 ../
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contactmaps/
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932
(12 years ago)
by gmueller:
all classes for evolution, correlation function, neighborhood string converter etc.
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SetScore.java
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835
(13 years ago)
by duarte:
Changed scoring: from sum(upi-ui)2 to sum of max(0,upi-ui).
New methods to write subsets to files in table (tab delimited) format.
Now main() writes out all scores/subsets to two files instead of only outputting best, worse and ensemble of bests.
Moved ScoreSet to its own file, new static methods to read subsets from db.
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BoundsSmoother.java
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855
(13 years ago)
by gmueller:
new class for some evolution
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Population.java
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858
(13 years ago)
by gmueller:
new class to deal with arrays of Individuals class, provides methods to generate new arrays of Individuals
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CorrelationFunction.java
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860
(13 years ago)
by gmueller:
class to estimate the correlation function to a given error function, deals onlz with Population arrays
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Embedder.java
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884
(13 years ago)
by duarte:
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
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MergeOutPut.java
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926
(12 years ago)
by gmueller:
helper class
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NbhStringRanker.java
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928
(12 years ago)
by gmueller:
the older version still had a bug in the setNbhStringMaps(String,String) method
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Individuals.java
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929
(12 years ago)
by gmueller:
final version, might still contain bugs, but seems consistent so far
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Reconstructer.java
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933
(12 years ago)
by gmueller:
some methods modifiers were changed from protected to public, since classes of the sub package rely on those
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Distiller.java
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933
(12 years ago)
by gmueller:
some methods modifiers were changed from protected to public, since classes of the sub package rely on those
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Bound.java
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933
(12 years ago)
by gmueller:
some methods modifiers were changed from protected to public, since classes of the sub package rely on those
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Scorer.java
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933
(12 years ago)
by gmueller:
some methods modifiers were changed from protected to public, since classes of the sub package rely on those
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