 ../
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casp/
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1305
(10 years ago)
by jmduarteg:
Renaming all xxxxError named exceptions to xxxxException. Long overdue thing (was historical because it came from python). Learnt just recently that java does have a concept of Error too.
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core/
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1324
(9 years ago)
by jmduarteg:
A few bug fixes and improvements in pdb data parsing.
- bug fix: in some cases exptl method field has more than 1 value (e.g. 2krl). In cif files this was causing a null pointer. We now parse it properly (taking first one as the exptl method) in both cif and pdb files
- improved very slightly the cif file parser moving out of loops the index getters
- drop fullLength as a field in Pdb, now we have only getFullLength()
- pdb file atom parsing is now column based and not regex based (hopefully will make it slightly faster)
- now parsing the element column of pdb files: now the atom type detection comes from the appropriate field in pdb/cif/pdbase. If in pdb file and not present we still try to guess it as before
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decoyScoring/
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1316
(10 years ago)
by jmduarteg:
Got rid (finally!) of AAinfo. Its functionality is now in ContactType and AminoAcid.
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deltaRank/
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1314
(10 years ago)
by jmduarteg:
Finally got rid of all duplicated amino acid methods in AAinfo. Now everything unified in AminoAcid enum.
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embed/
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1316
(10 years ago)
by jmduarteg:
Got rid (finally!) of AAinfo. Its functionality is now in ContactType and AminoAcid.
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gmbp/
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1316
(10 years ago)
by jmduarteg:
Got rid (finally!) of AAinfo. Its functionality is now in ContactType and AminoAcid.
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graphAveraging/
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1305
(10 years ago)
by jmduarteg:
Renaming all xxxxError named exceptions to xxxxException. Long overdue thing (was historical because it came from python). Learnt just recently that java does have a concept of Error too.
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litNet/
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1007
(10 years ago)
by hstehr:
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
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ppi/
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1007
(10 years ago)
by hstehr:
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
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sadp/
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1305
(10 years ago)
by jmduarteg:
Renaming all xxxxError named exceptions to xxxxException. Long overdue thing (was historical because it came from python). Learnt just recently that java does have a concept of Error too.
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tests/
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1324
(9 years ago)
by jmduarteg:
A few bug fixes and improvements in pdb data parsing.
- bug fix: in some cases exptl method field has more than 1 value (e.g. 2krl). In cif files this was causing a null pointer. We now parse it properly (taking first one as the exptl method) in both cif and pdb files
- improved very slightly the cif file parser moving out of loops the index getters
- drop fullLength as a field in Pdb, now we have only getFullLength()
- pdb file atom parsing is now column based and not regex based (hopefully will make it slightly faster)
- now parsing the element column of pdb files: now the atom type detection comes from the appropriate field in pdb/cif/pdbase. If in pdb file and not present we still try to guess it as before
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