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src/c/o/cogent-1.5.3/tests/test_evolve/test_coevolution.py   cogent(Download)
        wprobs = array([aa_freqs_3[aa] for aa in aa_order_3])
        mprobs_matrix=ones((wprobs.shape[0],wprobs.shape[0]),float)*wprobs
        q3 = sm.calcQ(wprobs, mprobs_matrix)
        aa_freqs_20 = {}.fromkeys('ACDEFGHIKLMNPQRSTVWY',0.0)
        aa_freqs_20['A'] = 0.5

src/p/y/pycogent-HEAD/tests/test_evolve/test_coevolution.py   pycogent(Download)
        wprobs = array([aa_freqs_3[aa] for aa in aa_order_3])
        mprobs_matrix=ones((wprobs.shape[0],wprobs.shape[0]),float)*wprobs
        q3 = sm.calcQ(wprobs, mprobs_matrix)
        aa_freqs_20 = {}.fromkeys('ACDEFGHIKLMNPQRSTVWY',0.0)
        aa_freqs_20['A'] = 0.5