ContinuousTimeMSM cannot load from pickle

[mpharrigan]

/home/x/opt/miniconda3/lib/python3.4/site-packages/scipy/sparse/linalg/interface.py in __new__(cls, *args, **kwargs)
    140                                 " at least one of _matvec and _matmat.")
    141 
--> 142             obj.__init__(*args, **kwargs)
    143             return obj
    144 

TypeError: __init__() missing 2 required positional arguments: 'sk' and 'yk'

[mpharrigan]

Seems that optimizer_state_ is the problem

[mpharrigan]

workaround

    pickle.dump({
            k: rmsm.__dict__[k]
            for k in [
                'lag_time',
                'n_timescales',
                'ergodic_cutoff',
                'verbose',
                'sliding_window',
                'guess',
                'theta_',
                'ratemat_',
                'transmat_',
                'countsmat_',
                'n_states_',
                'mapping_',
                'populations_',
                'information_',
                'loglikelihoods_',
                'timescales_',
                'eigenvalues_',
                'left_eigenvectors_',
                'right_eigenvectors_',
                'percent_retained_',
            ]
        }, f)

from msmbuilder.msm import ContinuousTimeMSM
rmsm = ContinuousTimeMSM()
rmsm.__dict__.update(**pickle.load(f))