tag:blogger.com,1999:blog-7844526396210378482.post6572900438356835197..comments2024-01-31T09:23:26.925+00:00Comments on Noel O'Blog: Using Jmol for Drug Design - InstallationNoel O'Boylehttp://www.blogger.com/profile/03288289351940689018noreply@blogger.comBlogger8125tag:blogger.com,1999:blog-7844526396210378482.post-82526180010796721752007-12-13T16:03:00.000+00:002007-12-13T16:03:00.000+00:00I guess both programs are very nice. after your po...I guess both programs are very nice. after your posts i can tell you if i think it would have been easier with pymol. but I remember it took me a while to understand all those functionsFelixhttps://www.blogger.com/profile/05138335803929997277noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-6413249930655208022007-12-12T10:26:00.000+00:002007-12-12T10:26:00.000+00:00Felix, quite right. Warren and the Jmol (at least,...Felix, quite right. Warren and the Jmol (at least, it's been discussed in the past) team still have the wish to be able to exchange scenes. PyMol is very good for making print quality images indeed.Egon Willighagenhttps://www.blogger.com/profile/07470952136305035540noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-38425366447384731482007-12-12T10:18:00.000+00:002007-12-12T10:18:00.000+00:00We can do a Jmol and Pymol round-up later in the s...We can do a Jmol and Pymol round-up later in the series, for which I will need some help (Felix?). Last week, I needed to decide which to use, but both seemed equally incomprehensible to a first-time user.Noel O'Boylehttps://www.blogger.com/profile/03288289351940689018noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-55635554029135790022007-12-12T10:12:00.000+00:002007-12-12T10:12:00.000+00:00but this article is about producing publication st...but this article is about producing publication style pictures.<BR/>pymol has really nice features for selecting parts of the molecule interactively. and its raytraced pictures look better than with jmol and povray in my opinion<BR/>jmol is nice for other things: vibrations, optimisations, dynamics and of course appletsFelixhttps://www.blogger.com/profile/05138335803929997277noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-19107566666318171022007-12-12T07:06:00.000+00:002007-12-12T07:06:00.000+00:00Felix, Jmol *already* beats the hell out of PyMol....Felix, Jmol *already* beats the hell out of PyMol. PyMol does not run in FireFox!<BR/><BR/>(Or: depends on what you want... Jmol and PyMol deliberately different scopes, en deliberately keep it that way. Warren has done an excellent job)Egon Willighagenhttps://www.blogger.com/profile/07470952136305035540noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-58705559256241844042007-12-11T20:59:00.000+00:002007-12-11T20:59:00.000+00:00so the trick is the "true". I thought you just cou...so the trick is the "true". I thought you just could not run a local file in your browser.<BR/><BR/>i am looking forward to your posts but I don't think you can beat pymol :)Felixhttps://www.blogger.com/profile/05138335803929997277noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-83994930692804095912007-12-11T16:36:00.000+00:002007-12-11T16:36:00.000+00:00The second option. I use gvim. I set it up so that...The second option. I use gvim. I set it up so that when I press CTRL+H it gives me coloured HTML corresponding to whatever code is in the window. It's explained at http://www.redbrick.dcu.ie/~noel/vim.html. Don't ask me how it works :-)Noel O'Boylehttps://www.blogger.com/profile/03288289351940689018noreply@blogger.comtag:blogger.com,1999:blog-7844526396210378482.post-40616357230842220092007-12-11T16:31:00.000+00:002007-12-11T16:31:00.000+00:00He, how did you do that HTML coloring? Did you do ...He, how did you do that HTML coloring? Did you do that from within blogger? Or used some external tool to create colored HTML code which you copy-pasted?Egon Willighagenhttps://www.blogger.com/profile/07470952136305035540noreply@blogger.com