Sorry,
I didn't read the other entries. Thanks for the "python end" code. I have
had this problem with loops a lot in pymol and this solves it.
-Yarrow
On Tue, Jan 6, 2015 at 9:21 AM, Yarrow Madrona
wrote:
> Hi Brenton,
>
> I'm pretty sure you have to import python in your script. Otherwise th
Hi Brenton,
I'm pretty sure you have to import python in your script. Otherwise the
python commands will be ignored. Also you forgot to put colons after your
'for' statement. Either way, I think pymol got the first image then ignored
the 'for statement' and just went straight to the second 'png...
I think that the problem is that python is interpreting part of your
directories as special characters. This is due to the fact that Windows
uses the backslash as the directory separator which is also a special
character in python (and in *nix systems).
In a regular python terminal, if I do:
Hey :)
"Image{}.png".format(str(i).zfill(4))
can also be written
Image{:04d}.png".format(i)
Cheers,
Tsjerk
On Tue, Jan 6, 2015 at 4:52 PM, Matthew Baumgartner wrote:
> Be sure to reply to the list so everyone can benefit from the questions
> and answers.
>
> Ah, as Tsjerk mentioned, you ne
Be sure to reply to the list so everyone can benefit from the questions
and answers.
Ah, as Tsjerk mentioned, you need to wrap it in a python-python end block.
set ray_opaque_background, 0
png C:\Users\Brenton\Documents\Chem Structures\PDBs\2\2HYY -
imatinib\PyMOL movie\Image0001.png, dpi=300
Is it in your for loop?
for i in range(2,61):
rotate y, 6
cmd.png("C:\Users\Brenton\Documents\Chem Structures\PDBs\2\2HYY -
imatinib\PyMOL movie\Image{}.png".format(str(i).zfill(4)), dpi=300, ray=1)
On 1/6/15, 10:13 AM, Brenton Horne wrote:
> That gave the error:
>
> cmd.png("C:\Users\
Hi :)
You can use for-loops in pml files, but it's a bit tricky. Usually you will
want to enclose the code in a python .. python end block, indicating that
the lines are pure python:
python
for i in range(2,61):
...
python end
Also mind that range runs UP TO (excluding) the last number, so you
Hi,
You may need to use the API instead of the command.
cmd.png("C:\Users\Brenton\Documents\Chem Structures\PDBs\2\2HYY -
imatinib\PyMOL movie\Image{}.png".format(str(i).zfill(4)), dpi=300, ray=1)
Matt Baumgartner
On 01/06/2015 10:01 AM, Brenton Horne wrote:
> Hi
>
> I received this error from y
(a) I'll let someone else say whether you can use range in pml files, not
completely sure on that one and the formatting rules. personally, I would
write this in python, and you would need a : after the range
(b) you are missing any indication of what %4d refers to. See example 3.23
on http://www.
