where can I find the mesh option in chimeraX?
Dear All,I want to setting the mesh option in ChimeraX like "Chimera way".Like "open Volume Viewer of a map, and click features-data display option".but I cannot find toolbar of Volume Viewer, I am puzzle where to find it?
Hello, When you are showing volume data there is automatically a Volume Viewer panel included in the window. Near the right end of it above the histogram is a menu, probably says "surface" if the map is currently shown as a surface -- click on that to show menu and choose "mesh" instead. See ChimeraX Volume Viewer help <https://rbvi.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html> Or you can use a command, e.g. volume all style mesh There are lots of options in the "volume" command <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#general> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jun 22, 2022, at 7:29 PM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear All, I want to setting the mesh option in ChimeraX like "Chimera way". Like "open Volume Viewer of a map, and click features-data display option". but I cannot find toolbar of Volume Viewer, I am puzzle where to find it?<2BF92685@ECAE6D2D.01D0B362> <2EFD1F7D@22C8076A.01D0B362>
Dear Dr.Elaine Thanks for reply! But that is actrually not my point. I mean where to find the options like subdivide surface/surface smoothing iterations factor...(fig in the chimera) ------------------ Original ------------------ From: "Elaine Meng"<meng@cgl.ucsf.edu>; Date: Fri, Jun 24, 2022 00:02 AM To: "王超"<wangc@henu.edu.cn>; Cc: "chimerax-users"<chimerax-users@cgl.ucsf.edu>; Subject: Re: [chimerax-users] where can I find the mesh option in chimeraX? Hello,When you are showing volume data there is automatically a Volume Viewer panel included in the window. Near the right end of it above the histogram is a menu, probably says "surface" if the map is currently shown as a surface -- click on that to show menu and choose "mesh" instead. See ChimeraX Volume Viewer help <https://rbvi.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html>; Or you can use a command, e.g. volume all style mesh There are lots of options in the "volume" command <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#general>; I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco On Jun 22, 2022, at 7:29 PM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote: Dear All, I want to setting the mesh option in ChimeraX like "Chimera way". Like "open Volume Viewer of a map, and click features-data display option". but I cannot find toolbar of Volume Viewer, I am puzzle where to find it?<2BF92685@ECAE6D2D.01D0B362> <2EFD1F7D@22C8076A.01D0B362>
Sorry, my mail display did not make it clear that those files you attached were images. These volume display options are not in a GUI currently, but they are all in the "volume" command, e.g. see <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dispsurf> I hope this helps, Elaine
On Jun 23, 2022, at 9:10 AM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear Dr.Elaine Thanks for reply! But that is actrually not my point. I mean where to find the options like subdivide surface/surface smoothing iterations factor...(fig in the chimera) <2FFE1C7A@3E6FA006.6690B462> ------------------ Original ------------------ From: "Elaine Meng"<meng@cgl.ucsf.edu>; Date: Fri, Jun 24, 2022 00:02 AM To: "王超"<wangc@henu.edu.cn>; Cc: "chimerax-users"<chimerax-users@cgl.ucsf.edu>; Subject: Re: [chimerax-users] where can I find the mesh option in chimeraX?
Hello, When you are showing volume data there is automatically a Volume Viewer panel included in the window. Near the right end of it above the histogram is a menu, probably says "surface" if the map is currently shown as a surface -- click on that to show menu and choose "mesh" instead.
<E7CA1B6C@F6E5EE7A.6690B462.png>
See ChimeraX Volume Viewer help <https://rbvi.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html>
Or you can use a command, e.g.
volume all style mesh
There are lots of options in the "volume" command <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#general>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jun 22, 2022, at 7:29 PM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear All, I want to setting the mesh option in ChimeraX like "Chimera way". Like "open Volume Viewer of a map, and click features-data display option". but I cannot find toolbar of Volume Viewer, I am puzzle where to find it?<2BF92685@ECAE6D2D.01D0B362> <2EFD1F7D@22C8076A.01D0B362>
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Get it, thanks! ------------------ Original ------------------ From: "Elaine Meng"<meng@cgl.ucsf.edu>; Date: Fri, Jun 24, 2022 00:14 AM To: "王超"<wangc@henu.edu.cn>; Cc: "chimerax-users"<chimerax-users@cgl.ucsf.edu>; Subject: Re: [chimerax-users] where can I find the mesh option in chimeraX? Sorry, my mail display did not make it clear that those files you attached were images. These volume display options are not in a GUI currently, but they are all in the "volume" command, e.g. see <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dispsurf>; I hope this helps, Elaine > On Jun 23, 2022, at 9:10 AM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote: > > Dear Dr.Elaine > Thanks for reply! > But that is actrually not my point. I mean where to find the options like subdivide surface/surface smoothing iterations factor...(fig in the chimera) > <2FFE1C7A@3E6FA006.6690B462> > ------------------ Original ------------------ > From: "Elaine Meng"<meng@cgl.ucsf.edu>; > Date: Fri, Jun 24, 2022 00:02 AM > To: "王超"<wangc@henu.edu.cn>; > Cc: "chimerax-users"<chimerax-users@cgl.ucsf.edu>; > Subject: Re: [chimerax-users] where can I find the mesh option in chimeraX? > > Hello, > When you are showing volume data there is automatically a Volume Viewer panel included in the window. Near the right end of it above the histogram is a menu, probably says "surface" if the map is currently shown as a surface -- click on that to show menu and choose "mesh" instead. > > <E7CA1B6C@F6E5EE7A.6690B462.png> > > See ChimeraX Volume Viewer help > <https://rbvi.ucsf.edu/chimerax/docs/user/tools/volumeviewer.html>; > > Or you can use a command, e.g. > > volume all style mesh > > There are lots of options in the "volume" command > <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#general>; > > I hope this helps, > Elaine > ----- > Elaine C. Meng, Ph.D. > UCSF Chimera(X) team > Department of Pharmaceutical Chemistry > University of California, San Francisco > > >> On Jun 22, 2022, at 7:29 PM, 王超 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote: >> >> Dear All, >> I want to setting the mesh option in ChimeraX like "Chimera way". >> Like "open Volume Viewer of a map, and click features-data display option". >> but I cannot find toolbar of Volume Viewer, I am puzzle where to find it?<2BF92685@ECAE6D2D.01D0B362> >> <2EFD1F7D@22C8076A.01D0B362> > > _______________________________________________ > ChimeraX-users mailing list > ChimeraX-users@cgl.ucsf.edu > Manage subscription: > https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users
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