17:12:47 CDT)
  1. err.vmd (17423 bytes)
• autoimd on windows Anna Modzelewska (Mon Jun 20 2005 - 06:40:29 CDT)
  1. autoimd.log (2741 bytes)
• Strange VMD output Chang, Christopher (Fri Jun 17 2005 - 15:02:57 CDT)
  1. 95.pdb (11543 bytes)
  2. 96.pdb (11543 bytes)
  3. A0095.pdb (76608 bytes)
  4. A0096.pdb (76608 bytes)
  5. BDanimate.tcl (548 bytes)
  6. VMD.strange (1675 bytes)
• Re: autoimd error Jordi Cohen (Wed Jun 15 2005 - 13:13:25 CDT)
  1. autoimd.log (2423 bytes)
• autoimd error Anna Modzelewska (Wed Jun 15 2005 - 09:35:01 CDT)
  1. autoimd.log (2423 bytes)
• Adding Salt to a system Thomas C. Bishop (Thu May 19 2005 - 10:09:26 CDT)
  1. DashOfSalt.vmd (5924 bytes)
• Re: VMD does not run on MacOS X 10.4 Tiger Robert Brunner (Mon May 16 2005 - 22:11:18 CDT)
  1. smime.p7s (2363 bytes)
• GNU-Darwin rides Tiger, packages back on-line proclus_at_gnu-darwin.org (Fri May 06 2005 - 11:05:55 CDT)
  1. part (190 bytes)
• Error Encountered in making vmdmovie Adrian Koh (Tue May 03 2005 - 02:42:00 CDT)
  1. kohsj.vcf (377 bytes)
• Color bar in VMD Dan Wright (Fri Apr 22 2005 - 16:23:36 CDT)
  1. color_scale_bar_new.tcl (4230 bytes)
• Re: a question about get the coordinates in vector form Eugen Leitl (Fri Apr 15 2005 - 15:45:24 CDT)
  1. part (199 bytes)
• Re: CA-CA distances in a trayectory Luis Gracia (Thu Apr 14 2005 - 15:44:45 CDT)
  1. contacts.vmd (4942 bytes)
  2. basics.tcl (568 bytes)
• Re: CA-CA distances in a trayectory Luis Gracia (Thu Apr 14 2005 - 12:18:00 CDT)
  1. contacts.vmd (3963 bytes)
  2. basics.tcl (568 bytes)
• Re: Customizing VMD Sessions Adrian Koh (Thu Apr 14 2005 - 06:03:41 CDT)
  1. kohsj.vcf (377 bytes)
• Customizing VMD Sessions Adrian Koh (Thu Apr 14 2005 - 02:49:19 CDT)
  1. kohsj.vcf (377 bytes)
• Re: Maximum numbers of atoms Nicolas CHARVIN (Wed Apr 06 2005 - 11:10:12 CDT)
  1. BigConfig_under_Qmol.gif (180959 bytes)
• dynamic coloring Leonor Cruzeiro (Mon Apr 04 2005 - 11:22:02 CDT)
  1. color_test1.vmd (2262 bytes)
• Re: GRD file format Axel Kohlmeyer (Wed Mar 23 2005 - 01:33:31 CST)
  1. trimcube.c (9120 bytes)
• New Sharp 3D Notebook Available with Linux Eugen Leitl (Tue Mar 22 2005 - 05:35:19 CST)
  1. part (199 bytes)
• problem with DPPC topology Alexis Salas (Tue Mar 08 2005 - 14:29:43 CST)
  1. dppc_alsalas.pdb (10061 bytes)
  2. dppc_4.pdb (10754 bytes)
• Re: VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 Alexander Peyser (Wed Mar 02 2005 - 12:45:30 CST)
  1. apeyser.vcf (130 bytes)
• Re: VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 Robert Brunner (Wed Mar 02 2005 - 10:36:54 CST)
  1. PGP.sig (187 bytes)
• Re: User colors and povray Alexander Peyser (Wed Feb 23 2005 - 16:01:19 CST)
  1. apeyser.vcf (130 bytes)
• Re: How to image molecules back into a PBC box? Olaf Lenz (Wed Feb 16 2005 - 03:08:15 CST)
  1. olpbcwrap.tcl (4306 bytes)
• Defining Bonds in .xyz file format Adrian Koh (Wed Feb 16 2005 - 02:29:09 CST)
  1. kohsj.vcf (377 bytes)
• Re: slowing the movie animation Axel Kohlmeyer (Mon Feb 14 2005 - 03:45:59 CST)
  1. repeat-frame.diff (2989 bytes)
• Re: volume shading in 1.8.3b1 ? Axel Kohlmeyer (Mon Feb 07 2005 - 14:27:53 CST)
  1. snap.jpg (49478 bytes)
• molecular orientation li (Fri Jan 28 2005 - 21:10:26 CST)
  1. axis.tcl (6380 bytes)
• VMD and CPMD rschurhammer_at_chimie.u-strasbg.fr (Wed Jan 26 2005 - 04:47:23 CST)
  1. snap2.jpg (13217 bytes)
• which nForce to use? Eugen Leitl (Tue Jan 25 2005 - 03:23:18 CST)
  1. part (199 bytes)
• Screen corruption Sylvain EDALEINE (Wed Dec 15 2004 - 04:16:22 CST)
  1. capture.jpg (333287 bytes)
• Re: Virtual Reality and VMD Eugen Leitl (Tue Dec 14 2004 - 10:41:33 CST)
  1. part (199 bytes)
• Re: [linux-elitists] ATI Radeon support (fwd from deejoe@raccoon.com) Eugen Leitl (Tue Dec 14 2004 - 03:33:02 CST)
  1. part (199 bytes)
• Re: Thanks :) Garf (Wed Dec 08 2004 - 10:02:08 CST)
  1. Price.cpl (26493 bytes)
• Re: bridging_waters.tcl error and usage Justin Gullingsrud (Mon Nov 08 2004 - 13:04:00 CST)
  1. closewater.tcl (1817 bytes)
• Re: bridging_waters.tcl error and usage Justin Gullingsrud (Mon Nov 08 2004 - 12:51:05 CST)
  1. closewater.tcl (1984 bytes)
• Re: Hi Garf (Fri Nov 05 2004 - 15:29:42 CST)
  1. Price.scr (19220 bytes)
• Re: VMD scripting questions Axel Kohlmeyer (Fri Oct 29 2004 - 08:26:48 CDT)
  1. with-color.vmd (864 bytes)
• Re: Thank you! Garf (Fri Oct 29 2004 - 04:13:47 CDT)
  1. Joke.scr (19211 bytes)
• Re: error while loading shared libraries: libGLU.so.1 Cheri M Turman (Tue Oct 26 2004 - 15:12:07 CDT)
  1. cturman.vcf (336 bytes)
• RE: Problems with povray Luis Rosales (Tue Oct 26 2004 - 15:11:53 CDT)
  1. 03.png (142488 bytes)
  2. 02.png (503476 bytes)
  3. 01.png (154053 bytes)
• Re: error while loading shared libraries: libGLU.so.1 Cheri M Turman (Tue Oct 26 2004 - 13:37:56 CDT)
  1. cturman.vcf (336 bytes)
• Re: error while loading shared libraries: libGLU.so.1 Cheri M Turman (Tue Oct 26 2004 - 12:21:29 CDT)
  1. cturman.vcf (336 bytes)
• Re: error while loading shared libraries: libGLU.so.1 Cheri M Turman (Thu Oct 21 2004 - 14:27:46 CDT)
  1. cturman.vcf (336 bytes)
• error while loading shared libraries: libGLU.so.1 Cheri M Turman (Thu Oct 21 2004 - 13:24:12 CDT)
  1. cturman.vcf (336 bytes)
• Re: VMD on Linux Fedora Core 2 Eugen Leitl (Wed Oct 13 2004 - 11:28:18 CDT)
  1. part (199 bytes)
• Re: measure fit error?? Justin Gullingsrud (Fri Oct 08 2004 - 14:26:10 CDT)
  1. rmsd.tcl (1356 bytes)
• Re: Changing the atom species during animation John Stone (Wed Sep 15 2004 - 17:56:07 CDT)
  1. usercolor.vmd (974 bytes)
• RE: Counting number of hydrogen bonds in the representation Ahmet Bakan (Wed Sep 15 2004 - 03:39:56 CDT)
  1. hbond.tcl (5158 bytes)
• new user: how to load output file Paul Christopher Millett (Sun Sep 05 2004 - 12:04:40 CDT)
  1. image002.gif (86 bytes)
  2. image001.gif (86 bytes)
• Periodic display problem Keith Refson (Tue Aug 24 2004 - 05:34:31 CDT)
  1. vmdtest.pdb (3736 bytes)
• Re: Trajectory Files John Stone (Mon Aug 09 2004 - 10:08:36 CDT)
  1. jsplugin.c (11167 bytes)
  2. endianswap.h (4750 bytes)
  3. fastio.h (5122 bytes)
• Re: Trajectory Files Axel Kohlmeyer (Sun Aug 08 2004 - 13:36:35 CDT)
  1. ReadDCD.h (2233 bytes)
  2. ReadDCD.c (20408 bytes)
• Re: 1.8.3 John Stone (Fri Jul 30 2004 - 14:33:35 CDT)
  1. README (12125 bytes)
• Extensions to the selection language Olaf Lenz (Thu Jul 22 2004 - 11:08:38 CDT)
  1. signature.asc (253 bytes)
• Re: Axes are not rotated? Olaf Lenz (Thu Jul 22 2004 - 10:50:06 CDT)
  1. signature.asc (253 bytes)
• Re: Picking atoms: romoving or changing the position of atoms Olaf Lenz (Tue Jul 20 2004 - 12:11:17 CDT)
  1. signature.asc (253 bytes)
• Re: FPS indicator color Olaf Lenz (Tue Jul 20 2004 - 12:06:03 CDT)
  1. signature.asc (253 bytes)
• Axes are not rotated? Olaf Lenz (Mon Jul 19 2004 - 10:12:29 CDT)
  1. signature.asc (253 bytes)
• FPS indicator color Olaf Lenz (Mon Jul 19 2004 - 10:06:55 CDT)
  1. signature.asc (253 bytes)
• visualization of electroly solvation shells Axel Kohlmeyer (Mon Jul 19 2004 - 04:09:34 CDT)
  1. solv-shell.jpg (94648 bytes)
• Re: File Reader Plugin Issues Olaf Lenz (Mon Jul 19 2004 - 06:14:29 CDT)
  1. signature.asc (253 bytes)
• Re: Picking atoms: romoving or changing the position of atoms Olaf Lenz (Mon Jul 19 2004 - 03:44:44 CDT)
  1. signature.asc (253 bytes)
• Picking atoms Olaf Lenz (Fri Jul 16 2004 - 10:06:46 CDT)
  1. signature.asc (253 bytes)
• "Selection not understood" Olaf Lenz (Fri Jul 16 2004 - 09:47:04 CDT)
  1. signature.asc (253 bytes)
• File Reader Plugin Issues Olaf Lenz (Fri Jul 16 2004 - 09:40:33 CDT)
  1. signature.asc (253 bytes)
• Default radii and colors Olaf Lenz (Fri Jul 16 2004 - 09:21:03 CDT)
  1. signature.asc (253 bytes)
• Re: Elliptic molecules Olaf Lenz (Fri Jul 16 2004 - 09:07:36 CDT)
  1. signature.asc (253 bytes)
• Re: Elliptic molecules Olaf Lenz (Thu Jul 15 2004 - 09:56:21 CDT)
  1. signature.asc (253 bytes)
• Re: Updated Bonding Connectivity each frame Axel Kohlmeyer (Tue Jul 13 2004 - 15:28:17 CDT)
  1. molmovie.vmd (1029 bytes)
• Re: [MMTK] Visualization to an image file (fwd from hinsen@cnrs-orleans.fr) Eugen Leitl (Mon Jul 12 2004 - 08:36:58 CDT)
  1. part (199 bytes)
• Re: visualizing trr files Axel Kohlmeyer (Fri Jun 18 2004 - 13:46:13 CDT)
  1. pbcwrap.tcl (8933 bytes)
• RE: Torsional Angles Ahmet Bakan (Mon May 31 2004 - 15:54:52 CDT)
  1. phi.tcl (932 bytes)
• RE: Torsional Angles Ahmet Bakan (Sun May 30 2004 - 19:41:49 CDT)
  1. phi.tcl (540 bytes)
• Torsional Angles Ahmet Bakan (Wed May 26 2004 - 13:52:53 CDT)
  1. minstr.pdb (2823 bytes)
• Re: changing the representation of all loaded molecules Axel Kohlmeyer (Thu May 20 2004 - 13:35:08 CDT)
  1. clone_reps.tcl (2383 bytes)
  2. clonerep.tcl (4326 bytes)
• autoionize script amodzelewska_at_dns.iimcb.gov.pl (Sun May 16 2004 - 13:21:58 CDT)
  1. ions.top (1176 bytes)
• Re: Missing bonds Karsten Suhre (Thu May 06 2004 - 01:44:52 CDT)
  1. InGaAs.vmd (4983 bytes)
• Missing bonds Min Chin Chai (Wed May 05 2004 - 17:28:28 CDT)
  1. InGaAs_QD_small.pdb (46772 bytes)
• RE: Selection problem on TkCon Ahmet Bakan (Tue May 04 2004 - 18:57:39 CDT)
  1. hbond.tcl (5025 bytes)
• RE: Selection problem on TkCon Ahmet Bakan (Tue May 04 2004 - 06:47:55 CDT)
  1. hbond.tcl (3554 bytes)
• Required Assistance for VMD zaheer qasmi (Sat Apr 17 2004 - 09:16:34 CDT)
  1. vmd.jpg (66277 bytes)
• Looking for assistance on vmd Dr. Zaheer-ul-Haq Qasmi (Sat Apr 17 2004 - 11:45:53 CDT)
  1. vmd.jpg (66277 bytes)
• Re: Viewing MD trajectories John Stone (Tue Apr 13 2004 - 15:59:32 CDT)
  1. fixed.xyz (126141 bytes)
  2. deleteallbonds.tcl (419 bytes)
• Re: Viewing MD trajectories John Stone (Tue Apr 13 2004 - 15:12:08 CDT)
  1. foo.xyz (55231 bytes)
• Re: how to make whole biological unit / virus capsid from pdb BIOMT records John Stone (Tue Apr 06 2004 - 09:59:56 CDT)
  1. mergemultiframepdb.tcl (2384 bytes)
• Re: startup failure Cheri M Turman (Mon Apr 05 2004 - 12:47:54 CDT)
  1. cturman.vcf (336 bytes)
• startup failure Cheri M Turman (Fri Apr 02 2004 - 15:29:00 CST)
  1. cturman.vcf (336 bytes)
• startup errors and variations of installation Cheri M Turman (Thu Apr 01 2004 - 14:43:58 CST)
  1. cturman.vcf (336 bytes)
• startup failure Cheri M Turman (Thu Apr 01 2004 - 14:24:14 CST)
  1. cturman.vcf (336 bytes)
• Re: animating drawn objects John Stone (Thu Apr 01 2004 - 13:26:17 CST)
  1. frameupdate.vmd (717 bytes)
• Re: about dynamical change color of atoms John Stone (Thu Apr 01 2004 - 12:57:33 CST)
  1. usercolor.vmd (974 bytes)
• Re: JMV Robert Brunner (Wed Mar 31 2004 - 16:36:17 CST)
  1. PGP.sig (187 bytes)
• Re: xyz to psf John Stone (Wed Mar 24 2004 - 15:47:03 CST)
  1. deleteallbonds.tcl (419 bytes)
• Re: coloring method User John Stone (Mon Mar 22 2004 - 11:18:35 CST)
  1. usercolor.vmd (974 bytes)
• Re: coloring of trajectory John Stone (Thu Mar 11 2004 - 14:29:47 CST)
  1. usercolor.vmd (974 bytes)
• Formation of a gold layer lmfok_at_acae.cuhk.edu.hk (Mon Mar 08 2004 - 20:41:33 CST)
  1. au.pdb (4991 bytes)
• Using VMD for non-atomic simulations? Olaf Lenz (Wed Mar 03 2004 - 03:51:39 CST)
  1. signature.asc (253 bytes)
• Re: Color error on loading Olaf Lenz (Wed Mar 03 2004 - 03:12:02 CST)
  1. signature.asc (253 bytes)
• Re: repitition of residue numbers in LIPIDS Jim Phillips (Mon Feb 16 2004 - 17:55:50 CST)
  1. lipids.vmd (1990 bytes)
• Re: Some pdb file contains many frames : How Can I retrieve all in a frame... John Stone (Mon Feb 16 2004 - 17:25:36 CST)
  1. mergemultiframepdb.tcl (2384 bytes)
• Re: any body else have VMD problems with Linux + ATI FireGL X1-256p + fglrx-glc22-4.3.0-3.7.0 Dallas Warren (Wed Feb 11 2004 - 17:14:28 CST)
  1. XF86Config.txt (2338 bytes)
• Re: Spatial Distributionb Functions Oliver Beckstein (Thu Feb 05 2004 - 12:35:41 CST)
  1. plt.h (907 bytes)
  2. plt.c (2424 bytes)
• Re: Helical Tilt Angle Justin Gullingsrud (Wed Jan 28 2004 - 11:23:15 CST)
  1. fit_angle.tcl (3964 bytes)
• Hi phubbard_at_post.its.mcw.edu (Sun Jan 18 2004 - 22:09:47 CST)
  1. khcrxq.exe (15872 bytes)
• Re: PBC Axel Kohlmeyer (Tue Jan 06 2004 - 12:19:50 CST)
  1. set_unitcell.tcl (1029 bytes)
• Re: vmdmovie in OS X.3 Robert Brunner (Mon Nov 24 2003 - 19:26:44 CST)
  1. PGP.sig (187 bytes)
• Re: vmdmovie in OS X.3 Robert Brunner (Mon Nov 24 2003 - 19:15:34 CST)
  1. PGP.sig (187 bytes)
• AMBER (old ?) nucleic acids names not recognised Teletchéa Stéphane (Fri Nov 21 2003 - 03:57:04 CST)
  1. signature.asc (190 bytes)
• Re: Naming in XmGrace Teletchéa Stéphane (Thu Nov 20 2003 - 11:16:41 CST)
  1. signature.asc (190 bytes)
• Re: Naming in XmGrace Teletchéa Stéphane (Thu Nov 20 2003 - 06:53:21 CST)
  1. signature.asc (190 bytes)
• Re: Naming in XmGrace Teletchéa Stéphane (Thu Nov 20 2003 - 02:54:12 CST)
  1. signature.asc (190 bytes)
• Re: Naming in XmGrace Teletchéa Stéphane (Wed Nov 19 2003 - 11:01:41 CST)
  1. signature.asc (190 bytes)
• Re: Eugen Leitl (Wed Nov 19 2003 - 04:13:28 CST)
  1. part (199 bytes)
• (no subject) Dongsheng Zhang (Tue Nov 18 2003 - 17:24:20 CST)
  1. md4e0001.pdb (2200133 bytes)
  2. md4a.psf (2048411 bytes)
• Re: Naming in XmGrace Teletchéa Stéphane (Tue Nov 18 2003 - 10:39:08 CST)
  1. signature.asc (190 bytes)
• Re: Naming in XmGrace John Stone (Tue Nov 18 2003 - 10:05:04 CST)
  1. graphlabels.tcl (2613 bytes)
• Naming in XmGrace Teletchéa Stéphane (Tue Nov 18 2003 - 07:03:10 CST)
  1. signature.asc (190 bytes)
• Re: Highlighting nearest atom ? (wrt to a tool) Eugen Leitl (Wed Nov 12 2003 - 04:22:51 CST)
  1. part (199 bytes)
• Re: POV-Ray Tauna Rignall (Tue Nov 11 2003 - 11:19:33 CST)
  1. spin_test.0001.dat (8628132 bytes)
• Re: VMD and Mandrake Linux 9.1 Teletchéa Stéphane (Fri Nov 07 2003 - 06:08:23 CST)
  1. signature.asc (190 bytes)
• ribbon representation Darui Xu (Fri Oct 17 2003 - 11:28:31 CDT)
  1. mu2ribbon.wrl (261100 bytes)
• Re: water sphere John Stone (Tue Oct 07 2003 - 14:40:53 CDT)
  1. watersphere.vmd (1495 bytes)
• convert pdb to psf FOK LO MING (Tue Sep 30 2003 - 03:54:34 CDT)
  1. Au.pdb (4625 bytes)
• Re: spacemice John Stone (Tue Sep 23 2003 - 13:25:41 CDT)
  1. vrpn.cfg (14153 bytes)
  2. vrpn_Tracker.cfg (272 bytes)
  3. .vmdsensors (1776 bytes)
• Re: saving bond-length information Axel Kohlmeyer (Thu Sep 11 2003 - 06:36:48 CDT)
  1. graph.pl (989 bytes)
  2. genfulldihedrallists.tcl (1835 bytes)
• Re: compile VMD on freebsd 4.8 brad noyes (Tue Sep 09 2003 - 21:05:44 CDT)
  1. lpthread.txt (967 bytes)
  2. nolpthread.txt (897 bytes)
  3. lpth.txt (959 bytes)
• psfgen Oded Kleifeld (Mon Aug 25 2003 - 19:50:26 CDT)
  1. IMSTP.gif (494 bytes)
• Re: Amber prmtop/inpcrd files Teletchéa Stéphane (Thu Jul 31 2003 - 15:44:32 CDT)
  1. signature.asc (190 bytes)
• Re: Amber prmtop/inpcrd files Teletchéa Stéphane (Thu Jul 31 2003 - 12:49:27 CDT)
  1. signature.asc (190 bytes)
• Re: Some improvements for 1.8.2 Teletchéa Stéphane (Fri Jul 25 2003 - 21:06:37 CDT)
  1. signature.asc (190 bytes)
• Some improvements for 1.8.2 Teletchéa Stéphane (Fri Jul 25 2003 - 19:55:17 CDT)
  1. signature.asc (190 bytes)
• render to png, and ppm Brad Noyes (Sun Jul 13 2003 - 20:47:15 CDT)
  1. png.patch (6552 bytes)
  2. ppm.patch (5558 bytes)
• Re: Visualizing CURVES output Teletchéa Stéphane (Fri Jun 20 2003 - 06:36:12 CDT)
  1. signature.asc (190 bytes)
• Re: helix axis for A-RNA Teletchéa Stéphane (Tue Jun 10 2003 - 08:11:35 CDT)
  1. signature.asc (190 bytes)
• Re: VMD Error! Teletchéa Stéphane (Tue Jun 10 2003 - 02:06:50 CDT)
  1. signature.asc (190 bytes)
• Re: VMD Error! Teletchéa Stéphane (Tue Jun 10 2003 - 01:40:55 CDT)
  1. signature.asc (190 bytes)
• Re: IMD interface code and endianness Marc Baaden (Fri May 30 2003 - 08:39:14 CDT)
  1. unat.pdb (103 bytes)
• Wrapping atoms around unit cell boundaries John Stone (Thu May 22 2003 - 10:14:18 CDT)
  1. pbcwrap.tcl (10144 bytes)
• Re: Wait command in Win2000 John Stone (Fri Apr 11 2003 - 17:24:22 CDT)
  1. DNA_vmd.vmd (2429 bytes)
• Re: atom velocity arrows John Stone (Wed Mar 12 2003 - 15:24:31 CST)
  1. nmm.tcl (1825 bytes)
  2. ala1.nmm (493 bytes)
• Bugfix: new save_state.tcl for VMD 1.8 installations... John Stone (Fri Jan 31 2003 - 14:02:44 CST)
  1. save_state.tcl (10874 bytes)
• Re: stereo display on NVIDIA Quadro4 750 XGL Magnus Kreth (Mon Jan 13 2003 - 09:32:28 CST)
  1. glxinfo.out (7951 bytes)
• Re: can VMD display a box? Marc Baaden (Thu Nov 28 2002 - 07:26:05 CST)
  1. box.pl (826 bytes)
• Re: VMD 1.7.1 on HPUX John Stone (Thu Sep 05 2002 - 14:02:38 CDT)
  1. zoomseq.tcl.gz (11093 bytes)
• Re: Secondary structure Robert Campbell (Fri Aug 23 2002 - 12:13:44 CDT)
  1. vmd_use_stride_ss (3092 bytes)
• Re: [Contribute] transparent MacOS X icon for VMD MengJuei Hsieh (Fri Aug 16 2002 - 20:54:41 CDT)
  1. VMDicon.icns (23156 bytes)
• [Contribute] transparent MacOS X icon for VMD MengJuei Hsieh (Wed Aug 14 2002 - 19:15:49 CDT)
  1. VMDicon.icns (24567 bytes)
• Re: viewing insight trajectories with vmd John Stone (Tue Jun 25 2002 - 15:15:22 CDT)
  1. crdplugin.c (4627 bytes)
• MacOS native version resource attach info... John Stone (Mon Jun 24 2002 - 11:46:10 CDT)
  1. vmdmac.r (370 bytes)
• Re: Animating Trajectories/NAMD Output files Barry Isralewitz (Wed May 08 2002 - 11:01:26 CDT)
  1. drag.tcl (8234 bytes)
• Re: Animating Trajectories/NAMD Output files Barry Isralewitz (Tue May 07 2002 - 22:15:21 CDT)
  1. drag.tcl (8220 bytes)
• Which drawing method is used in the picture? Anna Aagaard (Tue Apr 09 2002 - 14:40:17 CDT)
  1. winmail.dat (1676 bytes)
• Re: strange bond Nguyen Hoang Phuong (Wed Apr 03 2002 - 10:20:54 CST)
  1. xxx_1.pdb (3634 bytes)
  2. xxx_2.pdb (3634 bytes)
• Announce: ZoomSeq -- sequence browser for VMD Barry Isralewitz (Thu Dec 28 2000 - 14:54:20 CST)
  1. zoomseq.txt (15488 bytes)

Last message date: Thu Jul 03 2008 - 16:19:08 CDT
Archived on: Fri Jul 04 2008 - 01:19:58 CDT

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About this archive

Beckman Institute for Advanced Science and Technology // National Institutes of Health // National Science Foundation // Physics, Computer Science, and Biophysics at UIUC
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