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Re: [modeller_usage] No atoms were read form the specified input pdb file



On 12/13/2009 02:33 AM, james09 pruza wrote:
While running the model-single.py, I am getting the following error---
No atoms were read form the specified input pdb file since the starting
residue no and/ or chain ID in Model_Segment <or the alignment file
header> was not found; requested starting position residue no "0" chain "A"

OK, so in that case your alignment file header must be instructing Modeller to read from residue 0:A. See http://salilab.org/modeller/9v7/manual/node445.html for a description of the format (the example at that URL tells Modeller to read 5fd1 from residue 1:A through 106:A).

My model file starts with residue no 4.

Sounds like you just need to edit the alignment file header to reflect this.

	Ben Webb, Modeller Caretaker
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