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Assert the computed D-E weight in the Fig. 2a test #47

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alpae merged 1 commit into from
Oct 20, 2026
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Assert the computed D-E weight in the Fig. 2a test #47

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10 changes: 5 additions & 5 deletions tests/test_paper_figure2.py
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Original file line number Diff line number Diff line change
Expand Up @@ -145,13 +145,13 @@ def test_fig2a_root_bottom_up_graph_edges(fig2):


# Fig. 2a shows weight 2 for D-E in the S3 propagated graph (and hence 3 at the
# root). The code counts each of the three extant adjacencies D1-E1, E1-D2 and
# D2-E2 (weight 3, and 4 at the root).
# root). Each of the three extant adjacencies D1-E1, E1-D2 and D2-E2 supports
# D-E, so the weight is 3 in S3 and 4 at the root; the figure simplifies this
# (see #39).

@pytest.mark.xfail(strict=True, reason="Fig. 2a: D-E weight from the S3 tandem duplicates is 3 in the code, 2 in the figure")
def test_fig2a_tandem_duplicate_weights(fig2):
assert weighted_edges(fig2["S3"].transitive_synteny)[frozenset("DE")] == 2
assert weighted_edges(fig2["Root"].bottom_up_synteny)[frozenset("DE")] == 3
assert weighted_edges(fig2["S3"].transitive_synteny)[frozenset("DE")] == 3
assert weighted_edges(fig2["Root"].bottom_up_synteny)[frozenset("DE")] == 4


# ---------------------------------------------------------------------------
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