Re: [PyMOL] `set grid_mode, 1` not working on a pml script?

[Jarrett J. <jar...@sc...>]

Hi Francisco,

This issue seems to be fixed between 2.5 and 3.0. I recommend finding a
PyMOL 3.0+ open-source build. The release was in the past month, so I
assume it may take some time for package managers to come up. I believe
conda-forge has a 3.0 open-source build ready to go if you use conda.

In the meantime, if that's not immediately suitable, the workaround for
that issue was to dispatch the following command in your pml script before
using `png`:

*cmd._cmd._draw(cmd._COb)*

Best,
Jarrett J.

On Mon, May 20, 2024 at 5:45 PM Francisco Murphy Pérez <
fra...@ib...> wrote:

> Hi.. I am using the open source version.
> PyMOL 2.5.0 Open-Source, 2024-01-25
> Installed in Fedora with `sudo dnf install pymol`
>
>
> Thanks for your help!!
>
> PS Tried, several times, to buy the new 3.x version but paypal would not
> let me...or something.
>
>
> El lun, 20 may 2024 a la(s) 12:36 p.m., Jarrett Johnson (
> jar...@sc...) escribió:
>
>> Hi Francisco,
>>
>> Which version of PyMOL are you using?
>>
>> Jarrett J.
>>
>> On Mon, May 20, 2024 at 2:30 PM Francisco Murphy Pérez <
>> fra...@ib...> wrote:
>>
>>> Dear all
>>> Got this script
>>>
>>> ```
>>> load ./1ema.pdb
>>> load ./1emg.pdb
>>> set grid_mode, 1
>>> png picture.png, dpi=300, width=1920, ray=1
>>> ```
>>>
>>> When I try to run in a linux terminal `pymol script.pml` I get no grid.
>>> When I try the same lines with pymol opened, I get a grid.
>>>
>>> What's going on?
>>>
>>> Thanks a lot!!
>>>
>>>
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>>
>>
>>
>> --
>>
>> *Jarrett Johnson* | Senior Developer, PyMOL
>>
>>

-- 

*Jarrett Johnson* | Senior Developer, PyMOL