Dear All,
I am currently having a problem with the distance command when applied to merged objects.  The real case is actually when I remove a ligand from a binding site and merge in a new ligand.  But as a simple example, I think I can demonstrate with the following:
>frag ala, ala1
>frag ala, ala2
>translate [4,0,0], ala2
>label all, ID
>distance d1, ala1 & ID 3, ala2 & ID 0
This creates a distance object fine.  But if I now merge the two objects into a new object:
>create new, ala1 | ala2
>disable ala1 | ala2
and manually create two single atom selections corresponding to the original ID 3 and ID 0 atoms (using atom select mode and renaming the selections to give 'sele1' and 'sele2'):
>distance d2, sele1, sele2
gives me a distance between ID 0 and 3 both on what used to be ala2, and not between the two selected atoms!
Am I doing something wrong with 'create'?  I don't recall having a problem with this sort of operation until maybe ~ 6 months ago...  I am using rev 3971 under Windows.  Any help/advice greatly appreciated.
Kind regards

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