Package stallone.mc.pcca

Examples of stallone.mc.pcca.PCCA.perform()

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                throw(new IllegalArgumentException("Attempting to create PCCA decomposition into "+nstates+" states."+
                                                    "but only "+evec.columns()+" eigenvectors were provided"));
        }

        pcca.setEigenvectors(evec);
        pcca.perform();

        return(pcca);
    }

    public ICommittor createCommittor(IDoubleArray T, IIntArray A, IIntArray B)
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        int nhidden = 2;
        PCCA pcca = msmNew.createPCCA(T, nhidden);
        IDoubleArray R = evd.getRightEigenvectorMatrix().viewReal();
        IDoubleArray Rsub = R.viewBlock(0, 0, T.rows(), nhidden);
        pcca.setEigenvectors(Rsub);
        pcca.perform();
        IDoubleArray M = pcca.getFuzzy();
       
        System.out.println("M\n"+M);

        IDoubleArray pi = msm.stationaryDistribution(T);
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