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Revision 1372 - Directory Listing
Modified Wed Mar 30 09:55:49 2011 UTC (8 years, 6 months ago) by jmduarteg
MAJOR INTERFACE CHANGE: the main PDB data loading interface has changed. Now all loading of data occurs through PdbAsymUnit. Refactoring of some classes: Pdb is now PdbChain.
Revision 1326 - Directory Listing
Modified Thu Mar 3 13:21:18 2011 UTC (8 years, 7 months ago) by jmduarteg
Renamed xxxxError classes to xxxxException as they should be.
Revision 1316 - Directory Listing
Modified Wed Feb 9 15:55:49 2011 UTC (8 years, 8 months ago) by jmduarteg
Got rid (finally!) of AAinfo. Its functionality is now in ContactType and AminoAcid.
Revision 1314 - Directory Listing
Modified Wed Feb 9 11:36:04 2011 UTC (8 years, 8 months ago) by jmduarteg
Finally got rid of all duplicated amino acid methods in AAinfo. Now everything unified in AminoAcid enum.
Revision 1305 - Directory Listing
Modified Fri Jan 21 10:11:16 2011 UTC (8 years, 9 months ago) by jmduarteg
Renaming all xxxxError named exceptions to xxxxException. Long overdue thing (was historical because it came from python). Learnt just recently that java does have a concept of Error too.
Revision 1245 - Directory Listing
Modified Thu Sep 30 10:44:38 2010 UTC (9 years ago) by gmueller
does most of the job SparseMatrix did before
Revision 1243 - Directory Listing
Modified Thu Sep 30 08:34:46 2010 UTC (9 years ago) by gmueller
some methods removed and added to a new class, other simplified
Revision 1240 - Directory Listing
Modified Tue Sep 21 12:12:07 2010 UTC (9 years, 1 month ago) by hstehr
suppressing two warnings
Revision 1239 - Directory Listing
Modified Tue Sep 21 12:01:35 2010 UTC (9 years, 1 month ago) by gmueller
sparse matrix exception
Revision 1227 - Directory Listing
Modified Tue Sep 7 09:47:02 2010 UTC (9 years, 1 month ago) by gmueller
new methods added
-method, takes care of row and column index maps (refreshMatrix())
-methods, adding or removing entries, without refreshing index mapping
-norm methods(norm1(), norm2(), normInf()) as well as a special innerProduct() method

Revision 1220 - Directory Listing
Modified Wed Sep 1 14:20:44 2010 UTC (9 years, 1 month ago) by hstehr
deleting two classes which were making problems
Revision 1202 - Directory Listing
Modified Thu Aug 19 10:21:08 2010 UTC (9 years, 2 months ago) by hstehr
suppress "method not used" warning
Revision 1018 - Directory Listing
Modified Fri Apr 9 10:40:29 2010 UTC (9 years, 6 months ago) by hstehr
removing a warning in owl.embed.contactmaps.Demes
Revision 1016 - Directory Listing
Modified Fri Apr 9 09:18:35 2010 UTC (9 years, 6 months ago) by jmduarteg
Added a supresswarnings tag (it's simply unused code)
Revision 1015 - Directory Listing
Modified Fri Apr 9 09:16:04 2010 UTC (9 years, 6 months ago) by jmduarteg
Fixed import (was a compile error)
Revision 1014 - Directory Listing
Modified Thu Apr 8 16:34:26 2010 UTC (9 years, 6 months ago) by gmueller
cone peeling algorithm as implemented in sathyas classes, does not contain any public constructors, must use public statics
Revision 1009 - Directory Listing
Modified Wed Mar 31 15:50:04 2010 UTC (9 years, 6 months ago) by hstehr
refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features
Revision 1007 - Directory Listing
Added Wed Mar 31 13:27:18 2010 UTC (9 years, 6 months ago) by hstehr
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl