Hi Rhitankar,
this depends which python you used and which arguments you passed to
setup.py. I assume you used system python and no arguments, then just
remove these:
/Library/Python/2.7/site-packages/pymol
/usr/local/bin/pymol
Cheers,
Thomas
Rhitankar Pal wrote, On 05/08/13 18:46:
> Dear Tho
Dear Thomas,
Thanks for the informations. I think I am able to use port to install the
pymol1.5 version but I would also need to remove the existing 1.6 version.
Can you tell me the command to uninstall the existing version and then do a
fresh installation?
Thanks again
Rhitankar
On Wed, Ma
Dear Rhitankar,
I should point out that Schrödinger also sells pre-compiled PyMOL with
easy to use installers. http://pymol.org/academic.html
Open-Source PyMOL was always targeted to power-users who are familiar
with compiling software themselves.
Regarding your question: It will most likely not
Dear Thomas,
Even after I installed the Pmw1.3 which should be compatible with python2.7
and reinstalling the pymol, I am still the following error message.
File "/Library/Python/2.7/site-packages/pymol/__init__.py", line 450, in
launch_gui
__import__(self.invocation.options.gui)
File "/L
sudo port install tk -quartz
It has nothing to do with what OS X ships with, it has to do with current
macports defaults, which changed around 18 months ago. You can dig around
the macports bug reports to see discussion of the change.
-David
On Tue, May 7, 2013 at 1:32 PM, Rhitankar Pal wrote:
Hi David,
I installed tcl without the corefoundation and now while trying to install
pymol I am getting the following error message:
Error: org.macports.archivefetch for port pymol returned: tk must be
installed without +quartz.
How can I install tk without +quartz? Are these issues happening be
by default, macports installs tcl with the +corefoundation variant (see
http://guide.macports.org/#using.variants )
if you do:
sudo port install tcl -corefoundation
that will solve the problem.
-David
On Mon, May 6, 2013 at 8:26 PM, Rhitankar Pal wrote:
> Dear Thomas,
>
> One more questio
Dear Thomas,
One more question. When I tried to install pymol using port [ sudo port
install pymol ] I get the following error message:
Error: org.macports.archivefetch for port pymol returned: tcl must be
installed without +corefoundation.
Do you have any idea why there is this error message?
Dear Thomas,
Now I have installed Pmw.1.3 which should be the one compatible with
python2.7 I guess. However I am still getting the same error. I think pymol
is trying to use Pmw2 by default. Is there any way we can ask it to use 1.3
instead?
Thanks for your help
Rhitankar
On Sat, May 4, 2013
Hi Rhitankar,
looks like you installed the python3 version of Pmw which is not
compatible with python 2.7.
Cheers,
Thomas
Rhitankar Pal wrote, On 05/03/13 21:16:
> Dear Pymol developers,
>
> I have recently installed pymol 1.6.x in MAC OS X 10.8.2 and have the
> following error while opening
Dear Pymol developers,
I have recently installed pymol 1.6.x in MAC OS X 10.8.2 and have the
following error while opening the GUI
Traceback (most recent call last):
File "/Library/Python/2.7/site-packages/pmg_tk/__init__.py", line 35, in
run
PMGApp(pymol_instance,skin).run(poll)
File "/L
what method did you use for installation?
--
David Hall
On Wednesday, May 1, 2013 at 11:53 AM, Rhitankar Pal wrote:
> I am having some issues after installing pymol in Mac OS 10.8.2. It seems
> the program is installed but when I try to open in using command line
> "pymol" it doesn't show the
I am having some issues after installing pymol in Mac OS 10.8.2. It
seems
the program is installed but when I try to open in using command line
"pymol" it doesn't show the 'Molecular Graphics System' window but shows
only the 'Pymol Viewer' window. In the terminal I have the followi
I installed Fortran95 and Problem is solved
11 Ekim 2010 23:39 tarihinde ahmet yıldırım yazdı:
> Dear Pymol users,
>
> I installed Pymol 1.2 on Ubuntu 9.1 but I have the error as the following
> for all PDB files.
> (Select File -> open from the user menu, and select and open that PDB
> file).
>
Dear Pymol users,
I installed Pymol 1.2 on Ubuntu 9.1 but I have the error as the following
for all PDB files.
(Select File -> open from the user menu, and select and open that PDB file).
*Error: 1*
> * Exception in Tk callback*
> * Function: instance at 0x9f3270c>> (type: )*
> * Args: ()*
> *
Hi Jorgen,
I just tried pair fitting some atoms from your PyMOL session and was
able to reproduce what you found. Pair fitting is done between atoms,
so please show lines or sticks, not just cartoons, when pair fitting.
You can turn off the lines later if you don't need them. In this way,
you ca
Hi Jorgen,
I cannot reproduce this. Can you please give me the PDBs (or PDB IDs)
and commands to reproduce this error?
Thanks,
-- Jason
On Tue, Oct 5, 2010 at 8:58 AM, Jorgen Ravoet wrote:
> Hello,
> I have loaded two PDB files in PyMol to pair fit some of their amino acids.
> When using the
Hello,
I have loaded two PDB files in PyMol to pair fit some of their amino acids.
When using the wizard, I'm getiing the following error. Does anyone has an
idea how to solve this?
_seeker and not _pf_s_*
Editor-Error: Invalid input.
Traceback (most recent call last):
File "C:\Program Files (x86
Are you using cyrillic characters for your file names?
If yes try changing that and see what happens.
On Tue, Jul 20, 2010 at 4:35 PM, Павел Кудрявцев wrote:
> Hi,
> I'm installed Pymol version 1.2 from repository on Mandriva Linux and
> I'm constantly getting following errors when trying to op
Hi,
I'm installed Pymol version 1.2 from repository on Mandriva Linux and
I'm constantly getting following errors when trying to open/save files
Error: 1
Exception in Tk callback
Function: > (type: )
Args: ()
Traceback (innermost last):
File "/usr/lib/python2.6/site-packages/Pmw/Pmw_1_3/li
[mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf Of praba ponraj
Sent: Friday, February 08, 2008 1:46 PM
To: pymol-users@lists.sourceforge.net
Subject: [PyMOL] pymol error in linux - does not work
Pymol users on Linux,
I installed the Pymol (pymol-1_or2) on my new Red Hat Enterprise Linux
Pymol users on Linux,
I installed the Pymol (pymol-1_or2) on my new Red Hat Enterprise Linux
Client release 5.1 (Tikanga).
When I type the pymol after installing, I get the error
pymol.exe: error while loading shared libraries: libXmu.so.6: cannot open
shared object file: No such file or director
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