[chimera-dev] Retrieving model_id / model_name via API

Tom Goddard goddard at sonic.net
Thu Mar 7 15:12:39 PST 2019


Oops.  Should be

	v.new_region(ijk_step = (1,1,1), adjust_step = False)

Chimera automatically adjust the step size to stay within a maximum total number of voxels.  The adjust_step = False means not to do that automatic changing of the specified step.

	Tom


> On Mar 7, 2019, at 2:57 PM, Lars Hangartner <lhangart at scripps.edu> wrote:
> 
> Hi Tom.
> 
> Thanks for the reply. Unfortunately, this did not work. My implementation was as follows and did not change anything.
> Best,
> Lars
> 
> for vol in openModels.list(modelTypes=[Volume]):
>     vol.new_region(ijk_step = (1,1,1))
> 
> 
> 
>> On Mar 7, 2019, at 1:07 PM, Tom Goddard <goddard at sonic.net <mailto:goddard at sonic.net>> wrote:
>> 
>> To set the step of a Volume model v in Chimera in Python code
>> 
>> v.new_region(ijk_step = (1,1,1))
>> 
>>   Tom
>> 
>> 
>>> On Mar 6, 2019, at 8:42 PM, Lars Hangartner <lhangart at scripps.edu <mailto:lhangart at scripps.edu>> wrote:
>>> 
>>> Hi Eric,
>>> 
>>> Thanks for the swift response, worked like a charm. May I also ask how to set the ’step’ property value from the volume viewer GUI pop-up from a script?
>>> 
>>> Thanks,
>>> 
>>> Lars
>>> 
>>>> On Mar 6, 2019, at 3:40 PM, Eric Pettersen <pett at cgl.ucsf.edu <mailto:pett at cgl.ucsf.edu>> wrote:
>>>> 
>>>> Hi Lars,
>>>> The model attributes for the ID are ‘id’/‘subid’ for the parts before and after any ‘.’ respectively, and the ‘name’ attribute has the model name.  You would loop through all volume models with something like:
>>>> 
>>>> from chimera import openModels
>>>> from VolumeViewer import Volume
>>>> for vol in openModels.list(modelTypes=[Volume]):
>>>> print “%d.%d %s” % (vol.id <http://vol.id/>, vol.subid, vol.name)
>>>> 
>>>> We realize the programmer documentation isn’t great.  What little we have you can find here: https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/index.html <https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/index.html> .  One of our objectives for ChimeraX is much better programmer documentation.
>>>> 
>>>> —Eric
>>>> 
>>>> Eric Pettersen
>>>> UCSF Computer Graphics Lab
>>>> 
>>>> 
>>>>> On Mar 6, 2019, at 10:40 AM, Lars Hangartner <lhangart at scripps.edu <mailto:lhangart at scripps.edu>> wrote:
>>>>> 
>>>>> Hi guys,
>>>>> 
>>>>> I am desperately looking to get the model_id / model name from all open volume objects. I have tried openModel.list()[0].model_id  in many iterations but no success… I would like to iterate through models and identify the resampled ones.
>>>>> 
>>>>> Can anybody help?
>>>>> 
>>>>> Thanks,
>>>>> 
>>>>> Lars
>>>>> 
>>>>> 
>>>>> P.S: API documentation would really be helpful. 
>>>>> 
>>>>> 
>>>>> 
>>>>> _______________________________________________
>>>>> Chimera-dev mailing list
>>>>> Chimera-dev at cgl.ucsf.edu <mailto:Chimera-dev at cgl.ucsf.edu>
>>>>> http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev <http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev>
>>>>> 
>>>> 
>>> 
>>> _______________________________________________
>>> Chimera-dev mailing list
>>> Chimera-dev at cgl.ucsf.edu <mailto:Chimera-dev at cgl.ucsf.edu>
>>> http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev <http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev>
>> 
> 

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-dev/attachments/20190307/5ea10b78/attachment.html>


More information about the Chimera-dev mailing list