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Re: [modeller_usage] based on intial model failed

On 07/09/2010 06:38 AM, albert wrote:

I try to build a model with my own intial model, but it failed,
here is the log file:

In order to reproduce your problem, we'll need to see all of your input 
files, not just the log. See

http://salilab.org/modeller/9v8/manual/node10.html


_modeller.ModellerError: rdpdb___303E> No atoms were read from the
specified input PDB file, since the starting residue number and/or chain
id in MODEL_SEGMENT (or the alignment file header) was not found;
requested starting position: residue number " ", chain " "; atom file
name: loop.pdb

Specification of an initial model is one way to help the optimizer find 
optimal solutions. In principle of course the optimizer will find the 
global solution, so the choice of initial model is irrelevant. That 
said, the initial model must be in the same format as the models 
generated by Modeller - i.e. the same amino acid sequence, residue 
numbering and chain IDs.


	Ben Webb, Modeller Caretaker
--
modeller-care@salilab.org             http://www.salilab.org/modeller/
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