Re: [modeller_usage] Change ROOT_NAME for automodel.make()

[Brian Wiley <>]

Thanks,

I would like to change the root_name for all the output file.  It's kind of silly there is not class root_name attribute in automodel.  Then you could just name that.  I am having trouble overriding the __init__ in automodel because it calls self.set_defaults().

Brian

-----Original Message-----
From: Modeller Caretaker <> 
Sent: Friday, August 7, 2020 6:34 PM
To: Brian Wiley <>; 
Subject: Re: [modeller_usage] Change ROOT_NAME for automodel.make()


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On 8/7/20 2:21 PM, Brian Wiley wrote:
> a = automodel(env,
>                alnfile = 'TSC2_6ssh.ali',
>                knowns = ('6ssh'),
>                sequence = 'TSC2_HUMAN')
>
> a.make() # Here I want the prefix to be 'TSC2_6ssh' and not 
> 'TSC2_HUMAN'  so all files and pdb file at end would be 
> TSC2_6ssh.B99990001.pdb

automodel is written under the assumption that files are named for the sequence. If you want to name the output PDB files differently, that's straightforward; just override get_model_filename() as per
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If you want to name the other output files differently, there isn't currently a mechanism for that, but it would be easy enough to modify the Python code to do so.

        Ben Webb, Modeller Caretaker
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