[Chimera-users] volume data to numpy array

[Hernando J Sosa]

Thanks Elaine, but I am not sure if this link has the answer for what I am looking for.

What I want to do within a python script is something along the lines:

my2dnumpyarray = make_numpyarray_from_volume_datal(#0)

Where #0 is the model number of a volume in chimera.  Perhaps the volume data is already stored in a numpy array in chimera (??). In this case I would need the syntax to access this numpy array within my script.

Thanks

Hernando
________________________________
From: Elaine Meng <meng at cgl.ucsf.edu>
Sent: Thursday, June 30, 2022 4:21 PM
To: Hernando J Sosa <hernando.sosa at einsteinmed.edu>
Cc: Chimera <chimera-users at cgl.ucsf.edu>
Subject: Re: [Chimera-users] volume data to numpy array

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Hi Hernando,
There is something about where in the code to look for this, in the Volume Viewer documentation:
<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.cgl.ucsf.edu%2Fchimera%2Fdocs%2FContributedSoftware%2Fvolumeviewer%2Fvolumeviewer.html%23newformats&data=05%7C01%7Chernando.sosa%40einsteinmed.edu%7C40b87fa6088a40cdf68208da5ad61254%7C9c01f0fd65e040c089a82dfd51e62025%7C0%7C0%7C637922172734962203%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=76rg2UEDO2vI8BmOMz0TChH8cftPtRjiRH%2Fnc5USgf8%3D&reserved=0>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Jun 30, 2022, at 12:47 PM, Hernando J Sosa via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
>
> Dear Chimera,
> How do you read/copy volume data into a numpy array. I think I saw some code examples that do this in the past but I can't find the ink to them.
> Thanks
> Hernando

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