Hi Beth,
It sounds like you may have accidentally toggled "Overlay Text." In
the Settings menu, see if that setting is checked, and un-check it.
This works on Linux, not sure about Mac.
On Tue, May 2, 2017 at 2:29 PM, Beth Stroupe wrote:
> Hi all,
>
> I am new to PyMol and probably just made
Hi all,
I am new to PyMol and probably just made a beginner’s mistake. I managed to get
the command line history to scroll on the Viewer. I am not sure the sequence of
events that lead to this, I was trying to select a region of the molecule with
my mouse and must have used an unfortunate serie
I want to run QM calculation on reaction center of a large protein. So I
need to chop off many parts of the protein. I want to replace some
side/main chains with H atoms (for example replace the CB atom by a H atom
and also modify the C-H bond to the correct length).
I know how to make it work by
When debugging, it is good to stop running pymol as a command line app and
just run your script in a pymol gui and see what it is going on.
In this case, you would find your selections have zero atoms. Why? Because
you are basing them on something like "resn 102" , which is using the
residue name
Thank you Thomas and Piotr,
Unfortunately I only have PyMOL 1.7.6.4 - Incentive available at the
moment. I will try the “display_scale_factor” option once my pymol
installation is updated.
Best regards, Mykola Dimura.
On 1 May 2017 at 20:38, Thomas Holder wrote:
> Hi Mykola,
>
> Incentive PyMOL
Thank you. I made a few mistakes in my code. I wasn't paying attention
to the commented code because I was only trying stuff there. I still
get:
1) a bunch of 3 kb black png's
2) I still have no idea what the command cmd.get_pdbstr do
3) can you give me a line using iterate to get the residue name
