It's been a while since I used O, but if I'm remembering correctly using
the map-file/map-obj/etc commands (instead of qmap or fmap) loads
without using symmetry operators. But last I checked, O supported both
live symmetry expansion and no symmetry expansion depending on the
commands used. (as usual, Alwyn's take on this will be more accurate
than mine).
pymol versions 1.4 and earlier also handle maps without symmetry
expansion (in 1.5 and later, the same commands do symmetry expansion and
use more memory). I'm not sure one way or the other about chimera or vmd.
Pete
Tim Gruene wrote:
Dear Francis,
You should be able to do this with e.g. O: it askes for the symmetry
operator and if you do not give one, it does not recalculate the map.
Alwyn may correct me if he reads this list and if I am wrong.
Best,
Tim
On 12/06/2013 12:40 AM, Pete Meyer wrote:
For looking at large regions of a map, I've found it easier (less
computationally demanding) to calculate map over the region of interest
and use a graphics program that doesn't do symmetry expansion.
Pete
Francis Reyes wrote:
Hi all
So I'm running into a case where I need to see maps for large radii
(in excess of 120A) and I'm thinking I need to move to bigger hardware
than this laptop. Essentially, I'm getting errors in malloc
coot-real(85522,0xa062e1a8) malloc: *** mach_vm_map(size=1140850688)
failed (error code=3)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
libc++abi.dylib: terminating with uncaught exception of type
std::bad_alloc: std::bad_alloc
/Applications/ccp4-6.4.0/bin/../coot.app/Contents/coot/bin/coot: line
251: 85522 Abort trap: 6 $coot_real $@
/Applications/ccp4-6.4.0/bin/../coot.app/Contents/coot/bin/coot: line
257: /Applications/ccp4-6.4.0/bin/../coot.app/Contents/coot/bin/guile:
No such file or directory
What should I look for in a higher end machine? More system memory?
Video memory? All of the above?
Thanks
F
