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Hi Elaine,
<div class="">Thank you for your reply.</div>
<div class=""><br class="">
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<div class="">I want to keep the matrix coordinates from a view (as from <a href="https://pymolwiki.org/index.php/Set_View" class="">https://pymolwiki.org/index.php/Set_View</a>) and use them in ChimeraX. </div>
<div class="">Yes views are in a PyMol session.</div>
<div class="">ChimeraX displays coordinates in a single line not as matrix.</div>
<div class=""><br class="">
</div>
<div class="">I will look at the links you sent.</div>
<div class=""><br class="">
</div>
<div class="">Thank you again.</div>
<div class=""><br class="">
</div>
<div class="">Best Regards,</div>
<div class="">Othman </div>
<div class="">
<div><br class="">
<blockquote type="cite" class="">
<div class="">On Jun 23, 2022, at 6:33 PM, Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">Of course, one can change the display styles, colors, etc. directly in ChimeraX (or Chimera). But you are probably asking because you are more familiar with Pymol, or somebody else has given you Pymol sessions.<br class="">
<br class="">
In case you would like to try setting up the view directly in ChimeraX, there are several example images and associated ChimeraX command scripts (.cxc files):<br class="">
<<a href="https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Fgallery.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=Mjvp8CEJ0K%2BVzowqxIkogNb%2B5pmKbpxwagnW6IXwuYo%3D&reserved=0" class="">https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Fgallery.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=Mjvp8CEJ0K%2BVzowqxIkogNb%2B5pmKbpxwagnW6IXwuYo%3D&reserved=0</a>><br class="">
<<a href="https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Ffeatures.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=88YvsbrblHnQMkQNP6Corxx%2FzhKHIR4zWzdDWWdMSMY%3D&reserved=0" class="">https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Ffeatures.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=88YvsbrblHnQMkQNP6Corxx%2FzhKHIR4zWzdDWWdMSMY%3D&reserved=0</a>><br class="">
<br class="">
...as well as ChimeraX tutorials:<br class="">
<<a href="https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Fframetut.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=RBgGQE%2BRtFk51wZmGwQVQPF4K4GaCy76Y0nLwjPkxn8%3D&reserved=0" class="">https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Fdocs%2FUsersGuide%2Fframetut.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=RBgGQE%2BRtFk51wZmGwQVQPF4K4GaCy76Y0nLwjPkxn8%3D&reserved=0</a>><br class="">
<<a href="https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Ftutorials.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=%2Bi7QZ6h2ps7YH0ah6A28lc5xIhesmbPN9eFQXgoN2DU%3D&reserved=0" class="">https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2Ftutorials.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=%2Bi7QZ6h2ps7YH0ah6A28lc5xIhesmbPN9eFQXgoN2DU%3D&reserved=0</a>><br class="">
<br class="">
There are also many Chimera tutorials:<br class="">
<<a href="https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Ftutorials.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=1XYoeM1SWePoDVU57yJ73ZgsFQim2GaYIGjXpSXsF2Y%3D&reserved=0" class="">https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimera%2Ftutorials.html&data=05%7C01%7Cothman.rechiche%40psu.edu%7C20be5e2463bf40a4362908da55686c79%7C7cf48d453ddb4389a9c1c115526eb52e%7C0%7C0%7C637916204236478254%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=1XYoeM1SWePoDVU57yJ73ZgsFQim2GaYIGjXpSXsF2Y%3D&reserved=0</a>><br class="">
<br class="">
Best,<br class="">
Elaine<br class="">
<br class="">
<br class="">
<blockquote type="cite" class="">On Jun 23, 2022, at 1:27 PM, Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> wrote:<br class="">
<br class="">
Hi Othman,<br class="">
Sorry no, Chimera and ChimeraX cannot read Pymol session files. By "view" I'm guessing you mean colors, display styles, etc. If you meant only the orientation of the structure, maybe Pymol has an option to save a PDB file of the currently transformed coordinates,
which could then be opened in Chimera or ChimeraX, but that still would not include the exact amount of zoom.<br class="">
<br class="">
If somebody else has created a converter for Pymol session -> Chimera (or ChimeraX) session, we are not aware of it.<br class="">
<br class="">
Best Regards,<br class="">
Elaine<br class="">
-----<br class="">
Elaine C. Meng, Ph.D.<br class="">
UCSF Chimera(X) team<br class="">
Department of Pharmaceutical Chemistry<br class="">
University of California, San Francisco<br class="">
<br class="">
<blockquote type="cite" class="">On Jun 23, 2022, at 11:27 AM, Rechiche, Othman via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:<br class="">
<br class="">
Hi everyone,<br class="">
Is there a way to import/open “views” set with PyMol and open them in Chimera or ChimeraX?<br class="">
Best Regards,<br class="">
Othman<br class="">
</blockquote>
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