 ../
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casp/
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1070
(12 years ago)
by jmduarteg:
Fixed bug in TcoffeeRunner. The t_coffee process was hanging after spawning. This didn't happen before, it can be related to the version of t_coffee (I'm using 8.14). Basically t_coffee seems to be doing something weird with stderr and stdout, java doesn't like it and makes the process hang (as usual java has a lot of problems in this area, see StreamGobbler class). The way to solve it is use the -quiet switch of t_coffee that can be used to redirect output to a file or have a complete quiet terminal.
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core/
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1129
(11 years ago)
by cvehlow:
Additional method for coordinate transversion.
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decoyScoring/
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1059
(12 years ago)
by jmduarteg:
Fixed java doc
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deltaRank/
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1057
(12 years ago)
by matt4077:
add psi/phi constraints from secondary structure to tinker reconstructions
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embed/
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1018
(12 years ago)
by hstehr:
removing a warning in owl.embed.contactmaps.Demes
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gmbp/
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1130
(11 years ago)
by cvehlow:
Rotation and translation procedure version 2 available in class Gmbp_Geom. Will be extended by Saurabh.
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graphAveraging/
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1066
(12 years ago)
by hstehr:
new methods needed for CCCP: RIGraph.addEdgeIJ(i,j,weight), RIGEnsembl.loadFromDirectory(), GraphAverager.addZeroEdges(), SecondaryStructure.print()
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litNet/
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1007
(12 years ago)
by hstehr:
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
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ppi/
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1007
(12 years ago)
by hstehr:
refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
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sadp/
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1084
(11 years ago)
by matt4077:
renamed conflicting ContactMap class.
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tests/
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1042
(12 years ago)
by jmduarteg:
New SiftsConnection and SiftsFeature classes for SIFTS pdb to uniprot mapping. Implemented the HasFeatures interface in Pdb. In the future we can hopefully use that mechanism for all features (sec. strucuture, scop and so on)
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