Revision
1326 -
Directory Listing
Modified
Thu Mar 3 13:21:18 2011 UTC
(9 years, 10 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
(9 years, 11 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
(9 years, 11 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
(10 years 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
1208 -
Directory Listing
Modified
Mon Aug 23 12:09:34 2010 UTC
(10 years, 5 months ago)
by
cvehlow
Scoring:KendallsTau-method added to Statistics
Revision
1201 -
Directory Listing
Modified
Thu Aug 19 10:18:59 2010 UTC
(10 years, 5 months ago)
by
hstehr
deleting KendallsTau class (even if it already deleted on the server)
Revision
1182 -
Directory Listing
Modified
Wed Aug 11 10:17:32 2010 UTC
(10 years, 5 months ago)
by
cvehlow
Implementation of class for KendallsTau Correlation Calculation
Implementation of class for Check for Correctness of Casp server model files
Implementation of class for Calculation of geometric scoring
Revision
1059 -
Directory Listing
Modified
Wed May 5 14:28:19 2010 UTC
(10 years, 8 months ago)
by
jmduarteg
Fixed java doc
Revision
1009 -
Directory Listing
Modified
Wed Mar 31 15:50:04 2010 UTC
(10 years, 9 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
1006 -
Directory Listing
Modified
Wed Mar 31 13:00:35 2010 UTC
(10 years, 9 months ago)
by
hstehr
Copied from:
trunk/src/owl/core/structure/decoyScoring revision 1005
refactoring: created packages runners.blast, runners.gromacs, structure.graphs, moved actionTools to util, structure.decoyScoring to owl.decoyScoring, tinker to runners.tinker
Revision
951 -
Directory Listing
Modified
Fri Jan 29 16:12:34 2010 UTC
(10 years, 11 months ago)
by
duarte
Original Path:
trunk/src/proteinstructure/decoyScoring
Copied from:
trunk/proteinstructure/decoyScoring revision 950
Reorganised the project with a src folder for java source files.
Added a jars dir with all jars needed for the project.
Added .project and .classpath pointing to relative path of jars.
The project should now work out of the box after a check-out with eclipse. No need to setup external jars or anything.
Revision
950 -
Directory Listing
Modified
Fri Jan 29 11:57:38 2010 UTC
(10 years, 11 months ago)
by
duarte
Original Path:
trunk/proteinstructure/decoyScoring
Copied from:
trunk/proteinstructure/DecoyScoring revision 948
Major refactoring and clean-up.
Most important changes are some methods in Pdb class: get_graph->getRIGraph and dump2pdb->writeToPDBFile
Removed all specific FileFormatError exception classes, now using only the generic FileFormatError.
All tests passed.
Revision
945 -
Directory Listing
Modified
Wed Jan 27 16:49:49 2010 UTC
(10 years, 11 months ago)
by
duarte
Original Path:
trunk/proteinstructure/DecoyScoring
Added new scoring method: atom distance based scoring (scoring based on multiple distance bins, instead of just on contacts)
Revision
904 -
Directory Listing
Added
Thu Sep 3 15:34:21 2009 UTC
(11 years, 4 months ago)
by
duarte
Original Path:
trunk/proteinstructure/DecoyScoring
Moved all decoy scoring stuff to its own package.
Split CombinedScorer into two classes AtomCombinedScorer and ResCombinedScorer. Made combined scorer more efficient: now loading only once the graphs.