I noticed the following in doctest/sources.py:

            There are 7 tests in sage/combinat/dyck_word.py that are not 
being run
            There are 4 tests in sage/combinat/finite_state_machine.py that 
are not being run
            There are 6 tests in sage/combinat/interval_posets.py that are 
not being run
            There are 18 tests in sage/combinat/partition.py that are not 
being run
            There are 15 tests in sage/combinat/permutation.py that are not 
being run
            There are 14 tests in sage/combinat/skew_partition.py that are 
not being run
            There are 18 tests in sage/combinat/tableau.py that are not 
being run
            There are 8 tests in sage/combinat/crystals/tensor_product.py 
that are not being run
            There are 11 tests in 
sage/combinat/rigged_configurations/rigged_configurations.py that are not 
being run
            There are 15 tests in sage/combinat/root_system/cartan_type.py 
that are not being run
            There are 8 tests in sage/combinat/root_system/type_A.py that 
are not being run
            There are 8 tests in sage/combinat/root_system/type_G.py that 
are not being run
            There are 3 unexpected tests being run in 
sage/doctest/parsing.py
            There are 1 unexpected tests being run in 
sage/doctest/reporting.py
            There are 9 tests in sage/graphs/graph_plot.py that are not 
being run
            There are 3 tests in sage/rings/invariant_theory.py that are 
not being run

It looks to me as though many of these should be run, but they are not 
because of a combination of the formatting of the docstring and the 
doctesting infrastructure. For example, it looks like doctests contained in 
a block like

__doc__ += r"""
EXAMPLES::

     sage: blah
"""

are not run. Can we avoid such blocks? What is their purpose? Anyway, 
interested parties should investigate and fix these.

You can get more information about each file by running

    sage: from sage.doctest.control import DocTestDefaults
    sage: from sage.doctest.sources import FileDocTestSource
    sage: FileDocTestSource(FILENAME, DocTestDefaults(long=True, 
optional=True))._test_enough_doctests(verbose=True)

-- 
John

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