Hi Lothar, It’s a little more circuitous: (1) use “sop split” to make the blobs independently selectable (otherwise when you select any one blob, it selects all the blobs in the same surface model) <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/sop.html#split> (2) select the blob of interest (Ctrl-click) (3) mask map with selected blob, e.g. for map #0 command something like: mask #0 sel mod #3 …model #3 is the new masked map <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/mask.html> (4) use “measure mapSum” on new map to sum all of its values, e.g. measure mapsum #3 <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/measure.html#mapSum> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jan 16, 2019, at 3:15 PM, Esser, Lothar (NIH/NCI) [E] <esserlo@mail.nih.gov> wrote:
Hi, I seem to remember that the following is possible but I cannot figure it out anymore:
One can read, say, an electron density map, contour it at desired level and in "Measure and Color Blobs" one can individually select blobs that are of interest and determine their volume and surface area.
That works well. What I don't remember is how to integrate the map values inside the blob. I think it was implemented once but it currently escapes me.
Any advice welcome. Thanks, Lothar