Dear Harry, With "get_view", you can store the current view (center, zoom level,...), e.g., from your figure with only the protein. With "set_view", you can then apply this transformation to the others. You can find more information on the corresponding wiki pages:
<https://pymolwiki.org/index.php/Get_View> Get View<https://pymolwiki.org/index.php/Get_View> pymolwiki.org<https://pymolwiki.org/index.php/Get_View> [X] <https://pymolwiki.org/index.php/Get_View> <https://pymolwiki.org/index.php/Set_View> Set View<https://pymolwiki.org/index.php/Set_View> pymolwiki.org<https://pymolwiki.org/index.php/Set_View> [X] <https://pymolwiki.org/index.php/Set_View> Best regards, Karl On 21.03.2025, at 11:07, Harry Powell <[email protected]> wrote: Hi I’m trying to generate images from PyMol because it has an easy-to-use CLI - I’m not at all interested in how to do this with the GUI. I have a protein PDB file, and I have “pockets” in PDB format from pyKVfinder. What I want to do is to generate separate PNGs for each protein/pocket pair that have the protein _exactly_ overlapped (i.e. with the centre of the protein in the center of the image, in the same orientation, with the _only_ difference being where the pocket is drawn). I can produce images where the protein is _almost_ in the same place with _almost_ the same orientation, but they are not quite the same (looks to me as if they are using the centroid & orienttion calculate for the protein+hole pair ineach case) - examples attached (if you open these with, say, Preview on a Mac, you can see that the models jump around from one image to the next). Presumably this is really easy, but I haven’t worked out how to do it. I’m almost certain that somone here can help! Harry <KAE_and_protein.png><KAG_and_protein.png><KAB_and_protein.png> ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
