[modeller_usage] automodel vs loopmodel

["Mauricio Carrillo Tripp" <>]

When I run the automodel or the loopmodel classes, either way I get a target.B99990001.pdb for the
structure of the final model. From the documentation, I understand that in the case of the loopmodel, an
extra pdb file will be produced with refined loops. 
My question is:
Should the models in files target.B99990001.pdb be the same whether I use automodel or loopmodel?
(provided I'm using the same optimizations and all, I'm just changing the class name in the python script)

Thanks!

-- 
         0     |  Mauricio Carrillo Tripp, PhD
      /         |     Department of Molecular Biology, TPC6
  0            |     The Scripps Research Institute
      \         |     10550 North Torrey Pines Road
         0     |     La Jolla, California 92037
      /         |     ">
  0            |  http://www.scripps.edu/~trippm

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