Dear Robert, Thank you for your note. You were right. I downloaded i386 for my Linux computer and it runs. The funny part is that my computer has 64 bit Xeon processor. Go figure ...
Vaheh Oganesyan -----Original Message----- From: pymol-users-boun...@lists.sourceforge.net [mailto:pymol-users-boun...@lists.sourceforge.net]on Behalf Of Robert Campbell Sent: Wednesday, May 30, 2007 11:06 AM To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] APBS Hi Vaheh, * Oganesyan, Vaheh <oganesy...@medimmune.com> [2007-05-30 09:45] wrote: > I did not get much luck with those recommendations either. I was doing exactly the same. Something is phishy with my pymol and/or APBS installation. I did check for different pdb files, so it is not pdb related. The roor message is below: > ======================================================================== ====================================== > Running ('/usr/bin/APBS/apbs-0.5.0/bin/apbs', '/home/Vaheh/Work/Fc3M/pymol-generated.in') > OSError Exception in Tk callback > Function: <function <lambda> at 0xf608448c> (type: <type 'function'>) > Args: () > Traceback (innermost last): > File "/usr/bin/pymol/ext/lib/python2.4/site-packages/Pmw/Pmw_1_2/lib/PmwBase. py", line 1747, in __call__ > return apply(self.func, args) > File "/usr/bin/pymol/ext/lib/python2.4/site-packages/Pmw/Pmw_1_2/lib/PmwDialo g.py", line 153, in <lambda> > command=lambda self=self, name=name: self._doCommand(name)) > File "/usr/bin/pymol/ext/lib/python2.4/site-packages/Pmw/Pmw_1_2/lib/PmwDialo g.py", line 132, in _doCommand > return command(name) > File "/usr/bin/pymol/modules/pmg_tk/startup/apbs_tools.py", line 1101, in execute > (retval,progout) = run(self.binary.getvalue(),(self.pymol_generated_in_filename.getvalue(), )) > File "/usr/bin/pymol/modules/pmg_tk/startup/apbs_tools.py", line 317, in run > retcode = subprocess.call(args,stdout=output_file.fileno(),stderr=subprocess.STDOU T) > File "/usr/bin/pymol/ext/lib/python2.4/subprocess.py", line 412, in call > return Popen(*args, **kwargs).wait() > File "/usr/bin/pymol/ext/lib/python2.4/subprocess.py", line 542, in __init__ > errread, errwrite) > File "/usr/bin/pymol/ext/lib/python2.4/subprocess.py", line 975, in _execute_child > raise child_exception > OSError: [Errno 8] Exec format error ^^^^^^^^^^^^^^^^^^ This error would seem to indicate that you are running PyMOL on one kind of computer but the apbs executable was compiled for a different one. Are you perhaps mixing i686 and x86_64 Linuxes, for example? Cheers, Rob -- Robert L. Campbell, Ph.D. Senior Research Associate/Adjunct Assistant Professor Botterell Hall Rm 644 Department of Biochemistry, Queen's University, Kingston, ON K7L 3N6 Canada Tel: 613-533-6821 Fax: 613-533-2497 <robert.campb...@queensu.ca> http://pldserver1.biochem.queensu.ca/~rlc ------------------------------------------------------------------------ - This SF.net email is sponsored by DB2 Express Download DB2 Express C - the FREE version of DB2 express and take control of your XML. No limits. Just data. Click to get it now. http://sourceforge.net/powerbar/db2/ _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
