Revision 492 - (view) (annotate) - [select for diffs]
Modified Wed Jan 2 13:18:57 2008 UTC (16 years, 9 months ago) by duarte
File length: 2657 byte(s)
Diff to previous 419

Copied the aglappe-jung branch into trunk.

Revision 419 - (view) (annotate) - [select for diffs]
Modified Thu Nov 22 14:09:18 2007 UTC (16 years, 11 months ago) by duarte
Original Path: branches/aglappe-jung/proteinstructure/contactTypes.dat
File length: 2657 byte(s)
Diff to previous 407

Re-branching for JUNG2 development

Revision 407 - (view) (annotate) - [select for diffs]
Modified Tue Nov 20 18:41:56 2007 UTC (16 years, 11 months ago) by filippis
File length: 2657 byte(s)
Diff to previous 326

contactTypes.dat 
-SC_CAGLY contact type added

SecStrucElement.java
-getSheetSerial method is now public

Pdb.java
-writeToDbFast added

Graph.java
-write_graph_to_db_fast
-expBB,CW,CT,CR,w,d are now taken into account in a correct way
-node_id, sssid, sheetSerial and turn are now also filled in

DbGraph.java
-expBB,CW,CT,CR,w,d are now taken into account in a correct way
-directionality is also taken into account now when reading edges

genDbGraph.java
-sequence separation added as option

createGraphDb.java added

Revision 326 - (view) (annotate) - [select for diffs]
Added Thu Sep 20 14:49:55 2007 UTC (17 years, 1 month ago) by duarte
File length: 2237 byte(s)

Removed class AA and replace it by AAinfo, which reads contact types from separate file contactTypes.dat
New class ContactType which contains atoms for each contact type and residue. A static object for each contact type is loaded into AAinfo upon reading the contactTypes.dat file
Changed all references accordingly