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Revision 1000 - Directory Listing
Modified Mon Mar 29 10:20:38 2010 UTC (9 years, 5 months ago) by jmduarteg
Now DsspRunner is purely static (makes more sense)
Revision 988 - Directory Listing
Modified Thu Mar 18 12:02:13 2010 UTC (9 years, 6 months ago) by jmduarteg
Moved dssp runner out of Pdb to its own class. New test for runDssp in PdbTest.

Revision 987 - Directory Listing
Modified Thu Mar 18 11:08:58 2010 UTC (9 years, 6 months ago) by jmduarteg
New package runners for Runner classes. At the moment only contains the new class NaccessRunner (moved out of Pdb class)
Introduced a config file for tests so that one can set externally the executable paths and any other necessary data to run tests (at the moment only implemented in PdbTest.java). PdbTest now should run anywhere (if you have a local pdbase installation!)
Moved the consurf parser out of Pdb to its own class ConsurfConnection in the connection package.

Revision 965 - Directory Listing
Modified Thu Feb 18 15:25:10 2010 UTC (9 years, 6 months ago) by duarte
Fixed paths of tests (was missing the src directory since we moved everything under src)
Revision 959 - Directory Listing
Modified Fri Feb 12 15:25:33 2010 UTC (9 years, 7 months ago) by duarte
Moved IntervalTest class to test.tools package
Revision 958 - Directory Listing
Modified Fri Feb 12 15:22:36 2010 UTC (9 years, 7 months ago) by duarte
Moved Interval* and IntPair* classes to tools package
Revision 951 - Directory Listing
Modified Fri Jan 29 16:12:34 2010 UTC (9 years, 7 months ago) by duarte
Copied from: trunk/tests revision 949
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 (9 years, 7 months ago) by duarte
Original Path: trunk/tests
New test for rmsd on intervals
Revision 919 - Directory Listing
Modified Tue Oct 20 16:55:17 2009 UTC (9 years, 10 months ago) by duarte
Original Path: trunk/tests
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 (10 years, 1 month ago) by duarte
Original Path: trunk/tests
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 (10 years, 1 month ago) by duarte
Original Path: trunk/tests
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 (10 years, 1 month ago) by duarte
Original Path: trunk/tests
Extracted constants. Written a basic test for consurf parsing.
Revision 863 - Directory Listing
Modified Mon Jul 20 10:21:59 2009 UTC (10 years, 1 month ago) by duarte
Original Path: trunk/tests
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 (10 years, 9 months ago) by duarte
Original Path: trunk/tests
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 (10 years, 10 months ago) by filippis
Original Path: trunk/tests
white TO talyn
Revision 762 - Directory Listing
Modified Thu Sep 25 13:44:21 2008 UTC (10 years, 11 months ago) by duarte
Original Path: trunk/tests
Added length sanity check tests
Revision 750 - Directory Listing
Modified Tue Sep 16 13:15:25 2008 UTC (11 years ago) by duarte
Original Path: trunk/tests
Now we can run blast with multi threads option
Revision 743 - Directory Listing
Added Thu Sep 11 10:06:22 2008 UTC (11 years ago) by duarte
Original Path: trunk/tests
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