Revision 951 - Directory Listing
Modified Fri Jan 29 16:12:34 2010 UTC (12 years, 6 months ago) by duarte

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 948 - Directory Listing
Modified Thu Jan 28 13:33:08 2010 UTC (12 years, 6 months ago) by duarte
Original Path: trunk/tests/proteinstructure

New test for rmsd on intervals

Revision 919 - Directory Listing
Modified Tue Oct 20 16:55:17 2009 UTC (12 years, 10 months ago) by duarte
Original Path: trunk/tests/proteinstructure

Fixed bug: was not handling correctly sequences with 'X' in reconstruction
Fixed bug: Pdb.getPhi/Psi were failing because hasCoordinates(int,String) was NullPointing for unobserved residues. 
Added test case for getAllPhiPsi

Revision 885 - Directory Listing
Modified Fri Aug 14 10:37:31 2009 UTC (13 years ago) by duarte
Original Path: trunk/tests/proteinstructure

Major change: now hydrogens are read in Pdb and subclasses
New getChirality method in Residue.
Added some more unit tests.

Revision 884 - Directory Listing
Modified Tue Aug 11 16:01:00 2009 UTC (13 years ago) by duarte
Original Path: trunk/tests/proteinstructure

Major commit: 
- change of the implementation of Pdb (interface remains backwards compatible). Now data stored in a proper object-oriented way. Pdb not abstract anymore, a protein model can be created by using one of the constructors
- added many tests and test files for Pdb (and merged some already existing tests from the default package)
- removed obsolete classes related to msd
- bug fix: PdbfilePdb now properly reads files with alt codes
- all tests passed

Revision 864 - Directory Listing
Modified Tue Jul 21 10:44:34 2009 UTC (13 years, 1 month ago) by duarte
Original Path: trunk/tests/proteinstructure

Extracted constants. Written a basic test for consurf parsing.

Revision 863 - Directory Listing
Modified Mon Jul 20 10:21:59 2009 UTC (13 years, 1 month ago) by duarte
Original Path: trunk/tests/proteinstructure

New check in PdbfilePdb parser. New test for pdb file parsing in PdbParsersTest.

Revision 813 - Directory Listing
Modified Tue Dec 16 11:11:39 2008 UTC (13 years, 8 months ago) by duarte
Original Path: trunk/tests/proteinstructure

Fixed runNaccess to use unique file names and documented it. Wrote also a junit test case for it.

Revision 788 - Directory Listing
Modified Mon Nov 3 15:13:59 2008 UTC (13 years, 9 months ago) by filippis
Original Path: trunk/tests/proteinstructure

white TO talyn

Revision 743 - Directory Listing
Added Thu Sep 11 10:06:22 2008 UTC (13 years, 11 months ago) by duarte
Original Path: trunk/tests/proteinstructure

New tests package (should be a folder and under it packages, but for now we can't do that until we move all source code to a src folder).
Moved all existing tests to appropiate tests packages.
New test PdbParsersTest: does cif against pdbase at the moment.
Adde equals method to SecStrucElement
Added some getters to Pdb