From: Schubert, C. [PRDUS] <CSC...@it...> - 2011-05-11 17:33:22
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Hi, The latest PyMol (1.4.1, 32bit Linux version) does not load PDB files from the command line anymore. Does anybody have the same problem? What am I missing? Cheers, Carsten |
From: Schubert, C. [PRDUS] <CSC...@it...> - 2011-05-11 21:56:26
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Hi Alvin, thanks for the reply. Sorry, but I was not clear in describing the problem. What I meant was that loading pdb files as arguments to pymol does not seem to work anymore, i.e. 'shell_prompt #> pymol x.pdb y.pdb' does not load x.pdb and y.pdb on startup. At least in 1.3 that mechanism worked. Cheers, Carsten > -----Original Message----- > From: Alvin Oga [mailto:pymol.list@Mail.Linux-1U.net] > Sent: Wednesday, May 11, 2011 5:49 PM > To: Schubert, Carsten [PRDUS] > Cc: pym...@li... > Subject: Re: [PyMOL] Pymol 1.4.1 does not load PDBs from command line > anymore > > > hi carsten > > on freebsd, command line works for me ( pymol> load pept.pdb ), > works as in the molecule changes to the new loaded one > > i downloaded pymol-1.4.1 from svn and compiled the sources on freebsd- > 7.4, 8.2, 6.4 > > --- > > downloading/compiling pymol-1.4.1 on debian-sid has problems tho > and it doesn't execute properly > ( probably because i tend to change pesky/unreasonable system default > files ) > > i can try to download/compile/test on other linux's .. > i have centos-5.4, 5.5, 5.6, fedora-core14, opensuse-11.3, 11.4, > slackware-12.3 ) > > centos/fedora "supposed to be" identical to redhat > > which linux versions do you have ?? > > have fun > alvin > http://Linux-1U.net/BioChem > > > The latest PyMol (1.4.1, 32bit Linux version) does not load PDB files > > from the command line anymore. Does anybody have the same problem? > What > > am I missing? |
From: <li...@co...> - 2011-05-11 22:27:25
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Works for me. -David On May 11, 2011, at 5:56 PM, "Schubert, Carsten [PRDUS]" <CSC...@it...> wrote: > Hi Alvin, > > thanks for the reply. Sorry, but I was not clear in describing the > problem. What I meant was that loading pdb files as arguments to pymol > does not seem to work anymore, i.e. 'shell_prompt #> pymol x.pdb y.pdb' > does not load x.pdb and y.pdb on startup. At least in 1.3 that mechanism > worked. > > Cheers, > > Carsten > > >> -----Original Message----- >> From: Alvin Oga [mailto:pymol.list@Mail.Linux-1U.net] >> Sent: Wednesday, May 11, 2011 5:49 PM >> To: Schubert, Carsten [PRDUS] >> Cc: pym...@li... >> Subject: Re: [PyMOL] Pymol 1.4.1 does not load PDBs from command line >> anymore >> >> >> hi carsten >> >> on freebsd, command line works for me ( pymol> load pept.pdb ), >> works as in the molecule changes to the new loaded one >> >> i downloaded pymol-1.4.1 from svn and compiled the sources on freebsd- >> 7.4, 8.2, 6.4 >> >> --- >> >> downloading/compiling pymol-1.4.1 on debian-sid has problems tho >> and it doesn't execute properly >> ( probably because i tend to change pesky/unreasonable system default >> files ) >> >> i can try to download/compile/test on other linux's .. >> i have centos-5.4, 5.5, 5.6, fedora-core14, opensuse-11.3, 11.4, >> slackware-12.3 ) >> >> centos/fedora "supposed to be" identical to redhat >> >> which linux versions do you have ?? >> >> have fun >> alvin >> http://Linux-1U.net/BioChem >> >>> The latest PyMol (1.4.1, 32bit Linux version) does not load PDB > files >>> from the command line anymore. Does anybody have the same problem? >> What >>> am I missing? > > > ------------------------------------------------------------------------------ > Achieve unprecedented app performance and reliability > What every C/C++ and Fortran developer should know. > Learn how Intel has extended the reach of its next-generation tools > to help boost performance applications - inlcuding clusters. > http://p.sf.net/sfu/intel-dev2devmay > _______________________________________________ > PyMOL-users mailing list (PyM...@li...) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pym...@li... |
From: Jason V. <jas...@sc...> - 2011-05-11 22:37:47
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Hi Carsten, That's pretty odd. Can you please show us exactly what you're typing? Also, please provide the PyMOL and OS versions. Cheers, -- Jason On Wed, May 11, 2011 at 1:33 PM, Schubert, Carsten [PRDUS] <CSC...@it...> wrote: > Hi, > > The latest PyMol (1.4.1, 32bit Linux version) does not load PDB files from > the command line anymore. Does anybody have the same problem? What am I > missing? > > Cheers, > > Carsten > > ------------------------------------------------------------------------------ > Achieve unprecedented app performance and reliability > What every C/C++ and Fortran developer should know. > Learn how Intel has extended the reach of its next-generation tools > to help boost performance applications - inlcuding clusters. > http://p.sf.net/sfu/intel-dev2devmay > _______________________________________________ > PyMOL-users mailing list (PyM...@li...) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pym...@li... > -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) Jas...@sc... (o) +1 (603) 374-7120 |
From: Schubert, C. [PRDUS] <CSC...@it...> - 2011-05-12 11:25:31
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Sorry Guys, my bad. I had a Homer Simpson moment while writing a wrapper to integrate 32bit and 64bit environments and forgot to pass along arguments to the actual pymol startup script. Apologies... Carsten > -----Original Message----- > From: Jason Vertrees [mailto:jas...@sc...] > Sent: Wednesday, May 11, 2011 6:37 PM > To: Schubert, Carsten [PRDUS] > Cc: pym...@li... > Subject: Re: [PyMOL] Pymol 1.4.1 does not load PDBs from command line > anymore > > Hi Carsten, > > That's pretty odd. Can you please show us exactly what you're typing? > Also, please provide the PyMOL and OS versions. > > Cheers, > > -- Jason > > On Wed, May 11, 2011 at 1:33 PM, Schubert, Carsten [PRDUS] > <CSC...@it...> wrote: > > Hi, > > > > The latest PyMol (1.4.1, 32bit Linux version) does not load PDB files > from > > the command line anymore. Does anybody have the same problem? What am > I > > missing? > > > > Cheers, > > > > Carsten > > > > --------------------------------------------------------------------- > --------- > > Achieve unprecedented app performance and reliability > > What every C/C++ and Fortran developer should know. > > Learn how Intel has extended the reach of its next-generation tools > > to help boost performance applications - inlcuding clusters. > > http://p.sf.net/sfu/intel-dev2devmay > > _______________________________________________ > > PyMOL-users mailing list (PyM...@li...) > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > Archives: http://www.mail-archive.com/pymol- > us...@li... > > > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) Jas...@sc... > (o) +1 (603) 374-7120 |