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Updated the data model chapter of the user manual to cover the handling of protons.

This change includes the modification of the PDB reading screenshot to demonstrate the reading of a
specific model and the naming of the molecule.

bugman 2012-09-19

changed /trunk/docs/latex/data_model.tex
changed /trunk/graphics/screenshots/spin_viewer/wizard_read_pdb.eps.gz
changed /trunk/graphics/screenshots/spin_viewer/wizard_read_pdb.png
/trunk/docs/latex/data_model.tex Diff Switch to side-by-side view
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