Thank you Shiven,
I know how to remove the double vertices in Blender but I 
would like to remove them directly from PyMOL. By disjoint 
meshes I mean non-connected meshes, inside my mesh I have some 
smaller meshes that are non connected to the big mesh. I would 
like to know how to remove these meshes before saving.
Thank you,
Raluca


On Mon, 21 Dec 2009 11:24:11 -0500
  Shiven Shandilya <shiven.shandi...@gmail.com> wrote:
> Raluca,
> 
> Something that helps is: tabbing into edit mode, selecting 
>all
> vertices (ctrl-a) and removing doubles (Mesh >Vertices 
>>Remove
> Doubles).
> Turning on smooth display also helps.
> 
> What exactly are you having problems with?   In what way are 
>things
> "disjointed" ?
> 
> Best,
> Shiven
> 
> 
> On Mon, Dec 21, 2009 at 6:51 AM, Raluca Mihaela ANDREI 
><r.and...@sns.it> wrote:
>> Hi,
>> I imported into Blender (a 3D modelling and animation
>> software) a surface created in PyMOL and I realized that 
>>there
>> are some disjoint surfaces inside. Is it possible to remove
>> these surfaces in PyMOL?
>> Thank you,
>> Raluca
>>
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> 
> 
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