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src/p/y/pycogent-HEAD/tests/test_evolve/test_parameter_controller.py   pycogent(Download)
                do_scaling=True, equal_motif_probs=True, model_gaps=True,
                mprob_model='tuple')
        lf = model.makeLikelihoodFunction(tree)
        lf.setLocalClock('a','b')
        lf.setAlignment(al)

src/c/o/cogent-1.5.3/tests/test_evolve/test_parameter_controller.py   cogent(Download)
                do_scaling=True, equal_motif_probs=True, model_gaps=True,
                mprob_model='tuple')
        lf = model.makeLikelihoodFunction(tree)
        lf.setLocalClock('a','b')
        lf.setAlignment(al)