[Chimera-users] How to "Align" two atoms

[Elaine Meng]

Hello,
I thought the EZ way to translate Chimera->python was simply to use  
makeCommand and enclose the command, for example:

import Midas
from Midas.midas_text import makeCommand
makeCommand('align #0:1.b at ca #1:1 at ca')

Maybe this doesn't always work, or is less efficient?
Elaine

On Oct 4, 2007, at 2:37 PM, Thomas Goddard wrote:

> Hi Matt,
>
>    Many Chimera commands are defined in
>
>      chimera/share/Midas/__init__.py
>
> They are sometimes a pain to call from Python.  Here is some code for
> the align command.
>
>      Tom
>
> from chimera import openModels, selection
> m = openModels.list()[0]
> sel = selection.ItemizedSelection()
> sel.add(m.atoms[0:2])
> from Midas import align
> align(sel)
>
>
>
> Matthew Baker wrote:
>> I'm writing a module.  I've created a model and added it to the open
>> models.  How can I reproduce the command-line function
>>
>>     align #1:1 #1:2
>>
>> The variable names for my two atoms are newModel.atoms[0] and
>> newModel.atoms[1].
>>
>> Thanks,
>> Matt
>>
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