Hi Vaheh, alter vh, resi=str(int(resi)+0)
will not change the residue numbers because 0 is being added. Replace 0 with your desired residue number offset. Best regards, Blaine Blaine Mooers, Ph.D. Associate Professor Department of Biochemistry and Molecular Biology College of Medicine University of Oklahoma Health Sciences Center S.L. Young Biomedical Research Center (BRC) Rm. 466 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 ________________________________________ From: Oganesyan, Vaheh [[email protected]] Sent: Monday, June 15, 2020 10:49 AM To: Jarrett Johnson Cc: [email protected] Subject: [EXTERNAL] Re: [PyMOL] renumber Thank you Jarrett, Then the command alter vh, resi=str(int(resi)+0) should work, right? But it doesn’t because there are residue numbers with letters. Is there a command that will either remove the letters or won’t pay attention to them and renumber sequentially. Regards, From: Jarrett Johnson <[email protected]> Sent: Monday, June 15, 2020 11:38 AM To: Oganesyan, Vaheh <[email protected]> Cc: [email protected] Subject: Re: [PyMOL] renumber Hello, The command shown on this page https://pymolwiki.org/index.php/Renumber<https://urldefense.proofpoint.com/v2/url?u=https-3A__pymolwiki.org_index.php_Renumber&d=DwMGaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=HQhXfRvgQZ3mFRTUuOGKZTZZVlTRi9o87ygYqEDnPog&s=ziFhw29qVsmpI-rra_AyanmqFEsNZVmEsXF4VIjUMmI&e=> is not one that comes with PyMOL by default. Try downloading the script and importing it via the `run` command in the PyMOL command-line: run renumber.py<https://urldefense.proofpoint.com/v2/url?u=http-3A__renumber.py&d=DwQGaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=HQhXfRvgQZ3mFRTUuOGKZTZZVlTRi9o87ygYqEDnPog&s=FHmoNz1s1Pj-_paiWCTfneG3RkPiLccu2uI2KNr8ROw&e=> and then you should be able to use the command as shown on the Wiki page. Hope that helps, Jarrett J. On Mon, Jun 15, 2020 at 11:29 AM Oganesyan, Vaheh <[email protected]<mailto:[email protected]>> wrote: Hello PyMOLers, Wiki uses renumber command to alter residue numbers, but PyMOL doesn’t recognize it. Is it that Wiki is old, or my PyMOL version is dusty? Regards, Vaheh _______________________________________________ PyMOL-users mailing list Archives: http://www.mail-archive.com/[email protected]<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mail-2Darchive.com_pymol-2Dusers-40lists.sourceforge.net&d=DwMGaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=HQhXfRvgQZ3mFRTUuOGKZTZZVlTRi9o87ygYqEDnPog&s=0jiLKKRpirp3ZmCRyyo_9R1IshveF24db_HqbNveLVE&e=> Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe<https://urldefense.proofpoint.com/v2/url?u=https-3A__sourceforge.net_projects_pymol_lists_pymol-2Dusers_unsubscribe&d=DwMGaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=HQhXfRvgQZ3mFRTUuOGKZTZZVlTRi9o87ygYqEDnPog&s=u0GfpqJznDAnSRPi-ENNk5i5F203FOoK4e8tFBNx-fc&e=> -- Jarrett Johnson | Senior Developer [Schrodinger Logo]<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.schrodinger.com_&d=DwMGaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=HQhXfRvgQZ3mFRTUuOGKZTZZVlTRi9o87ygYqEDnPog&s=my7IR5rxG-1yA5AP52htw3MT5MKRSqHAwEmOVfdcSdc&e=> _______________________________________________ PyMOL-users mailing list Archives: http://www.mail-archive.com/[email protected] Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
