I see your point, but when you write a pdb file after reading it -
sometime you want to keep the same atom indexes for analysis - can
it be an option when reading a pdb file to store the indexes as
well ? ( like in modeller)
Easy enough to add although it might be good enough to ensure that the
hierarchy is traversed for writing in the same order in which it is
read from the file.
Then the numbers will be the same and you don't have the issue of what
to do with invalid indexes.
On Feb 2, 2009, at 1:21 AM, Daniel Russel wrote:
It is not currently stored since the atom indices are not
meaningful and would have to be recomputed each time you add or
remove an atom from the model.