Thanks Gabriel and David for the useful suggestion.

Best Regards,
Subha

On Wed, Oct 19, 2016 at 12:11 PM, David Hall <li...@cowsandmilk.net> wrote:

> I think the answer is to just use save, not that save_transformed function.
>
> -David
>
> On Oct 19, 2016, at 1:47 PM, Subha K <subhal...@gmail.com> wrote:
>
> Hi there,
>
> I am trying to save the transformed coordinates of an object after
> performing an alignment. I came across the save_transformed.py [
> https://pymolwiki.org/index.php/Modeling_and_Editing_Structures], but,
> this seems to give a completely different coordinate of the object and not
> the one that is aligned.
>
> Is there any other way of saving the coordinates of an object after
> performing an alignment?
>
> Thanks,
> Subha
>
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