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Revision 1217 - Directory Listing
Modified Tue Aug 31 17:11:30 2010 UTC (11 years, 3 months ago) by jmduarteg
First fully working version (this time hopefully for real...) of interface enumeration. Works for many examples, still there are problems in many others due to area discrepancies with pisa, but those are minor things. The elimination of duplicates is based on chain codes and number of contacting atoms, it is of course possible that 2 different interfaces happen to have the same chain codes and same number of contacting atoms (but unlikely). Would need a more fine grained comparison.
New test class to compare automatically to PISA output.
Revision 1030 - Directory Listing
Modified Mon Apr 19 09:39:07 2010 UTC (11 years, 7 months ago) by jmduarteg
Extracted constants to owl_test_paths.dat and added CASP7 fasta files to resources dir. Now BlastParsersTest should be able to run anywhere.
Revision 1008 - Directory Listing
Modified Wed Mar 31 14:03:27 2010 UTC (11 years, 8 months ago) by hstehr
Copied from: trunk/src/tests/proteinstructure/data revision 1006
refactoring: adapting test packages to match new package structure
Revision 987 - Directory Listing
Modified Thu Mar 18 11:08:58 2010 UTC (11 years, 8 months ago) by jmduarteg
Original Path: trunk/src/tests/proteinstructure/data
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 951 - Directory Listing
Modified Fri Jan 29 16:12:34 2010 UTC (11 years, 10 months ago) by duarte
Original Path: trunk/src/tests/proteinstructure/data
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 884 - Directory Listing
Modified Tue Aug 11 16:01:00 2009 UTC (12 years, 4 months ago) by duarte
Original Path: trunk/tests/proteinstructure/data
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 813 - Directory Listing
Added Tue Dec 16 11:11:39 2008 UTC (12 years, 11 months ago) by duarte
Original Path: trunk/tests/proteinstructure/data
Fixed runNaccess to use unique file names and documented it. Wrote also a junit test case for it.