Re: [PyMOL] drawing axes
Hi David, Regarding the first part of your question, the way to load a python (not a PyMol) script is: run axes.py .. and not @axes.py. The latter is used for loading PyMol scripts (.pml). You _can_ use python code in a .pml script, but then you better, or in some cases have to, start with a slash (/) to let the command parser know that there's python code coming. Hope it helps, Tsjerk On Wed, Jun 11, 2008 at 12:10 AM, David Goldenberg goldenb...@biology.utah.edu wrote: Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Tsjerk A. Wassenaar, Ph.D. Junior UD (post-doc) Biomolecular NMR, Bijvoet Center Utrecht University Padualaan 8 3584 CH Utrecht The Netherlands P: +31-30-2539931 F: +31-30-2537623
Re: [PyMOL] drawing axes
Just to add onto what Tsjerk had to say about running python snippets in a .pml script. You can also encapsulate the python code in blocks like this: python your python code here python end This works with all newer version of pymol (1.0) and enhances readability of the code quite a bit. HTH Carsten -Original Message- From: pymol-users-boun...@lists.sourceforge.net [mailto:pymol-users-boun...@lists.sourceforge.net]on Behalf Of Tsjerk Wassenaar Sent: Wednesday, June 11, 2008 3:25 AM To: David Goldenberg Cc: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] drawing axes Hi David, Regarding the first part of your question, the way to load a python (not a PyMol) script is: run axes.py .. and not @axes.py. The latter is used for loading PyMol scripts (.pml). You _can_ use python code in a .pml script, but then you better, or in some cases have to, start with a slash (/) to let the command parser know that there's python code coming. Hope it helps, Tsjerk On Wed, Jun 11, 2008 at 12:10 AM, David Goldenberg goldenb...@biology.utah.edu wrote: Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0 ,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0], [0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0], [0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0], [0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg -- --- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Tsjerk A. Wassenaar, Ph.D. Junior UD (post-doc) Biomolecular NMR, Bijvoet Center Utrecht University Padualaan 8 3584 CH Utrecht The Netherlands P: +31-30-2539931 F: +31-30-2537623 -- --- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services
Re: [PyMOL] drawing axes
Thanks very much to Tsjerk and Carsten! I now understand how to load python scripts and can go back to using MacPyMol. This does seem to be a place where the GUI could be clarified. In MacPyMol, the run . . . command in the File menu is apparently just used for pymol scripts, while the command-line run command is specifically for python scripts. In the Max-X11 hybrid, the menu command can apparently be used for either type of script. Now, could someone point me in the right direction (so to speak) regarding translations of a molecule relative to the graphics reference frame? Thanks again, David Tsjerk Wassenaar wrote: Hi David, Regarding the first part of your question, the way to load a python (not a PyMol) script is: run axes.py .. and not @axes.py. The latter is used for loading PyMol scripts (.pml). You _can_ use python code in a .pml script, but then you better, or in some cases have to, start with a slash (/) to let the command parser know that there's python code coming. Hope it helps, Tsjerk On Wed, Jun 11, 2008 at 12:10 AM, David Goldenberg goldenb...@biology.utah.edu wrote: Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg
Re: [PyMOL] drawing axes
On Wed, Jun 11, 2008 at 11:48 AM, David Goldenberg goldenb...@biology.utah.edu wrote: Now, could someone point me in the right direction (so to speak) regarding translations of a molecule relative to the graphics reference frame? By default, the translate command works in relation to the camera view. To use the model's geometry instead, set the camera option to 0: translate [1,0,0] vs. translate [1,0,0],camera=0 -michael Thanks again, David Tsjerk Wassenaar wrote: Hi David, Regarding the first part of your question, the way to load a python (not a PyMol) script is: run axes.py .. and not @axes.py. The latter is used for loading PyMol scripts (.pml). You _can_ use python code in a .pml script, but then you better, or in some cases have to, start with a slash (/) to let the command parser know that there's python code coming. Hope it helps, Tsjerk On Wed, Jun 11, 2008 at 12:10 AM, David Goldenberg goldenb...@biology.utah.edu wrote: Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ PyMOL-users mailing list
Re: [PyMOL] drawing axes
Thanks very much! Now, on to rotate. David Michael Lerner wrote: On Wed, Jun 11, 2008 at 11:48 AM, David Goldenberg goldenb...@biology.utah.edu mailto:goldenb...@biology.utah.edu wrote: Now, could someone point me in the right direction (so to speak) regarding translations of a molecule relative to the graphics reference frame? By default, the translate command works in relation to the camera view. To use the model's geometry instead, set the camera option to 0: translate [1,0,0] vs. translate [1,0,0],camera=0 -michael Thanks again, David Tsjerk Wassenaar wrote: Hi David, Regarding the first part of your question, the way to load a python (not a PyMol) script is: run axes.py .. and not @axes.py. The latter is used for loading PyMol scripts (.pml). You _can_ use python code in a .pml script, but then you better, or in some cases have to, start with a slash (/) to let the command parser know that there's python code coming. Hope it helps, Tsjerk On Wed, Jun 11, 2008 at 12:10 AM, David Goldenberg goldenb...@biology.utah.edu mailto:goldenb...@biology.utah.edu wrote: Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu mailto:goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___
[PyMOL] drawing axes
Hi, I would like to make a figure that shows a set of coordinate axes aligned in a particular way with respect to a molecule. I have found the axes.py script (copied at the bottom of this message) on the PyMol Wiki, but have run into the following problems: 1. I can't get the script to load and run properly in MacPymol. I get a long string of error messages beginning with: PyMOL@axes.py PyMOLfrom pymol.cgo import * PyMOLfrom pymol import cmd PyMOLfrom pymol.vfont import plain PyMOLobj = [ Traceback (most recent call last): File /Applications/Molecular Graphics/MacPyMOL.app/pymol/modules/pymol/parser.py, line 208, in parse exec(layer.com2+\n,self.pymol_names,self.pymol_names) File string, line 1 obj = [ ^ SyntaxError: unexpected EOF while parsing I can get the script to run with an old version (0.98) of the Mac-X11 hybrid. I can live with this, if necessary. 2. Once I have the axes and the molecule loaded, I would like to place a particular atom at the origin and then rotate the molecule into a particular orientation. I thought that I could do the first part by using the translate command, by moving the molecule by amounts that correspond to the negative of the initial coordinates of the atom of interest. That is, if the initial coordinates (from the pdb file) are, 1,-2,2, it seems that if I do translate [-1,2,-2] I should move the molecule so that the atom is at the origin. But, this doesn't happen; The molecule moves, but not along the expected axes. There is clearly something about the coordinate system and the translate command that I don't understand. Any suggestions for how to go about this would be greatly appreciated! David The script: # axes.py from pymol.cgo import * from pymol import cmd from pymol.vfont import plain # create the axes object, draw axes with cylinders coloured red, green, #blue for X, Y and Z obj = [ CYLINDER, 0., 0., 0., 10., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0., CYLINDER, 0., 0., 0., 0., 10., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0., CYLINDER, 0., 0., 0., 0., 0., 10., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0, ] # add labels to axes object (requires pymol version 0.8 or greater, I # believe cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[10.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,10.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,10.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) # then we load it into PyMOL cmd.load_cgo(obj,'axes') -- Department of Biology University of Utah 257 South 1400 East Salt Lake City, UT 84112-0840 Telephone: (801) 581-3885 Fax: (801) 581-2174 E-mail: goldenb...@biology.utah.edu Lab web page: http://www.biology.utah.edu/goldenberg
