I often process the images from pymol or originLab in GIMP or photoshop. You could set the pixel content of your pymol image, Png - PyMOLWiki<https://pymolwiki.org/index.php/Png>. But I guess this is not the "crop" you expect.
Best, Charles Png - PyMOLWiki<https://pymolwiki.org/index.php/Png> Comments Transparent Backgrounds. Use the `ray_opaque_background` setting to output images with transparent backgrounds. set ray_opaque_background, 0 This can be useful for presentations, images that are placed on top of a background of nonuniform color (e.g. gradients), and images that overlap text or other images. pymolwiki.org ________________________________ From: pymol-users-requ...@lists.sourceforge.net <pymol-users-requ...@lists.sourceforge.net> Sent: Friday, July 23, 2021 12:57 PM To: pymol-users@lists.sourceforge.net <pymol-users@lists.sourceforge.net> Subject: PyMOL-users Digest, Vol 182, Issue 12 Send PyMOL-users mailing list submissions to pymol-users@lists.sourceforge.net To subscribe or unsubscribe via the World Wide Web, visit https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Flists.sourceforge.net%2Flists%2Flistinfo%2Fpymol-users&data=04%7C01%7Cqic8%40pitt.edu%7Cc9a0e7b479624314837e08d94dfaf736%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637626562553080025%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=9IaE4slS4EFBG%2Fz9onK%2FY6rtKceWLASxgafoQNb2BiU%3D&reserved=0 or, via email, send a message with subject or body 'help' to pymol-users-requ...@lists.sourceforge.net You can reach the person managing the list at pymol-users-ow...@lists.sourceforge.net When replying, please edit your Subject line so it is more specific than "Re: Contents of PyMOL-users digest..." Today's Topics: 1. Re: Exporting data from PyMOL into OriginLab (Neena Susan Eappen) ---------------------------------------------------------------------- Message: 1 Date: Fri, 23 Jul 2021 12:57:12 -0400 From: Neena Susan Eappen <neenasusan...@gmail.com> To: pymol-users <pymol-users@lists.sourceforge.net> Subject: Re: [PyMOL] Exporting data from PyMOL into OriginLab Message-ID: <c5be4953-b342-42fd-8aef-9baf149b4...@gmail.com> Content-Type: text/plain; charset="us-ascii" Hello PyMOL users, Let me clarify my question. Shown below is one example figure. There is no way to crop any images on Origin graphing software. For this figure, I cropped PyMOL peptide image files on word document and then inserted in Origin graph. This is time consuming. Is there a way to crop on PyMOL? Any insight would be appreciated, Thank you, Neena > On Jul 22, 2021, at 5:43 PM, Neena Susan Eappen <neenasusan...@gmail.com> > wrote: > > Hello PyMOL users, > > I have some issues exporting images from PyMOL into a data analysis software > called OriginLab > (https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.originlab.com%2F&data=04%7C01%7Cqic8%40pitt.edu%7Cc9a0e7b479624314837e08d94dfaf736%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637626562553080025%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=2NjvYl4IspmqHt5n46tFLMwKEaFTFsNxNIt7ElII81Q%3D&reserved=0). > If there is anyone in this mail list who integrates figures from PyMOL into > Origin, please email me. I need some insights for data representation. > > Many thanks, > Neena -------------- next part -------------- An HTML attachment was scrubbed... -------------- next part -------------- A non-text attachment was scrubbed... Name: image.png Type: image/png Size: 111385 bytes Desc: not available ------------------------------ ------------------------------ Subject: Digest Footer _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Flists.sourceforge.net%2Flists%2Flistinfo%2Fpymol-users&data=04%7C01%7Cqic8%40pitt.edu%7Cc9a0e7b479624314837e08d94dfaf736%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637626562553080025%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=9IaE4slS4EFBG%2Fz9onK%2FY6rtKceWLASxgafoQNb2BiU%3D&reserved=0 Unsubscribe: https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fsourceforge.net%2Fprojects%2Fpymol%2Flists%2Fpymol-users%2Funsubscribe&data=04%7C01%7Cqic8%40pitt.edu%7Cc9a0e7b479624314837e08d94dfaf736%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637626562553080025%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=t8Uumr9EXcb2wGkQ%2FdYfC9bxnhM6JyQY%2BYZKkXpAZAk%3D&reserved=0 ------------------------------ End of PyMOL-users Digest, Vol 182, Issue 12 ********************************************
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