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Commit 52d5045f authored by pinyili2's avatar pinyili2
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......@@ -176,3 +176,6 @@ def gen_prop_table(json_file):
def mrdna_model_from_cadnano(json_file,**model_parameters):
nt_prop=gen_prop_table(json_file)
model = model_from_basepair_stack_3prime( nt_prop["r"], nt_prop["bp"], stack, three_prime, seq, orientation, **model_parameters )
if __name__ == '__main__':
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