Re: [PyMOL] Problem Compiling Pymol 1.2.x
On 11/20/2009 07:43 PM, Jason Vertrees wrote: Stephen, openSuse Linux does not come with Pmw installed by default. Please re-download and install Pmw. Let me know if it's something else. -- Jason Jason Vertrees, PhD PyMOLWiki -- http://www.pymolwiki.org On Fri, Nov 20, 2009 at 4:54 PM, Justin Lecher j.lec...@fz-juelich.de wrote: Stephen P. Molnar wrote: Here's teh end of the log file that I recorded. I really don't have anyplace to which to upload the entire 125 kb log file. Hi Stephen, as Donnie already mentioned, we cannot help if we could not see the _complete_ build.log. From the part you past, it looks succesfull. So please try to provide us the log, in worst case compress it and attach it to your mail. What exactly is the output if you start it in a shell? Justin -- Justin Lecher Institute for Neuroscience and Biophysics ISB 3 - Institute for structural biochemistry Research Centre Juelich GmbH, 52425 Juelich,Germany phone: +49 2461 61 5385 -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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 -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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 Many thanks. That was the missing library. The compilation was completly successful. I still have a bit of a problem, however. When I attempt toinstall a new plugin I get an error message: Unable to write to the plugin directory. Perhaps you have insufficient privileges? I don't understand this as /home/computation/Applications/pymol/modules/pmg_tk/startup has rwx privileges, -- Stephen P. Molnar, Ph.D. Life is a fuzzy set Foundation for Chemistry Stochastic and multivariate http://www.FoundationForChemistry.com -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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
Re: [PyMOL] Problem Compiling Pymol 1.2.x
Hey Stephen, make sure you have Tkinter and freeglut-devel installed. These are the dependencies that make trouble in RHEL. Andreas Stephen P. Molnar wrote: I had successfully compiled Plymol from the Subversion repository in OpenSuSE v103. Linux. I say successfully, because I have just upgraded my linux computer to OpenSuSE v11.2. Unfortunaltely, I have a bit of a problem compiling the source code in the new linux OS in that I can compile the PyMol Viewer but notthe Pcl/Tck GUI. Obviously there is something missing in the new compiler installation, but I don't have the faintest idea as to what it could be. I was wonderig if anyone else has encountered this problem and/or might have a possible solution? Thanks in advance. -- Andreas Förster, Research Associate Paul Freemont Xiaodong Zhang Labs Department of Biochemistry, Imperial College London http://www.msf.bio.ic.ac.uk -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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
Re: [PyMOL] Problem Compiling Pymol 1.2.x
On 13:38 Fri 20 Nov , Stephen P. Molnar wrote: I had successfully compiled Plymol from the Subversion repository in OpenSuSE v103. Linux. I say successfully, because I have just upgraded my linux computer to OpenSuSE v11.2. Unfortunaltely, I have a bit of a problem compiling the source code in the new linux OS in that I can compile the PyMol Viewer but notthe Pcl/Tck GUI. Obviously there is something missing in the new compiler installation, but I don't have the faintest idea as to what it could be. I was wonderig if anyone else has encountered this problem and/or might have a possible solution? Dear Stephen, Could you supply the complete error message you encountered, along with the final line of compilation? It's very difficult to make any suggestions without seeing exactly what happened. If it's unclear to you what to send, just upload the whole build log somewhere and post a link to it here. -- Thanks, Donnie Donald S. Berkholz, Postdoctoral research fellow James R. Thompson lab, Physiology Biomedical Engineering Grazia Isaya lab, Pediatric Adolescent Medicine Mayo Clinic College of Medicine 200 First Street SW Rochester, MN 55905 -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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
Re: [PyMOL] Problem Compiling Pymol 1.2.x
On 11/20/2009 02:16 PM, Donnie Berkholz wrote: On 13:38 Fri 20 Nov , Stephen P. Molnar wrote: I had successfully compiled Plymol from the Subversion repository in OpenSuSE v103. Linux. I say successfully, because I have just upgraded my linux computer to OpenSuSE v11.2. Unfortunaltely, I have a bit of a problem compiling the source code in the new linux OS in that I can compile the PyMol Viewer but notthe Pcl/Tck GUI. Obviously there is something missing in the new compiler installation, but I don't have the faintest idea as to what it could be. I was wonderig if anyone else has encountered this problem and/or might have a possible solution? Dear Stephen, Could you supply the complete error message you encountered, along with the final line of compilation? It's very difficult to make any suggestions without seeing exactly what happened. If it's unclear to you what to send, just upload the whole build log somewhere and post a link to it here. Here's teh end of the log file that I recorded. I really don't have anyplace to which to upload the entire 125 kb log file. running install running install_lib copying build/lib.linux-x86_64-2.6/pymol/_cmd.so - /usr/local/lib64/python2.6/site-packages/pymol copying build/lib.linux-x86_64-2.6/pymol/opengl/glu/_glu_num.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/glu copying build/lib.linux-x86_64-2.6/pymol/opengl/glu/_glu.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/glu copying build/lib.linux-x86_64-2.6/pymol/opengl/gl/openglutil_num.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/gl copying build/lib.linux-x86_64-2.6/pymol/opengl/gl/_opengl.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/gl copying build/lib.linux-x86_64-2.6/pymol/opengl/gl/_opengl_num.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/gl copying build/lib.linux-x86_64-2.6/pymol/opengl/gl/openglutil.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/gl copying build/lib.linux-x86_64-2.6/pymol/opengl/glut/_glut.so - /usr/local/lib64/python2.6/site-packages/pymol/opengl/glut copying build/lib.linux-x86_64-2.6/chempy/champ/_champ.so - /usr/local/lib64/python2.6/site-packages/chempy/champ running install_egg_info Removing /usr/local/lib64/python2.6/site-packages/pymol-1.2.0-py2.6.egg-info Writing /usr/local/lib64/python2.6/site-packages/pymol-1.2.0-py2.6.egg-info After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall [1m[31mabnormal:/sda1/src/pymol # (B[mpython setup2.py install Installing into /usr/local/lib64/python2.6/site-packages ... Created ./pymol which can be used to launch PyMOL. You may wish to copy this file into a standard location such as /usr/bin or /usr/local/bin. -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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
Re: [PyMOL] Problem Compiling Pymol 1.2.x
Stephen P. Molnar wrote: Here's teh end of the log file that I recorded. I really don't have anyplace to which to upload the entire 125 kb log file. Hi Stephen, as Donnie already mentioned, we cannot help if we could not see the _complete_ build.log. From the part you past, it looks succesfull. So please try to provide us the log, in worst case compress it and attach it to your mail. What exactly is the output if you start it in a shell? Justin -- Justin Lecher Institute for Neuroscience and Biophysics ISB 3 - Institute for structural biochemistry Research Centre Juelich GmbH, 52425 Juelich,Germany phone: +49 2461 61 5385 signature.asc Description: OpenPGP digital signature -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july___ 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
Re: [PyMOL] Problem Compiling Pymol 1.2.x
Stephen, openSuse Linux does not come with Pmw installed by default. Please re-download and install Pmw. Let me know if it's something else. -- Jason Jason Vertrees, PhD PyMOLWiki -- http://www.pymolwiki.org On Fri, Nov 20, 2009 at 4:54 PM, Justin Lecher j.lec...@fz-juelich.de wrote: Stephen P. Molnar wrote: Here's teh end of the log file that I recorded. I really don't have anyplace to which to upload the entire 125 kb log file. Hi Stephen, as Donnie already mentioned, we cannot help if we could not see the _complete_ build.log. From the part you past, it looks succesfull. So please try to provide us the log, in worst case compress it and attach it to your mail. What exactly is the output if you start it in a shell? Justin -- Justin Lecher Institute for Neuroscience and Biophysics ISB 3 - Institute for structural biochemistry Research Centre Juelich GmbH, 52425 Juelich,Germany phone: +49 2461 61 5385 -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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 -- Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july ___ 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
