Removed the old code for reading the energy terms in the files
Removed the old code for reading the energy terms in the files
Moved the files from rundocking
Renamed the AtomicDomino class to a more general name to account for the fact that I sample at the residue level
Moved the data files and renamed modules
Changed the name of the loggers an added a class for plotting cytoscape networks
Splitted the DockingDominoSampler
I changed the name of the file to better describe the classes inside it
Rename things to make them more understandable. Add the CRITICAL change to tell domino that the particle for a residue is ligated to the particles belonging to that residue
Changed the internal storage of the coordinates of the atoms from a vector to a map
Modified the test for ResidueWithEnergyStates. It now checks coordinates with atom types
DOMINO runs smoothly without problems creating empty subsets ( I wrote code to update the dependencies of the residue particle)
This version of the code solves the problems regarding the different naming conventions for the atoms in Rossetta and IMP
Changes to the code
joined the scripts for scoring Rosetta and IMP models
Added the scripts for scoring models and plotting the figures of the scores
Added the ability to copy tables
Changed the ID field from solution_id to model_id in the database
Program for scoring the aminoacids of a PDB file
Added the cpp files from the bin directory