[chimerax-users] vop min/max threshold

[Stapleton kevin2017/4/3]

Hello everyone! 

just trying to get my head around a small problem, but one my brain turns into spaghetti.   I am trying to save a density from molmap with a threshold range of given values.   

for example:

open 2gbp
molmap #1 10

>From the resulting density (now ID #2) I want to save the map at a very narrow threshold range.  for example the current range is 0.0-0.528.  But I would like to save the map with a "restricted" level of 0.26-0.27.  

I have been playing with the vop min/max threshold xxx set 0/1 commands but I keep getting turned around.  

here is what I did:

open 2gbp
molmap #1 10  - produces a new map ID #2

vop threshold #2 minimum 0.26 set 0
vop threshold #3 maximum 0.27 set 1

I used the set 0/1 because I want the range 0.26-0.27 to have the density values and anything outside of that to have zero.  Like a mask in relion.  But for my specific case relion_mask wont work as well. 

Somewhere I am turning the options around and it has my brain flattened.  Any help is appreciated. 

All the best and thanks for making my science life 1Million times easier with your wonderful program :-)

Kako