[Chimera-users] mask

Tom Goddard goddard at sonic.net
Thu Jun 2 18:08:31 PDT 2016

The mask command only sets values to zero.  Should have an option to specify the fill value.  But lacking that I suggest using “vop scale” to shift the map by 128 and make the new value type unsigned 8-bit assuming it is currently signed 8 bit (vop scale #3 shift 128 valueType uint8 model #4).  Then mask, then shift back if you prefer the signed values.  In ChimeraX I’ll make mask and erase operations capable of specifying a fill value different from 0.


> On Jun 2, 2016, at 4:44 PM, Dougherty, Matthew T <matthewd at bcm.edu <mailto:matthewd at bcm.edu>> wrote:
> I have a volume whose density values are -127 thru 127.  Zero is a valid density & approximately the peak of the Guassian distribution.
> I would like to use the command mask.
> It sets the unmasked density values to zero.
> How can I set the unmasked density values to -128 using the mask command?
> Will I need to hack the code?
> Matthew Dougherty
> National Center for Macromolecular Imaging
> Baylor College of Medicine
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