Hi David (and list), Your PyMOL sessions are fine, it's the save syntax you're using. Please use the following syntax when saving via the command line:
save fileName.pdb, aPyMOLSelection It's important that the filename come first, and be immediately followed by a comma. Please check "help save" for more information. If you're saving a multi-state system (your PSE has two states) then you can add the state flag as save fileName.pdb, aPyMOLSelection, state=0 to save all states or save fileName.pdb, aPyMOLSelection, state=2 to save state 2. Cheers, -- Jason On Thu, Jan 27, 2011 at 7:59 PM, Jason Vertrees <jason.vertr...@schrodinger.com> wrote: > Hi David, > > Can you please send me the PSE? If not, do you have multiple states? > Are you using the save command or the GUI? > > Cheers, > > -- Jason > > On Thu, Jan 27, 2011 at 1:50 PM, David A. Horita <dhor...@wfubmc.edu> wrote: >> Hi, >> I've apparently managed to create a pse of a protein that loads fine but >> won't save the pdb coordinates (I get a file with END in it, and nothing >> else). >> Any ideas how to get the coordinates out? >> >> pymol 1.1b3 linux, windows (same pse has same result under both OS's) >> >> Thanks, >> Dave >> >> ----------------------------- >> David A. Horita, Ph.D. >> Department of Biochemistry >> Wake Forest University School of Medicine >> Winston-Salem, NC 27157-1016 >> Tel: 336 713-4194 >> Fax: 336 716-7671 >> email: dhor...@wfubmc.edu >> web: http://www1.wfubmc.edu/biochem/faculty/Horita.htm >> >> ------------------------------------------------------------------------------ >> Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! >> Finally, a world-class log management solution at an even better price-free! >> Download using promo code Free_Logger_4_Dev2Dev. Offer expires >> February 28th, so secure your free ArcSight Logger TODAY! >> http://p.sf.net/sfu/arcsight-sfd2d >> _______________________________________________ >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >> > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 > -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 ------------------------------------------------------------------------------ Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
