[Biojava-l] Variable Modifications

[Jones, Mike]

I have added support for variable modifications to the
Proteomics.MassCalc class. This will allow calculations of any
hypothetical peptides that might arise from a modification. For example
if a peptide has two Methionines and the user tells it to look for the
Met-Ox for as well as the Native Met the getVariableMasses will return
the mass of the non-modified peptide, the peptide with one Met-Ox and
the peptide with two Met-Ox.