ViewVC Help
View Directory | Revision Log | Download Tarball | View Changeset | Root Listing
root/owl/trunk/proteinstructure
r136
File Last Change (rev)
 ../
MsdsdInfo.java 136 (12 years ago) by duarte: FIXED BUG: pdb data load from msdsd wasn't working for NULL chaincodes
Graph.java 135 (12 years ago) by duarte: NEW FUNCTIONALITY: reading of graph from db is fully implemented for all cases New chain member variable in the Info classes, read in get_asym_id (Pdbase) and in get_chain_id (Msdsd) Reading chain also in Pdb in read_pdb_data_from_file Not reading chain anymore in read_atomData of PdbaseInfo Added oneletter2threeletter and getoneletter2threeletter to AA class Changes in Graph: - added db static vars and getUserName method - new member variables graphid and sm_id - new method read_graph_from_db to read contacts, nodes (and sequence from nodes) from db - new method getgraphid New Exception class GraphIdNotFoundError
PdbaseInfo.java 135 (12 years ago) by duarte: NEW FUNCTIONALITY: reading of graph from db is fully implemented for all cases New chain member variable in the Info classes, read in get_asym_id (Pdbase) and in get_chain_id (Msdsd) Reading chain also in Pdb in read_pdb_data_from_file Not reading chain anymore in read_atomData of PdbaseInfo Added oneletter2threeletter and getoneletter2threeletter to AA class Changes in Graph: - added db static vars and getUserName method - new member variables graphid and sm_id - new method read_graph_from_db to read contacts, nodes (and sequence from nodes) from db - new method getgraphid New Exception class GraphIdNotFoundError
GraphIdNotFoundError.java 135 (12 years ago) by duarte: NEW FUNCTIONALITY: reading of graph from db is fully implemented for all cases New chain member variable in the Info classes, read in get_asym_id (Pdbase) and in get_chain_id (Msdsd) Reading chain also in Pdb in read_pdb_data_from_file Not reading chain anymore in read_atomData of PdbaseInfo Added oneletter2threeletter and getoneletter2threeletter to AA class Changes in Graph: - added db static vars and getUserName method - new member variables graphid and sm_id - new method read_graph_from_db to read contacts, nodes (and sequence from nodes) from db - new method getgraphid New Exception class GraphIdNotFoundError
Pdb.java 135 (12 years ago) by duarte: NEW FUNCTIONALITY: reading of graph from db is fully implemented for all cases New chain member variable in the Info classes, read in get_asym_id (Pdbase) and in get_chain_id (Msdsd) Reading chain also in Pdb in read_pdb_data_from_file Not reading chain anymore in read_atomData of PdbaseInfo Added oneletter2threeletter and getoneletter2threeletter to AA class Changes in Graph: - added db static vars and getUserName method - new member variables graphid and sm_id - new method read_graph_from_db to read contacts, nodes (and sequence from nodes) from db - new method getgraphid New Exception class GraphIdNotFoundError
AA.java 135 (12 years ago) by duarte: NEW FUNCTIONALITY: reading of graph from db is fully implemented for all cases New chain member variable in the Info classes, read in get_asym_id (Pdbase) and in get_chain_id (Msdsd) Reading chain also in Pdb in read_pdb_data_from_file Not reading chain anymore in read_atomData of PdbaseInfo Added oneletter2threeletter and getoneletter2threeletter to AA class Changes in Graph: - added db static vars and getUserName method - new member variables graphid and sm_id - new method read_graph_from_db to read contacts, nodes (and sequence from nodes) from db - new method getgraphid New Exception class GraphIdNotFoundError
ContactMap.java 131 (12 years ago) by duarte: 2 new convenience methods: getBoolMatrix and getIntMatrix Got rid of method to print constraint equations, was useless
MsdsdAcCodeNotFoundError.java 130 (12 years ago) by duarte: NEW FEATURE: reading pdb data from msdsd New classes MsdsdInfo and its exception classes FIXED BUG in dump2pdbfile in Pdb: was not sorting the atom lines
MsdsdInconsistentResidueNumbersError.java 130 (12 years ago) by duarte: NEW FEATURE: reading pdb data from msdsd New classes MsdsdInfo and its exception classes FIXED BUG in dump2pdbfile in Pdb: was not sorting the atom lines
EdgeState.java 128 (12 years ago) by duarte: ContactMap and EdgeState classes moved here from CMPredict repository
PdbaseInconsistencyError.java 124 (12 years ago) by duarte: Added error handling for PdbaseInfo: 2 new exception classes
PdbaseAcCodeNotFoundError.java 124 (12 years ago) by duarte: Added error handling for PdbaseInfo: 2 new exception classes
Contact.java 123 (12 years ago) by duarte: Initial commit of the proteinstructure package. Contains classes to use pdb protein structures
(Current path doesn't exist after revision 950)
         13 files shown