New copy method is far slower than old copy method

[jakebeal]

I've started converting SBOL-utilities entires over to the new copy method.
In doing so, however, I have found that it is dramatically slower than the old.

A good example of this, when running the test_expansion test in test_expand_combinatorial_derivations@27a281d the copy command at line 36 took 10.2 seconds to run. Previously, it took only 0.28 seconds to run.

Profiling suggests that nearly all of the time is being spent in deepcopy, which was not used in the prior copy method:

ncalls tottime percall cumtime percall filename:lineno(function)
28258411/286 28.926 0.000 71.302 0.249 copy.py:128(deepcopy)