Difference between revisions of "Surface mode"

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(New page: == Overview == Sets how PyMOL draws the surface. == Syntax == <source lang="python"> set surface_mode, int </source> where int is in the range of 0 to 4. [[Category:Settings|Surface mode...)
 
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== Overview ==
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Sets how PyMOL draws the surface.  The default, [[surface_mode]]=0 does not include the heteroatoms within the surface; setting it to 1, does include them.  See the example images.
Sets how PyMOL draws the surface.
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== Usage ==
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set surface_mode, int
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where ''int'' is one of the following values:
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* 0: Default mode, surfacing with respect to [[flag]]s.
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* 1: Surface everything, including HET and hydrogens
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* 2: Surface only heavy atoms
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* 3: Surface only visible
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* 4: Surface visible and heavy
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== Examples ==
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<gallery heights="175px" widths="175px">
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Image:sm0.png|[[surface_mode]] set to 0, the default.  The galactose (blue) is not considered part of the surface.
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Image:sm1.png|[[surface_mode]] set to 1 -- now including heteroatoms.  The galactose and all heteroatoms (blue) are now considered part of the surface and colored blue.
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</gallery>
  
== Syntax ==
 
 
<source lang="python">
 
<source lang="python">
set surface_mode, int
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# make the above images, or something like them
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fetch 2v72, async=0
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color wheat
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color marine, het
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show surface
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# default
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set surface_mode, 0
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# non default
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set surface_mode, 1
 
</source>
 
</source>
where int is in the range of 0 to 4.
 
  
 
[[Category:Settings|Surface mode]]
 
[[Category:Settings|Surface mode]]

Latest revision as of 13:41, 15 February 2014

Sets how PyMOL draws the surface. The default, surface_mode=0 does not include the heteroatoms within the surface; setting it to 1, does include them. See the example images.

Usage

set surface_mode, int

where int is one of the following values:

  • 0: Default mode, surfacing with respect to flags.
  • 1: Surface everything, including HET and hydrogens
  • 2: Surface only heavy atoms
  • 3: Surface only visible
  • 4: Surface visible and heavy

Examples

# make the above images, or something like them
fetch 2v72, async=0
color wheat
color marine, het
show surface

# default
set surface_mode, 0

# non default
set surface_mode, 1